miRNA Search Results

sort by 8 publications mentioning ssc-mir-28 Open access articles that are associated with the species Sus scrofa and mention the gene name mir-28. Click the [+] symbols to view sentences that include the gene name, or the word cloud on the right for a summary.
1	[+] score: 24 Other miRNAs from this paper: ssc-mir-122, ssc-mir-125b-2, ssc-mir-181b-2, ssc-mir-23a, ssc-mir-24-1, ssc-mir-323, ssc-mir-181c, ssc-mir-32, ssc-mir-196a-2, ssc-mir-199b, ssc-mir-210, ssc-mir-181a-1, ssc-mir-199a-2, ssc-mir-181a-2, ssc-mir-181b-1, ssc-mir-181d, ssc-mir-24-2, ssc-mir-125a, ssc-mir-365-2, ssc-mir-365-1, ssc-mir-196b-1, ssc-mir-125b-1, ssc-mir-296, ssc-mir-155, ssc-mir-382, ssc-mir-146a, ssc-mir-199a-1, ssc-mir-491, ssc-mir-150-1, ssc-mir-150-2, ssc-mir-196a-1, ssc-mir-196b-2, ssc-mir-223 As examples, the liver-specific miR-122 promotes the replication of hepatitis C virus (HCV) [17], [18], while miR-196, miR-199, miR-296, miR-351, miR-431 and miR-448 inhibit HCV genome propagation [19], [20]; miR-32 effectively restricts the accumulation of primate foamy virus type 1 (PFV-1) in human cells [21]; miR-323, miR-491 and miR-654 inhibit the replication of the H1N1 influenza A virus by binding to the viral PB1 gene [22]; miR-28, miR-125b, miR-150, miR-223 and miR-382 target the 3′ end of human immunodeficiency virus (HIV) mRNA, thereby restricting HIV production [23]; miR-199a-3p and miR-210 limit the hepatitis B virus (HBV) surface antigen and polymerase production by degrading and/or inhibiting translation of viral mRNAs encoding these proteins [24]; overexpression of miR-24 and miR-93 suppresses vesicular stomatitis virus (VSV) replication through targeting the viral genes encoding RNA -dependent RNA polymerase (L protein) and phosphoprotein (P protein), respectively [25]; in macrophages, upregulation of miR-155 suppresses VSV replication, while inhibition of miR-155 had the opposite effect. [score:24] [1 to 20 of 1 sentences]
2	[+] score: 23 Other miRNAs from this paper: ssc-mir-19a, ssc-mir-140, ssc-let-7c, ssc-let-7f-1, ssc-let-7i, ssc-mir-124a-2, ssc-mir-21, ssc-mir-9-1, ssc-mir-9-2, ssc-mir-30b, ssc-mir-124a-1, ssc-mir-146b, ssc-let-7a-1, ssc-let-7e, ssc-let-7g, ssc-mir-92a-2, ssc-mir-92a-1, ssc-mir-142, ssc-mir-195, ssc-mir-1306, ssc-mir-155, ssc-mir-146a, ssc-mir-126, ssc-let-7a-2, ssc-let-7d, ssc-let-7f-2, ssc-mir-9-3, ssc-mir-2411 The results showed that some of the differentially expressed miRNAs directly targeted the 3' UTR or 5' UTR of the TGEV genome: ssc-miR-28–3p, ssc-miR-126–5p and ssc-miR-30b-5p target the 3' UTR (28297 bp–28571 bp) and ssc-miR-2411 and chrX-16275 target the 5' UTR (1 bp–303 bp) (Fig. 5). [score:10] 0120377.g005 Fig 5 ssc-miR-28–3p, ssc-miR-126–5p and ssc-miR-30b-5p target the 3' UTR of the TGEV genome (28297 bp–28571 bp), ssc-miR-2411 target the 5' UTR of the TGEV genome (1 bp–303 bp). [score:5] ssc-miR-28–3p, ssc-miR-126–5p and ssc-miR-30b-5p target the 3' UTR of the TGEV genome (28297 bp–28571 bp), ssc-miR-2411 target the 5' UTR of the TGEV genome (1 bp–303 bp). [score:5] The selected miRNAs comprised four differentially expressed miRNAs (ssc-miR-19a, ssc-miR-28–3p, ssc-miR-92a and ssc-miR195) and four novel miRNAs (chr13–4473, chr6–12459, GL892871–2–16764 and chr9–15250). [score:3] [1 to 20 of 4 sentences]
3	[+] score: 22 Other miRNAs from this paper: ssc-mir-145, ssc-mir-15b, ssc-mir-23a, ssc-mir-24-1, ssc-mir-7-2, ssc-mir-27a, ssc-let-7c, ssc-let-7f-1, ssc-let-7i, ssc-mir-103-1, ssc-mir-196a-2, ssc-mir-30c-2, ssc-mir-15a, ssc-mir-30b, ssc-mir-34a, ssc-mir-130a, ssc-mir-210, ssc-mir-221, ssc-mir-133a-1, ssc-mir-1, ssc-mir-450a, ssc-mir-30a, ssc-mir-206, ssc-let-7a-1, ssc-let-7e, ssc-let-7g, ssc-mir-133b, ssc-mir-30d, ssc-mir-30e, ssc-mir-499, ssc-mir-423, ssc-mir-10a, ssc-mir-10b, ssc-mir-103-2, ssc-mir-27b, ssc-mir-24-2, ssc-mir-345-1, ssc-mir-885, ssc-mir-208b, ssc-mir-34c-1, ssc-mir-130b, ssc-mir-196b-1, ssc-mir-542, ssc-mir-450b, ssc-mir-22, ssc-mir-363-1, ssc-mir-338, ssc-mir-450c, ssc-mir-194b, ssc-mir-133a-2, ssc-mir-30c-1, ssc-mir-126, ssc-mir-451, ssc-let-7a-2, ssc-let-7d, ssc-let-7f-2, ssc-mir-7-1, ssc-mir-34c-2, ssc-mir-194a, ssc-mir-196a-1, ssc-mir-196b-2, ssc-mir-345-2, ssc-mir-363-2 It is noteworthy that miR-25 targeting BMPR2 and IRS1, miR-363 targeting USP24, miR-28 targeting HECW2 and miR-210 targeting ATP5I, ME3, MTCH1 and CPT2 were highly associated with slow-twitch oxidative fibers, fast-twitch oxidative fibers, ADP and ATP concentration suggesting an essential role of the miRNA-mRNA regulatory networking in modulating the mitochondrial energy expenditure in the porcine muscle. [score:10] Those genes targeted by several miRNAs including miR-28, miR-363, miR-2020, miR-24, miR-1207, miR-345 and miR-58 may be the cause of fluctuation of the UPS degradation for ubiquitin proteasome -dependent molecules [94] such as transcriptional coactivator PGC-1α which acts as a master regulator for mitochondrial biogenesis, to control mitochondrial gene expression indirectly. [score:7] MiR-363 and its target gene ubiquitin specific peptidase 24 (USP24) were correlated to STO fibers, mitochondrial respiratory activity including state 3 pyruvate and state 3 succinate, and AMP concentration in muscle cells, while miR-28 and its target gene HECW2 were correlated to STO muscle fibers. [score:5] [1 to 20 of 3 sentences]
4	[+] score: 15 Other miRNAs from this paper: ssc-mir-122, ssc-mir-148a, ssc-mir-181b-2, ssc-mir-95, ssc-mir-181c, ssc-mir-183, ssc-mir-27a, ssc-let-7i, ssc-mir-128-1, ssc-mir-186, ssc-mir-204, ssc-mir-30b, ssc-mir-146b, ssc-mir-181a-1, ssc-mir-215, ssc-mir-128-2, ssc-mir-143, ssc-mir-181a-2, ssc-mir-181b-1, ssc-mir-181d, ssc-mir-374a, ssc-mir-374b, ssc-mir-424, ssc-mir-195, ssc-mir-744, ssc-mir-22, ssc-mir-376a, ssc-mir-490-1, ssc-mir-376c, ssc-mir-376b, ssc-mir-4332, ssc-mir-218-1, ssc-mir-146a, ssc-mir-126, ssc-mir-218b, ssc-mir-219a, ssc-mir-2320, ssc-mir-144, ssc-mir-150-1, ssc-mir-150-2, ssc-mir-218-2, ssc-mir-490-2, ssc-mir-219b Among the 13 DEmiRNAs that significantly differentially expressed at all the three time points in both breeds, miR-144, miR-219 and miR-374a were also differentially expressed in PAMs after infection with PRRSV 24, and miR-183, miR-219, miR-28-3p and miR-143-3p were all up-regulated significantly at 3, 5, 7 dpi in both breeds. [score:8] Among the 13 DEmiRNAs, only four microRNAs: miR-143-3p, miR-183, miR-219 and miR-28-3p were up-regulated and the other nine microRNAs were all down-regulated in both breeds (Table 2) at all the time points. [score:7] [1 to 20 of 2 sentences]
5	[+] score: 1 Other miRNAs from this paper: ssc-mir-106a, ssc-mir-122, ssc-mir-145, ssc-mir-20a, ssc-mir-26a, ssc-mir-29b-1, ssc-mir-140, ssc-let-7c, ssc-let-7f-1, ssc-let-7i, ssc-mir-103-1, ssc-mir-196a-2, ssc-mir-16-2, ssc-mir-16-1, ssc-mir-1, ssc-let-7a-1, ssc-let-7e, ssc-let-7g, ssc-mir-133b, ssc-mir-191, ssc-mir-320, ssc-mir-143, ssc-mir-423, ssc-mir-103-2, ssc-mir-98, ssc-mir-192, ssc-mir-196b-1, ssc-mir-676-1, ssc-mir-708, ssc-mir-505, ssc-let-7a-2, ssc-let-7d, ssc-let-7f-2, ssc-mir-20b-1, ssc-mir-20b-2, ssc-mir-29b-2, ssc-mir-196a-1, ssc-mir-196b-2, ssc-mir-676-2, ssc-mir-223, ssc-mir-375 By analysis of candidate novel miRNAs, we found some of them can be classified into the conserved miRNA families, for example, the seed sequence of miR-new42 is exactly the same as the miR-28 and miR-708's. [score:1] [1 to 20 of 1 sentences]
6	[+] score: 1 Other miRNAs from this paper: ssc-mir-23a, ssc-mir-29b-1, ssc-mir-186, ssc-mir-21, ssc-mir-29c, ssc-mir-30c-2, ssc-mir-15a, ssc-mir-16-2, ssc-mir-16-1, ssc-mir-29a, ssc-mir-423, ssc-mir-23b, ssc-mir-92b, ssc-mir-22, ssc-mir-146a, ssc-mir-30c-1, ssc-mir-29b-2, ssc-mir-31, ssc-mir-150-1, ssc-mir-150-2, ssc-mir-182, ssc-mir-223 However, the highest number of significantly regulated miRNAs compared to before challenge was found at 14d pi, at which time point the infection had completely cleared (ssc-miR-15a, ssc-miR-29b, ssc-miR-29a, hsa-miR-449a, ssc-miR-186, ssc-miR-22-5p, ssc-miR-28-5p, hsa-miR-203a-3p, ssc-miR-146a-5p, hsa-miR-150-5p, ssc-miR-23b, hsa-miR-223-3p, hsa-miR-23a-3p, hsa-miR-16-5p). [score:1] [1 to 20 of 1 sentences]
7	[+] score: 1 Other miRNAs from this paper: hsa-let-7a-1, hsa-let-7a-2, hsa-let-7a-3, hsa-let-7b, hsa-let-7c, hsa-let-7d, hsa-let-7e, hsa-let-7f-1, hsa-let-7f-2, hsa-mir-17, hsa-mir-18a, hsa-mir-19a, hsa-mir-20a, hsa-mir-28, hsa-mir-103a-2, hsa-mir-103a-1, hsa-mir-107, hsa-let-7g, hsa-let-7i, hsa-mir-15b, hsa-mir-122, hsa-mir-140, hsa-mir-9-1, hsa-mir-9-2, hsa-mir-301a, hsa-mir-18b, hsa-mir-20b, ssc-mir-122, ssc-mir-15b, ssc-mir-19a, ssc-mir-20a, ssc-mir-301, ssc-mir-140, ssc-let-7c, ssc-let-7f-1, ssc-let-7i, ssc-mir-103-1, ssc-mir-107, ssc-mir-18a, ssc-mir-9-1, ssc-mir-9-2, hsa-mir-301b, hsa-mir-103b-1, hsa-mir-103b-2, ssc-mir-17, ssc-let-7a-1, ssc-let-7e, ssc-let-7g, ssc-mir-103-2, ssc-let-7a-2, ssc-mir-18b, ssc-let-7d, ssc-let-7f-2, ssc-mir-20b-1, ssc-mir-20b-2 In the Figure, the red arrows (for miR-19a-3p, miR-28-5p and miR-301-3p) indicate these sequences are mapped to the genome sequence with one mismatch. [score:1] [1 to 20 of 1 sentences]
8	[+] score: 1 Other miRNAs from this paper: hsa-mir-17, hsa-mir-28, hsa-mir-223, hsa-mir-127, hsa-mir-188, hsa-mir-194-1, hsa-mir-155, hsa-mir-194-2, hsa-mir-30e, hsa-mir-362, hsa-mir-363, hsa-mir-367, hsa-mir-379, hsa-mir-196b, hsa-mir-450a-1, hsa-mir-431, hsa-mir-493, hsa-mir-512-1, hsa-mir-512-2, hsa-mir-500a, hsa-mir-501, hsa-mir-502, hsa-mir-450a-2, hsa-mir-513a-1, hsa-mir-513a-2, hsa-mir-506, hsa-mir-508, hsa-mir-509-1, hsa-mir-532, hsa-mir-615, hsa-mir-660, bta-mir-127, bta-mir-30e, bta-mir-17, bta-mir-450a-2, bta-mir-532, bta-mir-363, bta-mir-660, hsa-mir-891a, hsa-mir-892a, hsa-mir-509-2, hsa-mir-450b, hsa-mir-892b, hsa-mir-708, hsa-mir-509-3, hsa-mir-1285-1, hsa-mir-1285-2, hsa-mir-1248, ssc-mir-17, bta-mir-155, bta-mir-188, bta-mir-194-2, bta-mir-196b, bta-mir-223, bta-mir-28, bta-mir-362, bta-mir-367, bta-mir-379, bta-mir-431, bta-mir-493, bta-mir-500, bta-mir-502a-1, bta-mir-502a-2, bta-mir-502b, bta-mir-615, bta-mir-708, bta-mir-1248-1, bta-mir-1248-2, ssc-mir-450a, bta-mir-2320, bta-mir-1388, bta-mir-194-1, bta-mir-450a-1, eca-mir-30e, eca-mir-367, eca-mir-684, eca-mir-196b, eca-mir-615, eca-mir-708, eca-mir-194-1, eca-mir-493a, eca-mir-17, eca-mir-1248, eca-mir-28, eca-mir-127, eca-mir-379, eca-mir-431, eca-mir-493b, eca-mir-155, eca-mir-194-2, eca-mir-188, eca-mir-223, eca-mir-362, eca-mir-363, eca-mir-450a, eca-mir-450b, eca-mir-450c, eca-mir-500-1, eca-mir-500-2, eca-mir-501, eca-mir-502, eca-mir-508, eca-mir-509a, eca-mir-532, eca-mir-660, ssc-mir-30e, ssc-mir-196b-1, ssc-mir-450b, ssc-mir-127, ssc-mir-532, ssc-mir-708, ssc-mir-1285, ssc-mir-500, hsa-mir-514b, ssc-mir-363-1, ssc-mir-450c, hsa-mir-500b, ssc-mir-194b, ssc-mir-155, ssc-mir-362, bta-mir-3601, ssc-mir-615, ssc-mir-2320, bta-mir-450b, ssc-mir-194a, ssc-mir-196b-2, ssc-mir-363-2, ssc-mir-493, hsa-mir-892c, eca-mir-1388, eca-mir-514b, eca-mir-506a, eca-mir-509b, bta-mir-194b, ssc-mir-1388, ssc-mir-223, ssc-mir-660, bta-mir-194b-2, bta-mir-1949 The reason is that at least some Rfam miRNA families are inconsistent with miRBase (an example is mir-28, mir-708 where high confident BLAST Rfam hits are observed on the same locations on opposite strands, however miRBase only match one of the two families to a given location and the families are only weakly related. [score:1] [1 to 20 of 1 sentences]

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8 publications mentioning ssc-mir-28

Open access articles that are associated with the species Sus scrofa and mention the gene name mir-28. Click the [+] symbols to view sentences that include the gene name, or the word cloud on the right for a summary.

[+] score: 24

As examples, the liver-specific miR-122 promotes the replication of hepatitis C virus (HCV) [17], [18], while miR-196, miR-199, miR-296, miR-351, miR-431 and miR-448 inhibit HCV genome propagation [19], [20]; miR-32 effectively restricts the accumulation of primate foamy virus type 1 (PFV-1) in human cells [21]; miR-323, miR-491 and miR-654 inhibit the replication of the H1N1 influenza A virus by binding to the viral PB1 gene [22]; miR-28, miR-125b, miR-150, miR-223 and miR-382 target the 3′ end of human immunodeficiency virus (HIV) mRNA, thereby restricting HIV production [23]; miR-199a-3p and miR-210 limit the hepatitis B virus (HBV) surface antigen and polymerase production by degrading and/or inhibiting translation of viral mRNAs encoding these proteins [24]; overexpression of miR-24 and miR-93 suppresses vesicular stomatitis virus (VSV) replication through targeting the viral genes encoding RNA -dependent RNA polymerase (L protein) and phosphoprotein (P protein), respectively [25]; in macrophages, upregulation of miR-155 suppresses VSV replication, while inhibition of miR-155 had the opposite effect. [score:24]

[1 to 20 of 1 sentences]

[+] score: 23

Other miRNAs from this paper: ssc-mir-19a, ssc-mir-140, ssc-let-7c, ssc-let-7f-1, ssc-let-7i, ssc-mir-124a-2, ssc-mir-21, ssc-mir-9-1, ssc-mir-9-2, ssc-mir-30b, ssc-mir-124a-1, ssc-mir-146b, ssc-let-7a-1, ssc-let-7e, ssc-let-7g, ssc-mir-92a-2, ssc-mir-92a-1, ssc-mir-142, ssc-mir-195, ssc-mir-1306, ssc-mir-155, ssc-mir-146a, ssc-mir-126, ssc-let-7a-2, ssc-let-7d, ssc-let-7f-2, ssc-mir-9-3, ssc-mir-2411

The results showed that some of the differentially expressed miRNAs directly targeted the 3' UTR or 5' UTR of the TGEV genome: ssc-miR-28–3p, ssc-miR-126–5p and ssc-miR-30b-5p target the 3' UTR (28297 bp–28571 bp) and ssc-miR-2411 and chrX-16275 target the 5' UTR (1 bp–303 bp) (Fig. 5). [score:10]

0120377.g005 Fig 5 ssc-miR-28–3p, ssc-miR-126–5p and ssc-miR-30b-5p target the 3' UTR of the TGEV genome (28297 bp–28571 bp), ssc-miR-2411 target the 5' UTR of the TGEV genome (1 bp–303 bp). [score:5]

ssc-miR-28–3p, ssc-miR-126–5p and ssc-miR-30b-5p target the 3' UTR of the TGEV genome (28297 bp–28571 bp), ssc-miR-2411 target the 5' UTR of the TGEV genome (1 bp–303 bp). [score:5]

The selected miRNAs comprised four differentially expressed miRNAs (ssc-miR-19a, ssc-miR-28–3p, ssc-miR-92a and ssc-miR195) and four novel miRNAs (chr13–4473, chr6–12459, GL892871–2–16764 and chr9–15250). [score:3]

[1 to 20 of 4 sentences]

[+] score: 22

Other miRNAs from this paper: ssc-mir-145, ssc-mir-15b, ssc-mir-23a, ssc-mir-24-1, ssc-mir-7-2, ssc-mir-27a, ssc-let-7c, ssc-let-7f-1, ssc-let-7i, ssc-mir-103-1, ssc-mir-196a-2, ssc-mir-30c-2, ssc-mir-15a, ssc-mir-30b, ssc-mir-34a, ssc-mir-130a, ssc-mir-210, ssc-mir-221, ssc-mir-133a-1, ssc-mir-1, ssc-mir-450a, ssc-mir-30a, ssc-mir-206, ssc-let-7a-1, ssc-let-7e, ssc-let-7g, ssc-mir-133b, ssc-mir-30d, ssc-mir-30e, ssc-mir-499, ssc-mir-423, ssc-mir-10a, ssc-mir-10b, ssc-mir-103-2, ssc-mir-27b, ssc-mir-24-2, ssc-mir-345-1, ssc-mir-885, ssc-mir-208b, ssc-mir-34c-1, ssc-mir-130b, ssc-mir-196b-1, ssc-mir-542, ssc-mir-450b, ssc-mir-22, ssc-mir-363-1, ssc-mir-338, ssc-mir-450c, ssc-mir-194b, ssc-mir-133a-2, ssc-mir-30c-1, ssc-mir-126, ssc-mir-451, ssc-let-7a-2, ssc-let-7d, ssc-let-7f-2, ssc-mir-7-1, ssc-mir-34c-2, ssc-mir-194a, ssc-mir-196a-1, ssc-mir-196b-2, ssc-mir-345-2, ssc-mir-363-2

It is noteworthy that miR-25 targeting BMPR2 and IRS1, miR-363 targeting USP24, miR-28 targeting HECW2 and miR-210 targeting ATP5I, ME3, MTCH1 and CPT2 were highly associated with slow-twitch oxidative fibers, fast-twitch oxidative fibers, ADP and ATP concentration suggesting an essential role of the miRNA-mRNA regulatory networking in modulating the mitochondrial energy expenditure in the porcine muscle. [score:10]

Those genes targeted by several miRNAs including miR-28, miR-363, miR-2020, miR-24, miR-1207, miR-345 and miR-58 may be the cause of fluctuation of the UPS degradation for ubiquitin proteasome -dependent molecules [94] such as transcriptional coactivator PGC-1α which acts as a master regulator for mitochondrial biogenesis, to control mitochondrial gene expression indirectly. [score:7]

MiR-363 and its target gene ubiquitin specific peptidase 24 (USP24) were correlated to STO fibers, mitochondrial respiratory activity including state 3 pyruvate and state 3 succinate, and AMP concentration in muscle cells, while miR-28 and its target gene HECW2 were correlated to STO muscle fibers. [score:5]

[1 to 20 of 3 sentences]

[+] score: 15

Among the 13 DEmiRNAs that significantly differentially expressed at all the three time points in both breeds, miR-144, miR-219 and miR-374a were also differentially expressed in PAMs after infection with PRRSV 24, and miR-183, miR-219, miR-28-3p and miR-143-3p were all up-regulated significantly at 3, 5, 7 dpi in both breeds. [score:8]

Among the 13 DEmiRNAs, only four microRNAs: miR-143-3p, miR-183, miR-219 and miR-28-3p were up-regulated and the other nine microRNAs were all down-regulated in both breeds (Table 2) at all the time points. [score:7]

[1 to 20 of 2 sentences]

[+] score: 1

By analysis of candidate novel miRNAs, we found some of them can be classified into the conserved miRNA families, for example, the seed sequence of miR-new42 is exactly the same as the miR-28 and miR-708's. [score:1]

[1 to 20 of 1 sentences]

[+] score: 1

Other miRNAs from this paper: ssc-mir-23a, ssc-mir-29b-1, ssc-mir-186, ssc-mir-21, ssc-mir-29c, ssc-mir-30c-2, ssc-mir-15a, ssc-mir-16-2, ssc-mir-16-1, ssc-mir-29a, ssc-mir-423, ssc-mir-23b, ssc-mir-92b, ssc-mir-22, ssc-mir-146a, ssc-mir-30c-1, ssc-mir-29b-2, ssc-mir-31, ssc-mir-150-1, ssc-mir-150-2, ssc-mir-182, ssc-mir-223

However, the highest number of significantly regulated miRNAs compared to before challenge was found at 14d pi, at which time point the infection had completely cleared (ssc-miR-15a, ssc-miR-29b, ssc-miR-29a, hsa-miR-449a, ssc-miR-186, ssc-miR-22-5p, ssc-miR-28-5p, hsa-miR-203a-3p, ssc-miR-146a-5p, hsa-miR-150-5p, ssc-miR-23b, hsa-miR-223-3p, hsa-miR-23a-3p, hsa-miR-16-5p). [score:1]

[1 to 20 of 1 sentences]

[+] score: 1

In the Figure, the red arrows (for miR-19a-3p, miR-28-5p and miR-301-3p) indicate these sequences are mapped to the genome sequence with one mismatch. [score:1]

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[+] score: 1

Other miRNAs from this paper: hsa-mir-17, hsa-mir-28, hsa-mir-223, hsa-mir-127, hsa-mir-188, hsa-mir-194-1, hsa-mir-155, hsa-mir-194-2, hsa-mir-30e, hsa-mir-362, hsa-mir-363, hsa-mir-367, hsa-mir-379, hsa-mir-196b, hsa-mir-450a-1, hsa-mir-431, hsa-mir-493, hsa-mir-512-1, hsa-mir-512-2, hsa-mir-500a, hsa-mir-501, hsa-mir-502, hsa-mir-450a-2, hsa-mir-513a-1, hsa-mir-513a-2, hsa-mir-506, hsa-mir-508, hsa-mir-509-1, hsa-mir-532, hsa-mir-615, hsa-mir-660, bta-mir-127, bta-mir-30e, bta-mir-17, bta-mir-450a-2, bta-mir-532, bta-mir-363, bta-mir-660, hsa-mir-891a, hsa-mir-892a, hsa-mir-509-2, hsa-mir-450b, hsa-mir-892b, hsa-mir-708, hsa-mir-509-3, hsa-mir-1285-1, hsa-mir-1285-2, hsa-mir-1248, ssc-mir-17, bta-mir-155, bta-mir-188, bta-mir-194-2, bta-mir-196b, bta-mir-223, bta-mir-28, bta-mir-362, bta-mir-367, bta-mir-379, bta-mir-431, bta-mir-493, bta-mir-500, bta-mir-502a-1, bta-mir-502a-2, bta-mir-502b, bta-mir-615, bta-mir-708, bta-mir-1248-1, bta-mir-1248-2, ssc-mir-450a, bta-mir-2320, bta-mir-1388, bta-mir-194-1, bta-mir-450a-1, eca-mir-30e, eca-mir-367, eca-mir-684, eca-mir-196b, eca-mir-615, eca-mir-708, eca-mir-194-1, eca-mir-493a, eca-mir-17, eca-mir-1248, eca-mir-28, eca-mir-127, eca-mir-379, eca-mir-431, eca-mir-493b, eca-mir-155, eca-mir-194-2, eca-mir-188, eca-mir-223, eca-mir-362, eca-mir-363, eca-mir-450a, eca-mir-450b, eca-mir-450c, eca-mir-500-1, eca-mir-500-2, eca-mir-501, eca-mir-502, eca-mir-508, eca-mir-509a, eca-mir-532, eca-mir-660, ssc-mir-30e, ssc-mir-196b-1, ssc-mir-450b, ssc-mir-127, ssc-mir-532, ssc-mir-708, ssc-mir-1285, ssc-mir-500, hsa-mir-514b, ssc-mir-363-1, ssc-mir-450c, hsa-mir-500b, ssc-mir-194b, ssc-mir-155, ssc-mir-362, bta-mir-3601, ssc-mir-615, ssc-mir-2320, bta-mir-450b, ssc-mir-194a, ssc-mir-196b-2, ssc-mir-363-2, ssc-mir-493, hsa-mir-892c, eca-mir-1388, eca-mir-514b, eca-mir-506a, eca-mir-509b, bta-mir-194b, ssc-mir-1388, ssc-mir-223, ssc-mir-660, bta-mir-194b-2, bta-mir-1949

The reason is that at least some Rfam miRNA families are inconsistent with miRBase (an example is mir-28, mir-708 where high confident BLAST Rfam hits are observed on the same locations on opposite strands, however miRBase only match one of the two families to a given location and the families are only weakly related. [score:1]

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