Stem-loop sequence hsa-mir-380

Accession

MI0000788 (change log)

Symbol

HGNC:MIR380

Description

Homo sapiens miR-380 stem-loop

Gene family

MIPF0000126; mir-379

Literature search

13 open access papers mention hsa-mir-380
(18 sentences)

Stem-loop

         guu       ga       c   c 
5' aagaug   gaccaua  acaugcg uau u
   ||||||   |||||||  ||||||| |||  
3' uucuac   cugguau  uguaugc gug c
         -ac       aa       u   u 

Deep sequencing

1480 reads, 1.23 reads per million, 81 experiments

Confidence

Annotation confidence: high

Feedback: Do you believe this miRNA is real?

Comments

Landgraf et al. confirm that the 3' product is the predominant one [3].

Genome context

• Coordinates (GRCh38; GCA_000001405.15): chr14: 101025017-101025077 [+]
• Overlapping transcripts:

  antisense

  OTTHUMT00000414334 ; BEGAIN-007; intron 1

  OTTHUMT00000414329 ; BEGAIN-001; intron 2

  OTTHUMT00000414331 ; BEGAIN-005; intron 2

  OTTHUMT00000414332 ; BEGAIN-003; intron 2

  OTTHUMT00000414335 ; BEGAIN-006; intron 2

  OTTHUMT00000414337 ; BEGAIN-004; intron 2

  ENST00000557378 ; BEGAIN-007; intron 1

  ENST00000443071 ; BEGAIN-201; intron 1

  ENST00000355173 ; BEGAIN-001; intron 2

  ENST00000553553 ; BEGAIN-005; intron 2

  ENST00000556188 ; BEGAIN-003; intron 2

  ENST00000554140 ; BEGAIN-006; intron 2

  ENST00000554747 ; BEGAIN-004; intron 2

Clustered miRNAs

< 10kb from hsa-mir-380

• hsa-mir-379: chr14: 101022066-101022132 [+]
• hsa-mir-411: chr14: 101023325-101023420 [+]
• hsa-mir-299: chr14: 101023794-101023856 [+]
• hsa-mir-380: chr14: 101025017-101025077 [+]
• hsa-mir-1197: chr14: 101025564-101025651 [+]
• hsa-mir-323a: chr14: 101025732-101025817 [+]
• hsa-mir-758: chr14: 101026020-101026107 [+]
• hsa-mir-329-1: chr14: 101026785-101026864 [+]
• hsa-mir-329-2: chr14: 101027100-101027183 [+]
• hsa-mir-494: chr14: 101029634-101029714 [+]
• hsa-mir-1193: chr14: 101030052-101030129 [+]
• hsa-mir-543: chr14: 101031987-101032064 [+]
• hsa-mir-495: chr14: 101033755-101033836 [+]

Database links

• EntrezGene:MIR380
• HGNC:MIR380
• RNAcentral:URS000075D37E_9606
• miRBase Tracker:MI0000788

Mature sequence hsa-miR-380-5p

• Accession: MIMAT0000734
• Previous IDs: hsa-miR-380-5p;hsa-miR-380*
• Sequence: 5 - ugguugaccauagaacaugcgc - 26
• Deep sequencing: 1103 reads, 60 experiments
• Evidence: by similarity; MI0000797
• Predicted targets:
  • TargetMiner:hsa-miR-380-5p
  • TargetScanVert:hsa-miR-380-5p
  • miRDB:hsa-miR-380-5p
  • microrna.org:hsa-miR-380-5p

Mature sequence hsa-miR-380-3p

• Accession: MIMAT0000735
• Previous IDs: hsa-miR-380-3p;hsa-miR-380
• Sequence: 40 - uauguaauaugguccacaucuu - 61
• Deep sequencing: 377 reads, 50 experiments
• Evidence: experimental; cloned [3]
• Database links:
  • RNAcentral:URS00002CAE0C_9606
• Predicted targets:
  • TargetMiner:hsa-miR-380-3p
  • TargetScanVert:hsa-miR-380-3p
  • miRDB:hsa-miR-380-3p
  • microrna.org:hsa-miR-380-3p

References

1. PMID:15538371 "A pancreatic islet-specific microRNA regulates insulin secretion" Poy MN, Eliasson L, Krutzfeldt J, Kuwajima S, Ma X, Macdonald PE, Pfeffer S, Tuschl T, Rajewsky N, Rorsman P, Stoffel M Nature. 432:226-230(2004).
2. PMID:15310658 "A large imprinted microRNA gene cluster at the mouse Dlk1-Gtl2 domain" Seitz H, Royo H, Bortolin ML, Lin SP, Ferguson-Smith AC, Cavaille J Genome Res. 14:1741-1748(2004).
3. PMID:17604727 "A mammalian microRNA expression atlas based on small RNA library sequencing" Landgraf P, Rusu M, Sheridan R, Sewer A, Iovino N, Aravin A, Pfeffer S, Rice A, Kamphorst AO, Landthaler M, Lin C, Socci ND, Hermida L, Fulci V, Chiaretti S, Foa R, Schliwka J, Fuchs U, Novosel A, Muller RU, Schermer B, Bissels U, Inman J, Phan Q, Chien M Cell. 129:1401-1414(2007).