Stem-loop sequence eca-mir-188

Accession

MI0012946 (change log)

Description

Equus caballus miR-188 stem-loop

Gene family

MIPF0000113; mir-188

Literature search

1 open access papers mention eca-mir-188
(2 sentences)

Stem-loop

      ca  uc         gu      -ugag u 
5' ucu  ca  ccuugcaug  ggaggg     c u
   |||  ||  |||||||||  ||||||     | u
3' agg  gu  gggacguac  ccuccc     g c
      ac  uu         ac      caaaa u 

Deep sequencing

55 reads, 0 reads per million, 2 experiments

Confidence

Annotation confidence: not enough data

Feedback: Do you believe this miRNA is real?

Genome context

• Coordinates (EquCab2.0; GCF_000002305.2): chrX: 40068847-40068914 [+]
• Overlapping transcripts:

  sense

  ENSECAT00000011707 ; CLCN5-201; intron 1

  ENSECAT00000027952 ; eca-mir-188-201; exon 1

Clustered miRNAs

< 10kb from eca-mir-188

• eca-mir-532: chrX: 40068460-40068549 [+]
• eca-mir-188: chrX: 40068847-40068914 [+]
• eca-mir-500-1: chrX: 40073284-40073367 [+]
• eca-mir-362: chrX: 40073827-40073892 [+]
• eca-mir-501: chrX: 40074566-40074649 [+]
• eca-mir-500-2: chrX: 40075101-40075184 [+]
• eca-mir-660: chrX: 40076530-40076626 [+]
• eca-mir-502: chrX: 40077407-40077486 [+]

Database links

• EntrezGene:MIR188
• miRBase Tracker:MI0012946

Mature sequence eca-miR-188-5p

• Accession: MIMAT0013198
• Sequence: 6 - caucccuugcaugguggaggg - 26
• Deep sequencing: 38 reads, 1 experiments
• Evidence: not experimental

Mature sequence eca-miR-188-3p

• Accession: MIMAT0013199
• Sequence: 45 - cucccacaugcaggguuugca - 65
• Deep sequencing: 16 reads, 1 experiments
• Evidence: not experimental

References

1. PMID:19406225 "In silico detection and characteristics of novel microRNA genes in the Equus caballus genome using an integrated ab initio and comparative genomic approach" Zhou M, Wang Q, Sun J, Li X, Xu L, Yang H, Shi H, Ning S, Chen L, Li Y, He T, Zheng Y Genomics. 94:125-131(2009).