Stem-loop sequence hsa-mir-642a

Accession

MI0003657 (change log)

Previous IDs

hsa-mir-642

Symbol

HGNC:MIR642A

Description

Homo sapiens miR-642a stem-loop

Gene family

MIPF0000468; mir-642

Literature search

9 open access papers mention hsa-mir-642a
(55 sentences)

Stem-loop

   ------------au             g                      ggu 
5'               cugaguugggagg ucccucuccaaaugugucuugg   g
                 ||||||||||||| ||||||||||||||||||||||   g
3'               ggcucaacccucc agggagagguuuacacagaacu   g
   uuacuaccgucucc             a                      agg 

Deep sequencing

1669 reads, 0.752 reads per million, 133 experiments

Confidence

Annotation confidence: high

Feedback: Do you believe this miRNA is real?

Genome context

• Coordinates (GRCh38; GCA_000001405.15): chr19: 45674928-45675024 [+]
• Overlapping transcripts:

  sense

  OTTHUMT00000457536 ; MARK4-010; intron 1

  ENST00000587566 ; MARK4-010; intron 1

  antisense

  OTTHUMT00000457554 ; TRAPPC6A-002; intron 1

  OTTHUMT00000457555 ; TRAPPC6A-003; intron 1

  OTTHUMT00000457556 ; TRAPPC6A-001; intron 1

  OTTHUMT00000457557 ; TRAPPC6A-004; intron 1

  OTTHUMT00000457558 ; TRAPPC6A-005; intron 1

  ENST00000006275 ; TRAPPC6A-002; intron 1

  ENST00000588062 ; TRAPPC6A-003; intron 1

  ENST00000585934 ; TRAPPC6A-001; intron 1

  ENST00000592647 ; TRAPPC6A-004; intron 1

  ENST00000587818 ; TRAPPC6A-005; intron 1

Clustered miRNAs

< 10kb from hsa-mir-642a

• hsa-mir-642a: chr19: 45674928-45675024 [+]
• hsa-mir-642b: chr19: 45674932-45675008 [-]

Database links

• EntrezGene:MIR642
• HGNC:MIR642A
• RNAcentral:URS000069A81A_9606
• miRBase Tracker:MI0003657

Mature sequence hsa-miR-642a-5p

• Accession: MIMAT0003312
• Previous IDs: hsa-miR-642;hsa-miR-642a
• Sequence: 16 - gucccucuccaaaugugucuug - 37
• Deep sequencing: 678 reads, 101 experiments
• Evidence: experimental; RT-PCR [1], SAGE [1], cloned [2]
• Database links:
  • RNAcentral:URS00000F2C33_9606
• Predicted targets:
  • TargetMiner:hsa-miR-642a-5p
  • TargetScanVert:hsa-miR-642a-5p
  • miRDB:hsa-miR-642a-5p
  • microrna.org:hsa-miR-642a-5p

Mature sequence hsa-miR-642a-3p

• Accession: MIMAT0020924
• Sequence: 51 - agacacauuuggagagggaacc - 72
• Deep sequencing: 939 reads, 108 experiments
• Evidence: experimental; SOLiD [3]
• Database links:
  • RNAcentral:URS00000E7139_9606
• Predicted targets:
  • TargetMiner:hsa-miR-642a-3p
  • TargetScanVert:hsa-miR-642a-3p
  • miRDB:hsa-miR-642a-3p

References

1. PMID:16505370 "The colorectal microRNAome" Cummins JM, He Y, Leary RJ, Pagliarini R, Diaz LA Jr, Sjoblom T, Barad O, Bentwich Z, Szafranska AE, Labourier E, Raymond CK, Roberts BS, Juhl H, Kinzler KW, Vogelstein B, Velculescu VE Proc Natl Acad Sci U S A. 103:3687-3692(2006).
2. 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).
3. PMID:21767385 "Small RNA sequencing reveals miR-642a-3p as a novel adipocyte-specific microRNA and miR-30 as a key regulator of human adipogenesis" Zaragosi LE, Wdziekonski B, Brigand KL, Villageois P, Mari B, Waldmann R, Dani C, Barbry P Genome Biol. 12:R64(2011).