Stem-loop sequence hsa-mir-542

Accession

MI0003686 (change log)

Symbol

HGNC:MIR542

Description

Homo sapiens miR-542 stem-loop

Gene family

MIPF0000185; mir-542

Literature search

52 open access papers mention hsa-mir-542
(244 sentences)

Stem-loop

   ----------caga        auc    gg    uca         -a   c 
5'               ucucagac   ucgg  auca   ugucacgag  uac a
                 ||||||||   ||||  ||||   |||||||||  |||  
3'               agggucug   aguc  uagu   acaguguuc  gug g
   acuucuacucaccg        gaa    aa    uag         ac   u 

Deep sequencing

83747 reads, 174 reads per million, 159 experiments

Confidence

Annotation confidence: high

Feedback: Do you believe this miRNA is real?

Comments

The mature sequence shown here represents the most commonly cloned form from large-scale cloning studies [2].

Genome context

• Coordinates (GRCh38; GCA_000001405.15): chrX: 134541341-134541437 [-]
• Overlapping transcripts:

  intergenic

Clustered miRNAs

< 10kb from hsa-mir-542

• hsa-mir-424: chrX: 134546614-134546711 [-]
• hsa-mir-503: chrX: 134546328-134546398 [-]
• hsa-mir-542: chrX: 134541341-134541437 [-]
• hsa-mir-450a-2: chrX: 134540508-134540607 [-]
• hsa-mir-450a-1: chrX: 134540341-134540431 [-]
• hsa-mir-450b: chrX: 134540185-134540262 [-]

Database links

• EntrezGene:MIR542
• HGNC:MIR542
• RNAcentral:URS000075B0FE_9606
• miRBase Tracker:MI0003686

Mature sequence hsa-miR-542-5p

• Accession: MIMAT0003340
• Sequence: 16 - ucggggaucaucaugucacgaga - 38
• Deep sequencing: 5232 reads, 136 experiments
• Evidence: experimental; cloned [1-3]
• Database links:
  • RNAcentral:URS000050C722_9606
• Predicted targets:
  • TargetMiner:hsa-miR-542-5p
  • TargetScanVert:hsa-miR-542-5p
  • miRDB:hsa-miR-542-5p
  • microrna.org:hsa-miR-542-5p

Mature sequence hsa-miR-542-3p

• Accession: MIMAT0003389
• Sequence: 53 - ugugacagauugauaacugaaa - 74
• Deep sequencing: 78500 reads, 158 experiments
• Evidence: experimental; cloned [1-2]
• Database links:
  • RNAcentral:URS00004F859B_9606
• Predicted targets:
  • TargetMiner:hsa-miR-542-3p
  • TargetScanVert:hsa-miR-542-3p
  • miRDB:hsa-miR-542-3p
  • microrna.org:hsa-miR-542-3p

References

1. PMID:16274478 "Identification of clustered microRNAs using an ab initio prediction method" Sewer A, Paul N, Landgraf P, Aravin A, Pfeffer S, Brownstein MJ, Tuschl T, van Nimwegen E, Zavolan M BMC Bioinformatics. 6:267(2005).
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:17616659 "Patterns of known and novel small RNAs in human cervical cancer" Lui WO, Pourmand N, Patterson BK, Fire A Cancer Res. 67:6031-6043(2007).