Stem-loop sequence hsa-mir-542

Accession

MI0003686

Symbol

HGNC:MIR542

Description

Homo sapiens miR-542 stem-loop

Gene family

MIPF0000185; mir-542

Stem-loop

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

Deep sequencing

1402 reads, 25 experiments

Comments

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

Genome context

• Coordinates (GRCh37.p5): chrX: 133675371-133675467 [-]
• Overlapping transcripts:

  intergenic

Clustered miRNAs

< 10kb from hsa-mir-542

• hsa-mir-424: chrX: 133680644-133680741 [-]
• hsa-mir-503: chrX: 133680358-133680428 [-]
• hsa-mir-542: chrX: 133675371-133675467 [-]
• hsa-mir-450a-2: chrX: 133674538-133674637 [-]
• hsa-mir-450a-1: chrX: 133674371-133674461 [-]
• hsa-mir-450b: chrX: 133674215-133674292 [-]

Database links

• ENTREZGENE: 664617;MIR542
• HGNC: 32534;MIR542

Mature sequence hsa-miR-542-5p

• Accession: MIMAT0003340
• Sequence: 16 - ucggggaucaucaugucacgaga - 38
• Deep sequencing: 30 reads, 7 experiments
• Evidence: experimental; cloned [1-3]
• Predicted targets:
  • DIANA-MICROT:hsa-miR-542-5p
  • MICRORNA.ORG:hsa-miR-542-5p
  • MIRDB:hsa-miR-542-5p
  • RNA22-HSA:hsa-miR-542-5p
  • TARGETMINER:hsa-miR-542-5p
  • TARGETSCAN-VERT:hsa-miR-542-5p

Mature sequence hsa-miR-542-3p

• Accession: MIMAT0003389
• Sequence: 53 - ugugacagauugauaacugaaa - 74
• Deep sequencing: 1371 reads, 23 experiments
• Evidence: experimental; cloned [1-2]
• Validated targets:
  • MIRTARBASE:hsa-miR-542-3p
  • TARBASE:hsa-miR-542-3p
• Predicted targets:
  • DIANA-MICROT:hsa-miR-542-3p
  • MICRORNA.ORG:hsa-miR-542-3p
  • MIRDB:hsa-miR-542-3p
  • RNA22-HSA:hsa-miR-542-3p
  • TARGETMINER:hsa-miR-542-3p
  • TARGETSCAN-VERT: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).