Transcriptome-wide microRNA target prediction including lncRNAs
miRcode 11 (June 2012) based on: UCSC GRCh37/hg19, GENCODE 11 transcripts, Multiz 46 species, TargetScan6 families
Search | Data info | Browse | Download | FAQ | Larsson lab

Introduction

MiRcode provides "whole transcriptome" human microRNA target predictions based on the comprehensive GENCODE gene annotation, including >10,000 long non-coding RNA genes. Coding genes are also covered, including atypical regions such as 5'UTRs and CDS. MicroRNA family definitions and names are consistent with TargetScan. Site conservation is evaluated based on 46 vertebrates species. Data sources and stats is found on the data info page, and the FAQ answers many questions. Please cite the miRcode paper if this resource is useful in your research.

Do an interactive search below, browse sites in the UCSC browser, or download for local use.

Note that miRcode sites are now directly available through the UCSC browser Track Data Hubs feature.

Target site search

Gene (symbol/accession): MicroRNA family: (Highly conserved families)
Gene class: Any
LncRNA (all)
LncRNA (intergenic)
LncRNA (coding overlap)
Coding
Pseudogene
Other
 Site conservation: Any
Most primates
+Most mammals
+Most non-mammal vertebrates
 Transcript region: Any/ncRNA
3'UTR
CDS
5'UTR



Search result

ENSG00000184047.11 (DIABLO) (coding)
microRNA familySeed positionSeed typeTranscript regionRepeatConservation
PrimatesMammalsOther vert.
miR-503 chr12:122711016 7-mer-m8 5pUTR,ncRNA no 67 % 48 % 15 %
miR-503 chr12:122712013 7-mer-m8 5pUTR,ncRNA no 44 % 0 % 0 %
miR-551a chr12:122710387 7-mer-m8 5pUTR no 33 % 0 % 0 %
miR-9/9ab chr12:122703069 7-mer-A1 5pUTR no 44 % 9 % 0 %
miR-96/507/1271 chr12:122703098 7-mer-A1 5pUTR no 67 % 0 % 0 %
miR-138/138ab chr12:122693049 7-mer-m8 3pUTR,CDS no 44 % 0 % 0 %
miR-140/140-5p/876-3p/1244 chr12:122701089 7-mer-m8 3pUTR,CDS,ncRNA no 67 % 17 % 0 %
miR-141/200a chr12:122709177 7-mer-m8 CDS,5pUTR no 44 % 0 % 0 %
miR-143/1721/4770 chr12:122710407 7-mer-m8 5pUTR no 11 % 0 % 0 %
miR-146ac/146b-5p chr12:122702988 8-mer 5pUTR no 78 % 13 % 0 %
miR-150/5127 chr12:122702322 7-mer-m8 ncRNA yes 56 % 4 % 0 %
miR-15abc/16/16abc/195/322/424/497/1907 chr12:122711013 7-mer-m8 5pUTR,ncRNA no 67 % 61 % 38 %
miR-182 chr12:122703098 8-mer 5pUTR no 67 % 0 % 0 %
miR-182 chr12:122709191 7-mer-m8 5pUTR no 78 % 17 % 0 %
miR-182 chr12:122711115 7-mer-m8 ncRNA no 78 % 17 % 0 %
miR-182 chr12:122711200 7-mer-m8 5pUTR no 78 % 17 % 0 %
miR-184 chr12:122711089 7-mer-A1 5pUTR,ncRNA no 56 % 13 % 0 %
let-7/98/4458/4500 chr12:122692660 7-mer-A1 3pUTR no 0 % 0 % 0 %
miR-187 chr12:122709490 7-mer-m8 5pUTR yes 22 % 0 % 0 %
miR-190/190ab chr12:122701040 7-mer-A1 3pUTR,CDS,ncRNA no 67 % 4 % 0 %
miR-191 chr12:122692287 7-mer-m8 3pUTR no 11 % 0 % 0 %
miR-194 chr12:122709234 8-mer CDS,5pUTR no 67 % 0 % 0 %
miR-196abc chr12:122694352 7-mer-m8 CDS yes 56 % 0 % 0 %
miR-196abc chr12:122710090 7-mer-A1 5pUTR no 22 % 0 % 0 %
miR-19ab chr12:122700862 8-mer ncRNA no 44 % 17 % 0 %
miR-19ab chr12:122709060 7-mer-A1 CDS,5pUTR no 67 % 26 % 8 %
miR-203 chr12:122692701 7-mer-m8 3pUTR no 56 % 9 % 0 %
miR-203 chr12:122709327 7-mer-A1 5pUTR no 33 % 0 % 0 %
miR-208ab/208ab-3p chr12:122703107 7-mer-A1 5pUTR no 78 % 17 % 0 %
miR-216a chr12:122702140 8-mer ncRNA yes 22 % 0 % 0 %
miR-216b/216b-5p chr12:122702140 7-mer-A1 ncRNA yes 22 % 0 % 0 %
miR-217 chr12:122694317 8-mer CDS yes 56 % 0 % 0 %
miR-218/218a chr12:122693012 7-mer-m8 3pUTR,CDS no 78 % 48 % 0 %
miR-219-5p/508/508-3p/4782-3p chr12:122700711 7-mer-A1 ncRNA no 44 % 0 % 0 %
miR-221/222/222ab/1928 chr12:122702264 8-mer ncRNA yes 56 % 0 % 0 %
miR-23abc/23b-3p chr12:122700664 7-mer-A1 ncRNA yes 44 % 4 % 0 %
miR-24/24ab/24-3p chr12:122701790 7-mer-A1 ncRNA yes 44 % 0 % 0 %
miR-24/24ab/24-3p chr12:122702581 7-mer-m8 ncRNA yes 67 % 9 % 0 %
miR-24/24ab/24-3p chr12:122703219 7-mer-A1 5pUTR yes 67 % 0 % 0 %
miR-24/24ab/24-3p chr12:122709381 7-mer-A1 5pUTR yes 44 % 0 % 0 %
miR-25/32/92abc/363/363-3p/367 chr12:122701547 7-mer-m8 ncRNA no 56 % 13 % 0 %
miR-26ab/1297/4465 chr12:122701103 8-mer 3pUTR,CDS,ncRNA no 78 % 61 % 8 %
miR-27abc/27a-3p chr12:122709102 7-mer-m8 CDS,5pUTR no 44 % 0 % 0 %
miR-29abcd chr12:122692351 7-mer-m8 3pUTR no 100 % 39 % 0 %
miR-29abcd chr12:122710983 7-mer-m8 5pUTR,ncRNA no 44 % 74 % 31 %
miR-30abcdef/30abe-5p/384-5p chr12:122692359 7-mer-m8 3pUTR no 100 % 22 % 0 %
miR-30abcdef/30abe-5p/384-5p chr12:122701600 7-mer-A1 ncRNA no 67 % 0 % 0 %
miR-30abcdef/30abe-5p/384-5p chr12:122709266 7-mer-A1 CDS,5pUTR no 33 % 0 % 0 %
miR-103a/107/107ab chr12:122711080 7-mer-A1 5pUTR,ncRNA no 78 % 70 % 0 %
miR-124/124ab/506 chr12:122709215 8-mer CDS no 56 % 17 % 0 %
miR-34ac/34bc-5p/449abc/449c-5p chr12:122692909 7-mer-m8 3pUTR no 56 % 4 % 0 %
miR-383 chr12:122692442 7-mer-m8 3pUTR no 78 % 9 % 0 %
miR-451 chr12:122702671 7-mer-m8 ncRNA yes 44 % 0 % 0 %
miR-128/128ab chr12:122709103 7-mer-A1 CDS,5pUTR no 44 % 0 % 0 %
miR-490-3p chr12:122709679 7-mer-m8 5pUTR yes 22 % 0 % 0 %
miR-499-5p chr12:122692566 7-mer-m8 3pUTR no 44 % 0 % 0 %
miR-499-5p chr12:122703107 7-mer-A1 5pUTR no 78 % 17 % 0 %

57 matching sites.
Inquiries can be addressed to erik.larsson@gu.se