HsaINT0131375 @ hg19
Intron Retention
Gene
ENSG00000112238 | PRDM13
Description
PR domain containing 13 [Source:HGNC Symbol;Acc:13998]
Coordinates
chr6:100057063-100063454:+
Coord C1 exon
chr6:100057063-100057183
Coord A exon
chr6:100057184-100060908
Coord C2 exon
chr6:100060909-100063454
Length
3725 bp
Sequences
Splice sites
5' ss Seq
AAGGTACCC
5' ss Score
9.16
3' ss Seq
TTCCATTCTTTCTTGCCCAGGGG
3' ss Score
8.33
Exon sequences
Seq C1 exon
ATCTTCTACCGAGCATTGCGAGACGTCCAGCCAGGGGAGGAGCTGACAGTGTGGTATTCTAACTCCTTGGCTCAGTGGTTCGACATCCCCACCACAGCGACTCCGACTCACGACGAGAAAG
Seq A exon
GTACCCATTCCAAAAGCGTGGATGGGCAAAAGTCCAGCCCTCCTCCTCCTGTCTTGAAGCGAGTCCCTAGACATAGCTCGATCTATGTAAAATGGAATTCACATTCCCTGTATTTCAAGGCAAAGAGGAGAGAGGTCGCCACTACCTCCTTAAAATCAACCATAAACGATAACAGTGATAGTAGCAATCTGGCTCACAATGGCAGGGGAAAAAGTAGGCTCTATGAACTTAATGGGGCCATCCTTTTTCTGTTGCATATTCAAACAGACCATTATTTACTCAATTAAAATAAAAAAAATTAGGCGCGGTAGCTCACACCTGTAATCCCAGCACTTTGGGAGGCCGAGGTAGGAGGATCACTTGAGGCTAGGAGTTCGAGACCAGCCTGGGCAACATAGTGAGACCTCTGTCTCTACAACAAAAAAATAATTAGCCAGGTGCGGCGGTACATGCCTGTAGTCTTAGCTACTCAGGATGCTGAGGCAAGAGGATCACTTGAGCCCAGGAGGTCAAGGTTCCAGTGAGCCGTAATGTTACCACTGCATGCCAGCCTGGGTGACAAGTGAGACCCTGTCTCAAAATAAATAAATAAAAATAAAAAATAAAAAAGGAGCCTTAAGTTGTTGTTACAGTAATTACATCATGAGTTCCACAGAGTATAACTCAAACCTGGAATGCTTTTACAAAGTCCATGGACATTTCTTCTCCACTGGCTTTCCAGGAGAGCAGTGCATTTCTACAGCATTTTAGAAGTATTACGGTACTTACAGCTGGTCAGTTGGCAGGTACTGAGACCCTTCCATTTAAGTGGCATTTATTCATTTCCCCTTGCCTACTTAAGTTGAATCTGGGATGTATCCCAGTTTCTTCTCAGATTTATTTGATCCCTTCAAAGCCAAGAGCGGATTTATGCAAATTAAGGTGCAGTAACTAAACAGAAAAACATTTTTAAACCTACCCTTGAACACTGAAGAACACTTCCTGTGGAAAGAAGTCTAGGAGGTGCTAGAATAGTTGAGGTTTTGGAGACTTCCTTTTCACACACAAAGCTTCCATGGCTTTTTTTCTTTGACAATTGTCTGTAATTTCTCCTAAAGACACATTTAACATCAAAATAATGAATGCTGTGAAATATTCTAACATGCTGTCTTCCTGAATTGCCTGCTCAATCTCATCCCTTTAGAAATAGGTTTAGAGAAATCAATACAAGTATGTGAATTAGGAAACACTTCATGAATAACACAGAATGAAGTTTATTCAAAACAATGAATCACTTTAAAGTATCATCGTCCTCTGTAAGTTAATTCTGTTTATTTTGTAGGTATAGTATTCAAATTATCCTAAAATAGTTTGTTCCTTGCATCACATTATATTACATTCTCTTGTCAACTTCTTCCAGTAAAAAGAGAAGTATAATAAAAGCCACATAGTGGAGAACTCTCAAATCTGCCACTATAGAATTTGGCGGGCCACTAACCTTTAGAAGCCAGCCATTTCTACAGAGAACACCCTTTCTTAGGTAGTCCCAAATAGTACAAAAGCAACTGGAATAGCGGTCCTTGTGTTTTCCTTTCAGCCAATTGAGCTTATAAACATCATATGGTAACAGATGTCAAAATAAACATTTTTTTTTTCTGGAGGTGAGAAGGCATGGGTGATTTTGAACCCTGACTTCCCCAGCTTGGAGAAGTTTGAACTCTTGACCACCTTAGAGTTACATGAAGAGGAGGCAGTCACTTGTTAAATGTATTTGATACTCTTGGCATGATTTGGATCTCAGAGTCTGGAGAATATGTCAGTTAGGATAACTGAAAAAAAGTATATATTAAACGTATGCTGCTTAAAGCTTGGAAAGAGGAAGAAATAAATAGGGATGGCTGCTATCCTCCTAATACTAGCTAACTTCAGTGGGTTTCAATTTCATAGTAAGATGGAGGAAAATACTGCCCCCTCATTTTAAGAAAAAAGCTTATGTGGCTTTGCATTGAGCTGAGTCATTCTGCGGCAGACTCTGAAAACTCCCTCTTTCAAAAGGGGTGATGAGAGAGAGAAAGGCTCTGAAGTTAGAAGGAAGTTATTTAAGACAACATACCCACCAAGAGAACCCAGGAGGTCTATTCTCTCTTTTTTTCACGATTCATTTTACATGAATGTTCAGTACAAGGTAACAGAATATTGAAATGGTTTTATCTAAGACTTCTATAAACGATTAGGGTAGGGTGTCATAGGCAAATACTCTTCTCCCATTTTTCTTTCTGCTCTCCTTGGACTCAGTTGGAATGCAGTGCTTATCACTTGAGTTTTCACAGGTCTTATGGGGTAGGGGTGGGAGCTACTTGTGTTATGCAAACCCAGAAGTTAATATACATAAAGGGAAGAAGATCTGGAATTCTTCCCTATTGTTATTTCTGTAGTAATATTTCAGAAGTTTGAGCTGCTCATATATGCAGAGGGAGAATTTAACTTTCCTGTTAAATTTTATGAGACTGATGTATATTTTGGATATTTCCTTGCGGTTCAACTAACTTCTTTCTCAGACATCTTTCCCTTCAGTATTATCAATCAACCACATTTTAAAAGAAACCCAACTGCAAGATCATTTCTCTCTACAGCAGTAATATGACCCTTTTAAGTGGAAATTAACTTCTAGTATGTGATCAGAATGTCTCATATATGTGTCTCTTGATTGTGTTCACAAACTCGGGCAAAATGAATAAACTAATGCTAATAATACTAAACACATAAAAAGATTTCACACCAAACACGTATATAGTGCCCGGTAGAGAATTCTGCACTTATTAAAAGCTGAGTATCTATATTTATTTATCGATCTATATCATTTATATATATTCATATAATAAAAAACTAATATATTTTCTCCAAAGACTTTACTAAGCTTGGATTTGTGCAGCTATCTAGGAGTTAATTAATTACCAAGTGGCAGACAAGACAAGACAATGCAACATCATCCTTCTTAGATTATCATCACCCTTTTTAGAGTATCAGGGCATAAGAATTTTTTCTTTTCTCCCAGCAAATTAAATGGTGTTAAAGAGGAAATAAAGATACAAATAATTTTGAAGAATGGCAAATCATAGTCCCTATGTGGTCCTTCAGTTGGTCACGCTCCAGGAAAACCTCAGGCAAAGTGTTTAAGGCTGGAAGGGGGTGGAATGGGTGGGTAGGGGACACAAAAGACATTGTCCTGTGAAAAGGAATGATTACATATGGCCTATACATACAGGATATTGTCTCGCCTGGTAATGAGGCGCTCACGACCATTAGATTGGTCTTTGTTCAGCTTATCCAAACTCCTTGACATACGCCACCTATTCTGCAAACGCCAACAGATGGGCCCAGGCACTGCACAGCCTCAACACTTGATTTAAAGCAACAGCTGCTCTTTGCTCTTACACGGCCAGCCTGCCTGAGTGCTGCCCTTCCAACGAAGATTTTGCTCGGATGGCCTGGAGGAAGTCTTCGTTGGAAAGGCCCCGTCACCTTTTTTGGCCTCCGAGTAGTCCCAGAGGATGGAGACACTGATAAGGATTGGCCATTTGGGGCTTTTCGGGGTCCTCGATACAGTAGGGCTACCGAACTTATATTTCACCCTCTCCCCACACCGCTAGTCGAAACTTGGGCTTTGCCTTGGGTGCACTGGCGCTTTCTTTATGTCTCGCTTGTTCGCCTCTCACCGGGTCGCTTTTCCATTCTTTCTTGCCCAG
Seq C2 exon
GGGAGGAGCGCTACATCTGCTGGTACTGCTGGAGGACGTTTAGATACCCCAACAGCCTTAAGGCACACCTGCGTTTCCACTGCGTGTTCAGCGGCGGTGGAGGCGGCGCCTTCCTGCACCACGAACACGCGGCTCGCCAAGGCGCCGTCCCAGCGGCTGATGGCCTCGGTCTCTCCCCAAAACCCCCGGCGCCCGATTTCGCCGCGCCTTCCCAGGCAGGAACTTTGCGACCCCACCCCCTGGGCCCGCCACCAGTTCAGGCCTGCGGTGCGCGGGAGGGCATCAAGCGCGAGGCCTCTTCCGCGCCCTCGGCCACCTCGCCGACCCCAGGCAAGTGGGGGCAGCCCAAGAAGGGCAAGGAGCAGCTGGACCGTGCCCTGGACATGAGCGGAGCCGCCCGAGGACAAGGGCACTTCCTCGGCATCGTGGGCGGCTCCTCGGCGGGGGTCGGCAGCCTGGCTTTCTACCCCGGCGTGCGCTCAGCTTTCAAGCCCGCCGGCCTAGCGAGGGCGGCGGCGGCCGCTCACGGCGACCCCTACCGGGAGGAGAGCAGCAGCAAGCAAGGAGCCGGCCTCGCTTTGGGCAGGCTGCTGGGCGGGGGCCGGGCGTGCGGGCGCCCCGGGAGCGGGGAGAACTCGGCGGCGGGCGGCGCGGGTCACCACCATCACCACCACGCGCACCACCACCACCATCCCAAGTGCCTGCTCGCTGGGGACCCGCCGCCGCCGCCGCCGCCTGGCCTGCCCTGCTCTGGGGCCCTGCGCGGCTTCCCTCTGCTCTCCGTCCCCCCGGAAGAGGCGTCCGCCTTCAAGCACGTGGAGCGCGCCCCGCCCGCAGCCGCCGCGCTGCCAGGAGCGCGTTATGCGCAGCTGCCCCCTGCGCCGGGGTTGCCCCTCGAGCGCTGCGCGCTGCCGCCCCTCGACCCGGGCGGTCTCAAAGCCTATCCGGGTGGTGAGTGCAGCCACCTGCCCGCCGTCATGCCGGCCTTTACAGTCTACAACGGGGAGCTGCTCTACGGCTCACCGGCCACCACCGCTTATTACCCGCTCAAATTGCACTTCGGCGGGCTGCTGAAGTATCCGGAGTCCATCTCCTACTTCAGCGGGCCTGCAGCGGCCGCCCTAAGCCCCGCCGAGCTGGGGTCGCTGGCCAGCATCGACCGAGAGATCGCCATGCACAATCAGCAGCTGTCCGAGATGGCTGCCGGGAAGGGTCGCGGACGCCTGGACTCGGGGACGTTGCCACCGGCCGTCGCGGCGGCGGGAGGCACCGGGGGCGGCGGCAGCGGAGGCAGCGGCGCAGGTAAGCCCAAGACCGGCCACCTGTGCCTCTACTGTGGCAAGCTGTACTCGCGCAAGTATGGGCTCAAGATCCACATGCGGACGCACACGGGCTACAAGCCACTCAAGTGCAAAGTCTGTCTGCGGCCCTTCGGCGACCCCAGCAATCTCAACAAGCACATCCGGCTGCACGCCGAGGGCAATACGCCCTACCGCTGCGAGTTCTGCGGCAAGGTACTTGTGCGCCGCCGGGACCTGGAGCGACATGTCAAGTCCCGCCACCCTGGCCAGAGTCTGCTCGCCAAAGCGGGCGACGGCCCGGGTGCCGAGCCCGGCTATCCCCCGGAGCCTGGGGATCCCAAGAGCGACGACAGTGACGTGGACGTCTGCTTCACAGACGACCAGAGCGACCCCGAGGTTGGGGGCGGCGGGGAGCGCGACTTGTAACGAGTCTTCCCGGGAAGGGGCGGGGTGAGGACAGAGAGGAGTCGAGGGTTTATTCTCGCAGTAGAGGAACTCCTGGTGGTGGGAAGAGGGACCCAATGGACAAAACCGTTTTTGTTTTTGAGAGGGCGCCAGATTTGAAACAGTGAGAGGTCCCACATCTGGTGCTGAAACTCAGAGCAACAGTTCAGAGGTGGCGTAAATCTGGCCACCTGGAGAGCTCGAGTGCCACCAGTACCTCCGCACCCCGGGCCTCTGGACTTCTTGGATGAGCTCACCCTGAACCGCCCAGGCGGTCTGCTCTTGGTGTTCAGAATCACATCAATGCGAACGTCACAGCGCCTTCGAGGGCGCAGATTTTAACTGCCACGTATTTTTAAGTTGTACTTTTCTGTGGAGGAAATTGTGCCTTTTGAAACGACGTTTTGTGTGTGTATTTCACGTTAGCATTTCATTGCATAGGCAAAACACTAGTCACAATTGGGTAGATGTGACATCCATATACTTGTTTACATTTTATCTGTTCTCATGTCAAAGACTACTCCTTGCCCCATTGAATATATAGTGGTAGCAGGTGTACAAATTGGTCAAGTTGCAATTATTTATGAGAAAATAATGATAAATGTAAAATATCTAAAGCATGAATCTAAGAGCACGCAATATATAATTTTAAAGAAAATATTCTATTTGGTAGAATACAAATGTGGTGTGTGTTGTTTTATAATGACTGCTGTACAGTGGGTATAGTATTTTGGTTTTGGTTCCAGATTGTGCAATCTTTAAGAAAAATAAAGATACAAACGAGAGTTTTGTTCACTTAGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000112238-PRDM13:NM_021620:3
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.146 A=NA C2=0.504
Domain overlap (PFAM):
C1:
PF0085623=SET=PD(43.2=46.3)
A:
NA
C2:
PF0009621=zf-C2H2=WD(100=4.2),PF134651=zf-H2C2_2=WD(100=4.3),PF134651=zf-H2C2_2=WD(100=4.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)