HsaINT0052296 @ hg19
Intron Retention
Gene
ENSG00000134755 | DSC2
Description
desmocollin 2 [Source:HGNC Symbol;Acc:3036]
Coordinates
chr18:28645942-28649117:-
Coord C1 exon
chr18:28648860-28649117
Coord A exon
chr18:28648179-28648859
Coord C2 exon
chr18:28645942-28648178
Length
681 bp
Sequences
Splice sites
5' ss Seq
GAAGTGAGT
5' ss Score
7.97
3' ss Seq
TGTGTTTTTCCCCTTGGCAGAAA
3' ss Score
9.56
Exon sequences
Seq C1 exon
TATTCTGCGAATGGCTTCACAACCCAAACTGTGGGCGCTTCTGCTCAGGGAGTTTGTGGCACCGTGGGATCAGGAATCAAAAACGGAGGTCAGGAGACCATCGAAATGGTGAAAGGAGGACACCAGACCTCGGAATCCTGCCGGGGGGCTGGCCACCATCACACCCTGGACTCCTGCAGGGGAGGACACACGGAGGTGGACAACTGCAGATACACTTACTCGGAGTGGCACAGTTTTACTCAGCCCCGTCTTGGTGAA
Seq A exon
GTGAGTTTTCCTAAGTGGCCTACAAATCTATTTTAATTTTCTTTAAACTTTATAAATAACTAACTGGATTCTGACTATAATTTTCAATTAATTATGAATCTACTAATTCTACTAATTGAAAGCTATTATTTTTCCTCAATTTTAATTTAGTTATGTTCAGATTTAAGTGGTTATTTACTTCCCCTCCTATTTTTTTAATTGAAAGAATTACTAAATAATGTGTGATGAGATTTAAATTACTGTCTCATGGCTTTGTGCTAATATTTCCCATCTGACAACTTGTACCTTAGAAACCAAAAATGTGGTACCAGCAAGACCAGCATGTACTATCACTATGTCTATCTGGGAAGAACTGAGCCCATATCAATTTGTCTTCAGTTTAATGGATGCATGTCACTTTCAGCTAAAATTTTGAAAGGGAAAGTAGTGACTATGTAAAATGAACACCTGTATACTTGCTGCCACATGCGTGACTTTTAGAAACATGCTATACTGAATTTATAGTGTGATGTATGAAACAGACCAATCATGTGCATTTTTTATGTATAGGAATCCATTAGAGGACACACTCTGATTAAAAATTAAACAATGAAAGGTAAATCAAAGCAATTACTTTTATGTTAGTAAATTTTGGTGTTTAAAATAATAATAATAAAAACGTTGTGTTTTTCCCCTTGGCAG
Seq C2 exon
AAAGTGTATCTGTGTAATCAAGATGAAAATCACAAGCATGCCCAAGACTATGTCCTGACATATAACTATGAAGGAAGAGGATCGGTGGCTGGGTCTGTAGGTTGTTGCAGTGAACGACAAGAAGAAGATGGGCTTGAATTTTTGGATAATTTGGAGCCCAAATTTAGGACACTAGCAGAAGCATGCATGAAGAGATGAGTGTGTTCTAATAAGTCTCTGAAAGCCAGTGGCTTTATGACTTTTAAAAAAAATTACAAACCAAGAATTTTTTAAAGCAGAAGATGCTATTTGTGGGGGTTTTTCTCTCATTATTTGGATGGAATCTCTTTGGTCAAATGCACATTTACAGAGAGACACTATAAACAAGTACACAAATTTTTCAATTTTTACATATTTTTAAATTACTTATCTTCTATCCAAGGAGGTCTACAGAGAAATTAAAGTCTGCCTTATTTGTTACATTTGGGTATAATGACAACAGCCAATTTATAGTGCAATAAAATGTAATTAATTCAAGTCCTTATTATAGACTATTTGAAGCACAACCTAATGGAAAATTGTAGAGACCTTGCTTTAACATTATCTCCAGTTAATTAAGTGTTCATGTGGTGCTTGGAAACTGTTGTTTTCCTGAACATCTAAAGTGTGTAGACTGCATTCTTGCTATTATTTTATTCTTGTAATGTGACCTTTTCACTGTGCAAAGGGAGATTTCTAGCCAGGCATTGACTATTACAATTTCATTTTGGTGGAGTTTAGTTTTAGGTTTTATTGTATATAAAATCCTGCACTGAATCTGTGTCTCCTCTGTTACCTACTTTTGCCAGTGAAATTTAAGTTTTAAAATACTTTCAGAATGTATTTTTACTACTGCAAGTTTTTGGTCTTTAAAATGTCAAGTAGCATCTCTCTCTTTCTCTCTGTCTCTTTCTGTTTCTCTCTCCAGTTTTTTTTTTTTTTTTAATTTCCATATGGGCTAAAGAATCCAAATATTTTAAAAATCTGTCTCTCTTTTCTTCTCTCATAAAGTGAATTATTCCTTTTTTTTGTTTTATGTAAGTGTATATATTCTTAGTTTTTCTTGAAATCATTGTAATGTTAACTTTGTTGTTTCAAATATCTTGGTGATTGCTTCATTATCTCTTCAACAAAAAAAACCTTTAATTTTGCCATTGAAACTGTAGAACTATGCCATGCTTTTATTAGAAGCAGTGCTCTGTGTTAACAACAAGAATGGTGTAATTAGAATTGGGATGTGGATATTTACTGTATGACAACACATTTACAGTTCTGTAATGCAAGGATGCAGTTTAAAAATGTGAAGTAGTGATGGTTTTTGAAATAAGCTTTAAAATATAGGGATCTTGAAGGCTCCCTGGGGTAACTATTTTATAACTTAGATAAAATGGCTAGTCATATCTGTGTGTTTGTAAAGTTATTTTTTTAATATTTTAAGATTACAATTTTAACAAATGTAGAAATGAGCCAAACTATTTAAATTTTAAAACAGTAAAACAAAATGAAACTTAATAGCTCACAAAATTCCAGTCCATGTTTCATGACTTATTTTAGTCAATGAATTTTCTATTTATACTAAACATATGGACATTTTAAATGTGTTTCTAATATTTTTGATTATCTATAATGTGCCTGTCTTCAATTCACAAGATTGGGTTATAACAATTATTTGCCAGATTAACACTAGGGAATTATTTGATAACCAGCTTATCTTATCAGTAGTTTTATTGCTGATCAGGCAAAAATAGTTTTCCAAAGTTATTTTTAATAAAGTATATACAAAATTCTTATATATTACTAGTCATGATAAAGTAAATTAAGCAGTTTTTAAAACTTAGTGTGAGTTTGTTCATCACAGGTCTGATATGAGTTTAAGGGATTTCGCACTCCCTGAATCAGAGAAGTAAGACCCCTTCCTTAGATTCCTGTTATACATTTTTTAAAATGTAGAGTTTGTTTTGGAGACATTTTCAGTGCATTGTTATTGCCATATTTATATAATATGACTATTCTAAAGGCTGTGAGGCCATGGGGTATTGGTTAAGTTGCTTGCTTTTGCTTTGTCCATTTTCATCATTTTAAAATGGGGGATAATAACAGAACTTGTTTCCTAGGGCCATTGTAAGTCACTTGAATAAAAAATAGTTTTGAAGCATGAGAGTCATACAGAGCGGTCCACCTAAAAGGCACTCCTGATAATAATAAATGATTTTAAACAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000134755-DSC2:NM_024422:15
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.200 A=NA C2=0.015
Domain overlap (PFAM):
C1:
PF0104912=Cadherin_C=PU(47.2=68.6)
A:
NA
C2:
PF0104912=Cadherin_C=PD(51.2=97.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGCTTCACAACCCAAACTGT
R:
CAACAACCTACAGACCCAGCC
Band lengths:
354-1035
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)