HsaINT0052287 @ hg19
Intron Retention
Gene
ENSG00000134755 | DSC2
Description
desmocollin 2 [Source:HGNC Symbol;Acc:3036]
Coordinates
chr18:28645942-28648310:-
Coord C1 exon
chr18:28648265-28648310
Coord A exon
chr18:28648179-28648264
Coord C2 exon
chr18:28645942-28648178
Length
86 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAT
5' ss Score
8.88
3' ss Seq
TGTGTTTTTCCCCTTGGCAGAAA
3' ss Score
9.56
Exon sequences
Seq C1 exon
GAATCCATTAGAGGACACACTCTGATTAAAAATTAAACAATGAAAG
Seq A exon
GTAAATCAAAGCAATTACTTTTATGTTAGTAAATTTTGGTGTTTAAAATAATAATAATAAAAACGTTGTGTTTTTCCCCTTGGCAG
Seq C2 exon
AAAGTGTATCTGTGTAATCAAGATGAAAATCACAAGCATGCCCAAGACTATGTCCTGACATATAACTATGAAGGAAGAGGATCGGTGGCTGGGTCTGTAGGTTGTTGCAGTGAACGACAAGAAGAAGATGGGCTTGAATTTTTGGATAATTTGGAGCCCAAATTTAGGACACTAGCAGAAGCATGCATGAAGAGATGAGTGTGTTCTAATAAGTCTCTGAAAGCCAGTGGCTTTATGACTTTTAAAAAAAATTACAAACCAAGAATTTTTTAAAGCAGAAGATGCTATTTGTGGGGGTTTTTCTCTCATTATTTGGATGGAATCTCTTTGGTCAAATGCACATTTACAGAGAGACACTATAAACAAGTACACAAATTTTTCAATTTTTACATATTTTTAAATTACTTATCTTCTATCCAAGGAGGTCTACAGAGAAATTAAAGTCTGCCTTATTTGTTACATTTGGGTATAATGACAACAGCCAATTTATAGTGCAATAAAATGTAATTAATTCAAGTCCTTATTATAGACTATTTGAAGCACAACCTAATGGAAAATTGTAGAGACCTTGCTTTAACATTATCTCCAGTTAATTAAGTGTTCATGTGGTGCTTGGAAACTGTTGTTTTCCTGAACATCTAAAGTGTGTAGACTGCATTCTTGCTATTATTTTATTCTTGTAATGTGACCTTTTCACTGTGCAAAGGGAGATTTCTAGCCAGGCATTGACTATTACAATTTCATTTTGGTGGAGTTTAGTTTTAGGTTTTATTGTATATAAAATCCTGCACTGAATCTGTGTCTCCTCTGTTACCTACTTTTGCCAGTGAAATTTAAGTTTTAAAATACTTTCAGAATGTATTTTTACTACTGCAAGTTTTTGGTCTTTAAAATGTCAAGTAGCATCTCTCTCTTTCTCTCTGTCTCTTTCTGTTTCTCTCTCCAGTTTTTTTTTTTTTTTTAATTTCCATATGGGCTAAAGAATCCAAATATTTTAAAAATCTGTCTCTCTTTTCTTCTCTCATAAAGTGAATTATTCCTTTTTTTTGTTTTATGTAAGTGTATATATTCTTAGTTTTTCTTGAAATCATTGTAATGTTAACTTTGTTGTTTCAAATATCTTGGTGATTGCTTCATTATCTCTTCAACAAAAAAAACCTTTAATTTTGCCATTGAAACTGTAGAACTATGCCATGCTTTTATTAGAAGCAGTGCTCTGTGTTAACAACAAGAATGGTGTAATTAGAATTGGGATGTGGATATTTACTGTATGACAACACATTTACAGTTCTGTAATGCAAGGATGCAGTTTAAAAATGTGAAGTAGTGATGGTTTTTGAAATAAGCTTTAAAATATAGGGATCTTGAAGGCTCCCTGGGGTAACTATTTTATAACTTAGATAAAATGGCTAGTCATATCTGTGTGTTTGTAAAGTTATTTTTTTAATATTTTAAGATTACAATTTTAACAAATGTAGAAATGAGCCAAACTATTTAAATTTTAAAACAGTAAAACAAAATGAAACTTAATAGCTCACAAAATTCCAGTCCATGTTTCATGACTTATTTTAGTCAATGAATTTTCTATTTATACTAAACATATGGACATTTTAAATGTGTTTCTAATATTTTTGATTATCTATAATGTGCCTGTCTTCAATTCACAAGATTGGGTTATAACAATTATTTGCCAGATTAACACTAGGGAATTATTTGATAACCAGCTTATCTTATCAGTAGTTTTATTGCTGATCAGGCAAAAATAGTTTTCCAAAGTTATTTTTAATAAAGTATATACAAAATTCTTATATATTACTAGTCATGATAAAGTAAATTAAGCAGTTTTTAAAACTTAGTGTGAGTTTGTTCATCACAGGTCTGATATGAGTTTAAGGGATTTCGCACTCCCTGAATCAGAGAAGTAAGACCCCTTCCTTAGATTCCTGTTATACATTTTTTAAAATGTAGAGTTTGTTTTGGAGACATTTTCAGTGCATTGTTATTGCCATATTTATATAATATGACTATTCTAAAGGCTGTGAGGCCATGGGGTATTGGTTAAGTTGCTTGCTTTTGCTTTGTCCATTTTCATCATTTTAAAATGGGGGATAATAACAGAACTTGTTTCCTAGGGCCATTGTAAGTCACTTGAATAAAAAATAGTTTTGAAGCATGAGAGTCATACAGAGCGGTCCACCTAAAAGGCACTCCTGATAATAATAAATGATTTTAAACAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000134755-DSC2:NM_004949:16
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
3' UTR
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.015
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0104912=Cadherin_C=PD(51.2=97.0)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCATTAGAGGACACACTCTGA
R:
AGCCCATCTTCTTCTTGTCGT
Band lengths:
177-263
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development
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)