HsaINT0042880 @ hg19
Intron Retention
Gene
ENSG00000198561 | CTNND1
Description
catenin (cadherin-associated protein), delta 1 [Source:HGNC Symbol;Acc:2515]
Coordinates
chr11:57583387-57586652:+
Coord C1 exon
chr11:57583387-57583473
Coord A exon
chr11:57583474-57583768
Coord C2 exon
chr11:57583769-57586652
Length
295 bp
Sequences
Splice sites
5' ss Seq
ATGGTATGT
5' ss Score
8.35
3' ss Seq
TTTCTCTTTTTTCTCCACAGCAG
3' ss Score
11.65
Exon sequences
Seq C1 exon
CAGGACGAGGGGCAGGAATCTCTGGAGGAAGAGTTGGATGTGTTGGTTTTGGATGATGAGGGGGGCCAAGTGTCTTACCCCTCCATG
Seq A exon
GTATGTCCTTCAGTCACCCCCAAGATTGTTCTTGAGGAAGGAGGCTCCTGAGTGCCAGCAACTTGTCAATCACGCTAATCTGATCAGGCCAGAGACTAAGTAGTCTCAGCCACATGGGGCTCGAGGGGTTCTGCTTTTGTGATTATTACCTCTTACGAGTCTGGGACATGCAGCTGGTGATCTGATTCTCCGTTATGTGCTGCTTTCCTTTCTCCAGATTTGCTCAACTTTTTTGGGGGGGGTCTCCTTAATCCCAACCCCATTAACATTCTCTCTTTCTCTTTTTTCTCCACAG
Seq C2 exon
CAGAAGATTTAGCACCACTATCTCCGTTCCATCTGGGCTTATATGTACTTTTATTTTTTGGTGGTGAAATTGACTGATGATTTTCCTTTTTCTTCGCTGGACTATTGTGCCAACTGCCAGGCTGCCTCCTGCCCTTACAGCCCTAAGTGGCTGCCTTCTTTCCATCAACTCCCAACTTCTTCCTGTGAAGTTTAATTGTCTCAACGCCTCCCCCTCCCCCATTCCCTCCATTTTTCTCCCAAGAAACCTGACTCAATTATTTGCATATTTTGAGAAACTGCTGCAGATTAGTTCTTTTTGCCAGTTTTCCCTGGAACTCCTGGCCTTTTGTGGAGGGGAGGGATGGAGAGAATAGGAATCTTCACTAGAAGCCGTGGGAAGAATTGGAAGTTACATGCTGTATATGCAATGTCCAGCAGTCTGATAAACTGACGATTCTTAATCAAGATTTTTTTCCTGATGGGGAAGGGACTTTTATTTTCTTTTAGAGAGGGGAAAGTGTGAGCTCTTCCCTTATTCCTAATGGCTATTTTTGAAGCAAAGAAGGCCAGCAACATTGGCACATGCCACCTGGCAAAGGACCCTTGAGTAAGTGAAGGTCTCCTAAAACTGGGATTAAGAAACCTTGCTCTCCTCATCTCCAAGGCAGGGACCATCAAGAACCTACAGACTCCATCTCTTCTGCAAGCCTCATGCCAACCCTGGGCTATTGCTGCTGCCCCTTAAACACAGGCTGTCCTTAACCCACCTCTCCTGCCCTGTGATATGTCTGCTGAGTTGGCCTGGCCATTTCCAAGAGGCTGTAGAAAGGGGAGAATGTCAAGGAAGACTTTTGGTAGAGAAGGAGCAGAAAGATGTGTTTTTGGGAAGAAGAAGACCTCTAGGAGGAGCTAGTAGGAATGTACATGAAGCAATTAGTCTGAAACTGGCTTCCCCACTCCCCCGTTTCTCCTTTTCCTATCCTTATAGGCCTGTCCCTTGCCTCTGCCCTGGATTGGTTGGCAAACTAAAGGACTTGATGTACATAACTCCTGTCCCTTTTCCCTTACAAGGTGGGGATTGCCCCTGGCTTTGCCTCTTCTTTGTGCCTTTGGCCTGGGGTGCATCTCCTCCCGCCCTTCCATGTGCCTTTCTTTGCCTCTGCAGTCTCATTTCTCATAATTTTGCAAATTATATTTTGTTGCTTTCTTACCTACTATTGGCCCTAAATAGCAGAAAGAAGAGAAGTGACCGAGAGAACCTCAGATTCTTCATTGAGGATTGGTATAGCCATGATTTCAGTCATAGCAAGCTTTTGCTCAACAGCATATGGGTGGGATTTTGCAAAAATCCTATTCTGATGAATCTCAAAGTAAGGCTGGTAAGAGAAGTGAGTGGTGTGACTCTTACTCCTTAGGTGCCCAGAATTTACCATCATCTCTGAAGGAGTTACAGGGAAGTGGTCTCCCCAATTCTCCCCTCCCTCCAGTATTGCCCCCTCTCACTTTAGCATATATTAATTAGCAGGTTGGGCTAGAGAAATCAGCTGCTATGCGGGTTGATTATTATTATTATTTCTAATCCTTTTCCTTATTTGCCTTCTACTCCCCTTAATCTAATCTAAAAGCTCTGTTCCATGCAACTGGAGTTCCTTATCCCTCTCTTCCCCTTCCCTTATATATTGAGGCTATGGGGTAGGAGAAAAGTGCACAACCCACCACCCCCTTTACTCGTGCATTAAAATTTCTTATTTACCCTTTTCCCCCTTCCCATTTCTTCCCACTTTCATCTACCTTTTCTGGCAAAAAGGAGCCTTTTGCTCTCTGTGACCCTAAGAGCACACTGCACAGGGAAAATTGCCCCATCCAGACCTGGCTCCACTCTTGATCTCTCTTGTCCTCTTCTGCTCTTTTCCTGGTGCTCTTTTTTCTCGGTGGGGTGTGGGTAATAGAACAGCCGTGGGCTTTTGGGGACCTTTAACTTTTTTTTCTCTCTTTTGTTTATAAAAAACACTAAACATTCAATTCCAGAGAACCAAAAATCCCACCTTCCCACCGAACACTACTAAGGGGCTTGTGTTCTGCTCCATACCTTTTCTCTTTTCTTTCTGTCTTGTTAATGCTTTTAAAAACAAATGAGTTTTTTATATAAATAAAGTTTTTAAAGTGTGTATGTGGGGGGTCTGTGTCATTTCTTCACTTCAAGCTGTTATTTCTTCCCTGCTTTGCATCTTTGTTACTTCCTTATGTATCAGTGTCCTTTCCAGAGCAACCAGAAGGAGGTTATACCAGGATTTATTTTGAGCTCAGCCCCAACTCTTTATCAAGCAACATTCTTGTTAACTATATGTGAAACATTTTTTCTTCTGAAGATTCTTAAAAATTGAATGTGGCTGAAGTTGAACATGGGAGCTTATTGCTAATTTAGAGATAGGAAACTGAAGCATAAAGAATTAATGACTTACTTTAATTACTGGAATTCTTCTGCAACATTTGACAAAACTAACCTTGAATAAGGCCCACTGTAATACGTAGCTCTCTTAAATATAACACTTAGGACTAGAAGATTAGAAACTACCAATCCCAACTACGTAATAGGAAAATGTAGGATCAAAAGGCCCATGTATATAAGTACTGACCACTGGGCCATAATGTTGCTTCTCAGGCTATATGCAGTCCTTTAGTCAGAAGTCAATAGGCCTATTTATTAATATTTTACAGACCATATTACCTGGATTACCAGGGACTATCTTTGCTGCAGAGATCAAGGGTTAAGATCTATGGGAAGATACTTATTTTTCTGAGGTCCTTATGTCCTGTCATATAATTAAAGACTCAAGAGAATTTATGTGAAATGCTTTCTGTATGCCCAAATCTTTAGATTAAAATTATATAGCTGCTCCTGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000198561-CTNND1:NM_001085459:19
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
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:
GAGGGGCAGGAATCTCTGGAG
R:
GGGGAGGCGTTGAGACAATTA
Band lengths:
294-589
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)