DreINT0053126 @ danRer10
Intron Retention
Gene
ENSDARG00000078233 | ctnnd1
Description
catenin (cadherin-associated protein), delta 1 [Source:ZFIN;Acc:ZDB-GENE-110208-9]
Coordinates
chr1:43515365-43516907:+
Coord C1 exon
chr1:43515365-43515492
Coord A exon
chr1:43515493-43516756
Coord C2 exon
chr1:43516757-43516907
Length
1264 bp
Sequences
Splice sites
5' ss Seq
ACTGTGAGT
5' ss Score
7.94
3' ss Seq
CTCGTCCATTTTCTTTTCAGTAT
3' ss Score
9.25
Exon sequences
Seq C1 exon
GATATGAATTGCTGTTCCAGCCAGAGGTAGTGCGTGTGTACACATCTCTGCTGAAAGAGAGTAAGAACCCATCGGTTCTAGAAGCTGCTGCAGGGGCTGTGCAGAATCTGTGTGCAGGCCGCTGGACT
Seq A exon
GTGAGTACATGCTAGCATCTTAGGGGTGTCTGAAAATAGAACTATTGTTATTTAAAGAAGCTTGATTTACTATAAAAAAAAAAATACTGTACCTTTTAGATTACATCAAAATGACACTTTCTTTGTTACTTATTTTGATCTGAAAGTTACTGTATTTTTTAAATTACATTAAACATAACATTAAAACAGCCTTTTTATTTAATGAAGCTTGATTTTTTTTTTTCTTATGAAAAATACTGTAGCTTTTAGATTACATTAAAATGACACTTTCTTTCAATAAAGCTTGAGTTACTATGCTCTAAAATTTACAGTATTGTTCATCTTAAATCAAGCTTTTTTGAACAACAAAACCATTTTAATGTAATTGATCTGAAAGTTACAGTATTTTTTAGTTGCATTAAATAGCACTCTTGTTATTTAAAGTAGCTTGATTTACTGTGAAAATACTATAACTTTCAGATCCTTTACACTAAAATGGTGTTTGTTGTTTAAATAAGTTTGATCCAATATGATAAATACTGTAACTTTCAGATTAGTTACATTTTGACAATGCAAATGTAAAAACAACTATATGCTATAAATATGCTTGTAGGTGTGTTTTTGATTTAAGCAGACTGTACAGTTTCAAGAATAAAAGCAAAAACAAAATTCTGACATTAGCTGTGTGAAACTATTTTGCTTAAAAGCAATCTAGGTGTCTAGAACAGAGTTCAGTTGGTTTTAAATCTGTAATTTTCCCTTTTGTCACCATTTACAGTTGAAGTCAAAATTATTAGTGTCTAAAATTAATTGTTTAACAGAGCAAGGATTTTTCACAGCATTTCCTATAACATTTTTTCTTCTGATGAAAGTCTTATTTGTTTTATTTCGGCTAGAATAAAATCAGTTTTAAATTTGAAGTAGTTTTATAGTAAATCACAGTATTATTATCCCACTTAAGCGATATTTTTTGTTTTCAATTGTGTACAGAACAAACCATCGTTATTTAATGATTTGCCCAATTACTCAAACTATGCTAATTAACCTATTTAAGCCTTTAAATGTCACTTTGAATACTAATATCTTGAAAAATATCTAGTCAAATATTATGTGCTGTCATTGTATTTTTAAAAATCCCTTATTAGAAATAAGTTATTAAAACTGTTTAGAAATGTTTAAAACTTTGTTAAACAGAAATTGGGGAAAATAATATACAGGGAGGCTAATAACTCTGACTGCAACTGTATGACTTTTCCTTCATGCACCTCGTCCATTTTCTTTTCAG
Seq C2 exon
TATGGGCGCTACATCAGAGCAACGATGAGACAGGAGCATGGCCTGCCAATGATGACGGAGCTGCTGTCTCATGGGAATGACCGCGTGGTCCGAGCCATGTCTGGAGCGCTGAGGAACCTGGCCATTGATGCTCGCAACCGTGAGCTGCTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000078233:ENSDART00000106048:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.144
Domain overlap (PFAM):
C1:
PF0051418=Arm=PD(95.0=88.4)
A:
NA
C2:
PF0051418=Arm=WD(100=76.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGTTCCAGCCAGAGGTAGTG
R:
GCAGCTCACGGTTGCGAG
Band lengths:
265-1529
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]