DreINT0053124 @ danRer10
Intron Retention
Gene
ENSDARG00000078233 | ctnnd1
Description
catenin (cadherin-associated protein), delta 1 [Source:ZFIN;Acc:ZDB-GENE-110208-9]
Coordinates
chr1:43513704-43515260:+
Coord C1 exon
chr1:43513704-43513857
Coord A exon
chr1:43513858-43515194
Coord C2 exon
chr1:43515195-43515260
Length
1337 bp
Sequences
Splice sites
5' ss Seq
AAGGTGCGC
5' ss Score
9.05
3' ss Seq
ATGCCGTCTGCTTTGTTCAGGAA
3' ss Score
7.64
Exon sequences
Seq C1 exon
CTGATCGAGAACAGCGTGTGTCTGCTGAGGAATCTGTCCTATCAGGTGCATCGGGAGATCCCTGGCTGCGAGCGCTATCTGGAGTCCATTCCTGTCAATCAAGGCCCCCTCCCGTCCCAAAAGGGCGGCTGCTTCAGCTCCCGAAAGGGCAAAG
Seq A exon
GTGCGCTTCTGATTCATTTTAAAGCAGAACACGGACACCGGCTGTGCCAATTAGAAGTTAACTTGCTATCTTTGCATTCCAGTGCACAATCTCTGTGTTGTGTAAACAATGCTAATAGAGATTGTGTGTATTGCTTGTCTTTAAACCACACTATACACTTTAAAGTCTTTTTTTAAGCTTCCGAGCTTGAAATGTGCCAAATTATGTTTGTTTACACAAGACTTGGAGGAAGCATGCATGATTTTCGCACAAGTGTGTGTGTGTGTGTGTGTGCTCTGTTTGTGGGTTTGTTGCTGAATAATTGTAGGGTGGCTGGGGCACTATTGCAGTAAAAAAACATTGCTTTCCTCTCATTTTCTTCTGTATCTGTCTCCTCTGCTTCATCTCATTCCATACATCTTTTTATCCTGTAACAGACGAGTGGTTTTCCAAAGGTAAGCTTTTCTTTCCCTTTATTTCTTACCTTTTTATATATATTAAAGTGAATGCTTTGCTTTTTGCTTTCATAAAAATTATTTACATTTCACCTCACTGTAACCCATTATTAACCTTATCAAAGCTCAGAAAATGGATCTGAAATGGCTGAAACTCCAGTGTTTTAGTAGGAAAGAGATGCATTTCTCATCCCATTTCACGTCTGTTTTATGAGCTGCACTACTTCGGTCAAGTTAGAAGGCCTATTAAGGGAACCAGTCACACAAACAAGGTTTTTATTGATCGCAAGGAAGTAGACATGAAATCATTAACAGGCATCACATTATGCCACTAAACTCATTTGCTGCATTTTAAAACCTGGTGCCTTCATAAGCAACACAAAAACTCTCCAAAATATATGTTTGTTCTTATGAAAATTAGGAAATGAGTGTCAAGATTAAACATTCAGTATAAAATGATTCATTGCTATGTATTTTTTATTGTGTGACTGGTCCTTTAAATATGCTTTCGTCATATAAAACATGTCACTAGTAACCACCAGAGGGTGCAGGAACACAGCATTTCTGACCAATCCATTTCTCTTTTTTACTCTTTCACTTTTAATATTAACATATACAGATATTTAAACTGATTGTTAGATTCTTTTAAATGTGCACTTTCTCATCACTTTATAATGTCACATGCTCCTTTGAATCAGTCCACATCATTAAGTCGTCAGTCATTAAGTCATCACAGCACATGGGGTTTTCCTCAGAGAATAAATGTAGCTTCTGTCTGAAGAAAACTCTCTTTGTCTTAACAAAAAAAAATCCCCTTTTAATCTTCAAAGAGGTTTTCTTCAGATTTGTTGCATCACTATCATTTCATCTTCACTTGTTGCTCATGCCGTCTGCTTTGTTCAG
Seq C2 exon
GAAAACGAGAGGATGATGGGACTTCAGACACGATTGACATTCCAAAGAGAACCACACCAGCCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000078233:ENSDART00000106048:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.173 A=NA C2=0.652
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0051418=Arm=PU(2.5=4.3)
Main Inclusion Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATCGAGAACAGCGTGTGTCTG
R:
TGGCTGGTGTGGTTCTCTTTG
Band lengths:
214-1551
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]