DreINT0053128 @ danRer10
Intron Retention
Gene
ENSDARG00000078233 | ctnnd1
Description
catenin (cadherin-associated protein), delta 1 [Source:ZFIN;Acc:ZDB-GENE-110208-9]
Coordinates
chr1:43519064-43521099:+
Coord C1 exon
chr1:43519064-43519259
Coord A exon
chr1:43519260-43520908
Coord C2 exon
chr1:43520909-43521099
Length
1649 bp
Sequences
Splice sites
5' ss Seq
CAGGTGCGA
5' ss Score
7.75
3' ss Seq
CTTTGTGTTTGGTCATTCAGCAA
3' ss Score
6.21
Exon sequences
Seq C1 exon
GGAAGCATGCGGTGCCTAACTTGGTGGCGAATCTGCCAGGCGGAGGTCAGAGTCAACCTGCGCGCGCACTCTCGGAGGAGACGGTGGTGTCTGTTCTCAGCACCATGGCAGAAGTGGTCGGCTCCAGTGTGGATGCTGCCAAAACACTGCGCAGCGCCCAGGGCATCGAGAGGCTGGTGCTTATCAACAAAGACAG
Seq A exon
GTGCGATTTTAGTAACCGTTTCATCACATTTAAAGAGGAAATAAAATGAAAGGAAAGTAAAGACAACTGATTTATTCTAGTTGTATGATCTAATTTATGATACAGTAATTATTTGCAAAGCTGCATTTAGTGCTGAGCGTAAATGGAAAATTTGGAAAATTAAAAATTTTTATCAATTTCTGAGGTAAATATGTGCCTTCCCTTTAAATGGTGGTCTATTGAAGGGAATAGGGTCAATTTTGAGCTGTCAAGGAGTTTCTTTTACATTGTACACTGTTAAGGTTTTAGTGTAATTTTATCTGCGACTGACCTAAACCAACAAAAATGTTCGCACAATAACAAACTTATTCTTTATAGAAATATTGTCTAACTCTTAACCCTCGAAAATAGGCATGTTTTTTTCAATATTGCACACCTCTTAATGGGATGGTCTACCCCCCAAAAATGTAATTTACTCATGTTTCAAACCTTTAAGTTTCTTCTGTTTAACACAAAAGAATATGTTTTGAAGAATGCTAAAAACCTGTGACCATTGACTTCCTTAGAATAAGTTTTTTCTTCTATTGAAGTCAATGGTTACAGGTTTATTTCAATGGTTAATGGTAGGGTTGGGTACCGAAACCTGATGCCATTATAGTACCGTTACCTTTGTAACCGGTATGTGTTGGATCAAATCAGCATATGAATTTCGGTGTCTAATTTCGGTGCCACTGGTGCTGCGACAAGGACGTTAGAAGTATCAAAGGGGTGCATCAAAGGCACACATAGGTACGCGTTGTCACACCATCTCTAAACATTTAATTCTAAACAACTCAGAGGAATACGGACGGCCGATTTTAGGCGCTTCTTGTTGCTTAGAGAACGGACGCAGACAGTACATCGCATTTGGTGAGTGAGAGTGACTCTTCAGATCAACACGCACGATCACGTTCATTAAATTTGCTTAAACTAAGCGTTCTAAAGCGTATTGTACAAGCAAGGATTCTGACACGGCAACATGCGCACTTGCTCTCTCTGTCAGTGACGGTGCTGGAAGATTATTTTGAGTTTAAGTTATTTAATTATCTTGTTTATGAAGACTGCGGAGTGATGCATGAAAAAAAATAACTTCGCAATTGATTAAAGGAAATATATTAATGCTATGCAAATCTATTAAATATGAATTTGTTTACTTTAAACTTTAATTATATTGTTCTATTAAAATAATTTTTTTTAAAGATTGTAAAATGAGAGATTTTTCTAGAGTCATCCACCATAATTTTGTGGCTTAAAAGTATCTGTTTAGGCTCCGTTTTGGCACTTGTACTGTTTTAAAAGTATCGATTTAGCACCAGTCTCGAGATAAATCCAAACAATACCCAACCCCAGGCAATGGTCACACTTGTTGAGTAAATTTCAATTCAATTTCAATGGGGTGAACTATCCCTTTAAGAGACTATGATTATATCATGATCATAGATATGTGATTGTTTTTCAGTGAACTATAATAGTTTTATTTGCTTTTCCTACTATTGAAGTCAATGGTTACAGGTTTAATAGTTTATGAGTTTTAATAAATCAATTTGAGTGAACTATCCCTTTAAGAGACTATTTGAATGTTCTTTAGTGAGAGACGCAATAGTTGTATCACTTTGTGTTTGGTCATTCAG
Seq C2 exon
CAACCGTTCAGATCGTGAGGTGCGTGGTGCAGGCCTGGTGCTGCAGATCGTGTGGGGCTTTAAGGAGCTCCGCCGCACTCTGGAGAAAGACGGCTGGAAGAAAACCGACTTCATGGTGAACCTGAACCCGCCAAACAACACCCGCAGCAACGGGGGCTACGAGGAGAGCACCCTGCCGCTAATAGACAGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000078233:ENSDART00000106048:15
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.182 A=NA C2=0.492
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGGCGGAGGTCAGAGTCAA
R:
CTGTCTATTAGCGGCAGGGTG
Band lengths:
349-1998
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]