GgaINT0136526 @ galGal3
Intron Retention
Gene
ENSGALG00000002602 | CSMD2
Description
NA
Coordinates
chr23:5127884-5128563:+
Coord C1 exon
chr23:5127884-5128061
Coord A exon
chr23:5128062-5128417
Coord C2 exon
chr23:5128418-5128563
Length
356 bp
Sequences
Splice sites
5' ss Seq
TTGGTGAGT
5' ss Score
9.27
3' ss Seq
ATTCTCACCTACAATTTTAGGGA
3' ss Score
7.94
Exon sequences
Seq C1 exon
TGCCTTGTGGGGGCAATGTCACCACCCAAAATGGGACAGTTTACTCTCCTGGCTTTCCCAACCAGTACCCCAATTCCCAGGACTGCACGTGGCTCCTTACAGTGCCTGTGGGCTACGGGATCCATCTCAACTTCACTTTGCTGCAAACAGAGCCCTACAACGATTTCATCACGATTTG
Seq A exon
GTGAGTACAGCAAAGGTGTGAGGACTGACCAGAGCTGCTGCTTCGGCTCCGTTCCAGCAAAGATGCTCTTGCAAAGACAGAGTGCTCCCATTGCTGCAGTGTGTGGGGAGTGCTGTATTTAAGAGCAGGAGGAAGCATCCTCTGGGGACAGTGGGATTTTGGACAGCTCTTTTAAGACTTTGTAAGTCTTTAATTCCATTAATTTCTGTGATCATCAGCTGTTAAAATGAGGCACATCAGACCTGCATGGTACTGGGGGGAGTTCTGTGTGTGTGTGGTATAGGAGGGGTGGTTGTTGCCTAGGATTAAAGATGTGTAATGGTGCCTTTTTCTTGTATTCTCACCTACAATTTTAG
Seq C2 exon
GGATGGTCCACAACAAACAGCCCCGCAGCTTGGAGTATTCACTGGCAACTCTGCTAAGAAGTCAGCCCAAAGCTCTTCCAATCAGGTCCTGGTGAAATTCCACAGCGATGCTGCAAATGGAGGGATTTTTGCCATTTACTTCTATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002602:ENSGALT00000033174:48
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.050 A=NA C2=0.020
Domain overlap (PFAM):
C1:
PF0043115=CUB=PU(54.3=95.0)
A:
NA
C2:
PF0043115=CUB=PD(44.8=94.0)
Main Inclusion Isoform:
NA

Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTTGTGGGGGCAATGTCAC
R:
GAAGTAAATGGCAAAAATCCCTCCA
Band lengths:
318-674
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]