GgaINT0136552 @ galGal4
Intron Retention
Gene
ENSGALG00000002602 | CSMD2
Description
CUB and Sushi multiple domains 2 [Source:HGNC Symbol;Acc:HGNC:19290]
Coordinates
chr23:4798490-4799372:+
Coord C1 exon
chr23:4798490-4798628
Coord A exon
chr23:4798629-4799195
Coord C2 exon
chr23:4799196-4799372
Length
567 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGT
5' ss Score
8.56
3' ss Seq
TTCTTTCTGGCACCCTGCAGGAG
3' ss Score
8.02
Exon sequences
Seq C1 exon
ACGTCAGCATGATGGAAAACGATCCGGAATCGATCGGACACCATTTTGCATCCAACAGCAGTTCTGTGGCAGCTGCCATTCTTGTGCCTTTCATAGCCCTGATTATTGCAGGGTTTGTGCTTTATCTCTACAAACACAG
Seq A exon
GTGGGTTCCAGGAATGACGCAGTAAGTGAAACAAAATAAGAGGGCTGACAGAAGTATTTGTGAGCTTGTCTTAAAAGCACTCCCTCCAGACCCGGTTTCTCATTTAGTTCAGAAGGTAAAATAAGTAATAGAGCAAAAGTGCACGGAGATGGAGGGGTGTTGGGAGAGCAGAGTGCTGAGGGCTTTTATGGCAATCAGTAAGATTTGTGGCAACGTTAAGGAGGATAAGGCAAAGTAAATTTCATACTTGGGCTTTGCGTGTGTTGTAAATGATTTCTTTCTCCTGATCAGTGCATTGCTGTGGAAATGTTCCTGCACTTCAAAGCATTGTGTGGACTGGATGCTGTGCAGGGGGAGCACGTGTAGGACTATGGCAAAGCCCAGAGAGCTTCCTGCACCACAAATCCCTAATAAGATTTGCTGTAGATCCCTCCTGCCTTTCCCGCAGGTGTTTACCTTCTTCAAAAGCAGCTTTTTTCTTTCCCACTGGCTTGGTCACTGCTGTTCTGTGGGCTGCAGCGGGAGCAGCCCTGACCTCTCTGGGTTTTTCTTTCTGGCACCCTGCAG
Seq C2 exon
GAGAAGACCCAAAGTCCCATTCAATGGCTACGCGGGCCATGAAAACACCAATGTCAGAGCAACGTTTGAAAACCCCATGTATGACCGAAACCTGCAGCCCACGGACATCATGGCCAACGAGACAGAGTTCACAGTCAGCACTGTGTGCACAGCTGTATAGCACTCATCCCCTGCGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002602:ENSGALT00000004092:69
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=0.092
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACGTCAGCATGATGGAAAACGA
R:
ACGCAGGGGATGAGTGCTATA
Band lengths:
315-882
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]