GgaINT0136548 @ galGal3
Intron Retention
Gene
ENSGALG00000002602 | CSMD2
Description
NA
Coordinates
chr23:5166936-5168098:+
Coord C1 exon
chr23:5166936-5167001
Coord A exon
chr23:5167002-5167936
Coord C2 exon
chr23:5167937-5168098
Length
935 bp
Sequences
Splice sites
5' ss Seq
CAGGTACGT
5' ss Score
10.65
3' ss Seq
CCAATTGCTGTGCTTTGTAGTGC
3' ss Score
5.48
Exon sequences
Seq C1 exon
CTGACATCCGCCCCAGCGGCCGGCCGGTGGGCACTGCGCGGGACCCTCCGCTCTCCAAGCTGTCAG
Seq A exon
GTACGTGGCAGGGCTGGCTCCATGGCAAAGGAGCAGCCAGAAAAGCAACTGGTCCTGCACATCTCACACTGCTGGGCTGGTGGGAGCAGCCCGCGTGCCCCATCCCNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNACTGCTGGGCTGGTGGGAGCAGCCCGCGTGCCCATCCCATTCCTTCATGCTTCACAGCAGAGCAGACGGGTGCCTTCAGCAGTGGAGCGCCAGCACTGCTGCTCTCCCCGGGCTGTGGAGCCCTGTGGGATGTTCTACATTAGAGCTTTTTTCAAGCTTTCGTTTTGGTTTTGTGTTTGGTTTTGGTTTGTTGGTGGTCTGTGCTTTTCCTAGGAACCTATTCTGGGGTTTTGTTTGTTTTTAAAACTTTTCTGGATTTTTTTTTTTTCTTGTCAAAACACCAAAATGAAAGTCATCAGCACGTTTGTTCTCCTCTCTTTGGCTTTGCACTCAGTGATGATAGCACAGAGAGTGGGTGGGATTTGAGAGATTTACATACGTATTTTTGAATTCAAGGAAAGAAAGGAATCCGCTCTGCTTTGATTTCTGAGAAATGGAAACAAGTGGAGGTGATCATAGGATCATATGATGATCATACCTTGTGTTTCTGTCCCCAATTGCTGTGCTTTGTAG
Seq C2 exon
TGCCTGCTGATGTGTTTGCTAGAAATTCCCTTTGGAAAGGCTCCTACGAATACATGGGAAAAAAGCAGCCTGCAATGCTGTCTGTCACCAGCTTCGACCCCGTCACCAGTAAAGTCAATGCCACTTTGATAGACCACAGCGGCGTGGAGCTCCAGGTTTCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002602:ENSGALT00000033174:70
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.348 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Cow
(bosTau6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGACCCTCCGCTCTCCAAG
R:
CAGAAACCTGGAGCTCCACG
Band lengths:
188-1123
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]