GgaINT0078178 @ galGal3
Intron Retention
Gene
ENSGALG00000016341 | CSMD1
Description
NA
Coordinates
chr3:92992298-92993430:+
Coord C1 exon
chr3:92992298-92992416
Coord A exon
chr3:92992417-92993342
Coord C2 exon
chr3:92993343-92993430
Length
926 bp
Sequences
Splice sites
5' ss Seq
TATGTAAGT
5' ss Score
6.69
3' ss Seq
CCTATTTCTGTGTATTGTAGGTG
3' ss Score
10.34
Exon sequences
Seq C1 exon
TAATAGGTGTTTACAAGAAGGAAGAAGCCCATTTGCTACTGAAAATTTTTCAGATCAAAGGATCTAATGACATTTTCACAAACAAGTTTGAAAATGACAACTGGGCACTAGATGGTTAT
Seq A exon
GTAAGTAACTGGACTGCTATGGATAAACCTTGCTGAGCATAATATTAAGTAATTTGTGATTTTCTATATAACTCTATCTTTTTATATGACAAATATTACATACATCACTCCAGATATCAATGTAGAAATCTCAGTGTTTTTATTTTCTAAACTATGTATATAATCTTCTATCTTCCACACCCCCATTAGAATTTTTATTTCATTAAATTGAGAGTGGAGTGAATCATTACATTTTGCTATGATTTTGCCTTTTTTTTTTTTCATATGAGTGGGAATTTTGCCTGTAGAAAAATTATACTTTCTGAAACGGTTCACTGTCATAAATTTGTAAGATCAAAAGAATTCTCAGTTTAAGAATGGACATGTAACAGAAAATGTTTCACAGAAAACCAGGATGAACCATATTGTATTTGCTATTGCAAGTGTTTACCCATATTGAGATACAGTATAGTTCTGACACACGTTAAATCTCAGGTAAGCTATTTACCCAATACTGTTTCAGTATAGAGGGAAGGGTTGATTCCAAGAGCTGGCATTTATTCTTGAAGAAAATAGTTATTTTCATCTTTGTACTTCTTTGTGTCCTTTGATGCTGTCTATATAAAGTATTTTAAAAATGGACAGAAAATTCAGTGAACTTAACTGTATAATTAATCAATTATATAAATTTAAATTAAAGAATTTTAAAACCCAATATTTACATAAGATATTTTAAAGTCATTCCATGTTTTTTATAAACATTAATAGTGATGCAAACTTCAAATTATAAATGTTCTATAAACAAATTCATTAACATTTTAAGGGGAAAAAAACCATAACAAATCTGTATATCTAAATCAGAAAAAAAAAAAAAAAAAAGTGGATAAATATCCTTATTTCTTTCCAAAATTATTTTGTTTTCTTTTCCCTATTTCTGTGTATTGTAG
Seq C2 exon
GTGTCATCGGGGCTTGAAAGAGGTGTTTTTACTTATCAAGGTGACATACATGGAAAAGACTTTGGAAAATTTATGCTACAAAGACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000016341:ENSGALT00000036950:61
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=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
GGTGTTTACAAGAAGGAAGAAGCC
R:
GCATAAATTTTCCAAAGTCTTTTCCA
Band lengths:
190-1116
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]