GgaINT0136540 @ galGal4
Intron Retention
Gene
ENSGALG00000002602 | CSMD2
Description
CUB and Sushi multiple domains 2 [Source:HGNC Symbol;Acc:HGNC:19290]
Coordinates
chr23:4782302-4786847:+
Coord C1 exon
chr23:4782302-4782484
Coord A exon
chr23:4782485-4786670
Coord C2 exon
chr23:4786671-4786847
Length
4186 bp
Sequences
Splice sites
5' ss Seq
AAGGTACTG
5' ss Score
8.56
3' ss Seq
TCTGCTGTTTTGCTTTCCAGTTA
3' ss Score
9.76
Exon sequences
Seq C1 exon
GAGGCAGCCAGGGTGTGTGTGGCGACCCAGGGATCCCATCGCACGGCATCGGGCTGGGAGATGAGTTTGGTGTGGACAGCGTGGTGAGGTTCAGCTGTGAGCCCGGCTACACACTGCGGGGCTCATCCGAGAGGACGTGCCAGGCCAACGGCTCCTGGAGCGGCGTGCAGCCCGAGTGTGAAG
Seq A exon
GTACTGCTCCAGCACTGATCCGAGCCAGGCTGCTCGCCATGAAACGCATCAAGGCCGGGCTGGATGTGGCTCTGGGCAGCCTGGTCTGGTGGTTGGTGACCCTGCACGTAGCAGGAGGGTTGAAACTCAGTGATCATTGTGGTCCTTTTCAACCCAGGCCATTCTATGACTCTGTGTCTGTCCATGTCGTGAGGCAGCCTCAACTCTCCACCTCCCAGACATCCGTAGGGCACACTGGATTTAGCACCACTAAGTAGTTCACTGATGCTTTATCAAAGAAATGCATCAGAGTGAGTGATGTGAATAGCCTCAAGCCTGTGTTAAAGCTGGGACTGGCACGTGCAAGAGTCATTTGCATTGAGCAGAAATGCAAAGTGCAAATTATAAACCGGTAAGCAGATTTTTTGTATCAAAAAAACCCAAACCCCTTATTTTTCTATTTGAAGGAATCAAGTAAGGCCCCATCATCCAATGTGATAAACCCCCAGCCAGGTTCTCTGAGCCGTGCTGCTTACTGCTGCTGTTTTATGAAAGTGCTTAAAAATCAAATGGGGAAAGAACAAAAGCCAAAAGGAAGCAGGATACCAAATGCAAGGAGACCTGGGCAAGTGCTTCTCTCCTGCTGATCTGAAAGCCGAAAGCTCAGAGAGAGCTTGTAAATGAATTGGAAATTTATTCCAAATTGATGGAGCTCTTGATTGAAAAGACACCGAATCACGTTATTAATACGCTCAGGTCTTGGTGGTTGGGGTTTTTTTTGCATTCTGTTTTTTTTTCTTTCAGTAGAAAGGTTCTTTTCATTAATCTCAGCATAAATAACCCATCGTGTTCCGGAGGCACCAAAACACTGATCCCCGGTGGATTCTTTTTTCATACTTTATGAATAATAATAACATTATGCCCATAATGTAGTCATTTAATGTTAAGTGCTGACTGGCCAATATAGGAAAGCAATTTGCAGCGATGAGCAGCGAGCTGTGTCTGTCATTTGCATTCACAGCAAGCTGCAGGCGCTGCGAGGTGTTCTGGCTGCACTTTCGAGTGTTGCATTCAACTTTGTGGAACAGGTATTGATAGGAGAGGGAGGGGAGGGATTAATTCGGGGATTGAATTCAGGGCAAAGGAGAGTGAGTGCTGAGAGCACAGCACTGCTTGGGGGGAGTGGAGGAGCCCCAGCTCAGCACCCAGCGCCTCCGTGGGGCATCGGTTGTCTGACTCAGACACTGATGTGCAGCTCTCAGCCGTTGCAGTTGAGCAGAGCTGGAGCTGATGGGGCTCTGCAGGCCATTGGCACACACCTGCCTGGGGTTCAGTGCAAACTGCTCTCCAGATCAGCTGCTAAGTGAGCATGGGGGCTCGGTCTGCTCCGCTGTGGATGGACGTGTAAGTGCAGAGAGTTGCAAAGGACACCGTGCAAATCCTGCAGTGTGGATGGAAGGGGAGAGGAGCTCCAGGCTGAGTGGAGGCCCAGCAGCCATGGGTGCCTTTCAGCTGCTGGAATATTTCTGTGATAACCAAAGGAGTGTGGAAACAGGAGGGAACCACAGCTGGTCCCTCCAAAATGTACAAATAGTCTCCAATTAAATTAATTGGAGGAACACATCGTGGGACTCTGCTTCAGTCAGTTGTACACAGCTCTGGTTTTGTTGTGCCCACTCAGAGCAGCTCCCTTTGCTTCCTAAAAATCACAGATTTCAGGCCTCATTTACCATTGATTTCCAGCACGTTCTGAAGACAGAAATTGCATTGTAGAGTTTTTCCTTCTGTCTCCTCCTTCCTGCTGCCCAATTGGTGCTCCCAGGGGCAGTGCAGGAGGGGCCCATTGCTTGTGCTCTCCTGTACGCTCCCTCCTCCTCTCAGCTGAGCAGACTATTTGTGTTTGTAATGTTTATTGTTTCACCAGATGAATTAAAGCTGCTTCCAAAACGAGACGCAGCCCTGGCTGCTCTTCCTCAATTTCACAAGACAGAAATGTGTTCATTTGAAGCGATGATGCAGGGAAGGAGCCGAGTTTTGTCTCATCCCAATCTGACTGCTGAGGACATGGGAGGTGGCAGGGCTGGGATTTGGGCTCAGGCTGCTCTTTTCTTTCTGCGTAGTTAGGTGGAATGTGGGTTACGGGTTAAATTAAACAGCATGGAAATTACCAGCCCTGGAGCAAAGGCTGTGAGGCCCCGCAGGCTGTGCCTGATGTGTCAGACATCATTAGCAGAGCGTCTCAGCCGGGCGCTCCGGTGGCAGCAAAGCCCACAAGAAGGATGGATGTGATGAAGATGAGGTCAGTGAGGGACGCACAGAGGACACAGTATTCACATGCCACCTCGAGCAGTCAGATGTGCACTGTGCTCTGTGATAGCAGCTCCCAGCCCGCAGCCTTTCCTCCTGCATGATCCGAGGAGCAGGGCGCTGCTCCTTGCAGGTGCCCTCCTCCTTGGCATCAGAACTGTCAGTGCTGCGTGGGGCTGGGAGTGTTCAGCTCCATAACAGGTAACAGCACTTCCCCTCACCCTCCGTGCATGCTGCTTTGGTTAAAGGATAGAGCACAGCCCTGCCAAAAGGTGTGTGGATGGGAATCGCGTTAATTGCTGCAGATCTCTGGGGCATCCCTGAGCTTTGCAGTGGTCCATTGCAGAGGTCACTTTGCAGTGCAGGAGAAGGTTTGTGGGAGCAGCTCTGGCTGTAAGCAGAGCACCAAAGTCCCACTGCTCCAGCACAGTGCTCCCAGATCTGGGCAAGCTGCTGGGTTCTCAGGAGGGCTGAGGAACACTTCAGGTGTTTGGTTCCCTCTGTGCCACCTCCTGTTAGAGATGTTCAGAACCCGAGTTCTCATCCCTCTGCTTGACCTGAAGCGAAAATCCAATTCTCTGGGCAGGCATTGGAGGCGTGCATGTGCTGGTGGGGATGGAGCCCTCCTGGAATGCAGCCCACCCTTCCCCTGCAGCAGAATGGCCTTTGGGTCATGGTCACATCTCTGTCTGCGGGCACACATCTCCCCAGCAGCTCCAAGCACTCCTTGGTCAACAGGCAGCAGTTGCTTTGCTGCTGGTGGTGCTCTCTCTGGTGTTCCTCACGGCACAGGGTGCTCTGTGCCTCCAGCAGAAATACCCACTGCGTTCAGCAAGCTGCCTAAGGGGTTTGCACAGAAAGGACATCCTAAAAACGACTGCAGGAACCTGATTTATTTTTGATAAAGGAGCAAACTGAGAACCCTCACTGTGGGGAGTTCTGCAATAGTCATTTGCTGAAATATTTCACTTGTTAAGAAGCAGCAACTCCAAGAAATCCCCATTTGATGCAGCTGATTTTCAGGTTATTTTCTTGAAGTTTGGCTTAGTTTAAAGATGATTGGGTTTGAAATGCTTCAGGAGATGTGAGTGGATGTGACCGTGGGACTTCCAGGGTCTTTAGGATTTATACTCAGTTAGAAAACAGTACCAAAACCAGTTTCTTTTTGGGGTCTCATTCATTTTTCATCTCCCACTGAAGCCAAAGGGAATTATTTACCCACTTTCTGCTCACTTGAGTGATTCGATCCTATATATATTTAATCTGTGATTTTAAAAGTTTAAGCCTCTTCATCCTTACGCTTACAGCTTCTTTTACATCTGGACCACAGGCAGAGGGAGGGAGCAAGGAGTTCCCTTCAGAGGTCTGGGAGCCCATGGCCTGAGCCTTCCCTCAGTTCCTGCGATTTCCTTTTATGTCCTGCAATTTCAGTGTAAATGAGGGCTGATACAATTCTTCCAGGCACTCATTTTGTCACCACAGTGCTTTGTGCACCACCATCCACTCTGAAGCCCTTTTATTGCTGTGGTGGCTCGGACCTAAAACTTGGGTGCTGGCAGACCTCTAATTGCATCCCACAGCCTTCTCTCTCCCTGGAGAGCACAGTGGGAGGGCAGTGCAGCAGCAGTGCTCAGCGCAGGGCAGCAGCTCCTGGCTGTCACTCCTTCGAGGTCTGCAAAGCCATGGGCTCCCAAGGGGCACCCACCCCCCCAGGCTGTGCTGTGGGGCAGAGCTGTGGGACTGGCTGGGAACGGAGTCAGCTCTGCGTGGTCTGGTCCAGTGGCTTTGCAGCTAATCTCATTTCTATGGCAAACAGTCGATTCATTGCAGGATGGAAGCCCTGTTGAATTGGTTTTTCGTTCATTCAGTCTTGTAGTAACTCTGCTGTTTTGCTTTCCAG
Seq C2 exon
TTATCTCCTGTGGGAACCCAGGCACCCCCAGCAACGCCAGGGTTCTGTTTAATGACGGCTTGGTTTTCTCCAGCTCCATCATATACCAGTGCCGAGAGGGCTATTACTCCACTGGTGTGCTGAGCAGGCACTGCACGGTGAATGGGACGTGGACCGGCAGCAGCCCAGAGTGCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002602:ENSGALT00000004092:57
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:
PF0008415=Sushi=WD(100=87.1)
A:
NA
C2:
PF0008415=Sushi=WD(100=91.7)
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]