GgaINT0136504 @ galGal4
Intron Retention
Gene
ENSGALG00000002602 | CSMD2
Description
CUB and Sushi multiple domains 2 [Source:HGNC Symbol;Acc:HGNC:19290]
Coordinates
chr23:4711688-4715448:+
Coord C1 exon
chr23:4711688-4711876
Coord A exon
chr23:4711877-4715278
Coord C2 exon
chr23:4715279-4715448
Length
3402 bp
Sequences
Splice sites
5' ss Seq
TTGGTAGGT
5' ss Score
7.03
3' ss Seq
GGTTCTGTGTCTTTCTGTAGCTG
3' ss Score
8.63
Exon sequences
Seq C1 exon
AATACGACCTGGAGCCCTGCGATGAGCCAGAGGTCCCAGCCTACAGCATCAGGAAGGGGCTGCAGTTCGGCGTGGGCGACGTCCTCACCTTCTCCTGCTTCCCCGGGTACCGCCTGGAGGGCACGGCGCGCATCACCTGCCTCGGGGGGAGACGGCGTGTGTGGAGTTCGCCTCTGCCAAGGTGTGTTG
Seq A exon
GTAGGTGGTCATGTGCTTTCATTTTGCTTGGCTGGTTGCAGTGTGCTGGAGCGGTTAGCGGGGCTGGGAGGTGCGTGGTGTTATCCCAGGGGCACCTCCGGGCTGGGCGGTGCGGGGAGGGAGCTGGGATGAGCTTCAGCCCTGTGACTGTACGTGGGGAAGGGGAGGGATGGGCAGAAGGGCTGCAGCCCCCTCTCGGGTTGGGACACACGGTGTGTGGTGGTTTGGGGTCCCGAGAAGCGCCGTGTTGTGGCCCAGTGAGTGAGTCCCAACCTGGGGCAGCTCCAGCAGCCCTTTAGGGACAGGTTGTGTAAAGCAGAGTGGTTTTAGGGCCAGCCTCCCTTTGAATCAGAGTGCTGTAAAACGTAATAGGCTGAAGATGAAGGCTGCTTCGGGGGGAGTGCTCCTAAGGAGCACAGACTGCACCTCAGTGTGGTTGTCTCTTCCACCTTCAATTTCTCCTCCTCCAACCACTGCAAGTTCTTTTTTGCAGTTATTCATACTAATAAATAAACATGGGGGGAGAGGGGAGGAGAGGAGAGGAGGTCACCTGCAGCACCGAGCCAATTGCTGGCTGTCATCCCTAATGCAGAGGGGCTGCGGGTGACCTGGTGAGCTGCTCACAGTGCCCTCTGAGCACAGCAGCACAGGAGCACCCGTGTAACAGCAATAAAGCAAGGAGGGAAGGATTGCCAACGCCTCAGGGCTTTGCAGAAGGAAGGTTTAACATATTTCTGGGTTTGTTGTACAGTGTGGTAAGTAGGAAAATATTCAGTGCTCTGCTGCTGCTGCCTGGGTCACCCAGAGCAGCGTGGGGATGAGACAAACCACATTCATACCTGGTATCACTCCAGCAAAGCCTGCTAGGTGGATGTTCCTCATCTGTGGCCCTTGAGGGATGTTACAAAGAAGGTGTCCCAGCAAGAGCCGGTCTGCTTTCGCAGTCTGTTGAGCTTTGCTGTTGAGCCCTGTCACGCTGAATGCGTTTCCCAGCACTGTTTAATGCCTGGGTCACAGGGCTGCATCATCCTGCTGTGACAAGCAGCCTCTTCAGGGCATGAATAATAATCAGGTTGCAGAGAAAGCTCATCAGGGGAATAGAAATCAAAAAGCATCATAACACGGCTTTAAATGTGGTTTTCAGGCATCCCCAAATGGACACAGGAGTTCGGTGTGCCCAGCTCCCCGCGGTAGCTGGCTCAGAGTCAGCGTGCTGCTTTGTGGTGATGGATCGGGTCGCCTGTCTGGTGATCTGTGCACAGCTCTGGTGGCAGCTTTTTCCAGGCTGTGTGAGGGGACAGCTGCAAACTGGAGCCCTCCTTCCTAAGGCCCACTAAGAGGTCTGTTTTAGCTGGCAGCCCAGGCACATCGTATTCAGTTCCTGTTCGAGGGATGGATCTGGATGAAGACAGGAGCAGCTCATCCCTTCGTCCTGCCCCTCTCTCAGGTGGCCATGCTCCGTGCTGACCCCTGCAGCAGACCAGGTCCTGCACGGCGACATCCCCAGCATCAGCCCCAATATCAGTGCTGCAGGGAACGCTGTCCTCCAGGGAAGAGGGGAGGAGAAAGTCACCTCCCAACCGCTTCCTCTCGCTATGTCTGCTGCTGCTTCCTTACATTACTTTCCTGCTTGACTGGGAGGAGCAGCAGAGGTGGGAGAGGTGATGCACAGAGCTGCACATGCACTGCTGTGGTTTCCTGCAGTCCCAGCAGCGCTGTGTGCTGTGTGAACAGCTGGGCCACCAGAAAGCTGCTCTCAGGGTGGGTTGGAGCACTTCTCCCCAGCTGTGCATGCAGAATGGCCGGGCTCAGAGGAGCAGGGAGAAGTGTGTTACAGCTGAAAATCTATCAGGGTGAATAGGCCGAGAGAATGAAGGCTCGTGGTTTGCTCATGTAGGAGCTCATCAGGGAGTAATGAGAAATCCTAAGCCCGGGGTGGCTGCAAAGCACATTGACACATTTTGAGGGGCTGCATGTAAACAGCGGGTGGGCTGTAGTGCTCTGAGCTGCAGTCAGGAGCATGGGCAGGACTGGGGCTGCTGGCAATGGGTGTCCTTGCAGGGGAGCATCCCTGCCATGCTGCTCTGCAAGCAGCTCCTTGAGCTGTACCATGAGAGCTGTGAACTTTGCCTCCTCCCTCTGCTGCCAGCAGGTAAGAGCAGTTCTCATGTTGCTCCGTGGGCTCTGGGATTGCTCAGTGCTATCACAGTGGTGCTGCTGTCTGTCCTCAGGGGCACTGGGATGTCTGTTGGCTGCATTGTGTGGGGCAGACATGTTCATAGCAGTCCTGTTCTACACACTGTGGCATGTTCATATGGGAGAGAGAGAGAGAGAGCATCCTTAAAAGCCTGCAATTACAATACATAAAGCAGAGAGGTGAATGTTGGTGTGTGGGGTTCCCACATCAGCATCTCCTCGTCTGCCTCCAACCCTTTGTCTTTCAAACAAGAAAGGTCAGTGGTGTCTGTGCTGCAGCCCCTGTGGGGCACAGAGGACACATTGGGAGGAAGCAGATGTATGCAAATCAGAGCCACTTTCTGAGACTGGGGGCCAAAAGGATTTCTGGTTTTCTCTCTTTTTCTAATGGGAGTGGATGTAATTGGCAGCTGCAGAGCTGGGAGGGATGAGAGGTCCTTCAAAATACTGTCAGATGGGGAACTGAAGGGCCGAGGTCAGAATTAACAGCCGATGAGAGAAACATCACTGCTTTCCCTCTTAGGTTTCACGAGGTTATTTTGGGGAAGATTTTCAAGTCCACGTATAGCTTTGTGATGTGTGATGATATCAGAGTGTCACTGAGCACAGCTTTCTGCACAGAGACCTGCATGGAACAGCGTGCCAGCAGCCCACGGTGTGCTACGTTGGCTGTTAATAGAAAGCCATTGCAGTGCTCAATACATTGCAAATATAAGACTCACAGAGATACAGGATGAGCTTTGCCTCAACAACGTGGCAAAAGATGTTAAATATTTCAGTTTAATTATGTATGTTTTTAATCTCCTTCCAGTTCAGAGAGCTGGGAGGGACGTAACCACATGCACTGCTTCGAGCAGGTGGTGATACCCCATGGATTTTGGACTGCCTTTCTAAATTAGGATCCAGGATAGCATTGGAATACACCAGCGTTGTGTGACTCAGGTTCCCTGTCCACGCAGCGAGAGGATATCAACTGCTTCTGTAAAGCACCTGAGGTTTAATGGTGATAGAAGCATTAGTAAGAGCTGGAACTGAGGGGGGGTTGGCTTTGATTAGCAGCACTTGGAAGTAAAGCTCATGGCTGTGGTAGCAGATGGGTGCAGGAAGGAGTGAGCATCTGTGGCCATTGGAAGGAATCACCTGCATGTGCTGTACGGCTCCAATACGCACGTGGGTGTTAAAAGGTGGTTCTGTGTCTTTCTGTAG
Seq C2 exon
CTGAATGTGGTTCGTCTGTAACTGGAACTCAGGGTGTTCTGCTGTCCCCCAACTACCCAATAAACTACAACAACAACCACGAGTGCATCTACTCCATCCAGACACAGCCAGGGAAGGGGATCCAGCTGAAAGCCAGGACTTTTGAACTGGAAGCAGGAGATGTCCTCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002602:ENSGALT00000004092:21
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=87.5)
A:
NA
C2:
PF0043115=CUB=PU(50.9=94.7)
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]