GgaINT0102973 @ galGal4
Intron Retention
Gene
ENSGALG00000016111 | CSMD3
Description
CUB and Sushi multiple domains 3 [Source:HGNC Symbol;Acc:HGNC:19291]
Coordinates
chr2:132919820-132920980:-
Coord C1 exon
chr2:132920885-132920980
Coord A exon
chr2:132920024-132920884
Coord C2 exon
chr2:132919820-132920023
Length
861 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGA
5' ss Score
8.68
3' ss Seq
AACTGTCTGTGTGCTTGCAGCTG
3' ss Score
9.86
Exon sequences
Seq C1 exon
GTGAATCCCTTCCGTTGAGCTCAGGTAACCAGATCACAGTTAGATTTACTTCAGTTGGACCAATAACAGCTAAAGGATTTCATTTTGTTTATCAAG
Seq A exon
GTGAGACTGGAAAACGCGTACGTTTATTCATTTTTTTTTTCCCACAAATTGCATATCAAGAGAGAGGAACAGGCAAAAAATCTACAAGGAAGTAATAGCCTTTTAATGATTTAACAAGTTTCTTTATTTCTGATTATTTAAATAATGTTTTAAGACTGTTCTTGTGTCTGTATTTAAAAAATTAAATATTTAAGAAGCATAAGATAGGTTCCAAATTTAAGAAGACAGTTATATGTAGCAGCTGTTTCTATATTTGCTAATCTGACTGACTAATGCTAGATATGTCTGGCTGCTCAAACTAGCTTACCTCTCAATTTAAATATGAATAACAGTAAATGATATTACTTGTGGTTGAATCAGTGATCTTGCTATTTTTAAGCCGTTTCTCTTGGTATGCATTATTTTCCTTTTTATGGGTCAAACACAGAAATTGTAAAACATCAGTACTTGTAATGGCAGTTCATTCTTCCATTATATTTAAACCTTTATTTGACAGGGAGAAATAAGCATTTAAATAAAAATAAAAATAAAAAAGTAAATATCAACCTGACACAGAAATGTTGTTTTGTATTCTCTGAATATTTCACAACAGTATGTCTTTTCAGTGCCATTTTAGGAAGGCTTCTGTCTAGATTCTGTACATTACTTTTAATCTTGGTAAGGATATCAGTGCTATGCTCTTCTAAATAATGGTTCTGTCAAGTAATTAATGTTGTGAAGATCAAGTTGGGGATTAAGAAATATTCTTAAGTTTCAAATAACTGAATGTTGCCTCTAGTCATTCTGAATATTTGTGGTTTGAGTTCTGTATTCCTCCATCAAATCTAGAATTAAAATCCATAACTGTCTGTGTGCTTGCAG
Seq C2 exon
CTGTTCCAAGAACAAGTGCAACACAGTGCAGCTCTGTGCCTGAACCAAGATTTGGAAAAAGAATTGGAAATGAATTTGCAGTTGGATCCTTGGTTCTGTTTGAATGCAATCCAGGATATATCCTCCATGGGTCAACAGGAATTAGATGTGATACAGTACCAAATGCATTGGCACAGTGGAATGATTCACTCCCTACATGTGTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000016111:ENSGALT00000025958:34
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:
PF0043115=CUB=PD(28.3=90.9)
A:
NA
C2:
PF0008415=Sushi=WD(100=85.5)
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:
GTGAATCCCTTCCGTTGAGCT
R:
ACATGTAGGGAGTGAATCATTCCAC
Band lengths:
296-1157
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]