GgaINT1010604 @ galGal4
Intron Retention
Gene
ENSGALG00000016111 | CSMD3
Description
CUB and Sushi multiple domains 3 [Source:HGNC Symbol;Acc:HGNC:19291]
Coordinates
chr2:132821822-132823660:-
Coord C1 exon
chr2:132823595-132823660
Coord A exon
chr2:132821981-132823594
Coord C2 exon
chr2:132821822-132821980
Length
1614 bp
Sequences
Splice sites
5' ss Seq
GTGGTAAAT
5' ss Score
5.18
3' ss Seq
CATTTTTGATGTCTGTATAGTTC
3' ss Score
5.17
Exon sequences
Seq C1 exon
CTGGTTCCAAAATATTGGTGAAGGATCCCAGACCAGCTTTGGGGACGCCAAGTCCCAAACTAAGTG
Seq A exon
GTAAATATTTGTATCCTTGTATGCTTATAAGACACAAGATGCTAATGCACACACAAACACAAAGCTTTAAATTCAGTATGAGTGTCTTCAAATAATGAAAGTGCTAGTTTTAAATATTGATGATTTGTTATAGGGCTAAATTTTATGTACTGCCTTTAGAAGTTGTAGTAAAGTCATCCCAAGGAACCTTCAATTTCATTGTTTAAATGGTATCTCATGTTAAGACTTTAAAGATTTGCATATATCTGTTATACTACATAGGCAACATACTTCTTTTGAACAATACTCTTGCGTTACCTAAATTACTCATTAACCTACTGGATAATGACAAAATTTAAATCTATAAATCTAATGCATTTATTCTGCCTGTGGTCTATGATATTTTTTTTTCCTTTTTTTTTTTTTAAGCATTTGAAGACAAGACAAAACTTCTTCTATTTTTTTTTTATTAAATACAATATGACTATATAATAAAGAAGTTGTTTATAATGTTGTAGTGTTATTTAAATATGTTTACAAGGATTTTAATACTTAAATAGAAGTCCATTTCTGCAAAATTTAATTGTGACTGTAAGTTCCTGCCTGTCTGTGCTGGCATATAAGATTCTGCAGTGAGGGGAATCTGATCTTTTGATTACAGACACTATATTAGATTTTTGTGGAGTTGGTTTCATTTTCATATTTGACATGTTCATGTTTGAGGAAAGAAGCAGATGAAAGTATAGCTGTGTATTTTGTTGTTGTTCTTTGTTTATTTTTTGGTGCAAATGTATTATTTTCATAAATGTTTATACTGGACTTTTATGCTTTAGATATAAAGATTATGCTTAACAGACTTGAGGATACTAGTGGATAAACAACTCAACACGGGTTGGCAATGCACACTTGCAGCCCAAAAAGCCAACCGTATTCTGAACTGCATCAAAAGAACTGTAGCTAGCATGTTGACGGAAGTGATTCTCTACTCTGCTTTAATGAGATTCCCCCTAGAGCACTGTGGTCAGCTTTGGGACAACCAGCATGAGAAAGACACGAACCTGTTAGATATAGAAGGTCCAGAGGAGGACCATGAAAATGGTCAGAGTGTTGGAGCATCTCTCCTATGAAGATAAACTGATAAAATTGAGATTATTTAGCCTAAAGAAGAGAAGGCTCTTGGGAGACCTTACAGCAGCCTTCTAGTATTTAAAGGGAAACTATAGGGAAAACGGGGAGCAACTCTACCAGAGTGTAGGACAAGGAGTAATGATATTAAATTAAAAAAGAGTGGGTTTAAGTTAGGTATAAGGAAGAAAATCTTCACACTGAAGATGATGAGGCACTGTAACAGTTGCTCCAGGAAGCTTGGGATACTCCATCCCTGGATGTGTTAAAGGCTAGGCTGGATGGAGCTTTGGACAACCTGATTTAGTGGGAAGTGCCCCTACACATGGCAAGAAGGTTGAATTAGATTATCTTTAAAGACCTCATCCAACTCAAATCACCTATGGTTCTGTGATTCTAAGAGGAGAGAGTAGATAAAACGTTTGTATTTATAAGATTTTTTTTGGATGTTTGACTTCATAAGCACTAAATGTTGCAATGTGTATTGAAACATTTTTGATGTCTGTATAG
Seq C2 exon
TTCCTGATGATGTATTTGCCCAAAATTATATATGGAAAGGATCTTACAACTACAAAAGCAAGAAACAACCCATGACTTTGACAGTCACCAGTTTTAATGCAACTTCAGGAAGAGTAAATGCAACGCTTACAAACAGCAATATGGAATTGTTGCTTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000016111:ENSGALT00000025958:66
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.261 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATATTGGTGAAGGATCCCAGACCA
R:
CTGAAAGCAACAATTCCATATTGCTG
Band lengths:
214-1828
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]