GgaINT0102983 @ galGal4
Intron Retention
Gene
ENSGALG00000016111 | CSMD3
Description
CUB and Sushi multiple domains 3 [Source:HGNC Symbol;Acc:HGNC:19291]
Coordinates
chr2:132886709-132890089:-
Coord C1 exon
chr2:132889912-132890089
Coord A exon
chr2:132886855-132889911
Coord C2 exon
chr2:132886709-132886854
Length
3057 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGG
5' ss Score
9.68
3' ss Seq
CTTATATCTGTTTTTCTAAGGGA
3' ss Score
7.2
Exon sequences
Seq C1 exon
CTCTCTGTGGAGGAAATATAACTGCAATGAATGGCACCATATATTCTCCAGGATACCCTGATGAGTATCCTAACTTTCAAGACTGCTTCTGGCTTGTAAGAGTACCACCTGGGAATGGAATCTACATCAATTTCACAGTTCTCCAGACAGAGCCAATATATGATTTCATAACTGTCTG
Seq A exon
GTAAGGAAACACTTCTGGCTTTTATTTAATCTTCATGTGACACTATATAACAAAGTATAAATTAAAATTAGTATAGTTATGATTTCATAATTTCTTCAATGACACTGGTGTTCTGTCTGAGTAATTTGCCCTAACCCATCTTTTCCTATGTACAATTCTTTCTAGATATTAGTGGACATAAAGTTGCACAGCCTTTCTTGTTAAGAATTCTGAAACTGTGGATTGCCAATAGCAGTATGCCTTGTTGATTATTTGGTCAAGAATACTGTATAGAAGTACGGTGTAGCCAGATTCTGAAAAACAAGTTATCCTTAAAAAAATGTGAAAAGGAGCAGATGCTACTGTGTGTACTAGGCCATTTTAGAGTAATATTTTCTTCATATATTCCATGTTGTATTTTTTTCAAACTATTTAAGAGAAATTAAAAGGCAAGGCTCTATTTGGTTATGACAACTAAGTTTGGTTAAAACTTAGCTTACTATAGCTGTGAATAACCTTTGTTCTCTATATACTGAATCTATGCGTTCTCTACATTCTCTATATAGTCTCTCTATATTTTCTATATTCTGAATCGATGTTTATCATGATTTTTTTCAGATATTGAGGCCCACATTTTCCTTGTTTGTAATGTTGGTAAAGGCAGGAGGCTATAATCTAGAGCAACAGGTGCTGTAGTAATCATGAAACTGTACAAGTGAGTCCCTTAGATATTTCAAAGGCAGCTAAGACCTTTGGAAGCTTACCTACACAGTAATTCACAGATCGAGGGAGTATTTTTTTAGTCAGAACAGTGTGAGGTAATTTGGAGTATTTGTTATCGATTTAGTGTTTCTGTTGCACAGAAGTATTAATTTGGCTTCATATAAATTCCTATAGACCTCGGGTTTTCATTCATAATTTCCTAAACATTAAACGTTTGTCTTCATTGTTGTGATAATTTTTGTAGGTGTTAGTTATTTTTCATGTTGTGTACTACAAACTGCCCTGTCCTGCATCCCAGATATTTGCTTGCTTTGCTTTAAATTCTAACAAAAAATTCATCTGAATATGTACAAAGACTATTGTTCTGATAAAACTCAGGTAGTTTTGAATACTTTTAACTCTTCCCTACTTGAAGGGTGAACTTCAGAATCTGTCCTGAATTTAGTTATGTCTCGGTGTGTACATCCAGACGTGCAGACATCCTTAGTTCCATCCACACAGGTTAGAACACTACTGTCCACTTCCAGTGCTCCTTCCACTTGTCCCCTCCTTTCTATGAAGTGACTTCGTGTGCTTTCAATTATGTTCTTGGCTACATTATAAATGTATTTCTTACAATAAATTTAATTGTGTGTATCTCATGATGAAGGGAAAACCTCAGTTTTATCTCAGTTTGTATCCTATTTCAATTAATAAAAAATTTAGGACTGTGTCCTCAAGTTAAAGCATTTATAAGGGTATTTATGTCTATATTGTGTATGTTGTTACCTATATGTGATTTATAAAGTTAAATTAGCAGTATTCTGTACATTCTATAATTAAATAGGTTAAGCAAATGCAACAATATTATGTACAGAACCCATCCGAAATTTTAATAGCAGTATTTCTAGTGGAAAAAAATACAATTTATCCATCTTTCAAATAATTCCTAAAATCACACAATGTGTGAATCTATTAGATTTCATTATTAGTCTTTATAACTTGATTCCATGTTTGTAATATACAAGGCTGCTCCAAAAGTAATGCCTCTTATTTTATTACGTTCGCCCACAATGTTAGAAGCAAATATTGGTGGTAAGGGCAGTAGATTGAACCTTCCCACCAATTTCATTTTGTTTCAATTTCTCACCATTACATTTTGTTGCTATTTAACAGATGGTAGCAGAGGGGCAGTCTCATAAAATGACACTGTAGGTGGAAGTGCATATGAAGCAAAGATATGTCACTGAATTCCTTCATGTGGAAAAAAAAAAGGCACTCATTGACCTCATCAGCCCTTACTGAATGTTTATGGAGATGAAACAGTTGATATGAGCACAGTGAGGCTGTGGGTGGTGCATTTCAGCAGCAGCAACAACAGTGGGTCACCTCCACTGGTGCAGATTTTTATGAGAGTGGCATGCAGGTTCATGTTCATTGTCGGCAAAAATGCACAGCTAATGGTAGTGACTGTTGAAAAACTGTTTTGTAACTAAGAATTTGCTCTACAGATAGTGTTTTTTGTATCTCTTGTAGTCTCCATGGAAATACGTAGGAAACATCACTTTCAAAGCAACCTACGTACGTGAATAAGGATTTGAGATATTAAATAGTCAGCTTCATGTTATACTTAGTTTTGGCTAACACATTTTTATGAATGCTTAGTTAAGCCATTATAACATAAAAAATTAAGGGAAAAAAAAAGGTAAGTTAAAAAATTCTGAAGTTTCACAATTCCAAAGAGTAATGTCATTAAGACAGAAGTTATAAATGAAATATACATTTATATATGCCCAGTTGCATATTCACATGGAATATTTTTTGCAGTTGAGTATAAGCATTTTCTTTTCTTCTCTTTTATTTTTTCGTTTCTTTTCTTTCTTTCTTTCTTTTTTTTTTTTAAGAGAAGCCAATATCAATTAATTGTCTTTTTAAAAATTAAATTGTATCCATTAGTTAATTTTCCTAGCAATGACCAAATTCAAAAGATTGCGGGAAACAAGTAGTATCAACTTTATTTTATTTCTAATATCAGCATTTGAAAACACAGATATAGAAACATGAACATTGATTGGATGATGAAGTACAGTCACAAACTAAAATCATTTTAAAGTTGCTATTATTTCTATTAAAAACAAAAGCATTGCTTCACAGATGTGATTGAATGGAGGATCATGTTTTTCAATAAATTTTGGTGGCATTCCAAACTACTACTCCTTTTATTCCAGTTCACATATGGAATATCAAAAGGCTTTCAGTGTTCATTTCATGTAGTTTCAGATGACTCGTGCCTTTTAGAATAATATACTACTTTATAAATTGTGTAGTAATTAAATTATTTGGACAAACAACTCTTCTTATATCTGTTTTTCTAAG
Seq C2 exon
GGATGGACCAGACCAAACTTCTCCTCAAATTGGGCAGTTTAGTGGCAATACTGCACTAGAATCAGTCTACAGTACTTCCAATCAGATTCTGATCAAGTTTCACAGTGACTTTACTACTAGTGGCTTTTTTGTACTTAGTTATCATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000016111:ENSGALT00000025958:44
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=0.020
Domain overlap (PFAM):
C1:
PF0043115=CUB=PU(54.3=95.0)
A:
NA
C2:
PF0043115=CUB=PD(44.8=94.0)
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]