GgaINT0102967 @ galGal4
Intron Retention
Gene
ENSGALG00000016111 | CSMD3
Description
CUB and Sushi multiple domains 3 [Source:HGNC Symbol;Acc:HGNC:19291]
Coordinates
chr2:132961479-132964885:-
Coord C1 exon
chr2:132964694-132964885
Coord A exon
chr2:132961618-132964693
Coord C2 exon
chr2:132961479-132961617
Length
3076 bp
Sequences
Splice sites
5' ss Seq
TAGGTATGC
5' ss Score
7.53
3' ss Seq
CAATTTATTTTTATTCACAGCTC
3' ss Score
7.27
Exon sequences
Seq C1 exon
GTTCTGTAGCTACTGCCTGCCGTGATCCTGGTGTCCCCATGAATGGAACTAGAAATGGGGATGGAAGAGAACCCGGAGACACTGTGATTTTTCAGTGTGACCCTGGATATGAATTGCAAGGAGATGAGAGGATAACCTGCATTCAGGTAGAAAATCGGTACTTCTGGCAGCCCAACCCACCAGTCTGCATAG
Seq A exon
GTATGCAGAAGACAATCAAAGAATGGTTTCCAAAATTTTGAAATTTTGGTGCAATTAATCACACTTCTCTACAAACTTTATTTTAGGAAACTAATACGTATTAATTATTTATTCTGTATAAATCTTCAGTGAATGTTACAAAAATCTTTCCTCTGTAATTACTATTGTAATATAAGGGCTGATCTTAAAGTAATGCCTCCTGTTTTATGATGTTGGCCCATGACATCAGAAGCAGATGTTGGTGGTATGGCAGTAGAAGTTGAACTATCTCAGCAGTATTCCATTGCGTATTGTTGCTGTGTGACAGATGGCAGCAGAGGGGCAGTCTGACAAAATGATGTCTGATATGGGAGAGTGTACGAAGCAAAGATGTGTCACTGAATTCTTTCATGAGGAAAAAAATGTCACCCATTGACATTTCTCAACACTTGCTGAATGCTTCTGGAGACCAAAGAGTGGATGTAAACATAGTGAGACAGTGGGTGGTGTTTAGGCAGTGACAACAGTGATAGTAGGTCACCTCTGCTCAGGCAGTTTGTTTTGAATGCAGGCTCTTGTTCATTACTGGCAAAAACACATAGCTCATGGTGGTGACTATTTTGAAAAATAACGTTTCGTAACTAAGAATTTGCTTGATCAAGTAGTGGTATTGTGCTCTTCGTATCTGCTGTAGTGTCCATGAAAATAAACAGGAGACATTACTTTTGGAGCAATCTACATAGGTCTTATACTTTATCTTTCAAGCCTATATTATTTATAGTTTGATTATCTGTGACAAAGAAAGCAAGAAAGCCAATGTAATGACCCCTTGCCACAAAATTTGAAGAATGGTGGTAACTGTGAAGGATTTGATTATGGTTTGTATGTCTGTACTCACAAAACATCAGGCACATCACTGAGTAAAAGTATAGGTCAGGTAAAATAATCAAAATGCTATAATAGGATGCTACTGGAAACACAGATAAGATGGTACATTACTGTTCCTGCAGCAGACTTCATTAATTTACAAAAGCAATATTTTTGTTAGTAAAAATGAAAATACATTCTTTGTCTGTAAATATTGTCTCAGTCTCTAATTGTATTCAGAATAACAAAGCTCATATTAAATGAATTTTGAAAAGATTTGACTTGGTTAACTGAATCATCATGAAAAAAACAGTAAGAAATTACATAAGTAGTTAGTGGATAGCAGCTTTCAAATAACCACTTCTGAGGTAAATCCTAATCACTACTGATCTAGGAAGAAATTCTAAACTATCAATTCCAAAACCTAATTTAGAGGCAGAGTTATAAATAATTAATGAAATGTGCCACATTTGGATAGTTAGGTAAATAAAGTAGTGATACTTATTTACCCAGTATGTTCTTTAATGCGAGCAAATGTAGTACTGTGATGTAGAATGGTGGAAGATTTTATCTGAGTGGGTAGAAGCTGCAGGCCTGAAAATCTCCAGATGTTGTGATAGGTAGCCTCTTAAATAGGATCTGCAATTGTAGTGGTACAGTAAAGAAGGAAGATGGGATTATCCATGAAAGTGCATCTGGGAGATGGTTCAAAAGAACAATTGCAGTGGTATCATCCTGAGTAACTTTCATATGAGATCGTGTGCTTACTCTCAGAATCCCAAGAAGGACTGCCTGAAAGGAACTCCTGAAAGGATGTGGAGAAAAATGAGGGCACCTAAAATAATCAGACAAAAGCCTCTGACCTCATAAAATATGAAACTGCACTGCAGCTTTGAGATCAGCTTTATGTGGACATTCACCTTCCTTTGCCCTGCCTGGTAGCATGGTCTTGGGCAAACATTACAAGAAGAAACCCCAGTTGCTACGAGCACTTTTTTAGCTTTCATGTATTTTCTTGCCTTTAACACACTTAATTATCTTAAACAATTATTTTTAACACACTTTGTTATCTTATTTAAAGTTTGAATAGGTTTATAGATTAAGTACTTTACTTCCTCCCATGTAAGCAAAGAATACAAAGGTTATCACACATACAGTGCTGGCTATGTCTACAAAGAGGTTATGAAGATAGGTAAATATAATCTACATCTCTATTTTTCATTGTGTAATACATTAAAATTACGTTTTTCCTAGTAGGTTGACACATGCTTTTCTTTCTGGATGGGCTATTACATTGGCTATTACATTAGGCCTTGTGTCTAATGCTATTAATGGCAGGTGCCCTTTAAACTTTGTATTCAGACCTGGTCTTCCCCCAGATACAAATGAAGTTATGAAACACAACAAAAGTATTCCACACATTAAATTCAGACAGTGATAGATTCTGAAAACTTGTGAATTTAATTCAAGCAAACAGAGAAAGAAAAAAGATAAGATGTCCAGAAAACTTTCTTATTGTTGTCTTCTTATATGAAAACTCCATTGAAGAATGCTTAAGTACAGAATTTAGTACAGACTATACTTTCATTCTTCTTAAGTATTTACATTTTTGAATCACAATCACACAACATTTAGGAACCTCAGAAGAACACAGAGATGTGCTTATTTTATTGTGCATGTAGTAGGAAGATAATTTCTTTATCTCCAAGAGTGCAAGCGGCACTTATTAGGATTTGTTTGCTGATTTTTTTTATTTATTGCATTTTTATATTATCATTAGTCTCAATCTGAATTACTAATCAGTTATGTGTGGTAAAAATGCAGGTAGCTGCATTATCAGTGAAAGTACATCATTTTTCATAACCTTACAAGCTTCTTTTAGAATGCTTACAACAAGTAGTAGAAAGTAAAAATCTTATCCAGTCATTTTTTTTATGTCTGCAGAAAGAGCATGTGTCAAGTTCAAGGTGTTTTCAGAAAAGCCTTGATATACTGTTAAGGAGAGAAGAAAGAACAGAGAGTTCTAAACACGTGTTTTACTTGGTAATATTAATATTGGTCTAAGAAGAAATGTGAATGCAGCTTTTGTTTCTATTTAAGCTTTGTAATTACTTCAGTTATTTCTTGTTTAACTTTTAGGGGACATTAAATGTCAGTGAACATAGTGCTGATACTTGCTTCTTTTGCCTCTTACTTTCTTTTCTCAATTCCAATTTATTTTTATTCACAG
Seq C2 exon
CTCCCTGTGGAGGAAACCTGACTGGCTCATCAGGTTTTATACTTTCACCAAACTTCCCACATCCTTATCCCCACAGCCGAGATTGTGACTGGACTATCACTGTTAATAATGACTATGTTATATCACTAGCATTTATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000016111:ENSGALT00000025958:28
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.262 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008415=Sushi=WD(100=87.7)
A:
NA
C2:
PF0043115=CUB=PU(41.5=93.6)
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]