GgaINT0102967 @ galGal3
Intron Retention
Gene
ENSGALG00000016111 | CSMD3
Description
NA
Coordinates
chr2:139132922-139136324:-
Coord C1 exon
chr2:139136133-139136324
Coord A exon
chr2:139133061-139136132
Coord C2 exon
chr2:139132922-139133060
Length
3072 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
GTATGCAGAAGACAATCAAAGAATGGTTTCCAAAATTTTGAAATTTTGGTGCAATTAATCACACTTCTCTACAAACTTTATTTTAGGAAACTAATACATATTAATTATTTATTCTGTATAAATCTTCAGTGAATGTTACAAAAATCTTTCCTCTGTAATTACTATTGTAATATAAGGGCTGATCTTAAAGTAATGCCTCCTGTTTTATGATGTTGGCCCATGACATCAGAAGCAGATGTTGGTGGTATGGCAGTAGAAGTTGAACTATCTCAGCAGTATTCCATTGCGTATTGTTGCTGTGTGACAGATGGCAGCAGAGGGGCAGTCTGACAAAATGATGTCTGATATGGGAGAGTGTACGAAGCAAAGATGTGTCACTGAATTCTTTCATGAGGAAAAAAATGTCACCCATTGACATTTCTCAACACTTGCTGAATGCTTCTGGAGACCAAAGAGTGGATGTAAACATAGTGAGACAGTGGGTGGTGTTTAGGCAGTGACAACAGTGATAGTAGGTCACCTCTGCTCAGGCAGTTTGTTTTGAATGCAGGCTCTTGTTCATTACTGGCAAAAACACATAGCTCATGGTGGTGACTATTTTGAAAAATAACGTTTCGTAACTAAGAATTTGCTTGATCAAGTAGTGGTATTGTGCTCTTTGTATCTGCTGTAGTGTCCATGAAAATAAATAGGAGACATTACTTTTGGAGCAATCTACATAGGTCTTATACTTTATCTTTCAAGCCTATATTATTTATAGTTTGATTATCTGTGACAAAGAAAGCAAGAAAGCCAATGTAATGACCCCTTGCCACAAAATTTGAAGAATGGTGGTAACTGTGAAGGATTTGATTATGGTTTGTATGTCTGTACTCACAAAACATCAGGCACATCACTGAGTAAAAGTATAGGTCAGGTAAAATAATCAAAATGCTATAATAGGATGCTACTGGAAACACAGATAAGATGGTACATTACTGTTCCTGCAGCAGACTTCATTAATTTACAAAAGCAATATTTTTGTTAGTAAAAATGAAAATACATTCTTTGTCTGTAAATATTGTCTCAGTCTCTAATTGTATTCAGAATAACAAAGCTCATATTAAATGAATTTTGAAAAGATTTGACTTGGTTAACTGAATCATCATGAAAAAAACAGTAAGAAATTACATAAGTAGTTAGTGGATAGCAGCTTTCAAATAACCACTTCTGAGGTAAATCCTAATCACTACTGATCTAGGAAGAAATTCTAAACTATCAATTCCAAAACCTAATTTAGAGGCAGAGTTATAAATAATTAATGAAATGTGCCACATTTGGATAGTTAGGTAAATAAAGTAGTGATACTTATTTACCCAGTATGTTCTTTAATGCGAGCAAATGTAGTACTGTGATGTAGAATGGTGGAAGATTTTATCTGAGTGGGTAGAAGCTGCAGGCCTGAAAATCTCCAGATGTTGTGATAGGTAGCCTCTTAAATAGGATCTGCAATTGTAGTGGTACAGTAAAGAAGGAAGATGGGATTATCCATGAAAGTGCATCTGGGAGATGGTTCAAAAGAACAATTGCAGTGGTATCATCCTGAGTAACTTTCATATGAGATCGTGTGCTTACTCTCAGAATCCCAAGAAGGACTGCCTGAAAGGAACTCCTGAAAGGATGTGGAGAAAAATGAGGGCACCTAAAATAATCAGACAAAAGCCTCTGACCTCATAAAATATGAAACTGCACTGCAGCTTTGAGATCAGCTTTATGTGGACATTCACCTTCCTTTGCCCTGCCTGGTAGCATGGTCTTGGGCAAACATTACAAGAAGAAACCCCAGTTGCTACGAGCACTTTTTTAGCTTTCATGTATTTTCTTGCCTTTAACACACTTAATTATCTTAAACAATTATTTTTAACACACTTTGTTATCTTATTTAAAGTTTGAATAGGTTTATAGATTAAGTACTTTACTTCCTCCCATGTAAGCAAAGAATACAAAGGTTATCACACATACAGTGCTGGCTATGTCTACAAAGAGGTTATGAAGATAGGTAAATATAATCTACATCTCTATTTTTCATTGTGTAATACATTAAAATTACGTTTTTCCTAGTAGGTTGACACATGCTTTTCTTTCTGGATGGGCTATTACATTGGCTATTACATTAGGCCTTGTGTCTAATGCTATTAATGGCAGGTGCCCTTTAAACTTTGTATTCAGACCTGGTCTTCCCCCAGATACAAATGAAGTTATGAAACACAACAAAAGTATTCCACACATTAAATTCAGACAGTGATAGATTCTGAAAACTTGTGAATTTAATTCAAGCAAACAGAGAAAGAAAAAAGATAAGATGTCCAGAAAACTTTCTTATTGTTGTCTTCTTATATGAAAACTCCATTGAAGAATGCTTAAGTACAGAATTTAGTACAGACTATACTTTCATTCTTCTTAAGTATTTACATTTTTGAATCACAATCACACAACATTTAGGAACCTCAGAAGAACACAGAGATGTGCTTATTTTATTGTGCATGTAGTAGGAAGATAATTTATCTCCAAGAGTGCAAGCGGCACTTATTAGGATTTGTTTGCTGATTTTTTTTATTTATTGCATTTTTATATTATCATTAGTCTCAATCTGAATTACTAATCAGTTATGTGTGGTAAAAATGCAGGTAGCTGCATTATCAGTGAAAGTACATCATTTTTCATAACCTTACAAGCTTCTTTTAGAATGCTTACAACAAGTAGTAGAAAGTAAAAATCTTATCCAGTCATTTTTTTTATGTCTGCAGAAAGAGCATGTGTCAAGTTCAAGGTGTTTTCAGAAAAGCCTTGATATACTGTTAAGGAGAGAAGAAAGAACAGAGAGTTCTAAACATGTGTTTTACTTGGTAATATTAATATTGGTCTAAGAAGAAATGTGAATGCAGCTTTTGTTTCTATTTAAGCTTTGTAATTACTTCAGTTATTTCTTATTTAACTTTTAGGGGACATTAAATGTCAGTGAACATAGTGCTGATACTTGCTTCTTTTGCCTCTTACTTTCTTTTCTCAATTCCAATTTATTTTTATTCACAG
Seq C2 exon
CTCCCTGTGGAGGAAACCTGACTGGCTCATCAGGTTTTATACTTTCACCAAACTTCCCACATCCTTATCCCCACAGCCGAGATTGTGACTGGACTATCACTGTTAATAATGACTATGTTATATCACTAGCATTTATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000016111:ENSGALT00000036594:25
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
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]