GgaINT0102969 @ galGal3
Intron Retention
Gene
ENSGALG00000016111 | CSMD3
Description
NA
Coordinates
chr2:139119842-139130058:-
Coord C1 exon
chr2:139129871-139130058
Coord A exon
chr2:139120037-139129870
Coord C2 exon
chr2:139119842-139120036
Length
9834 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAT
5' ss Score
8.88
3' ss Seq
TATATTTTTCTCTTTTATAGCAA
3' ss Score
9.82
Exon sequences
Seq C1 exon
TTTCAGTATAGAACCAAATTATGATTTTCTTTATATTTATGATGGACCAGACAGTAACAGCCCACTGATTGGGAGCTTTCAAGATAGCAAGCTTCCAGAGAGGATAGAAAGCAGTTCAAATAACATGCATCTGGCTTTTCGGAGTGATGGATCTGTTAGTTTCACAGGATTCCACCTGGAGTACAAAG
Seq A exon
GTAAATAAAATTATGTTTCTTTTGTTTTTAAAACATTCCTAAGCGTAAACTTCAGTCTGCTTTATTTCCTCATAGTTGTCTGCCTAATGAGGTTTTGGTTTTGTCTACAGGTATGGTAATGTGTATTATTATACATACAAAACACAATATTATAAGCATACTAATTAAAGACATAATCTTAGTATATGACTTCATTTAGAAGGTACATGATAAATGCATGATTCAAAATAAACAGAAAAGAATTGGCAACATCAGTTTACATACTTCAGAAATAATCATAGAATCATAGAATGGCCTGGGTTGAAAAGGACCATAATGATCATTGAGTTTCAACATCCCTGCTATGTGCGGGGTCGCCAACCACTAGACCAGGCTGCCCAAAGCCACATCCAGTCTGGCCTTGAGTGCCTCCAGGGATGGGGCATCTAGAACCTCCTTGGGCAACCTGTTCCAGTGTGTCACCACCCTCTGAGTGAAAAAATTCTTCTTAATATCTAACCTAAACCTCTTCTGTCTCAGTTAAAGACCATTCCCCCCTGTCCTATCACTATCCATCCTTGTAAACAGCTGTTCCCCCTCCTGTTTATATGTTCCCTTCAAGTACTGGAAGGCCCCAGTGAGGTCTCCTCAGAGTCTTCTCTTTTCCAAGCTAAACAATCCCAGTTTCTTCAACCTCTCCTCATAGGAGAGGTGCTCCAGCCCTCTGATCATCTTAGTGGCCCTCCTCTGGACCTGCTCCAAGAGCTTCACATCCTTCCTGTACTGGGGGCCCCAGGCCTGGACACAGTAGTCCAGATGGGGTCTCACAAGAGCTGAGTAGAGGGGGATAATGATACAGTAACAAAACATTAGTACACTTATACATGTTTTTTTTGAGAACAGGATTTATTTTTATTTTTTCTCTATATAATAATAGAGAACATATTTTCATATTTGAATTAATGATTCTTATAAAATGAAATGATGTCCTAGAACCTAGTAGGCCAATGTTGAAAATATGGGGCTAGACTTATGTAAGAGAGATTACAAGAGATTTGTCCACATATCTCAGACAGAAATCTCTGAGGACATAACATAATAAACAAGAAAATGGGACATATTCAATATAAAATAAATATAACAATTATCCAATTTCCTGTAAAGGCAACTAGAGGGAAAATATGGATGTTGCTGGAATATCAATTCATCTTACTGTCTTTGGACTGATTTTCTTCTCAGTTTATTCTGAAACCAATTAATAAATGCAAAGGTATGTAAGGTAAAGAGTTAAGCATTTTTTACCTTAGCAAGTCCACAAAGGCTTCTTTTACTTTCCTAAATTCTTTGGATTCCACAGTTGTAAAGAAAGTTGTCTCCACAGTATGATGTAGTCCTAAGGCATAAAAAGTAGCTCTCCAGAATGCTGGTGGTGAACCCAGATTTATGTACTGCTCCATGCATAGTGTGGAGTTATATAGAAAGCACTTAAGTGATGTAGAACTTCCGAAGAACAAGCAACTATATAATTTTTTTTTCAGATGAACTAATATTTTTTCTTTTGTACTGTTAGATACACTCTTGTGTCATGGAGTTACAGTTCTGCTCATTCACATTCCAAGGCTGGAAAGTTGCACATAAGGGACAGTCTTTACATTCTTGACCTAGGTTTAAACACAGAAGTGAACCATTGTAATTTAGAATGAAGGCAGAATTCTTTTTCTAACCTTACTTTTAGTCTAGNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNAGAATTTACCCACATTTGTAAAGGGGCTGGAAATCTAAGTAAGGGGAGGAGGTCTATATTAGATTATGACTCCTATTTCTGTCTGGAGTATACATTCCAACCTTTCTACCTTTTAGCACTGAGACATAAACTAAAGGACATATATTAAAATGACCATTAATAGCCCCAAATATTATTGAATTTAGAGAGATAAGTGAAGTTTTATTACCCTCAGTGAATTATCCAGTTTTTTACTGGGACTTACTGCTAAATAAGATCTTGCACAGCTTAACTTATTTTAGGGGTTTCATAAGAGCAATTACTGTCAAGTCTTAAAGTTTGAAAGTAACTGCTATTAGCTGACTAAAAAAAAAAAAAAACACACATTTGTAACATTTCATTACAATATTATAGATTTTTGTTAGTGTTTTACTTATTTTCAGTCTGTGTTTACATATTTAAGACTCTGAAATAGTAAGCTTATTAAGCATACCCTGAATCCAAAGCAAAAATCAAGCAGCAAAGAATGTATGTTTGAAACCTGAAACAAAAAATTCAGTCTCCAGTAACAAAAAAACATTTGCATTAATAAAGAAAGGAAATATTTTCACCTACATAACTCTGTTTACTCTACTTGTTATCCTAACATTGCTGTTAATGGATTGTAAATATTTAAATAAAGTAAATGTGACATTTGCAATAGAAATCTGACATGCAATTAACTTATCCAAAAATAGTGACTACTTTAATAGGGAGCTACTTTTAGCAGAAAGTTTTGTGAATCTTGTGTCTTTTTTACTCATGACTGGACAGGTAATCTACAGTGCAGAGTTATTTATGGTGTGACATGCCATAAATAGGAGAGAAAAGGTAGAAGAATGGAAAGGATGATTTTAAGATGTACATTTAGCAGTTCTAAAATACCTTCTGTGAGAGCTGTCATTTTAGATTTCAAGAGTGGAGGTTAATATTTTCAATAGCAGAGAATGTTTGGAGTATTGAGGAAGCAAATTACAGATGATATTGTTGTAGATGACTAACAGACAAGCTGGTATAGAGAAAATACATGATACTTGGAAGAAGCATGACCTTGGTACTCCTTGGGAATTTTAACTACTGCAACAACTGCTGCAAGGATATTGTGGCTGAGCATAATCAGTTCAAAGTATCCCTTGGGTGTGGTCACGACAATTTCTTCATGCAAGTGATGCTCTAGGGTTTATCTACCCCGTGGCAGAGAGTCTGCTGGAATGGTTACTCGCTAACATAGAAATTCTCAGTGCTGTGATGATCAAGAGCAGCCTTGTAGTAAATTAAAAGCAACAAGAAAGCTGTAAAGGCAGAACAAGTTTAAGATTGACTCATGAGATTGAACATATGCAAGTCTATGGGGCTGGAAAACATGCATCCCAGGGTCCTAAAGGAGCTGGCTGATGTGGCTGCTAAGCTACTCTCCATTATGTTTGAGAAGTTGTGGCTTTTGGGCCATGACCCCAGGGACTGGGAAAAAGGAAACATCACTCCTGTTTACAAGAAAGGGAGGAAGGAGGACCCAAGAAGCTACAGGAAGGTGAGCCTCACGTTTGTGCCTGAGAAAATCATGGAACAAAACCTCCTAGAAGACATATTGAGGTACATGAGGGATGAGCAGGTGATCTGAGACAGCCAGCATGGCTTTACCAAGGGAAGGTCTTCCCTGACCAATCTGGTGGCCTTCTATGATGGAGTGGTGACATCAGTGGATAAAAGGAAGGCAACTGATGTCATCTGCCTGGACTTACCCAAGGTCTTTGACATGGTCCCCTCACCACATCCTTATCTCTAAATTGGAGAGGTGTGGATTTGATGGATGGGCTATTCAGTGGATAAGGAATTGGTTGGAAGGCTGTAGAGAGAGGGTTTTGTTGAATGGCCCTATGTGCAAATGGAAGCTGGTGACTAGTGGAGTCCCCTAAGGGTCTGTCTTGGAACTGCTGCTCTTCAATGTTTTCATCAATGACATCGATGATGGGCTTGAGTGCATCCTCAGCAAGTTTACCAATTACACCAAGCTGAGCAGTGCGGTTGACACATTAGAAGGAAGGGATGCCATCCAGAGGAACCTTGACAAACTTGAAAGGTGGGCCCATGTGAACCTAATGAGGTTCAATATACCAAAGTGCAAGGTTTTGCACTTGGGTCAGAGTAATCCCAGATATGGGAGATATGGCTGGGAGAAGATCTACTTGAGAGTAGCCCTGTGGAGAAGGACCAGGGGGTCCTGGTGGATGAAAAACTGAACATGAGCCAGCAGTGCATTCTTGCAGCTCAGGAGGCCGATGGTATTTTGGGCTCCATTAGAAGAGGGGTGGCCAGAAGGGACAGGGAAATTATTGTCTCTCTCTACTCTGCCTCATGAGGCCCCATCTGGAGTATAAGAAAGACAGGGAGCTGTTGGAGAGGGTCCATCCATCCAGCAAATATGATCAGAGGGCTGGAGCACTTCTCCTACAAAGACAGGCTGAGGGAGCTGGGCTTGTTCAGCTTGGAGAAGAAAAGGCTGTGAGAAGACCCCATTGCAGCCTTCCAGTATTTAAAAGGGGATTACAGACAGGAAGAAAATCAACTTTTTACTCCAGTAGATAGTGATAGGACAAGGGGGAATGGTTTTAAGCTTAAGGAGGGAAAGTTTAGATTAGATGTCGGGGTAAGTTCTTTACAGAGAAAGTGGTGAGGTCCTGGAACAGGTTGCCCAGAGAGGTTGTGGATGCCTGTCTCGCTCCACTTATAGGAGGGAGAGGAGATTCTTTAATACATGTGTACTGAATGGTGAGATTAAGACACAAAAGGTCAAATGTTGGTCCGACCAGTTTATTCCAAATCCTAGTCAATCAGGGAGATGGGAACGGGAAGGCCAGCAATTATTACAAATTAGGGTGATGGGGAAGGGAAAGCGGGCAATAGGAAAGATAGGAAAGATCTGAAAAAAAAAAAAAAAAAGAATCTCTTACAATGTCCCATCATCCCTAGAGGTGTTCAAGACCAGATTGGATGGGGCCCTGGGCAACCTGGTCTAGTATTGGATCTGGAGGTTGGTGACCTTGACTGTGGCAGGGGGGTTGAAACTTGGGTCCCTTCCAACCCAAGCCATTCTATGATGTAAGCATGATATGGTGCTCTATATGGTGCTTCCTTTGAAATACGGTCCCATATTATTCTGAGAGCCAAATTTCATGAGCTGGATAAAGTGGGTGGAACATTGTCATTCTTGCAGAACTCAGACTGGTAGCCAGTGGCTAGTTAATAATGTACAGAGTGTTCTCTTTATTGGTTATCTGTCTGATGGGATAAAGCAAGTTTGTGGACAATACCAATTTGATGGGAAAAGTCAGTACTCTGGAAAGTAGTACTATTGTCTAAATGAATAGATTGGATCAATGTGGTGAGAGCAATAGTATGAACTTAAACAAGATTAAGTGCCAAGTTGTATACTACTGTCAAAACAACCCCATACATTGACACAGGCCTGGGGCAGAGTGGCTAGGAAGCTCCATGAAGGGAAAGGATCTGTGGGTGTTGATAGCTGACTGAGTGAGAGCCAGCAGTGTGCCCAGGTGGCCAAGAAGGCCAATGGCATCTTGTAATGTTTCAGAAATAGTGTAGTCAGCAGGATCAGAGAGGCAATCATCCATGTACTCAATACTGGTGAGGGTGCACCTCAGGTATTGTGTAGAGTTTTGGGCCCCTCACTACAGGAAAGACATTGAGGCCCCACAGTGTGTTCAAAGAATGGCACTGAAGCAGTGAAAGGTCTGGAACACAAGTCTTATGGGGATCTGCTGAGGGAACTGGGATTGTTCAGTCTGGAGAAGAGAAGGCTCAGGGAGACCTTTTTGCTCACTACAACTACCTGAAGGAGGTTGTGGTGAGGTGGGGAGTTGGTCTCTTTTCCTAGGTAACAGTGATAGGATGAGAGGCAATGACCTCAAGTTTTGCCAGGAGAGGTTCAGGTTGAATATTAGGAAAAAATTCTTCTCAGACAGAATGGTAAAGCATTGAAACAGGCTGCCCAGGGAAGTGATGGATAGGCTCTCCAGAAAAGGATTTGTAGGGCCTTGTGGACAGAAAATTTACTGTGAAGCAACATGACCTCTGGTAAAGAAAGGTAACTACCTTCTGGGCTGAGAATGGAAGCAAGAGTGGAATCAGCAGCTATGGGCAAGAGATCCTTCCACTTGTTGAAAGAATGGATGTGGCAGCCTGGACTAGTGGTTGGCAACCCTGCACACAGCAGGGGGTTTGAAACTAGACCTTTGAGGTCCATTTCAAACTAGGCCATTCTATGATTCTGTGATGCTGTTTTGATCTTCAGAGGTCACACCTTGAGTACATTCAAGGTCTTATCAGTGCTGTGAAAGGATTTTGACACAGATAAGCAAGTCTAATGCAATGGAGAGTTTCCAAGATGGTTAGGAGAATAGAAGACATATCATAGAAAAAGAGTGAGGGAACTGGGCTTATTTCAGCTACCTAGTGGGAGTGTATAGAAAAGATAGAGCCAGAGTCACAGAGTACGTTTTACTTCATTCTTCATACATCATAGTCTGATATACTGAGTTTTTCTTTAAAAGTTTACTTAACAGCCACTTCCGATTTCAAGAAGTAGTTTGAAGATGCTACGCATTTCAAGTTTTATTTTTAAGAATAGTTATTAAGAAACTGTGTTTCTGTAGGGATATTATTAGTGTTTTGTCAGCAAATTTAGCAGTCTGTCACAACAGTACCTTTGGTAAAAAGAAAATTATTGGTCTGTAATTGTTCCCCACAGAAAATCTGTGCTATGACAGATCATGTCTTTCCTCAGTTTTTGATTGAAGCTCGAGACATAATAGATTGCTTTAGCTTTTTCTCTTTTTAATTTCTTTTTTGATGCTAATGTATACCTTATCCAAAGACCTAAGAGAATTCTGAAACACAAATTTCTAACCATAAACTCAGGAATAATGATCTCACAGTATAAGCTTTAAAGAAGTTCTGTAATAGGTAATTCAATGTGCGTCGAGTACACTCTCAGCAAGTTTGCTGATGACAGCAAGCTGTGGGGTGCCACTGACACACCAGAGGGACAAAATGCTATCCAGAGGGACTTAGACAGGCTTGAGCAGTGGACCTAGGTGAATCTCATGAGGTTCAACAAATCCAAATGCAAGGTCATGCACCTGGGTCATGGCAACCCTCGCTACTAATACAAGCTGGGGGATGAAAATATTGAGAGCAGCCGTGCTGAAAAAGACCTAGGGGTACTGGTGGATGGAAAGCTGGACATCAGCCAGCAGTGTGCCCTCGCAGCCCGGAAAGCCAACCATATCCTGGCAGCATCCAATGAAGCATGGCCAGCAGGTCAAGGGTGGTGATCCTGCCTCTCTATTCCATGCTGTTGAGGCATCACCTGTAGTACTGCATCCAGATGTGAGTCCTCAGTACAGGAGAGGCATAAACCTGTTGGAAATAATTTTCAGTTTCCAGATTTCTCAAACAACAGTTTAGTTGGTTTACATAATAATTCTTAATATCAGTGTGATATCTTACAGGCTTTTTGGTAACTTGATCCCTTAACATGTGATTGTCCACCCAGATTTTGGAATATGAGTGTTACAGAAGTGTTAGCCCTTCTTTTCATAATGTCATGCTGTATTATGAAGACTTACCTTTCAGAACATGAGACATTTAGATACTACATGCACAACATGCACTACAACTATCTAACTGAATCATTGTGGATTTATTATTAATATAATTAGGTGTTGTAACTCTCACCTTGCTACTATGCACATTTTCAATCAAAATGTGTGTTCATGGCAATGTCACCCACATTAGGAGATTTCCATGTTCTTTTGGAAAATGTGAAATCAAGATTTCAGGAGGATTATTCCATGTTTCTGTCTTCAAACATAAATATATGAAACCTTTATGGTTTTGTAATGTATTATTTCTCATCTCTCATAAATACTGAAATACATAGGTTGCTTTGAAAGTAATGCCTTATTTCAATGGAAACTGCAACAGATACAAAGGGCACAATAACACTATTTGATAGAGCAAATTCTCAGCTATGAAATACTTTTTTTCAGCATAGTCACCACCTTTAGCTCTGCATTTTTGCCAGCAATGAACAAGAACCTTGATGACACTCTCTTACAATCTGCACTAGTGGAGGTGACTGTCACTGTTGCCACTGCTGAAATGTGCCAGTCACCACCTCACGGTGCTCACATCCACTGTTTGGTCTCCACAAGTGTTCAGCAAGTGTCGATGAATATGAATGGGTGCCATTTTCTTTCTCATGGAGGAATTCAATTACATGCTTTTGCTTCATGTGCATTTCCATGTCAGGCACCATTTGTCACTGTGCCCCTCTGTTGTCATCTGTCACACAACAACAAAATTTAATGGATTATTGGTGGGAAGGTTCAGCCTCTACTGACATACCACTAACATCTGCCTCTGATATCATGGGATAACATAATAAAGTAGGAAGCATTACTTTCAGAGTAGGCCTTGTATAAAATGGCCATAAAAATCAAAATGAAAATCTGTTTGCATCATTATCTTGTCTATGGTAGTGAGAAATATCTGATCTGTGGCTAAACTTTATAAAGTAAAGTTAAATATATTCTCATTTTTCTCTATTGTCCCTTAAGTTTTGAGAAACTTTAGCTTAGGGACTGCTAGAATCAGAGGAAGTATCTTTATACTTAAAGCTACTATAGCCTTTTGGCAGAGATCTGGAAGTGCAAAGATCTACAGTGCAATTATGACTGCTGCAACTCTTCTCAGGTATAGAAAGTTGGCACTGATCTTGCTGAAAGTAAATAAATATTCCCTCCTGACTTTCACCACAACACCCATAAATGATAAAGAAGAAAATCTGGATTTTCTGTCTTGTGCTTGATTAAAAAAATTACTCCAAATTACATCCTGCATAACACAAAATCGTATGATTCATTACCACAATGGTAGCATTTTCTAATGCATTTACCATTTTTTTTTCATTAATGGAAGAATATAGCTAGTTTTCCTTAGATGTTTCTGTATAATAAAGTTGTTGAAAATATCCGAGTTGTTATTTTGGTGCCGTTTTTATGCCTTGAACTAGTGATCTTGTTATAGATCGTTATAGATATTCACTTAGGGTTTATTAGTTTTGAATATTTTTTTCTTTACATATTTTTTATTTTGTCACAAACCACTTATTTAGATTTCCTCCACTCATCAATTTTTAGACCATAGATGTTAAAACCAGGATGTGCCCAGTCTGCCAATAAGAGTGAAGTCTTGAAAAATGGTTCTTGTGATTACACTCTATAGGAATTTTGTGGTAAAAATATAAGTTATGTGAGTTCAGTCACTATGAAGCAATGAATTAAGTTTTTAAAGTGAAGGAGAGATGACTACAGTCACGGGAAATTGTTGCAGAAGAGAAAAAATTTCTAAAGTATATATAAAATGTGCAATAAGTAAGGCATTACATGTCTACACAGTTCTCAAAGAAGACCTTGAGAGAATTTCATAAAGCATATGAAATGCTTTATATTATATTCAGAATTATGTTTATATTTTTCTCTTTTATAG
Seq C2 exon
CAAAGCTACGTGAATCTTGCTTTGATCCTGGAAATATAATGAATGGAACAAGACTTGGAATGGACTATAAACTAGGATCAACTGTAACATATTACTGTGATGCTGGTTATGTTTTGCAAGGATATTTTACACTAACTTGCATCATGGGAGATGATGGAAGACCTGGGTGGAACAGGGCTCTACCCAGTTGTCATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000016111:ENSGALT00000036594:27
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.016 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0043115=CUB=PD(57.5=95.3)
A:
NA
C2:
PF0008415=Sushi=WD(100=87.9)
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]