DreINT0008184 @ danRer10
Intron Retention
Gene
ENSDARG00000077920 | CSMD3
Description
CUB and Sushi multiple domains 3 [Source:HGNC Symbol;Acc:HGNC:19291]
Coordinates
chr19:44717871-44721308:-
Coord C1 exon
chr19:44721228-44721308
Coord A exon
chr19:44717985-44721227
Coord C2 exon
chr19:44717871-44717984
Length
3243 bp
Sequences
Splice sites
5' ss Seq
TAGGTATGA
5' ss Score
6.99
3' ss Seq
CTTTTGTTTTTTCATCTCAGGTG
3' ss Score
10.11
Exon sequences
Seq C1 exon
CCTACCAGTTACGAGTGTGCCAGCCTCCCCTGGAGGTGGCAAATGCTGATATCCTGATGGAGGACAATGAGTTAGAAATAG
Seq A exon
GTATGATTTTTTTTTAAATACAAATGGTTCTGATTCTGACCTGCTGAGTCTGTTTTTAAGTCTAAAAACCCATTCCCCTGTCATGATTTATATTAAGAGTGCTGATTTTCAATAACAAATGAAAGCAAGTTACCTGTTTCCATCCCAGTAGGGATTGTTCCCGCAAAAAAAAAATACATTTCTGTCTCTTATGTTGCTTCAAAGCTGTATGACTTTACTTCTTCAGCAGAACACAAAAGAAGTCATTTGAGAAAATGGCTCCATGTTTGATGGCTGTACAGTGTCCAGGTGTTGTTTTGGACCCCATTGATTTTACAGTTTCTGCTTTTGTGTTCTGCAGAACAGGTTTTGAGCAACATGAGGGTGAGTAAAGGATGAGACGCTTTCACTTGAGCTTTTTTTCATCAAATCAGATTGGCCACTGGTAAAACCACTGGTAATGCAGCTGATATTATGGTGTATTTTGGACAAACTGATAACAAGAACACTCCAGATGGTCTATAAGTCCACTTTTCTTGATGTTTTTGATGTATGGAGAAATACACGCAGTAGCTTTTTTGATCTTTCAAGTCTAACTTTGAGAAATGAACTCAAGCTATTTTCATTTGAAGATGAAAGGAGCCAGTGCTTTAATGGAAAAGTTTATATTCTATGCAGTTAGTGTGCTTAAACAACATCTCCAGTCATGTAAAGAATGAAGCCAGCAGTTGGAGACGGGGTGATCTTTAGAGGCTGTTTGAATGCATTTGATGAGTTTTACAAAAGCAATTCAATCTAATGCAGTTTTGACTATGCCTGTAAGCAGTTAACTCGTTCACCTCCAAGTTTCCACCCACCACCATTCTCAGCTAAATTTGATGGCCTTCAGAATCTAATATATGAGTATATGACCATAGTATATGACCATATTATATATATACAGTTGAAGTCAGAATTATTAGCCCTCCTGAATTATTAGCCCTCCTTTAATTATTAGAATTATTATTTTTTTCTCCAATTTCTGCTTAACGAATAGAAAAAAACTAATTTAACAAATTTCTAATCATAATAGTTTTAATGACTCATCTCTAATAACTGATTTATTTAATCTTTGTCATGATGACAGTAAATAATATTTGACTAGACATTTTCTTAAGACACTTCTATACAGCTTAAAGTGACATTTAAAGGCTTCACTAGGTTAATTAGGGTAACTAGGCAGGTTATAGTAATTAGGCAGGTTATTGCATAATCATGGTTTGTTCTGTAGACTATCTGAAAAATATAGCTTAAAGGGCTAATAATTTGACCTTAAAATGGTGTTTAAAAAAATGTAAAATGTTTTTATTCTAGCTGAAATAAAAAATAAGACTTTCTCCAGAAGAAAAAAATATTGTCAGACATACTGTGAACATCTTGCTCTGTTAAGGAATATTTAAAAAAGAAAAATAAATCAAAGAGGGGCCAATAATTCTGACTTCAGCTATATATATGTAAGCCAAGTCTCTACTGTCTACTTTTTTATTTTTATATGCAAATAGGTTTTATCAAAATATGCAACATTTTTGACATAAAAAGAGAAAAAGACATTTTTCTAAAAGTAATGCATTGTATATGCATTCAGTATATAGTACACACACACAAACCACACACATACATACATGCATGCATTAATTCATACTGTACATACACTTCCAGACAAATGACTTGTCGTTTACCCCAGTTGTAAAAGCAACAAATAATAACTGGACGTCTTGTTGATAAGTTGGAAAATTGGCAGAAGGTCGATTTTTCTGATAAGTCATCTGTTGAACTGCTTCCTAATCATCACAAATACTGCAGAAGACCTACTGGAACCCGCGCAGACCAAGATTCTTTCAGAAATTAGTCAAATTTGGTGAAGGAAAAATCTTGTTTCATTCAGAGAAGTCCCATGCTTCACTCACGACATACATAAGGGATTCTCCTACCAATATATATCTAAAACACAGATTGCTGTAAAAACTCCTTAGTAGCGGGGAAGCGTTTATTCTTAATTGATTAAATTAATCTTAATCTCTAAACTGTCAATGCCAGGAAAAGAGTTAAAAATGAACATCATCAATATACAGTTGAAGTCAGAATTATTAGCCCCCCTTTGAATTGTTTTTCCTTTTTAAAATATTTCCCAAATGATGTTTAACAGAGCAAGGAAATTTTCACAGTATGTCTGATAATATTTTTTTCTTCTTGAGAAAGTCTTATTTGTTTTATTTTGGCTAGAATAAACGCAGTTATTAATTTTTAACAGCATTTTACGGACAAAATTATTAGCCCCTTTAAGCTATATTTTTTTCCGATAGTCTACAGAACAAACCATCATTATACAATAACTTGCCTAATTACCCTAACCTGCCTAGTTACCCTAATTAACCTAGTTAAGCCTTTAAATGTCACTTTAAGCTGTATAGAAGTGTCTTGAAAAATATCTAGTCAAATATTATTTGCTGTCATCATGGCAAAGATAAAATAAATCAGTGATTAGAAATGAGTTAATAAAACTATTATGTTTATAAATGTGCTAAAAAAATCTTCTCTCCGTTAAACGGAAATTGGGGGAGGAAAAACAAGGGGCCTAATAATTCAGGGGGGCTAATAGTTCTGACTTCAACTGTATTTCAGACCCCATTTAAACATACAGTATGCACAGTGCATATTTGCATTTGCTTTCCTTTTAAAAGATAATCTCTTGTGCTCCACATGCACAAGTCTCACAATCCAGCCAACTGTCGTCTGCCCTCGGTGCCCAAGCGACTACTAAAATAGTTCCCTAAATAATACACAGCATAAACATTTTCGCCCACAGGCACGCTGGCACAAAATCTCAAGCCTGGCTCTTCTGGCGCTACAGAAATTAGGCCAATACTGTAAACGAGAGAGATTCACCTTGCCCTGTTGCCTAGACACTGGCGCCGCATACGAACGCCTCTCCGCATAGGAACGCTCCAATGCGTCACACTTTTGATGTCTTCCAGATGCTTACGCATGATTATTTTTAGATGGCGGGGTTGTCATGCAAAGCCAATACAGGCAATTCATTAAACAGGCCTGCAAACGCTGCTGTTTTACAGCTCAATTATCAACCTCTTCAAGTTTAGCGTTAGACTATATACATCACGCTCATATCTCGGGCATCTGTCTCCATTAAAGCCACCGAGGTTCGCTGTCCCACCCAATTAAACGCACGCTTAATCATCCAGACTCTCTTTTGTTTTTTCATCTCAG
Seq C2 exon
GTGATATCATCCGCTATCGATGCCACCCTGGATTCACCCTGGTGGGGAGCGAGATTTTGACGTGCAGGTTAGGAGAACGGCTACAGATGGACGGACACCCCCCATCCTGCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000077920:ENSDART00000108507:42
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=0.000
Domain overlap (PFAM):
C1:
PF0008415=Sushi=PU(34.5=71.4)
A:
NA
C2:
PF0008415=Sushi=PD(63.8=94.9)
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:
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]