BtaINT0044508 @ bosTau6
Intron Retention
Gene
ENSBTAG00000005784 | CSMD2
Description
CUB and Sushi multiple domains 2 [Source:HGNC Symbol;Acc:HGNC:19290]
Coordinates
chr3:112655959-112660604:+
Coord C1 exon
chr3:112655959-112656285
Coord A exon
chr3:112656286-112660409
Coord C2 exon
chr3:112660410-112660604
Length
4124 bp
Sequences
Splice sites
5' ss Seq
CCAGTGAGT
5' ss Score
8.28
3' ss Seq
CTTGACTTTCCTCCGCACAGCCT
3' ss Score
6.53
Exon sequences
Seq C1 exon
TTTCCTGCTTCTTCAACTTCACCAGCCCTTCTGGGATCGTCCTGTCGCCCAACTACCCAGAGGACTACGGCAACCACCTCCACTGTGTCTGGCTCATCCTCGCCCGGCCCGAGAGCCGCATCCACTTGGCCTTCAATGACATCGACGTGGAGCCTCAGTTTGACTTCCTGGTCATCAAGGATGGGGCCACGGCTGAGGCCCCCGTCCTGGGCACCTTCTCAGGAAACCAGCTCCCCTCTTCCATCACCAGCAGTGGCCACGTGGCCCGTCTCGAGTTCCAGACTGACCACTCCACGGGGAAGAGAGGCTTCAACATCACCTTTACCA
Seq A exon
GTGAGTCTGCCCTGTGGCCCCCACTGACTGTCCCTCTGAGGATGTCCAGTGCAGGGCACAGGCCAGTGGTGGTGTGGGTGGACCAGTTTCAAGGACTGCAGAGCCAGGCATGGGGCTCCAGCATGACAGGAAAAACAGAAGGCACTCTTTTTTGTGGCTTCACTCATTTTTGAGCCTTTATTTCTAATAGATGCGTCATGTAATGTGAAAGGAGCCTGGGGCCCCATTTCTCCTCCCCACCCTCCCCCTCCTAGAAGGCCCAGCTAGAATCAGGAAGGGCCCTGCCGTCCTCCTCTGGTTACTGACGCCTCTCTGCTGTGCTCTTCCAAGCCCTTGGATGCCTTCTCACTGCTGACTTCATGTATCCCCCATGAGGCCGCTCACGCTTTGTTTTGCCAATTCCTATCCCTACAGTCAAATCAGAAACAAGGGTCTGGAACAGTGTTTCTGTTTGACTCTGAGACTCATTTGAGCCTGCTTTGGGGTCATTTCCTCCCGGCCCCAGTCCCAAAGTTGTCACCTCTGGTTTTAACCCTGGGCCCCTTCTCTAGAAGCAAACTGAAGCAGTGATTCTTGTCATTTCTGTGTCTCAGGGGGTTGTAGAGAGGGTTAGGGGTGAAGGCAGAAGTTTGGATGCTGGAAACAGCAAGCTGCCAAAGGTAGCAAGAGGCACTGAGCAGGGTAGAATCAGCTACAGACCCGATGAACTTGGCCGACGGAAAATTGTCAGAAGGAGCTGAAGCTGGGTCCCCCTGGGCAATTAACCAGATCCTTTCCCAGAGGTTGCTTATGAAATGCAAGTCCCCAAGCAAGCCCTGCCCCAGGCACACAGGACACCCAGAGCTGGTCCCTTTGGCACTTCCTAATAGAACTTATCTCCACCCAGCCCCACTTGGCACAGAGGTCTTGCTTCCTTGTCCCACCCGTCCCCAGGGTCTAGCTGAGCTGAAGACCCCAGGTGCCAAGTGGGGGTCTTTGGAGACCCGAGATTCCAAGGGACCACTGAAGCTAGAATGCTTCTCTGATGTTTCCCTCAACACCTTCCTCGGGACACTGGACTGGATTAGAAACAGTCCGTCTTCCCAGGGGCACCTCTCCCAGGGTGCTCTTCTTCCCATCACCTGTGAGCAGGAGGAAACGCAGCCCAGTCCTGCCTTCCCCAGTCTTCACAGTCTAGCGCTGCAGCACTGGCTTTAGACAATCTGTCGTCATCCCCACTTTCCCATGAGATCATGAGCTCTGGAAAGATGGGGATACGCATTACTTATCTCTCTCTCCCTTCTGCCCAGTGCAGGGTCTGGTAGGTCATGAGGATCAGTAAATGTTTATTGAGTGGAAAGATTCATGAATGGCTAAATGATCTTTCCTCCCCTTGGTGGGAGTGGGAAGAGGAGTAAGAGCCATCCCAGGGAAGCCTGCTTATCCATGATGGGGAGGACCAAGGACCCTACAAGCTCAAAGCAGTATGGGTATACTGATGGAGGACCTGGGGGAAAAAAAAATCTCATAGTCTCCAAGGAAAACCAAATCCTAGTAGGTCCCCACTTTCCAGGAGAGAAGCAAATGCTGAGTTCTTGGGAGAAAGAGGCAGAAAGCCGCAAACCTAACCTGAGGATCAAACTCTCACCCTGCATTCCTCTCTAATATTCTTCCATCATGTAAAAGTGATACACATCCGATATGTCAATAGTCAAAAACAGGCCAGTTCAAGGAAGAAGTGCTGACCTCCACCTCAGATCCCCCTCCGCCAGAGATGAACACTATTACAAACATCAGATAATTTTCTGTGCATTTACACAGATAGAGCTGGATTGTTGTTTTTCAGTCCCTGAGTCGTGTCTGATTCTTTGTGACCCCATGGACTGCAGCATACCAGACTTCCCTATCTTTCACTATTTCCCAGAGTTTGCTCAAACTCATGTCCATTGAGTCGGTGATGCCATCCAACCATCTCATCCTGTCGTCCCCTTCTCCTCCCATCCTCAGTCTTTCGCAGCATGAGGGCATTTTTCCAGTGAGTCAGCTTTTCACATCAGGTGGCCAAAGTATTGGAGTTTCAGCCTCAACATCAGTCCTTTCGACGAATATTAAGGGTTGGTTTTGTTTAGGATGGACTGGTTTGGTTTCCTTACTGTCCAAGGGAAAAATCTGGGCCCCATTCTAGCCCTGCTGAGTCAAAATGTCTAAGGAAGGAGGCCCTAGAATCTACAGTTTTTACAAGCTTCTGAGATGGTTCTGTTGCAGCTAGTGCAACCACAGTCGTGGGCAAATGTTCACGAACTGGTATAGTCTCCCCCACAGCGTGTGCGTCTCCTTGGCCACGTCCCAACCGACAATCATCTGGGCAGAGTTGGAATGTGCCCAGTGTCAGGAAGCTCCTCACCCCCAGACAGCACTCTCCACAGCTGGACAGCTCTCGGGCTTCCCTTCACGCTAACATGAAATCCGTGTCCCTGTAACAAGGCTCAGAGATCCCACTTCCACCGCCAGAGCTCCTTAGAGTAAACTGACTCTTCTTCCACGTGGAGAGTTTTGAACGCTGATGACAGTGACTGCTGTTTACTGAGCATCCTGCAGGCATCACACCCAGCCCCACGACATCAGCTTCCTAGGTTAAGATCCATCCCCTTTCACCTGCCAGGGAGCTGAGATTGAAACAGGACGCAGGTAAAACTGGGAAGTACTTAAATCTTTGACTTAGAGCATTTGCTCTGAGACATTGGAGATAGCTCCATATCCCTATGCAGTGTGAACATGTGTGTGTGTGTGTGTGTGTGACTGATAGGGTTCTGAGTAGACAAATGTCTGGACTTTTGGGCCCCATGCACCACTTTTCTTCCCAGCCCTTTTTTCTAAATGTCAGGGCAAGCTCATGGTCACAGTTCCTGATAAGCAAAGTTTGGGAGACAGAAGTCTAGGTTGACTTAAATTGCATTTCAGAGGGAAGGGGGACTGCATCGGGGCTCAGCAGGGATCTCATGGTCATCTCCATGTCAGATGCTCCTGCGGCCCAGCCACAGTAGGAAGGATCGCCAGCTTTGCCTCCAGCTAGATGATCTGACAGCTTCCATGGCTGCTTCTGTTTCTGACTGTGCAAGTGTTTCAGTCACTAGGGAATCTCAGAGGGCTCCACACTGAGTTCTTTAAAATAGCCCATGTCTACGCAGCCGTGGAGCCTGGTCTTCACTGGAAAGCCACTCTCCTTAAAACAGCCAGGATGCAAATAGGGTGTAGCCTCAGACTTGACTATGAGAACTGGGCACCCCTGATGGAGGAAGGTGGGGAACAGGAAGAAAGAAGGGAACCCAGACTTAAAGAGGACTCACCACCTGTCATGCGCTGCACCCAGCATTCTCCACTTGCAAATTCAAACCAACTTTCATGTTATTGCTATCTCAGAATGACCCGACCTGTGAACTATGATCTCTATTTTATAGGTCAGGAAACAGAGGCTCAGAAAGATGACATCAGTTGCCCAGAACCATGTAACTAATAAGAGGCAGAACTTGATTAAACCCACAAGTGTTCTGACTCTTTCCTCTCCACCCGCCAACTGTATGATCAACCACGTGGGTGGAGTGAGAGGCGGCCTGAGGCAAGAAAGTGAAGGGAATGGCTTCAGACAGGGTTGATCCCAGGGCACGTGAGGTACCCGATGTCTATTACTGTCACAGGATTTAGAGTCCAGCTCCCCTGCAACATAAGTGATCCCCTGTCTGAATTTAGGGGCCCATAGAATGGATTTGACATTGAGGACACAGATCTACTCCTTTACCATGTTGAGCCTCAGTTTCTTCATCTGTAAAGTGGGGTGATAATACCCATTTCACAGAATCGATATTTGATATTGATGAGCTGACAGGACAAACAGCCCGCTGCCTGACCTATAAATGTGCTTTAGAATGAGGTTGGACTAGATGCTCAGGGAAGAAGGACATCGAGTTCAACAAGACCTGCTTTACGCTCAGTGTGGCTTAGGGCAGACAGCTCTCCCCACAGCATGCCGGTCCCTTGGGAAAGCGGGGGAAGTCTAGGATTGGCCTTCATACTGAAGCTTCTTTTGGTTGGGAGTCCATCTGCACACCAGCTCTGTCTAATCACGTCCTTGACTTTCCTCCGCACAG
Seq C2 exon
CCTTCCGACACAATGAGTGCCCCGATCCTGGCGTCCCAGTGAATGGCAAGCGGTTCGGTGACAGCCTCCAGCTGGGCAGCTCCATCTCTTTCCTCTGCGACGAAGGCTTCCTCGGGACTCAGGGCTCGGAGACCATCACCTGTGTCCTGAAGGAGGGCAGTGTGGTCTGGAACAGCGCGGTGCTACGGTGCGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000005784:ENSBTAT00000007609:18
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:
PF0043115=CUB=WD(100=96.4)
A:
NA
C2:
PF0008415=Sushi=WD(100=87.9)
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]