BtaINT0044556 @ bosTau6
Intron Retention
Gene
ENSBTAG00000005784 | CSMD2
Description
CUB and Sushi multiple domains 2 [Source:HGNC Symbol;Acc:HGNC:19290]
Coordinates
chr3:112876188-112880670:+
Coord C1 exon
chr3:112876188-112876370
Coord A exon
chr3:112876371-112880493
Coord C2 exon
chr3:112880494-112880670
Length
4123 bp
Sequences
Splice sites
5' ss Seq
GAGGTAATG
5' ss Score
8.73
3' ss Seq
GTGTTCTTTCGGCTTCCTAGTGA
3' ss Score
7.09
Exon sequences
Seq C1 exon
GAACCAGCATAGGAGTCTGTGGTGACCCTGGCATCCCAGCCCACGGCATCCGTCTGGGGGACAGCTTTGCCCCGGGCAGCCTAATGCGCTTCAGCTGTGAAGCTGGCCACGTGCTCCGAGGGTCATCAGAGCGAACTTGTCAAGCCAACGGCTTGTGGAGCGGCGTGCAGCCTGAGTGTGGAG
Seq A exon
GTAATGTATGTGACCATTCTGCTTCTCCCCTTTGCCTGCCCCAAGGTGTTCCCCTGTTTTCCTACTCCCTACTGCCTGCCCTCACCCACACAGATAAAATCAAAGGCTCCATTTAAACCCTTAGCCAGGTGGAGAGTGGACATCAACAGAGAGTTCACGTTCATCTCATTAGTAATCCAAGGGCAAACATATTCCCCACCCTAACCTCAGAAGGGAAGATACCAGGATAAACTTAAGTTTTGCAGATTTGTTCACTTGTTTCCATATAGCTTCATTCAACAACCATGTGCCAAATGATACTAGAGACACAATGGTAGCCGAGCCAGACACACCTTCCCCTCTGGAGCTTACAGTTTAAGATTAAACGAACATCCAAAGTGCCAAAAAAAAAATACAAAATCCAATTTTACAAATCACTTTAAAAGTAATATAAGCCCTTAATGATGGTTCCTGGGATGGCCTCAGTGGGGGAAGAGGAAAGACACACTATACAGTCATCATCTAGCAAGGGGGAAGTGGGAATGGAATAGAGAAACAGGGAAATATATAATGACCAGGTGGCAGCACCAAGGGCTCCTTAAGGTAAGAGCCATTAACTTAAAGTGACGGTCAGCCTTAGTCTGGGTTTTTGTTCAAGCACATTTTGCTACATAGTCTCAGACACAGGGTGGGTGAAGCATTACGTGTAATTAGGGTTTTACTAGGTAACCAGTAATTAAGCATAGGTGACTAAGGCATAAAGAAAGTGGCAAGGGAGATAAGGGTAGATACAAAGCAGTGATTGCCATGGGTGTTAGCATCTAGGCTGGGGAAGGAGGGAATAGGTTCATGGTGGAGTAAGAGGCTATGAAAAGGTGACAAGATCATTGGATTATAGGTCCCAATCACCAGGAAACAAATTCCAGAGGGAGTGAGCTAAAGAAATAAACGGCAGTGGTTAGAGGATGGGCTGCATGGACTTGAGATCACAGCATGGTCCTGCAGGGGAGATGCTCTGGCCCATGTTTGGGGACACCTGCCCAGGAAATGACACAGGTGGGGTCAGTGCCCTCTCCCACTTGTCTGTCCAAAGTCCTGCCTTTCTGGGGGTGCAAAGTTAGTTTTTATAGGATTTTATAGGCATGGTAAGAGGCATAGTAAGCTTGTGGTCATGAGTGTATTGGCAAGGAAAGAATTTACCATATTCTCACATATCCACTGTGATCAAGTTCCCTTTCTTGCCACCCAGACCCCAGGATGGAGTCAGTCACCATGTCAGGAGGGTTCAGGGAACAGAAAGTAGGTGGCTAAGAGTTTCAGCCTGGAAGCAAGTATTTGTTGAATGACTGTTGTGTGTGTGTGTGTGTAACATGTACACAACTCTTACTGACTTCCCTTGATAAGCTCCCAGTTACCTTTCAAGGTTCTACTCAAATTCTTATCTCCAGCCGCAGTAAGCCACTCACTTCTTAGTGCTTTTTTCCTTCAAGTGTAGCACTTGTCACATCATATTTTAATTCATCTGTTTATAGGTAGGTTCTTAAGATAGACTGGGCTCCTCAAAGGCAGGGGTCATGGCTCGGTCATCACTGCATTTCTGGTACCTAGGAAGCACAAATACTTGTTGAGTGGATGGGTATTAGGGACTATCTGATCTACAAAATGATTCTTGTCATTTGGGGATAATTTGGGGACTTTGGGACCATGTAAATGTCATAAATACTTACAAAATAAAATTAAATGAAAAATTAGAAACAAGTAATCTCTATCAAAAATCAAAATGGAAACAAATGAACTTAACTATGTGTCAAGCTGGTGATTTAATAACCCAGAGAATTATTTCAGTTGACTTGAAAAAATGAAATTTGAATATGGTATATATATCCTAAGGACAAAGAACTGCAATGAAATCTTAAACTGGTTATAAAACTGTATGGTTTTAGCAATCATATTGCTGGTGGTCAAATTGGAGTGAAAATTCTGAAACTATTACATATATAATACCATACTCTATATGGATAAAGCAAGTTAAAATTATTTATTGTCATTAAGAACCAAGATTTTAAAATAAAAGATGAAAAAGTTAAGGAAAAATTCTTAATTCTAAACTTGGCTTTGTAATATCAGTATAAACTCATAATGTATTTTCAGTTTGAAAAGTTATTTTCCCAATCTAAAAGTCTAGAATCAATGACCAGCTCCATAGCAATGAGTACCCTTAATGCCCAGACTGTAGGTTTTAAACCCATTGTCCATTAAAAGGAACCAGAGCTGTTTAGGGAAATGGCTGATTCCAGGACTGGGGCAGGAAACACACAAAATTAACATGGAAACTCTGTCACTCCAGCAAGGAATCTGCCAAACACAACTGGGTCATGTCAGAGGAACTCAGGAGCCAACTTGACAGGGTTTCCATTAGTCAGAGATGGAATAATTTGAATGTCAATAAAAATAAAAGTGACAACAGAAGGCAACATAACAAATAAACTTAAATCTGTGAATTTAAATGATTGTCCTTTGGAGCTTGCTAGGGAACCAACTAATTAGCCTCATATATGATGTTTTTTTTTTTAATCAAGCATTAGTCCAACCTTCCTGTGTGAACTCTATTTCAGGGTAAGCAAATATTTGATGATGGGCAAGTTCTTTATTAAAGAACCCGAGCTAAAGCAGAAAGAATTGTGGAATTGATCAACAGGGATCTACTGTATAGCACAGGAAACTCTGCTCAATATTATGTGGCAACCTAAGTGGGAAAAAACTTGAAAAAGAATAGATACATGTGTATAAATAACTGAATAACTGTGCTTTACACCTGAAACTCTCACAACATTGACAATCAACTATACTCCAATATAAAATAAAAAGTTAAAAAAATAATTTTAAATTTTTTAATTTAAAAAGAATTATAGAATTAAAATTATACCATTTCTTTTTTTTAATTTAAATTTATTTATTTTAATTGGAGGCTAATTACTTTACAATATTGTATTGGTTTTGCCATACATCAACATGCATCTGCCACGGGTGTACATGTGTTTCCCATCCTGAACCCCCCTCCCACCTCCCTCCCCGTACCATCCCTCTGGGTCATCCCAGTGCACCAGCCCCAAGCATCCTGTATCCTGCATGGAACCTGGACTGGCGATTTGTTTCTTATATGATATTATACATGTTTCAATGCCATTCTCCCAAATCATCCCCGCCCCCCTCGCCACAGAGTCCAAAAGACTGTTCTATATATCTGTGTCTCTTTTGCTGTCTCGCATACAGGGTTATCATTACCATCTTTCCAAATTCCATATATATGCATTAGTATACTGTATTGGTGTTTTTCTTTCTGGCTTACTTCACTCTGTATAATAGGCTCCAGTTTCCATTTCTATCCCCTAATGAATCTGGTCAACTATATTTACTTTCTATTGAAACCATTAAATGGCAACTAATAGGAGCTTAATAATGCCAGATAAGGCAGGCAGACGTGACCCACTGAGCATCCTCAGCATCACTAACAAGGAGGCAACCAGACATTCTGTGCCTCTAATGTATGTGATAAGAAAAACACAAAACCACGTACCAAGTACCTTTGTCAAGAAGTAGAACTTGACTGTGGTAATGACAGAGGAGCATACTGAACAGTGCCTCGTTCTCCACGTTAGTAAACTCCAGGAAGTGGGAAGTTCTACCAGTTAAATGCCCTGATTTCTGTGACAGATAAATTATAGGAGAGGGTAATCCAGTAACCTCTGGATTCAGAGAGTCTTAGAGACATGCCAATCAAATGTCATGCATGGACCTTCATGATTCAAACAAATCAACTCTTAAAAAAGAGATACAGACAGAGTCTTGAGGAAAACTAAGCACTGCTTGGCTATTTGGTGATATGAAGGAATCGTTTAAAATTTTAGGTGTGATAACAAAACAGACATGGTCTTTAATTTTTAGAAATCTTAAAAAAATCCCTCCAGGTCTCTGCCCCCCTTCTGAGGGTAAGATGATCAGACACGGGAGCATCCCAAGAGGGATGCTTTCAATCACAGGCTCCTGATGTAACCTGTGGCCTCCACTCTGGGCAGGACTTAGACTAACCCCGGGGGGTGCCTGCCCTTGTTCTGATGAATAATGTGTTCTTTCGGCTTCCTAG
Seq C2 exon
TGATCTCTTGCGGGAATCCTGGGACTCCAAGCAATGCCAGAGTCCTGTTCAGTGACGGCCTGGTTTTCTCCAGCTCCATCGTCTACGAGTGTCGGGAAGGCTACTATGCCACAGGCCTACTTAGCCGGCACTGCTCGGTCAATGGCACCTGGACGGGCAGTGATCCGGAGTGCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000005784:ENSBTAT00000007609:63
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=WD(100=87.1)
A:
NA
C2:
PF0008415=Sushi=WD(100=91.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
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]