BtaINT0038833 @ bosTau6
Intron Retention
Gene
ENSBTAG00000019781 | CLASP1
Description
cytoplasmic linker associated protein 1 [Source:HGNC Symbol;Acc:HGNC:17088]
Coordinates
chr2:73597348-73598514:-
Coord C1 exon
chr2:73598369-73598514
Coord A exon
chr2:73597484-73598368
Coord C2 exon
chr2:73597348-73597483
Length
885 bp
Sequences
Splice sites
5' ss Seq
GGGGTAAGG
5' ss Score
8.05
3' ss Seq
GTGTTCATTTCTCATTGCAGGCA
3' ss Score
10.27
Exon sequences
Seq C1 exon
CTAAAAAAGATTAGATCTTTACTCTTGGCTGGTGCTGCCGAGTATGATAACTTCTTCCAGCACTTACGGCTTTTGGACGGAGCCTTTAAACTGTCCGCTAAGGATCTACGGTCTCAGGTAGTGCGGGAGGCTTGTATCACGCTGGG
Seq A exon
GTAAGGACTACGACGCTCCCGGTTCTCACGTAATAAAGTAGCTGTGTCACAGAGCTTCAGAGATGGGTCACAGAATAATACGTCCACTGGGATGTATATAATATAATACATATTATATAATATGTGTTATTATATATATGATAAATATTATATAATAAATAATACACATGCCTGTCGCCTGGTCTCCAAGACTGATTCCATTTACACCCTGTTAGTACTTTTATAGTGTTTCCTGACCAGTTATGTTATTGACAGAGGGGATCTTTGCAAAAAATTAACACCTGTGGCATCAGTAGTACATCTCTGGTCGATAATGTGTTGTGTGACAGATTTTAAATTTTACTCAGTGACTTAGCTCTGAAGCCTCTGTTTTAAACTTGAAACAATTATTAATAATATGGAAAAATGAAATCTTATAAACTTCTGTTCTCAGCCTTTTCATTGATTTTGCTGGCAGAATATAGCACAATCAATAGAATTTTTGTTTGTTCCTATTGAATTCAATAGAAGAGTGGCTTTGCAGCTGTTCAAAATTTTGACCTCAGATATTGAAGCCTGAATGTTATATGCTGAAAATAAAAGAGCAAAAGAAAAAAAAGAGGCTGAGGGTGCTTTGTAATATTTATGTTTTATTAGTATTTATTTTTTGCTATTTGAAGAGTAATTAGTGGGAAATGATTTATTTGTTTATTTTTTAAAAAGCAGTTCTTGGTGAGTGGCTATATGTAAAGTCCTCTGCATGTGCTTGGGGAATATTTGTATTTTACTTAGACTTGTTTTTATCCTTAGATGACTTTATACAAAGGCTCTAAAATGTTAAAAGATTTATATATTACACTGTTTCCAAGAACTTTGGTTCAGTCCAGTGTTCATTTCTCATTGCAG
Seq C2 exon
GCATCTGTCATCAGTGCTGGGGAATAAGTTTGACCATGGAGCTGAAGCCATTATGCCAACTATCTTTAATTTAATTCCAAATAGTGCCAAAATTATGGCCACCTCTGGTGTTGTAGCTGTTAGGTTAATCATCCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000019781:ENSBTAT00000065657:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (disopred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF123483=CLASP_N=FE(22.0=100)
A:
NA
C2:
PF123483=CLASP_N=FE(20.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGATCTTTACTCTTGGCTGGTGC
R:
CCGGATGATTAACCTAACAGCT
Band lengths:
270-1155
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]