BtaINT0080494 @ bosTau6
Intron Retention
Gene
ENSBTAG00000021018 | KHSRP
Description
KH-type splicing regulatory protein [Source:HGNC Symbol;Acc:HGNC:6316]
Coordinates
chr7:19269202-19269635:+
Coord C1 exon
chr7:19269202-19269279
Coord A exon
chr7:19269280-19269357
Coord C2 exon
chr7:19269358-19269635
Length
78 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGC
5' ss Score
7.75
3' ss Seq
CACCCTCTGCTCCCCCACAGCTC
3' ss Score
10.57
Exon sequences
Seq C1 exon
GCCAGCAGCCCCAGCAGCCTGGAGCGCCCCCGCAGCAGGACTACACGAAGGCCTGGGAAGAGTACTACAAGAAGCAGG
Seq A exon
GTGAGCCGGCGGGCCACAGGGGTGGGACCAGGTGTGCTGGCCTCCTGGTCCGCTCACCCACCCTCTGCTCCCCCACAG
Seq C2 exon
CTCAAGTGGCCACCGGAGGGGGTCCAGGAGCACCCCCGGGTTCCCAGCCAGACTACAGTGCTGCCTGGGCTGAATATTACAGACAGCAAGCCGCTTACTACGGACAGACTCCAGGTCCCGGCGGCCCCCAGCCTCCACCCACACAGCAGGGACAGCAGCAGGCAAGTGGGAATTGCCACCCTCCTCCTCCTCCTTTCTCCTTCCAACCCCCGGCCACCGTCCATCCTGCCTTAGTGGGTAGCGCCGGAAACCCCTTCCCCTGCGGGGTGTGTCCTTGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021018:ENSBTAT00000027991:19
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.804
Domain overlap (PFAM):
C1:
PF090055=DUF1897=PD(18.5=18.5)
A:
NA
C2:
PF090055=DUF1897=WD(100=32.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGCAGCAGGACTACACGAAG
R:
CGGGACCTGGAGTCTGTCC
Band lengths:
168-246
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]