BtaINT0080493 @ bosTau6
Intron Retention
Gene
ENSBTAG00000021018 | KHSRP
Description
KH-type splicing regulatory protein [Source:HGNC Symbol;Acc:HGNC:6316]
Coordinates
chr7:19268896-19269279:+
Coord C1 exon
chr7:19268896-19269096
Coord A exon
chr7:19269097-19269201
Coord C2 exon
chr7:19269202-19269279
Length
105 bp
Sequences
Splice sites
5' ss Seq
TCGGTGAGT
5' ss Score
11.11
3' ss Seq
CTCGGGGCCTGCCCCCACAGGCC
3' ss Score
8.2
Exon sequences
Seq C1 exon
ATAAAGCCGCAGCCGCCGCAGCCGACCCCAACGCCGCCTGGGCCGCCTACTACTCACACTACTACCAGCAGCCCCCAGGCCCTGTGCCCGGCCCGGCACCAGCCCCCGCGGCCCCACCCACCCAGGGTGAGCCCCCTCAGCCTCCACCTGCTGGTCAGTCGGACTACACTAAGGCCTGGGAAGAGTATTACAAAAAGATCG
Seq A exon
GTGAGTGCGTGAGCCACCGCAGGAGCTCCAGTCAGCCAGGGAGGGGTGGGCGAGTAGGTGGCCACATCCCCGCCTGTCCTCTGACCTCGGGGCCTGCCCCCACAG
Seq C2 exon
GCCAGCAGCCCCAGCAGCCTGGAGCGCCCCCGCAGCAGGACTACACGAAGGCCTGGGAAGAGTACTACAAGAAGCAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021018:ENSBTAT00000027991:18
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.853 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF090055=DUF1897=PU(77.8=30.9)
A:
NA
C2:
PF090055=DUF1897=PD(18.5=18.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGGGCCGCCTACTACTCAC
R:
CCTGCTTCTTGTAGTACTCTTCCC
Band lengths:
242-347
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]