BtaINT0080487 @ bosTau6
Intron Retention
Gene
ENSBTAG00000021018 | KHSRP
Description
KH-type splicing regulatory protein [Source:HGNC Symbol;Acc:HGNC:6316]
Coordinates
chr7:19266864-19267629:+
Coord C1 exon
chr7:19266864-19266966
Coord A exon
chr7:19266967-19267528
Coord C2 exon
chr7:19267529-19267629
Length
562 bp
Sequences
Splice sites
5' ss Seq
AAGGTCAGG
5' ss Score
6.23
3' ss Seq
GCTCTCCTGTGCTGCCTCAGACG
3' ss Score
6.49
Exon sequences
Seq C1 exon
GTGCCAGTGCCCAGGCATTCTGTGGGTGTGGTCATCGGCCGGAGTGGGGAGATGATCAAGAAGATCCAGAATGACGCTGGTGTTCGGATACAGTTTAAACAAG
Seq A exon
GTCAGGGGCTAGCTGGGATCTGCTGAGACGCACTGTTGGGGTCCAAGGTGGGCAGCTTGGCAATGGAGTTAGCATCTGCAGTGCCTCATTACTCCTAGACCTGCAGAACATGCCTGTTCCCTGCTCTGGAGCAGCCCTGTAAGAAAGTGAATGACAGGCAGGCTTCCCTGGTTGAAGAGAGGTGTGTGTTCCTCTCTTGTCAAGCTGTCCTCTCATGGGCTCTCCTGACAGGCCACCTGGGCCCCTGGGTGAGGTTAGCTCTTGAGGCCCCAGCCATGGGCTTCTGTCCAGTCCCAGTGGTTTTGGGGGGAGGACAGACTCCCCCGTGCTTTTTGAGAGATTTGTTGTCAGTTCTTGGTTCTGCCAAGTGCATCTGCTAGTTCTGGGGGCACCAAGTGCAGGAGGGATCCTCATCTGCTCCTGAACACGTGAAAGGCGGCCAGTGGCACTTTGACATGTTCCAAACATGGCTCGGGCTGGCGACCGCCATGAAGCAGCAATGTTGGGGGTTCGGAGTTGTGCGTCTCTTGTAACTGTTTTTTGCTCTCCTGTGCTGCCTCAG
Seq C2 exon
ACGATGGGACGGGTCCTGAGAAGATAGCACACATCATGGGACCCCCAGACCGGTGTGAGCACGCCGCGCGGATTATCAACGATCTCCTCCAGAGCCTCAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021018:ENSBTAT00000027991:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.400 A=NA C2=0.676
Domain overlap (PFAM):
C1:
PF0001324=KH_1=FE(54.0=100)
A:
NA
C2:
PF0001324=KH_1=PD(39.7=73.5)
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:
GCATTCTGTGGGTGTGGTCAT
R:
CCTGAGGCTCTGGAGGAGATC
Band lengths:
190-752
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]