BtaINT0080486 @ bosTau6
Intron Retention
Gene
ENSBTAG00000021018 | KHSRP
Description
KH-type splicing regulatory protein [Source:HGNC Symbol;Acc:HGNC:6316]
Coordinates
chr7:19266645-19266966:+
Coord C1 exon
chr7:19266645-19266743
Coord A exon
chr7:19266744-19266863
Coord C2 exon
chr7:19266864-19266966
Length
120 bp
Sequences
Splice sites
5' ss Seq
GACGTGAGT
5' ss Score
9.22
3' ss Seq
TTTGTCCTGTCCGCCCTCAGGTG
3' ss Score
12.8
Exon sequences
Seq C1 exon
CAAGCCTGCGAAATGGTGATGGACATCCTGCGGGAGCGTGACCAGGGTGGCTTTGGAGACCGGAACGAGTATGGGTCCCGGATCGGCGGGGGCATCGAC
Seq A exon
GTGAGTGCAGGCCTCTTGGGTGGATGGAGTGGCAGGGGTGGTGGCTGGCTTGTGGGCAGCAGGGGGACTGCAGACAGTGACAAAACCCAGCTGATCCTCCTTTGTCCTGTCCGCCCTCAG
Seq C2 exon
GTGCCAGTGCCCAGGCATTCTGTGGGTGTGGTCATCGGCCGGAGTGGGGAGATGATCAAGAAGATCCAGAATGACGCTGGTGTTCGGATACAGTTTAAACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021018:ENSBTAT00000027991:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.636 A=NA C2=0.400
Domain overlap (PFAM):
C1:
PF0001324=KH_1=PD(7.7=15.2),PF0001324=KH_1=PU(3.2=6.1)
A:
NA
C2:
PF0001324=KH_1=FE(54.0=100)
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:
CAAGCCTGCGAAATGGTGATG
R:
CTTGTTTAAACTGTATCCGAACACCA
Band lengths:
202-322
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]