BtaINT0142619 @ bosTau6
Intron Retention
Gene
ENSBTAG00000004140 | STKLD1
Description
serine/threonine kinase-like domain containing 1 [Source:HGNC Symbol;Acc:HGNC:28669]
Coordinates
chr11:104356991-104357319:+
Coord C1 exon
chr11:104356991-104357119
Coord A exon
chr11:104357120-104357190
Coord C2 exon
chr11:104357191-104357319
Length
71 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGC
5' ss Score
7.23
3' ss Seq
GCGTGCTGGCCCCTCCACAGGCT
3' ss Score
7.13
Exon sequences
Seq C1 exon
CTATCATTGTGAACAAGGCCCCCTTGGAGAGAGCCCCGGCTCTCGTCACCGAGATACTGGTCACGTTCCCCAGGGACGCGGAGGTGGCTGAAGCTGGCTGTGCGGTTCTGTGGCTGCTGTCCTTGCTGG
Seq A exon
GTGAGCAGCTGGGGGCCCAGGGCTGGAGAGCTGGCCGGGCCCTGGACACAGGCGTGCTGGCCCCTCCACAG
Seq C2 exon
GCTGCATCCGGGAGCAGGAGTGTGCGGAGGTGGTGGACCTGCTCCTGCAGAGCGTACGGCTGTACCAGGACCGAGTCCTGCTGGTGAACAACGCCTACCGCGGGCTGGCCAGCCTCGCCAAGGTGTCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000004140:ENSBTAT00000005418:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCACCGAGATACTGGTCACGT
R:
GTTGTTCACCAGCAGGACTCG
Band lengths:
176-247
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development