BtaINT0142629 @ bosTau6
Intron Retention
Gene
ENSBTAG00000004140 | STKLD1
Description
serine/threonine kinase-like domain containing 1 [Source:HGNC Symbol;Acc:HGNC:28669]
Coordinates
chr11:104351500-104352275:+
Coord C1 exon
chr11:104351500-104351660
Coord A exon
chr11:104351661-104352144
Coord C2 exon
chr11:104352145-104352275
Length
484 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
AGCTCTCTGCCCCTCCCCAGGGA
3' ss Score
9.02
Exon sequences
Seq C1 exon
ACGCTGGAAGCCATGCACCTGCGCAAGTCCATTCGGAGCTCCCCCGCCAGCCTGAGCGGCGTCCTGCGGACCATGGAGGAGAAGGTCCCCGACGCGAAAACCTTCCAGGCCCTCTTGCCTCTGATGCTCCAGGCCGACCCCGCGGAGCGAGTCACCGTCAG
Seq A exon
GTGAGCTCAGGCTCCGGGGTCCCATCTCACTCTTGTCTGCCACCGTCTTCCCCTCTCAATCTCTCAGCGGCCACTTGGGGTTTCAATGCCACAAAGTGCTCCATCCACGGACAATGGCTCCTCTGAGCTGGGCCGTCCCAAGCTGCGGCCGCGTCTCTGAGCCCTGGCCCGACAGGGGCCACGGCCCCGGGCGCAGGAGCGTGTTTGAATTCTAACGTATTTTAAAGTCAGAAGAACAACACGATCCATTCTGCGTTCTGTTCACCTTTACTGCAACACAGCCGGGAATTCTTTTTTTTTTTCAGTCTACGTTATGTAGGGAGGGGTCCACGAGGGTGCGAGCGCTGGGTCCCTCCTGGACGGGACGTGCCGGGGCGCCTGCTGTGAGAGGTGCTTGAGAAGTGGGCGCCCACAAAGGTGGGGGCCACGCGGCTGCCGGCAAGTGGGGCGCGGGCACAGGCGGCAGCTCTCTGCCCCTCCCCAG
Seq C2 exon
GGACGTGATTCACTTCACCTTCGTGCGCAGCAACTTCCGGTCCTCCAGCCTCGCCCTGGTTCTGCGCCGGCAGGTGGTGCCCGAGTTCATCATTGACATGCTGCTCGAGAGCAACGTGGCCAGCATCTTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000004140:ENSBTAT00000005418:8
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:
PF0006920=Pkinase=FE(19.7=100)
A:
NA
C2:
PF0006920=Pkinase=PD(3.0=17.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGGAAGCCATGCACCTGC
R:
CGAAGATGCTGGCCACGTT
Band lengths:
289-773
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development