BtaINT0142627 @ bosTau6
Intron Retention
Gene
ENSBTAG00000004140 | STKLD1
Description
serine/threonine kinase-like domain containing 1 [Source:HGNC Symbol;Acc:HGNC:28669]
Coordinates
chr11:104349342-104351042:+
Coord C1 exon
chr11:104349342-104349457
Coord A exon
chr11:104349458-104350923
Coord C2 exon
chr11:104350924-104351042
Length
1466 bp
Sequences
Splice sites
5' ss Seq
AAGGTGGCT
5' ss Score
2.88
3' ss Seq
CACCTTGCTCCTGCCAACAGACC
3' ss Score
8.86
Exon sequences
Seq C1 exon
GAACCTCAAGCCCTCCAACATCGCCCTCGTCAGCAACGCCCACTGCAAACTGCAGGACCTGAGCTCCAACACGCTCATGACCGACAAGGCCAAGTGGAACGTCCGGGCAGAGGAAG
Seq A exon
GTGGCTGGCCACCCCGGCCGGGGGCAGCGGTGGCTGGGAGCAGTGGGGGCCGTCCCCTCGAGGGGGGTCCAAGGGCAGGGGCCGCTCTAGCAGCTGGAACAGGGCAACAGCAAAACTCCCCTTGCTCAGAAGGTCCCCAGAGACCGCCCCCCCACCCCAGACTTCTGTGGACTCCACAGAGACCCCCTTGCCTGGGCTGTAACCGAGCAGGGTGCAACCACAGGGGGGTGGTGCACATGCAGGGTCCAGAAGACACTCAGAAAATGCTCCCCTTCACGGAGGGGGAGGGAGGTCTCCAAAGGAAGGAAGGGGAGGGAAGCGCGGGGAGGGCTGGTGGACGCCGGGCACTAGCTTGGGTTGTGTTTATTTATATGTGGCCGTGCGGGGTCTTCATCGCTGCACAGGCTTCCTCTAGTTCCAGACGGGGGTGCTGCTCTCTAGATGCGGTGCGCCGGCTTCTCACTGCGGGGGCTTCTCTTGTTGCGGAGCACGGGCTCTAGGCACACGGGCTTCAGCTGTTGTGGCCTGCGGGCCCTGGAGCACGCAGGCTTCACGAGCTGCAACTCGCAGGCTCCGGAACTCGGGCTCTGTAGTTGTGGTACCCAGGCGTGGTTGCTCTGCAGCCTGTGGGGTCTTCCCGGACCAGAAATTGAACCAGTATCCCCCGCACTGGCAGGCGAGTTCTTATCCACTGCACCACCAGGGAAGCCCCTCGGGTTGGATTTCTTTACTGAGCCTCAGAGTAACCCAGGAGATGGTAGAGGTGAGGAGTCAGAGAGATGTTTCCATCCTCTGAAAAGACCACAGGGCAAAGGGAGCTGGGCTTCAAGCCTAACAGCCATCAGGGCGGTGAGAGGAGAGGGCGGCTCTCCATGGGAGAACGGCAGAGTCCTGGGCTGGCAGGTGCTGGTGGCATGCTGCCCATGGTGAACAGGTGAACCGGTGGGTGGGTGGATGGACATGCAGACAAGTGGACAGGTGGATGGACGGGTGGGTGGGCGGGCAGGTGCGTGGATGGGCCGGTCTGCTGGCAGTGTAAATGGCAGGGGTCCTTGGGCCCCACTTTGTCTGGGCAGTGGGGGTCCAGAAAGGCAGGGGTGCCCAAGGTGGGTCAGGCCCTGAGCCAGACAGGGACCCCATTTGGGCTTCCAGTTGAGAAACTGGAAAGGGACCTAGAGCTTTGTCTGGAGGTCCTGACACGCAGAGGTGATGCTGAGTGAGCGCACGGTCTCAGCCTTCCTGGAGACGCCCCGTCCGAACGTTCCGGCAGCCACCGGGGGACTCAGGGGTGCACACGGCCAGCCTGGTGGGCCCCAGCCTCACGGGCCAGGATCTTACTGGCCTGGGGCCTCAGACAGCGTGTCTCTCCCTCCCCCGAGGAGAGTGACCAAGGGCCCATTTTCAAGCTGCTTGCTTCCCTGAGGAGCACAGGACTTACGTATGGCCCACCTTGCTCCTGCCAACAG
Seq C2 exon
ACCCCCTCCAGAAGTCCTGGATGGCGCCCGAAGCCCTCAGTTTCTCCTTCAGCCAGAAATCTGACATCTGGTCCCTGGGGTGCATCGTCTTGGACATGGCCAGCTGCTCCTTCCTGGAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000004140:ENSBTAT00000005418:6
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(14.5=100)
A:
NA
C2:
PF0006920=Pkinase=FE(14.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
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:
AACCTCAAGCCCTCCAACATC
R:
TCCAGGAAGGAGCAGCTGG
Band lengths:
233-1699
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development