BtaINT0142620 @ bosTau6
Intron Retention
Gene
ENSBTAG00000004140 | STKLD1
Description
serine/threonine kinase-like domain containing 1 [Source:HGNC Symbol;Acc:HGNC:28669]
Coordinates
chr11:104357191-104358506:+
Coord C1 exon
chr11:104357191-104357319
Coord A exon
chr11:104357320-104358365
Coord C2 exon
chr11:104358366-104358506
Length
1046 bp
Sequences
Splice sites
5' ss Seq
CCGGTGAGC
5' ss Score
8.69
3' ss Seq
CCCCCCCCACCCCCACCCAGAGC
3' ss Score
6.79
Exon sequences
Seq C1 exon
GCTGCATCCGGGAGCAGGAGTGTGCGGAGGTGGTGGACCTGCTCCTGCAGAGCGTACGGCTGTACCAGGACCGAGTCCTGCTGGTGAACAACGCCTACCGCGGGCTGGCCAGCCTCGCCAAGGTGTCCG
Seq A exon
GTGAGCCTGGACCCAACGGGGCTGCCACTCTGAGGCAGGGCGGGGTGGGGGGCGGGCTTCCCAGTGAAGCCTGCTGGTGGCCCACAGACCAAAACCACACACACACTCAAAGCAGGGAAAAGAAACACCCGTAGTCCCAGCACGCAGGCGTCCTCTGCATCCAGTCACACTCGCTGGTGTGACCCTGTATCATGACCACCTCCCCTGCCCAAGCACACTTGGTGTGAGCAGAGGTGCTCCTCCAGTTGTGGCTGTGAAGTCAGCACAGCAGACTGGGTCTGAACCCCACCGCCATGGGAACCCTGGCTGCGCCCGACTCAGGACCACAGCCCTCTAGACTCTAGAGATGCTTGGGGCCTGGAGTCCGGCCAAGGCTGCCACCAGCGTCAGGGTGGTTCAGCCTGTGACGTCTGGTCCGCTTGGATGCGCAGGCTAGATGGGGTGACCCTCACTCCTGGAGAAGCTCTGGAGTGGGGCAGGGTCGCCCCTTTCTGATGCAGATAACCTAAGCTGCAGGCCTGCCCCCACTCCGTCTGGGATCCCAGCAAACCGGGCGGGGACAGGGCCTGGAGCCGTGAGAGCAAAAGGCTCGTGGCTCAGCGCACAGGAGCTGGGTCGTCAGAACCCAGTGAGCCACACCCGAGTCAGAGTCTGGGTTAGGGTTAGAGGATCTATTGACACCTTGGGGTGTCCACCTCCCCCGGGACTCCAGGGGACCTGATGACACATGGCATCAGGAGCCGGGTCTAACCTGCCCTGACGGGCCTTCTCTCGTGGGGGCGCTCCCTCGCCCCTCCGGCCTGGGAGACTGCTGGGGTGGAGAGACAGGTGCCCTCTGCCGGAGAACACCCCCAAGGTGCACAGTGGTCAAGGCCTGACTGCTGTGGTTCCCGAGGCCACCGTGGTGTCCTCAGCCGGCTGAGGCTTGCTGCCCACAGCACTCTGGGCTCTCGACAACCCCACAAACTCAGTATGGCCGTTCCCCATCTCCTGGGGGACCCTGAGGCCCACCCATCAGGGAACAACCCCCCCCCACCCCCACCCAG
Seq C2 exon
AGCTGGCCGCCCTGCAGGTGGTGCTGCCCAGGGAGAGCGGCAGCGGCCTGGACCTCATCCAGGAGACGTACCAGCTGCACCGTGATGACCCAGAGGTGGTAGAGAGCGTGTGCCTGCTGCTGGCCCACTTGGGCACCTACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000004140:ENSBTAT00000005418:15
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:
ATCCGGGAGCAGGAGTGTG
R:
CAAGTGGGCCAGCAGCAG
Band lengths:
255-1301
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development