BtaINT0142618 @ bosTau6
Intron Retention
Gene
ENSBTAG00000004140 | STKLD1
Description
serine/threonine kinase-like domain containing 1 [Source:HGNC Symbol;Acc:HGNC:28669]
Coordinates
chr11:104356313-104357119:+
Coord C1 exon
chr11:104356313-104356441
Coord A exon
chr11:104356442-104356990
Coord C2 exon
chr11:104356991-104357119
Length
549 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGT
5' ss Score
10.13
3' ss Seq
CTCACCCCATCCCGTTGCAGCTA
3' ss Score
9.17
Exon sequences
Seq C1 exon
GACTGGCCACAGACGAGCTGCAGAGGGCCTGGCTGTTTGAGGACATCCTGAAGCGCCTGGACAGCCTCCCCAGGAGCAGGGACATCTGTATCCACGGCCTGAGCCTGCTCTGGGCCCTGCTGGTGGATG
Seq A exon
GTGAGTGGGCCCGAGGTTGGTACCCCTCCCCGCTGCTCCCTGACCACCCGAGAGCTGGGAGAAGGGAAGGGGCAGACCCTGACCCTAGGCCCCCCACCCGCCCACCCCAGGAGGCCCTCTGCTCGCACACATCAGAGGCTTCCCTGGTCTCACAGGTTGGCTCTAGCACTGGGCGACCTCTCTTGACTTTTGATTCAGAAAGGGGGACCCCCGCTGGCCAAATGGCTTCCTCTCCAGGTCCCACTGGGCCCTCCAGCACCTGGACAGTCATCTTCCCAAGGAGAAGAGGTCTCCCAGCCTTGGAGGGCCCTGAGCACAGCTGGGTGCAAGATACCCCAAGCCTCCCCTTGGGGTCTGATGCCTGCCCAGACTTGCTTAGCAGGCTGGAATCGGCCCTCCCATTTCCCCATCTCAGAGGACAGCGGACCTGGAACCCCAAAGCTCCTGCTATCCCTGTGGCAGGTGGGGCCAGGGGCCACGCACACAGCAGGCACTTCTCCCCTCGCCAGGAAGTGGGCGACCCCTCCTTCTCACCCCATCCCGTTGCAG
Seq C2 exon
CTATCATTGTGAACAAGGCCCCCTTGGAGAGAGCCCCGGCTCTCGTCACCGAGATACTGGTCACGTTCCCCAGGGACGCGGAGGTGGCTGAAGCTGGCTGTGCGGTTCTGTGGCTGCTGTCCTTGCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000004140:ENSBTAT00000005418:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
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
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:
AGACGAGCTGCAGAGGGC
R:
CAGCAAGGACAGCAGCCAC
Band lengths:
247-796
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development