GgaINT1026670 @ galGal4
Intron Retention
Gene
ENSGALG00000003175 | STKLD1
Description
serine/threonine kinase-like domain containing 1 [Source:HGNC Symbol;Acc:HGNC:28669]
Coordinates
chr17:6893022-6893742:+
Coord C1 exon
chr17:6893022-6893137
Coord A exon
chr17:6893138-6893626
Coord C2 exon
chr17:6893627-6893742
Length
489 bp
Sequences
Splice sites
5' ss Seq
AAAGTAGAT
5' ss Score
0.25
3' ss Seq
CCTTGGGATTCTTATTTCAACAG
3' ss Score
-3.84
Exon sequences
Seq C1 exon
AAATCTCAAGCCATCAAACATACTTGTGACTGGTGAAACATCCTTCAAGCTTTGTGACTTTGGTACAGAAACACTTATGACCGACGAATGGAAATGGAAAATAAGAGTGGAAGAAA
Seq A exon
GTAGATATGTCTTTTTGCTTTGCTTTGCTTTTACAATACTTCAGTTATGGTGGATGTTTTTAATCTTTGGAGAAAAACAAGCCACAAAGTTATCTAGCTTTCCCCTCCTCCACTTTATACTACTATTCTTCAAAAATGTGAATAGAATATTCAGGGTCAGTTGCCTGCAGCATTAACTGTGTTCACAATTGAAAACTGTCTGTAAATCTCAGAGCTCCTCCGCAACAAGTGCAGTTGAAATCCTTTTTTAGCATGACATATATGCAGCAACATCTTGAAAAATCATGTATTAGTTGTAGTGTCTCTCTCATTCTGTTGCAGCAAATCAACAGTAAAAAAAAAAAAAAAAACCAAAAAGAAAAGAAACAACAAACACCACTCGCTGCTACTTGTTTATAACATACAACTATTGCCTGCAGTTCTTGCCTGTACAAGCAACACTGTGTATAGCACAATGTCAGCAACATTACCTTGGGATTCTTATTTCAA
Seq C2 exon
CAGATTGCAAGTGTTGGATGGCTCCAGAAGCATTCAGTTTTTCTTTCAGTGATAAGTCAGACATCTGGTCTCTAGGGTGTATCCTACTTGACATGATGACCTGTTTTGTTTTGAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003175:ENSGALT00000005036:7
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(14.3=100)
A:
NA
C2:
PF0006920=Pkinase=FE(13.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AATCTCAAGCCATCAAACATACTTGT
R:
TTCAAAACAAAACAGGTCATCATGT
Band lengths:
230-719
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]