GgaINT0125428 @ galGal4
Intron Retention
Gene
ENSGALG00000003175 | STKLD1
Description
serine/threonine kinase-like domain containing 1 [Source:HGNC Symbol;Acc:HGNC:28669]
Coordinates
chr17:6899928-6900504:+
Coord C1 exon
chr17:6899928-6900065
Coord A exon
chr17:6900066-6900424
Coord C2 exon
chr17:6900425-6900504
Length
359 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAGA
5' ss Score
9.48
3' ss Seq
CCTTTTCATTTATGTTCTAGAGG
3' ss Score
8.83
Exon sequences
Seq C1 exon
AAATAGCAGCTTTGAGATTTATAACGGATTCAAAAGGCAGTGGAATAAACCTGATCAAAGATGCCTACCGCTTCTACTGTGATGATCCACAAGTGGTGGAAAGTATCTGTGTGCTGATTAATGAGATGGTTCAGTATG
Seq A exon
GTAAGACTATGGTGTCATTTGTTCAGTCTCTTTCCCCCCCCTCCCCCCCCCCATGCTCACCCCCAGAAAAGAACAAACAGTGAAGAAGCAGTAGCTACTCAGGTAAATTGAAATTGCTCTCTGGAAAGACTTACTATATACATGAGAAGGGAAGAATTATTGGAATTGTAATTATTCAACAACAAGAAAGAATGGGATTAATTCACAAATGCCTTTGTAATGTACAGATGTTCTAACTTCATCTTATCTTGCATTCTATTTGTATAGATCTATTTCCTTTCTGCTCCTCTTTAGTCCCTGCTAAAACCACTGGAAATTATACTAGTAATTGTAAATTATCCTTTTCATTTATGTTCTAG
Seq C2 exon
AGGACGTTATGCTGGATATGTTGTCACAGCAAATGGAAGAGTTGCTGTCTGAAATAAAAAGCCGGTTTCCATCTAGCATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003175:ENSGALT00000005036:17
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
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGCAGCTTTGAGATTTATAACGGA
R:
CATGCTAGATGGAAACCGGCT
Band lengths:
214-573
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]