RnoINT0145182 @ rn6
Intron Retention
Gene
ENSRNOG00000027911 | Stkld1
Description
serine/threonine kinase-like domain containing 1 [Source:RGD Symbol;Acc:1307355]
Coordinates
chr3:5498244-5498572:+
Coord C1 exon
chr3:5498244-5498372
Coord A exon
chr3:5498373-5498443
Coord C2 exon
chr3:5498444-5498572
Length
71 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGC
5' ss Score
7.23
3' ss Seq
ACAAGGCTTGTTCTTTGCAGGCT
3' ss Score
6.35
Exon sequences
Seq C1 exon
TTGACACTGTGAACAAAGAGCCCTTGGAGAACCTCTCAGTCTCAGTCACCTGGGTGCTGGCTTTTCATCAAGAGGACATGGAAGTAACAGAGGCTGGCTGCGCAGTGCTCTGGCTTCTGTCCTTGATGG
Seq A exon
GTGAGCAGCCTGAGGCCTTGGTTAACAGGGAGGGTGAGCCTGGACACACAGACAAGGCTTGTTCTTTGCAG
Seq C2 exon
GCTGCATAAAGGAGGGTCAGTTTGAGCAGGTGGTCGTGCTGCTGCTGAGAAGCATCCAGCTATGTCCTGGCAGAGTACTTCTGGTGAACAATGCACTCCGCGGCTTGGCCAGCCTCGCAAAGGTGTCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000027911:ENSRNOT00000031316:15
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
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGGGTGCTGGCTTTTCATCA
R:
CGGAGTGCATTGTTCACCAGA
Band lengths:
180-251
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]