RnoINT0145184 @ rn6
Intron Retention
Gene
ENSRNOG00000027911 | Stkld1
Description
serine/threonine kinase-like domain containing 1 [Source:RGD Symbol;Acc:1307355]
Coordinates
chr3:5499517-5499914:+
Coord C1 exon
chr3:5499517-5499657
Coord A exon
chr3:5499658-5499834
Coord C2 exon
chr3:5499835-5499914
Length
177 bp
Sequences
Splice sites
5' ss Seq
ACAGTGAGG
5' ss Score
3.44
3' ss Seq
TCTTCTCCGCTCCCCTGCAGAGG
3' ss Score
9.88
Exon sequences
Seq C1 exon
AACTGGTGGCCTTCCGAACAGTAGTACTGGAAGAGGGCAGCAGTGGCCTCCACCTCGTCCAAGACATCTACCAGCTCTACAAGGATGACCCTGAGGTGGTGGAGAACATCTGCATGCTGTTGGCCCAACTGGCCTCCTACA
Seq A exon
GTGAGGACCCTTACTTACCTTGTCCTCTCTGTGGCAGGAAGGGAAGGAGCCCCAGAGCCTGGTCTCAAACCCCTGTAACTTGCCACTCATTCACTGAGTCAAAGTGGCACCTGACCAACCTTAACCGGCTGGTGGGCAAGGATCCTGAACCTCCCCATCTTCTCCGCTCCCCTGCAG
Seq C2 exon
AGGAGATCCTGCCAGAGATGATGTCTGGAGGCATCAAAGACCTAGTCCAGGTGATCCGGGGGCGCTTTACCTCCAGTCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000027911:ENSRNOT00000031316:17
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
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGTGGCCTTCCGAACAGTAG
R:
CAGACTGGAGGTAAAGCGCC
Band lengths:
218-395
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]