RnoINT0145193 @ rn6
Intron Retention
Gene
ENSRNOG00000027911 | Stkld1
Description
serine/threonine kinase-like domain containing 1 [Source:RGD Symbol;Acc:1307355]
Coordinates
chr3:5493490-5494481:+
Coord C1 exon
chr3:5493490-5493653
Coord A exon
chr3:5493654-5494350
Coord C2 exon
chr3:5494351-5494481
Length
697 bp
Sequences
Splice sites
5' ss Seq
CAAGTAAGC
5' ss Score
7.47
3' ss Seq
ATTCTGTGCCCCTTTGCCAGGGA
3' ss Score
6.57
Exon sequences
Seq C1 exon
GACGCAGAAGCCATGCACCTGCGGAAGTCCATTCGCCACCATCCAGGCAGCCTGAAGCCCATCCTGAAAACCATGGAGGAGAAGGAAATCCCTGGTACAGATGTCTACTATTTGCTTCTGCCCTTTATGCTGCATATCAACCCCTCTGATCGACTATCAATCAA
Seq A exon
GTAAGCTCAAAGCGAGGTCTTCTTTTAACCCATTCCTATACCTTTCAGAGTTCCACCTTAACACACGCAGCTGTCCTGATTTGCCCACACAAACCACCTGGCAGCCGCTAATCTTAAATAGATGGTGGGATTTTTTTTGTTTTGTTTTAAGATTAGGTCTTACCGGGGGTTGGGGATTTAGCTCAGTGGTATAGCAAGCGCAAGGCCCCCAGCTCCAGGGGGGTGGGGTGGGGATTAGGTCTCACTATGGCCCAGGCTAACTGCAAATCCTCCTGCCTCAGCTTCCTGACTGCTGGAATTACAAGTGTGTTAATCTGGCTTGAATACACGTCTCTTCCAAAAGGATGCAGGTGGCCCTACTTTCCCACTGGGTGCAGGGACTTAACCTTAAGGACATATATATTACTTTCAGGAGACCAGGAAACGTTTCTCTTCTAATAATGTCAGCCAGAAAACCTGTTCATGTTGTTAAGGGAGGTGTGTGAAGGCAGAAGTGCTAGCCCCAAGACCATCCTTGGGGGCTCTGCTGTCCATGGAAGGAGTCCTGTGATTTCAGAGTAGAGTAGGCCCCTAGAAGTGGAACTACAAGGATAGTTACTAGATACACATGGAGTACAGAGAGCCCACCCACCAGGAAGCCTGTGTTCAGTGTCTGCCACTGTGGATCACCCGCTGGTATTCTGTGCCCCTTTGCCAG
Seq C2 exon
GGATGTGATTCACGTCACCGTCATGAGCAACTCCTACATGACCTCCTGTGTTGCTCTGAACATGCAGCGGCAGGTGGTGCCCATCTTCATCACTGACGTACTGCTAGAGGGCAACATGGCCAACATCTTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000027911:ENSRNOT00000031316:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.018 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0006920=Pkinase=FE(19.9=100)
A:
NA
C2:
PF0006920=Pkinase=PD(3.0=17.8)
Main Inclusion Isoform:
NA

Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
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:
GACGCAGAAGCCATGCACC
R:
CTAAGATGTTGGCCATGTTGC
Band lengths:
295-992
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]