RnoINT0145185 @ rn6
Intron Retention
Gene
ENSRNOG00000027911 | Stkld1
Description
serine/threonine kinase-like domain containing 1 [Source:RGD Symbol;Acc:1307355]
Coordinates
chr3:5499835-5500583:+
Coord C1 exon
chr3:5499835-5499914
Coord A exon
chr3:5499915-5500239
Coord C2 exon
chr3:5500240-5500583
Length
325 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGT
5' ss Score
10.65
3' ss Seq
CCACTGTTTCCGCCTTCTAGGAG
3' ss Score
10.55
Exon sequences
Seq C1 exon
AGGAGATCCTGCCAGAGATGATGTCTGGAGGCATCAAAGACCTAGTCCAGGTGATCCGGGGGCGCTTTACCTCCAGTCTG
Seq A exon
GTAAGTAATGATGACACTTTTTACTTTTTTTTTTTTTTTTTTTGGTTCTTTTTTTCGGAGCTGGGGATCGAACCCAGGGCCTTGCGCTTCCTAGGTAAGCGCTCTACCACTGAGCTAAATCCCCAGCCCCATGATGACACTTTTTATCAAGCCAGAACACTTGCGTTGCACTGACTCAGAGCTCCACACGCCTTTCCCTGTGACTGGGCTGAATCCAACCCCAAATGAGAAGTGCAGCCAGACCACCTGAAAGATTCCATCAGTCCGGGTTATGTCATCAAAGTAATTGCTCCTGGATCCTGAAGCCACTGTTTCCGCCTTCTAG
Seq C2 exon
GAGCTGATTTCTTATGCTGATGAGATACTTCAGGCATTGGAAGCAGCTACACATCCTAGCCCCCAGGAGGATCAGCTTGAACCTCCTGCAATGCTGGAAGCCTCCAAGGTCTCCCCACTGCAGGCAGATCCTCTCCTCAGGCCCTGACATGCTGCCCTCCAGGTCCTGTGGTAAGGGAAAGTATCACTAGGTCCAGTATTGTATCTTGCACTCCATGGTGACTAATAAAGAAGCCCCAGGGTATTCCTGGCATACCTGGCCATTGTGTCCGTGGTCCTGCCTTGCAGGGTCTCACAAAATTCTAGATGATGGGAAAAAAAAACTGAACTTCCACACACTCCATT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000027911:ENSRNOT00000031316:18
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.375
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
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:
AGGAGATCCTGCCAGAGATGA
R:
TGGCCAGGTATGCCAGGAATA
Band lengths:
342-667
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]