RnoINT0145180 @ rn6
Intron Retention
Gene
ENSRNOG00000027911 | Stkld1
Description
serine/threonine kinase-like domain containing 1 [Source:RGD Symbol;Acc:1307355]
Coordinates
chr3:5496886-5497529:+
Coord C1 exon
chr3:5496886-5497026
Coord A exon
chr3:5497027-5497400
Coord C2 exon
chr3:5497401-5497529
Length
374 bp
Sequences
Splice sites
5' ss Seq
AAGGTGTGT
5' ss Score
6.64
3' ss Seq
AGTGCTATGGCTGCTCACAGGAC
3' ss Score
5.04
Exon sequences
Seq C1 exon
CACTGGCGCATGACTCAGAAGCTGAGATCCCGAAGAGCAGCTTGATCACCTCCTTCCTGATGAATGCCTTGCAGAGCCACCCTAACTCTGAAGGCCTTGTTCTTGTGACCTACAATGTGCTCAGCATCATCTCTAGCCAAG
Seq A exon
GTGTGTGGCCTTTGCCCTTGTTTCTGCTCTAGGGCAGAGTAGAGGCTTTGGGAGGAGGGTGGAAGTGGGGCTCGTTCCCAAGATGGAGAGCCATACTGTTCTCTGTTTACAGTGGCAGCTATGGGCACCTCTCGGAAGCTGGGGACAGTGGCCAAGAACTGAATGGCTGGCTAGTGGGTCAAATCAAGGCTAGGCACCGGGCTACTCAGACTTCTTACCCACACTTAAGCCCACTTGGGTGAGAGGGGTATTAGGATTAGGCATTAAAATAGACCAGCCAGGCAGATTAGGTGTTGCATCAGCCCACGGGGAAAAGGTAGTGCTGGGGAAGGCTTCCTGGAAACTTCCCTTCCAAGTGCTATGGCTGCTCACAG
Seq C2 exon
GACAGATCTCAGAGGAGCTAGAAGAGAAGAGATTGTTTGAGCTTGCCCAAAAGCACCTGGAGCGCTTCCAAGAGGACAGGGACATCTGCCTCGGTATCCTGAGCCTGCTCTGGTCCCTCCTGGTAGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000027911:ENSRNOT00000031316:13
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
Human
(hg19)
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:
CACTGGCGCATGACTCAGAAG
R:
CATCTACCAGGAGGGACCAGA
Band lengths:
270-644
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]