RnoINT0082454 @ rn6
Intron Retention
Gene
ENSRNOG00000030666 | LOC108348140
Description
H-2 class I histocompatibility antigen, TLA(B) alpha chain-like [Source:RGD Symbol;Acc:11396749]
Coordinates
chr20:3122543-3123100:+
Coord C1 exon
chr20:3122543-3122582
Coord A exon
chr20:3122583-3122732
Coord C2 exon
chr20:3122733-3123100
Length
150 bp
Sequences
Splice sites
5' ss Seq
AAGGTAACA
5' ss Score
8.92
3' ss Seq
TGTGTTATATCTTGGGACAGCTG
3' ss Score
6.44
Exon sequences
Seq C1 exon
GCAAGGAAAGTTCCTGACCTCTCTCAGGACACTTGAAAAG
Seq A exon
GTAACACCTAGGGTCTTTGAATTGGGGCTGAGGCCAACAGGAGAGGACTGGGTCCCTGGGCCTCTCAGATTTACACGTGTGGATGCAAGGTGAGCTTTTGAGATGTTTTCCTACTGACTGTGCTGACTCCTGTGTTATATCTTGGGACAG
Seq C2 exon
CTGCCTGGTGGAACCCAGTGGCAAGTTCTGACATAGAAACAGTGGATTCCCTTTGGACATCAATGTCTGTGGATTTATGCTTTTGGCTGTGGACACAATGGGGAAATCTGAAGAGCCCAGCCCACCCCTGTACTCCAGGACCCTGTCTGTGCACTGCCTGTCTTCCCTGGCATAGCCAACCTTAGACAGCAGAAGACATCTGCATCCAGTCAGCGCCATGTTGCCCTGGGCTGCAGCTCCTCACTTCCACACAGAAATAAGGATCTGAATGTGAACTCCTTGACCTGAGCCGTTCACTGGTGGGGAAGTTACTGGATTGAGAACACTCAGAGTATTGCGAAGGAAATAAATGGCAGATGGAGAACCTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000030666:ENSRNOT00000061395:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
NonCoding
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
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:
GGAAAGTTCCTGACCTCTCTCA
R:
CGCTGACTGGATGCAGATGTC
Band lengths:
251-401
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]