RnoINT0082453 @ rn6
Intron Retention
Gene
ENSRNOG00000030666 | LOC108348140
Description
H-2 class I histocompatibility antigen, TLA(B) alpha chain-like [Source:RGD Symbol;Acc:11396749]
Coordinates
chr20:3122399-3122582:+
Coord C1 exon
chr20:3122399-3122458
Coord A exon
chr20:3122459-3122542
Coord C2 exon
chr20:3122543-3122582
Length
84 bp
Sequences
Splice sites
5' ss Seq
GAGGTACTT
5' ss Score
7.82
3' ss Seq
TGTTGTTTCTTCTACTGCAGGCA
3' ss Score
9.75
Exon sequences
Seq C1 exon
GAGGAGACAGAGATTATGATCCTGCTGCCGTCACAATGTGAGGGAACAGTTGTCCCTGAG
Seq A exon
GTACTTGGGGGGGAAGCTGAGCCAAGGTTCTTTCTCTACCCCCACTTGTCAGTCTCCTGTTACTTGTTGTTTCTTCTACTGCAG
Seq C2 exon
GCAAGGAAAGTTCCTGACCTCTCTCAGGACACTTGAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000030666:ENSRNOT00000061395:7
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:
AGGAGACAGAGATTATGATCCTGCT
R:
TCAAGTGTCCTGAGAGAGGTCA
Band lengths:
95-179
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]