RnoINT0082451 @ rn6
Intron Retention
Gene
ENSRNOG00000030666 | LOC108348140
Description
H-2 class I histocompatibility antigen, TLA(B) alpha chain-like [Source:RGD Symbol;Acc:11396749]
Coordinates
chr20:3121519-3122043:+
Coord C1 exon
chr20:3121519-3121794
Coord A exon
chr20:3121795-3121929
Coord C2 exon
chr20:3121930-3122043
Length
135 bp
Sequences
Splice sites
5' ss Seq
GGGGTAAGG
5' ss Score
8.05
3' ss Seq
CCTTACCCTTCCCTTCTCAGAGC
3' ss Score
11.29
Exon sequences
Seq C1 exon
ATCCTCCAAAGGCACATGTGAGCCATCACCCCGGACATGAAGGTGATGTCACCCTGAGGTGCTGGGCCCTGGGCTTCTACCCTGCTGACATCACTCTGATCTGGAAGAAGGAGGAGGAGGAACTGAACCAAGAGATGGAGCTTATACAGACCAGGCCTGCAGGGGATGGGACTTTTCAGAAGTGGGCAGCTCTGGTGGTGCCTTCTGGGGAGGAGCAGAAGTACACATGTCATGTGTACCATGAGGGGCTACCTGAGCCCCTCACCCTGAGATGGG
Seq A exon
GTAAGGAGGGTGTGGGTGCAGAACTGGGGTCAGGGAAAGCTGGAGCCTTCTGCAGACCCTGAGCTGGTCAGGGCTGAGAGCTGGGGACATCATGTTTCTCACTTTCCTTTCATGTCCTTACCCTTCCCTTCTCAG
Seq C2 exon
AGCCTCCTCAGTCCAGAATGCGGACCAGGGTCATTGTTGGTGCTGTCCTTGGTGCTATGGCCATCTTAGGTTTTATGACTGGAGGTGCTGTGATGTGCATGAGAAAGAACAAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000030666:ENSRNOT00000061395:5
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:
ACCCTGCTGACATCACTCTGA
R:
ACAGCACCAACAATGACCCTG
Band lengths:
244-379
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]