RnoINT0082448 @ rn6
Intron Retention
Gene
ENSRNOG00000030666 | LOC108348140
Description
H-2 class I histocompatibility antigen, TLA(B) alpha chain-like [Source:RGD Symbol;Acc:11396749]
Coordinates
chr20:3119230-3119838:+
Coord C1 exon
chr20:3119230-3119387
Coord A exon
chr20:3119388-3119562
Coord C2 exon
chr20:3119563-3119838
Length
175 bp
Sequences
Splice sites
5' ss Seq
ACGGTGAGT
5' ss Score
11.45
3' ss Seq
GACCGAGGGGGGGGGGGCAGGCT
3' ss Score
-5.83
Exon sequences
Seq C1 exon
CGCAGGGGAGAGTGCGAGATATAAGCTACGTGCGTCCTGGGTGGAGCAGGAGGGCCCCGAGTATTGGCAGAAGGAGACAGAGATCGTCACAAGCAATGCACAGTTTTTCCGAGGAAACCTACAGACCATGCTTGACTACTACAACCTGAGCCACGACG
Seq A exon
GTGAGTAACCCTCTAAATCTGAGGGTCCTGACCCTCTATATCTGTCCCCACTCCTCTCCCACTTACCCAAGCCGCCTAAGCACCTGGTGCAAAAGGGACCTGGTGTCCCTTTCCGTTAGAAACTTTCAGTTAGAAGTCCTAACATGGACGGGTCTGACCGAGGGGGGGGGGGCAG
Seq C2 exon
GCTCTCACATCATCCAGGTGATGTATGGCTGTGACGTGGAATCCGATGGGAGCCTCCTCCGCGGTTATGAGCAGTATGCCTACGATGGCCGAGATTACATCACCCTCAACGAAGATCTTAAGACTTGGACAGCAGAGGACAGGGCGGCGCAGATCACCAGACTCAAGTGGGAGCAGGCTGGTTATGCAGAGCTCCGCAGGACCTACTTAGAGGGCCCATGCAAGGATTCGCTGCTCAGATACCTAGAGAATAGAAAAGAGATGCTGCAGTGTACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000030666:ENSRNOT00000061395:2
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
Mouse
(mm9)
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:
TCGTCACAAGCAATGCACAGT
R:
CTTGAGTCTGGTGATCTGCGC
Band lengths:
242-417
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]