BtaINT0072912 @ bosTau6
Intron Retention
Gene
ENSBTAG00000021580 | HNRNPA3
Description
heterogeneous nuclear ribonucleoprotein A3 [Source:HGNC Symbol;Acc:HGNC:24941]
Coordinates
chr2:19701915-19702597:-
Coord C1 exon
chr2:19702517-19702597
Coord A exon
chr2:19702062-19702516
Coord C2 exon
chr2:19701915-19702061
Length
455 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAGT
5' ss Score
11.01
3' ss Seq
AACTCAATTTGTTTTTCTAGGTG
3' ss Score
9.85
Exon sequences
Seq C1 exon
GAGGCTATGGTGGTGGAGGTGGTGGCAGCAGAGGGAGCTATGGAGGAGGCGATGGTGGATATAATGGATTTGGAGGGGATG
Seq A exon
GTAAGTTTTGTAATGGTTTTCGACTTGATATTTTCTATATTTTTGTGTGACTTGACTATTAAAGTATGCTTCTAAATTAATACTGTAGAAGACAAGACCTTTTTTCCCCTTAAGATTTAATGTTATCTTGTTTTTTTTGGCGGATAAGATTTATTGTACGGCTAACTGAAGTGGAATTATTTTTCTCAGAGGAGACTGTTTACTGTTCTTAGATTTTTTAATACTGTTCTTCTTAGATTTTTTAAAAAATGGAACAGTTTTTTAATATCAAAAGATTTACGCTTTCATGTTAGTGGTTAATAGCCCAGATTGTAGCTGCTCTATTAACCAGGTATTACCAAGTTTTAGTGTGTTAATTGGCCTGTTTTTCCTGGGGTTTAAAAGCACAGTAAACTGGCATTCTATAACTTGACTGTACATTTGTTTTTGTCTAAAAACTCAATTTGTTTTTCTAG
Seq C2 exon
GTGGCAACTATGGCGGTGGTCCTGGTTATAGTAGTAGAGGAGGTTACGGTGGTGGTGGACCAGGAGGATATGGAAACCAAGGTGGTGGATATGGTGGTGGTGGTGGAGGATATGATGGTTACAATGAAGGAGGAAATTTTGGAGGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021580:ENSBTAT00000028757:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.679 A=NA C2=0.500
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGGCTATGGTGGTGGAGGT
R:
CACCTCCAAAATTTCCTCCTTCA
Band lengths:
228-683
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]