BtaINT0072898 @ bosTau6
Intron Retention
Gene
ENSBTAG00000005726 | HNRNPA2B1
Description
Bos taurus heterogeneous nuclear ribonucleoprotein A2/B1 (HNRNPA2B1), mRNA. [Source:RefSeq mRNA;Acc:NM_001045975]
Coordinates
chr4:70200872-70201445:+
Coord C1 exon
chr4:70200872-70201018
Coord A exon
chr4:70201019-70201234
Coord C2 exon
chr4:70201235-70201445
Length
216 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGC
5' ss Score
8.7
3' ss Seq
CTTTTTTCCTCTTATTTCAGGAA
3' ss Score
11.47
Exon sequences
Seq C1 exon
GTAATGAGGGATCCTGCAAGCAAAAGATCAAGAGGATTTGGTTTTGTGACTTTTTCTTCCATGGCTGAAGTTGATGCTGCCATGGCTGCAAGACCTCATTCAATTGATGGGAGAGTGGTTGAGCCAAAACGTGCTGTTGCAAGAGAG
Seq A exon
GTGAGCAAATAGGCAACTTGTTTGTTCAGTAAACAATTTGGGCCTAAATTCTGTTTCACAGTTAGTGGCTTTTCAAAGAACAAGGTTCTTTATCATAAAGGTGCCTTACTTAGTATTTGGCCATAAGATAGAAGCCATGCTTATTACCCAGATAGTGTGCTCTTACTCCTGTTTGTGGTTTCTTCTGTCAGGATGACTTTTTTCCTCTTATTTCAG
Seq C2 exon
GAATCTGGAAAGCCGGGGGCTCATGTAACTGTGAAGAAGCTGTTTGTTGGTGGAATTAAGGAAGATACTGAGGAACATCATCTTAGAGATTACTTTGAGGAATATGGAAAAATTGATACCATTGAGATTATTACTGACAGGCAGTCTGGAAAGAAAAGAGGCTTTGGATTTGTTACTTTTGATGACCATGATCCTGTGGATAAGATTGTGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000005726:ENSBTAT00000007527:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.245 A=NA C2=0.155
Domain overlap (PFAM):
C1:
PF142591=RRM_6=PD(57.1=81.6)
A:
NA
C2:
PF0007617=RRM_1=PU(81.4=80.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGAGGGATCCTGCAAGCAAAA
R:
AGCCTCTTTTCTTTCCAGACTGC
Band lengths:
306-522
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]