BtaEX0017285 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000005726 | HNRNPA2B1
Description
Bos taurus heterogeneous nuclear ribonucleoprotein A2/B1 (HNRNPA2B1), mRNA. [Source:RefSeq mRNA;Acc:NM_001045975]
Coordinates
chr4:70204605-70207085:+
Coord C1 exon
chr4:70204605-70204687
Coord A exon
chr4:70206063-70206198
Coord C2 exon
chr4:70206746-70207085
Length
136 bp
Sequences
Splice sites
3' ss Seq
TTTCCCTGCTGGAATTTTAGCAT
3' ss Score
5.58
5' ss Seq
ATGGTAGGT
5' ss Score
8.6
Exon sequences
Seq C1 exon
GAAACTATGGTCCAGGAGGCAGTGGAGGAAGTGGGGGTTATGGAGGGAGAAGCAGATACTGAGCTTCTTCCTATTTGCCATGG
Seq A exon
CATTGATATGAACCATGGACAAGTATATTCTGCTGCCACAAAGACTGTAAAGTGCTTCATTTCAACAGCTGAGGCAAGCCAAGTGATCATTAATAAAGCTTTTCTTGGTTCCTTCAGTGGTGTTGGTAGTAAAATG
Seq C2 exon
GAAGGTGTCTTGCTGCAGGTAACTAATGAAGAAGTGGTCAACCACAGAGTCTTCAAGAAATAAGAAATTCTGTACCATCTGAAAGTAGTTCTTGTTGGTGCCTTCATTTTAAAAAAGCACTCTTTTAAGATTAAAGGGAAATGTTTTCTGATAAAACAGACTTCATTTAGTTACAGGGTCTTAATATAAAACAATTACAAATTGAGTATTGTTTGTAAAAGAGTAAACATCAAGTCAGCTAGAGAGATAAATGTTATCATGTTTTGAATTAGGTTTTGTGAGTAGACAGATTAAAATTCTATTTTAAATATAAAGTTATAAAATAAATACTTTTGTATTC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000005726_MULTIEX2-2/2=C1-C2
Average complexity
S*
Mappability confidence:
100%=100=100%
Protein Impact
3' UTR
No structure available
Features
Disorder rate (Iupred):
C1=0.950 A=NA C2=NA
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm10)
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:
CAGTGGAGGAAGTGGGGGTTA
R:
AGACCCTGTAACTAAATGAAGTCTGT
Band lengths:
245-381
Functional annotations
There are 2 annotated functions for this event
PMID: 20946641
By UPF1 KD proteomics, HNRNPA2B1 is upregulated. This event and the associated ones (retained intron downstream) are regulated by HNRNPA2B1 itself.
PMID: 31911676
[CRISPR screen]. Conserved poison exon with negative fitness/survivability impact when depleted: HeLa No Change at 14 days (FC=0.987, FDR=0.857), PC9 Depleted at 14 days (FC=0.773, FDR=0.001), Late Xenograft No change (FC=1.071, FDR=0.618).
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development