GgaEX1028906 @ galGal4
Exon Skipping
Gene
ENSGALG00000011036 | HNRNPA2B1
Description
heterogeneous nuclear ribonucleoproteins A2/B1 [Source:RefSeq peptide;Acc:NP_001026156]
Coordinates
chr2:32314598-32318061:-
Coord C1 exon
chr2:32317979-32318061
Coord A exon
chr2:32316526-32316656
Coord C2 exon
chr2:32314598-32315707
Length
131 bp
Sequences
Splice sites
3' ss Seq
TTTTTCCTACTGGAATCTAGCTA
3' ss Score
3.59
5' ss Seq
ATGGTAGGT
5' ss Score
8.6
Exon sequences
Seq C1 exon
GAAACTATGGTCCCGGTGGCAGTGGAGGAAGTGGTGGATATGGAGGGAGAAGCCGTTACTGAGCTTCTGCAAGCTTGCCATGG
Seq A exon
CTATGATATGAATCCTGGACAAGCATAGACTGCTGCCACTGTACTCTGCTACAGTTGAACAAATGAGACCTGCAAGTGTCCATTAGTAAAGCTTTGCAAGGGTTCCATCCCTGGTGTTGGTAGTTAAAATG
Seq C2 exon
GTGCCATGCTGCAGGTAACTAATGAAGAAGTGGTCAACCACAGAAACGCTTCAAGAAATAAGAAATTCTGTATCATCAGAAAATAGTTGTTTTTGCTGCCTTCATTAAAAACCTAGAGGTTAAATGAATACTGATAAAATATCACAATTAGTACAGCTCCCTGTAATGCTGGGTTTTTTAAATGATAGTAATAATTGTCTTGTAAACATTTCGAATAAAACTCAGATTCGTTAGGAGAAACCAATTACTAATGTTAAAATAGCGAACGTTCTGTGAGTTGAAGGTTTAACTACATATTTTTATAACTTTCATAGCTTTAAAATAAAGTATTTTTTTATACCAAAGTAGTTCTAGTGTAATGCTTAATAAAATTTAGTATGTGTCTAACATTAAATAATGTTGATGTGCAGCTTCTAGAACCTTTGACAATTTGAAATGTGCCATTTTGAGGTGGATTTAAAACCAAATTTACTTGGCAAGTGTATGCACAGAACTTGTAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011036_MULTIEX1-2/2=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
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAAACTATGGTCCCGGTGGC
R:
CCAGCATTACAGGGAGCTGTAC
Band lengths:
255-386
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]