GgaEX0016558 @ galGal4
Exon Skipping
Gene
ENSGALG00000011036 | HNRNPA2B1
Description
heterogeneous nuclear ribonucleoproteins A2/B1 [Source:RefSeq peptide;Acc:NP_001026156]
Coordinates
chr2:32318761-32319711:-
Coord C1 exon
chr2:32319649-32319711
Coord A exon
chr2:32319121-32319240
Coord C2 exon
chr2:32318761-32318883
Length
120 bp
Sequences
Splice sites
3' ss Seq
AAAGGATTATATTGTCATAGGTG
3' ss Score
3.37
5' ss Seq
GAGGTAACC
5' ss Score
8.55
Exon sequences
Seq C1 exon
ATGGGTATGGGAGTGGCCGTGGGTTTGGTGATGGGTATAATGGATATGGTGGAGGGCCTGGAG
Seq A exon
GTGGCAACTTCGGTGGCAGTCCTGGTTACGGAGGAGGAAGAGGAGGATATGGTGGAGGAGGACCTGGATATGGCAACCAGGGTGGGGGCTATGGAGGTGGCTATGACAACTATGGAGGAG
Seq C2 exon
GCAATTATGGAAGTGGAAACTACAACGACTTTGGAAACTACAACCAGCAGCCTTCTAATTATGGTCCAATGAAGAGTGGAAATTTTGGTGGCAGCAGGAACATGGGGGGACCATATGGTGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011036_MULTIEX2-6/7=5-7
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.682 A=0.756 C2=0.738
Domain overlap (PFAM):
C1:
NO
A:
NO
C2:
NO

Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Primers PCR
Suggestions for RT-PCR validation
F:
ATGGGTATGGGAGTGGCCG
R:
CCCCATGTTCCTGCTGCC
Band lengths:
170-290
Functional annotations
There are 1 annotated functions for this event
PMID: 20406423
The inclusion of exon 2 (HsaEX0030279) and exon 9 (HsaEX0030282) generates a predominantly nuclear form, skipping of the exons generates cytosolic forms. The study shows, using isoform-specific antibodies and isoform-specific green fluorescent protein (GFP)-fusion expression constructs, that A2b is the predominant cytoplasmic isoform in neural cells, suggesting that it may play a key role in mRNA trafficking. The differential subcellular distribution patterns of the individual isoforms are determined by the presence or absence of alternative exons that also affect their dynamic behavior in different cellular compartments, as measured by fluorescence correlation spectroscopy. Expression of A2b is also differentially regulated with age, species and cellular development. Furthermore, coinjection of isoform-specific antibodies and labeled RNA into live oligodendrocytes shows that the assembly of RNA granules is impaired by blockade of A2b function. These findings suggest that neural cells modulate mRNA trafficking by regulating alternative splicing of hnRNP A2/B1 and controlling expression levels of A2b, which may be the predominant mediator of cytoplasmic-trafficking functions. B1: inclusion of both. A2: skipping of ex 2. B1b: skipping of ex 9. A2b: skipping of both. Not well in VTS in hg38 nor mm10.
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]