DreALTA0013859-4/4 @ danRer10
Alternative 3'ss
Gene
ENSDARG00000036675 | hnrnpa1b
Description
heterogeneous nuclear ribonucleoprotein A1b [Source:ZFIN;Acc:ZDB-GENE-030912-14]
Coordinates
chr23:36208548-36208886:+
Coord C1 exon
chr23:36208548-36208694
Coord A exon
chr23:36208770-36208808
Coord C2 exon
chr23:36208809-36208886
Length
39 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGG
5' ss Score
8.41
3' ss Seq
TAATTATGTATGGGTTACAGGAT
3' ss Score
4.89
Exon sequences
Seq C1 exon
GTGATGAAAGATCCAAACACAAAGCGCTCCAGGGGCTTTGGGTTTGTTACTTACTCCAGTGTGGATGAAGTCAATGCCTCTATGGATGCACGTCCTCACAAGGTCGATGGTAGACTTGTAGAGCCCAAACGAGCCGTGTCTAGAGAG
Seq A exon
GATTCCAGCAAACCATTTGCTCACACAACTGTGAAGAAG
Seq C2 exon
ATTTTCGTGGGAGGCATCAAGGATGATACAGAGGAGAACCATCTACGCGACTACTTCGATCAGTTTGGAAAGATTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000036675-3-6,3-5,3-4,3-3-4/4
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.388 A=NA C2=0.063
Domain overlap (PFAM):
C1:
PF0007617=RRM_1=PD(57.1=81.6)
A:
NA
C2:
PF0007617=RRM_1=PU(81.4=80.3),PF072928=NID=PU(35.7=21.1)
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GATGCACGTCCTCACAAGGTC
R:
AGTCGCGTAGATGGTTCTCCT
Band lengths:
115-154
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]