DreALTA0013942-1/2 @ danRer10
Alternative 3'ss
Gene
ENSDARG00000059280 | hoxd3a
Description
homeobox D3a [Source:ZFIN;Acc:ZDB-GENE-990415-120]
Coordinates
chr9:1938188-1940780:-
Coord C1 exon
chr9:1940718-1940780
Coord A exon
NA
Coord C2 exon
chr9:1938188-1938393
Length
0 bp
Sequences
Splice sites
5' ss Seq
ACGGTAAGA
5' ss Score
10.65
3' ss Seq
CTGGCTTATTTTCTTAGCAGGTC
3' ss Score
7.19
Exon sequences
Seq C1 exon
GTCGCCGTCAAAATTATGAGGATTGTTTGAGGAGAAAGAGAAGAGAGAAAACCACAGACTACG
Seq A exon
NA
Seq C2 exon
GTCAAAGGACAGAAAATCTGTGGGAAGCTCCAATCACGTGATTCACAAGTCCATGCTATTGGACAGGAGTTCACAGGATCTCTAAGTTTGAACCTTCGCAATGCAGAAAGCCACTTATTATGACAATGCTGGACTTTTCGGAGGATATTCGTACCCTAAATCTGACTCCTACACGTACGGTCCAACACACCAGGGCTTCTCATCCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000059280-11-6,11-5-1/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.851
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTCGCCGTCAAAATTATGAGGA
R:
CGTGATTGGAGCTTCCCACAG
Band lengths:
101-104
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]