DreALTA0013820-1/2 @ danRer10
Alternative 3'ss
Gene
ENSDARG00000062049 | hmha1b
Description
histocompatibility (minor) HA-1 b [Source:ZFIN;Acc:ZDB-GENE-071213-2]
Coordinates
chr22:17603226-17606410:-
Coord C1 exon
chr22:17606349-17606410
Coord A exon
NA
Coord C2 exon
chr22:17603226-17603303
Length
0 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGA
5' ss Score
9.22
3' ss Seq
TCTTCACCATCTACTCTCAGGCA
3' ss Score
6.74
Exon sequences
Seq C1 exon
AGCTGGAGTTCTCCAAGGGTTTACAGAGGATCTATCAGTCGTGTAAACAGACCATCACACAG
Seq A exon
NA
Seq C2 exon
GCACTGGAGCAGGATCTGGAGCAGAGCAATGGCATGCATCAGGCTGCCGCAACTCTACAGAACCAGACCTTTATCATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000062049-7-9,7-8-1/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.216
Domain overlap (PFAM):
C1:
PF0061118=FCH=FE(22.0=100)
A:
NA
C2:
PF0061118=FCH=PD(35.2=86.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Rat
(rn6)
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:
AGCTGGAGTTCTCCAAGGGTT
R:
GGTTCTGTAGAGTTGCGGCAG
Band lengths:
126-159
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]