DreALTA0005343-2/2 @ danRer10
Alternative 3'ss
Gene
ENSDARG00000061688 | arvcfb
Description
armadillo repeat gene deleted in velocardiofacial syndrome b [Source:ZFIN;Acc:ZDB-GENE-060526-60]
Coordinates
chr5:25681147-25684215:-
Coord C1 exon
chr5:25684023-25684215
Coord A exon
chr5:25681184-25681187
Coord C2 exon
chr5:25681147-25681183
Length
4 bp
Sequences
Splice sites
5' ss Seq
CAGGTGATT
5' ss Score
5.95
3' ss Seq
TGTGTGTTTATGCGTTGCAGCCA
3' ss Score
7.2
Exon sequences
Seq C1 exon
GCAGTTATGCTATGAGGGACTTGGTCAGCAACCTGCCCAGTGGCCAGCAGCGGCCAGCCAAAAACCTGGAGGAAGACACAGTAGTGGCCATCCTCAACACTATCCATGAAATCATCACAGACAGCTCTGAAAATGCCCGCTCTCTCATTACTGCTCAAGCCATCGACAAACTCGTGGCCATCAACAGGACCAG
Seq A exon
CCAG
Seq C2 exon
TCGGCAAGGGAGACCAAAGCTGCTTCCCATGTTCTGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000061688-35-38,35-37-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.110 A=NA C2=0.307
Domain overlap (PFAM):
C1:
PF136461=HEAT_2=PD(9.7=15.6)
A:
NA
C2:
NO
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGACAGCTCTGAAAATGCCCG
R:
CATGGGAAGCAGCTTTGGTCT
Band lengths:
106-110
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]