DreALTA0008390-2/2 @ danRer10
Alternative 3'ss
Gene
ENSDARG00000101816 | col5a3b
Description
collagen, type V, alpha 3b [Source:ZFIN;Acc:ZDB-GENE-110728-4]
Coordinates
chr1:58577282-58580931:-
Coord C1 exon
chr1:58580853-58580931
Coord A exon
chr1:58577450-58577452
Coord C2 exon
chr1:58577282-58577449
Length
3 bp
Sequences
Splice sites
5' ss Seq
CAGGTACAG
5' ss Score
8.68
3' ss Seq
ACAGATAGTGTTGTCTCCAGCAG
3' ss Score
1.4
Exon sequences
Seq C1 exon
ATGAAGATGAAGAGTTACCGGATTAGCGGAGTTTCCTCGCTGCTGATGGCTTTATTCCTGCAGAACACAACACTAGCAG
Seq A exon
CAG
Seq C2 exon
CCAATCCCATCGATGTGCTGAAGGTTTTGGACCTATCAGAGTCCATGGAGGGTGTGTCTTTGGAGGCGGGGCTCTGCAGCAGTAGGCGGGGTTCAGAGGAGGCCGATCTGGCTTATAAGATTGACAAGAAAATCCAAGTTAGTGTGCCAACCAGCCAGCTCTTCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000101816-0-1,0-0-2/2
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=0.000
Domain overlap (PFAM):
C1:
NO
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
(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:
CCTCGCTGCTGATGGCTTTAT
R:
CCAAAGACACACCCTCCATGG
Band lengths:
108-111
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]