DreALTD0005661-1/2 @ danRer10
Alternative 5'ss
Gene
ENSDARG00000098294 | col5a3a
Description
collagen, type V, alpha 3a [Source:ZFIN;Acc:ZDB-GENE-030131-968]
Coordinates
chr3:53599605-53605718:+
Coord C1 exon
chr3:53599605-53600051
Coord A exon
NA
Coord C2 exon
chr3:53605599-53605718
Length
0 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAAG
5' ss Score
5.73
3' ss Seq
GCTCCTCTGTCGGTGTGCAGCAG
3' ss Score
6.74
Exon sequences
Seq C1 exon
GCCAGTCTCATCCATAACCTTGATGACGTCATGCAGGGAGATGAGCCTGTGAAACCAACTAAGCGTTCCAAAAAAGACCGCAAAGGCAAAAAGAACAAAAAAAGGAAAGGCAAGAAAGGCAAAAAAGAATCCCGTAAGAAGAAAAAGGAGGCTGAAGCTCTTGAAGAAGGCTTCCTCGAGGTATCTTCTAAGCTGCCGGAGTATTTAGCTCAAGAACCTGTTCGAGAAACTACACCAGCTTCAACAAAGCTACCAGATCCACCTACGACCGAGCAGCTAAAGATGCCAGTAGAGTCTCCAACAATAATGATTGATCTGATAGACTCCATACCTGACATGCCAACTCATGAACCTGACACCTATCAGGACAGCAGTCCCTCTACAAAGCCTGTGACAGATCTTGAGGACCAAGCCATTTTGGCTTCTGCATTTTCTGAGTCCCCAAAG
Seq A exon
NA
Seq C2 exon
CAGGAGAGGCCGATTAAAACACCAGAGGTCGAGGAGTTTAGTGATGACCTTTACGGCGATCAGCACAATGTGCTCTCAGTCTCCACAGTGACAGTCGGCCCCAATATCACTGATTATGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000098294-6-6,7-6-1/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.980 A=NA C2=0.825
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping 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:
AGCAGTCCCTCTACAAAGCCT
R:
ACCTCTGGTGTTTTAATCGGCC
Band lengths:
107-119
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]