RnoALTD0007413-2/2 @ rn6
Alternative 5'ss
Gene
ENSRNOG00000010663 | Col6a5
Description
collagen type VI alpha 5 chain [Source:RGD Symbol;Acc:1565804]
Coordinates
chr8:114614481-114617500:-
Coord C1 exon
chr8:114617400-114617500
Coord A exon
chr8:114617394-114617399
Coord C2 exon
chr8:114614481-114615158
Length
6 bp
Sequences
Splice sites
5' ss Seq
CTGGTATGT
5' ss Score
8.14
3' ss Seq
CTTCTTGTCTTACTGTGCAGGGC
3' ss Score
9.58
Exon sequences
Seq C1 exon
AGAATAAAAATAAGAAACCCTGTTCGTTAACAGAATGAAGCTCCAGCTAATTGTGTTTGTCCTAATCCTTTGGACTGAGACCCTGTCAGACCAGAGCCCAG
Seq A exon
GTACTG
Seq C2 exon
GGCCAGGACCCAAGTATGCAGATGTGGTCTTTCTGGTAGACAGCTCGGATTACCTGGGAATTAAGTCCTTCCCATTCGTGAGGACTTTTCTCAACAAGATAATCAGCAGCCTCCCCGTAGAGGCCAACAAGTACCGTGTGGCCCTGGCCCAGTACAGTGATGCTCTCCACAATGAGTTCCACCTAGGCGCCTTCAAGAACAGGAACCCCATGCTGAACCACCTCAAGAAGAACTTCGGGTTCATCGGTGGCTCCCTGAAGATTGGGAACGCCCTGCAGGAGGCTCACAGGACCTATTTCTCTGCTCCCACAAACGGAAGAGACAAGAAACAGTTCCCCCCAATCCTGGTGGTGCTGGCTTCAGCGGAGTCCGAGGATGACGTGGAAGAGGCTTCGAAGGCCCTGCGGGAAGATGGGGTGAAAATCATCTCTGTGGGGGTGCAGAAGGCTTCTGAGGAAGACCTGAAGGCCATGGCCACCCCTCAGTTCCATTTCAACCTC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000010663-0-0,1-0-2/2
Average complexity
Alt5
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=0.115
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0009223=VWA=WD(100=78.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCTTTGGACTGAGACCCTGT
R:
TTCCCAGGTAATCCGAGCTGT
Band lengths:
96-102
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]