DreEX6042015 @ danRer10
Exon Skipping
Gene
ENSDARG00000079752 | col6a6
Description
collagen, type VI, alpha 6 [Source:ZFIN;Acc:ZDB-GENE-041111-303]
Coordinates
chr16:36754310-36757919:+
Coord C1 exon
chr16:36754310-36754406
Coord A exon
chr16:36755139-36755804
Coord C2 exon
chr16:36757811-36757919
Length
666 bp
Sequences
Splice sites
3' ss Seq
AACATCTTTTCACATCCAAGATC
3' ss Score
3.24
5' ss Seq
GCAGTAAGG
5' ss Score
4.69
Exon sequences
Seq C1 exon
GCAGATGAGAGCCAGAGTTTTATCCTGACTGTTCTGGGTAGAGTGCAAGACCAGAATGCTACTCTTAGTAAGATCCAGAGTTGTGTTATTTGCTATG
Seq A exon
ATCCCTGCAGACCAGCTAGAGAATGTGAGGGCACCAACCTGCCATCTGCACCTCAGGAGCTGGACATGGACTTTGTGATGGTTGTGGACGGGTCCCGTAGCATCCTGGCTGACGAGTTCAAGGGTGTCAAGGAGGTGCTCGGCGGTGTGCTCGATCAAATTGTTGTGAGCAGTCAACCCACCAGGGCTGACAGACAGGCCAGAGTGGCTCTCTACCAGCAGACGTCTACCTATAGTGACCCCCAGCCTGCACACGAGATATTCAGCTTACGTGAGTTCTCTGATCGCAATCTAATGAAGACAAGCATCATCCAAAAACTAAAGCAAACCGGAGGATCTCATGAACTGGGTTCTACTTTGGAGTTTGCTTTCAAGAAGTGTTTCAACGCAGTTCCAGAAAGTCGCAAGAACAAGATGCTGCTGGCCATCATTGGGGAGGAGACAGCGTTACAGGAGAAAAAACGTCTGGACTCTTTCTCCAGGTTGGCGAAGTGTAGCGGCATTGTTCTTTTCACCTTGACAGTGGGAGACTCCATCGCCTCTAGTCAGGTGGAGGAGCTTGCCAGCTATCCTTTAGAACAGCACATCATTCACCTGGGCCACTTGAAACATGGAGAACAGGAGTACACACAACGCTTCATGAGGACTTTCTTCCATATACTGAGCA
Seq C2 exon
AGAATATGAACACCTACCCTCATCCATCACTCCAGAGTCAGTGCAGGAATTTTCAAGAAAGTCCAGGCCAGCGTTTGGACTTTGAAGCTGCAGAGAGACCAGTGTACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000079752-'36-35,'36-33,37-35=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.032 C2=0.270
Domain overlap (PFAM):
C1:
PF0009223=VWA=PD(12.4=66.7)
A:
PF0009223=VWA=WD(100=82.4)
C2:
NO
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCAGATGAGAGCCAGAGTTTT
R:
CTGTACACTGGTCTCTCTGCA
Band lengths:
206-872
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]