BtaEX6004375 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000012837 | COL6A6
Description
collagen, type VI, alpha 6 [Source:HGNC Symbol;Acc:HGNC:27023]
Coordinates
chr1:153429856-153434099:-
Coord C1 exon
chr1:153433479-153434099
Coord A exon
chr1:153431824-153432384
Coord C2 exon
chr1:153429856-153430413
Length
561 bp
Sequences
Splice sites
3' ss Seq
AGTTCTGGGTTGCATTTTAGGTT
3' ss Score
8.08
5' ss Seq
AAGGTAGGA
5' ss Score
9.45
Exon sequences
Seq C1 exon
CAAGGAGCACTGCATGAGGGTTGGCCTCGTGGCCTACAGCAACGAGACGAAGGTGATTAGCACGCTGAGCAGGGGCGTAAACAAGTCGGAGGTTCTGCAGGACATCCAGAGCCTTGCTCCCCAGGCCGGGAAGGCCTACACTGGAGCCGCCTTGAGGAAGATCAGGAAGGAAGTCTTCAGCGCGCAGCACGGCAGTCGGAAGAACCAGGGGGTGCCACAGATCGCCGTGCTCGTGACCCACAGCCCGTCCCAGGACAATGTGACCAAGGCCGCCGTGAACCTCCGACGCCAGGGGGTGATCGTCTTCACCATCGGTGTAGAGGGGGCCAGCGACACCCAGCTGGAGAAGATCGCGTCTCACCCCGCTGAGCAGTACGTGTCCCAGCTGAGGTCCTTCTCTGACCTGGCTGCCCACAACCAGACGTTTCTGAAGAAGCTGCGGAATCAGATCACACACACGGTCTCCGTCATTTCCGAAAGGACCGAAACCCTCAAAGCCG
Seq A exon
GTTGTGTGGACACGGAGGAAGCAGACATCTACCTGCTCATCGATGGCTCCGGGAGCACCCAGGCCACAGACTTCCAGGAGATGAAGACCTTCCTGTCAGAGGTCGCAGGGATGTTCAACATCGCTCCCCAGAAGGTGCGGGTTGGGGCTGTCCAGTACGCCGACCGCTGGGACTTGGAATTTGAGATCAGTAAATACACGAACAAGCACGACGTCAGAAAGGCCATCGAGAACATCAGGCAGATGGGCGGGAACAGGAACACGGGCGCCGCCTTGAACTTCACCCTGGGGCTGCTGCAGAGGGCAAAGCAGCAGCGGGGAGGCAGAGTGCCCTGCCACCTCGTCGTGCTGACCAACGGTGCGTCCCGGGACAGCGTCTCGGGGCCCGCAAACAGACTGAGCGAGGAGCTCATCCACGTCTATGCCATCGGGGTCAGGGAGGCTAACCAGACTCAGCTGCGCGAAATCGCCGGCGAGGAGAAACGGGTCTACTACGTGCATGACTTCGATGCCTTGAAAGACATAAGAAACCAGGTTGTTCAAGAAATCTGTGCTGAAGAAG
Seq C2 exon
CCTGCAAAGAGATGAAGGCCGACATCATGTTCCTGGTGGACAGTTCTGGCAGTATAGGACTAGAGAACTTCATCAAAATGAAAACATTTATGAAGAACCTGGTGAGCAAATCTCAGATCAGGGCAGATCGAGTGCAAATCGGTGTGGTCCAGTTCAGCGACGTCAATAAGGAAGAGTTTCAGCTCAACAGATACACATCCCAGGAGGAAATTTCAGATGCAATAGACCGAATGGCTCACATTGGAGAAACCACCTTGATGGGTAGTGCCCTGACCTTTGTGTCTCAGTACTTCAGCCCTGCCAAGGGAGCCCGGCCCAATGTCAGGAAATTCCTCATCCTCATCACGGACGGTGAGGCTCAGGACATAGTCAAGGACCCAGCGGTGGCACTTCGGGAAGAAGGCATCATTATCTACTCTGTAGGGGTGTTTGGCTCCAACGTCACCCAGCTGGAAGAGATCAGCGGGAGGCCAGAGATGGTTTTTTATGTTGAGAATTTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000012837-'4-4,'4-3,5-4=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.029 A=0.021 C2=0.000
Domain overlap (PFAM):
C1:
PF0009223=VWA=WD(100=86.1)
A:
PF0009223=VWA=WD(100=92.0)
C2:
PF0009223=VWA=WD(100=90.9)
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:
GCTGCGGAATCAGATCACACA
R:
CACAAAGGTCAGGGCACTACC
Band lengths:
346-907
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]