RnoEX6037264 @ rn6
Exon Skipping
Gene
ENSRNOG00000023007 | Col6a6
Description
collagen type VI alpha 6 chain [Source:RGD Symbol;Acc:1309172]
Coordinates
chr8:114441224-114444690:-
Coord C1 exon
chr8:114444070-114444690
Coord A exon
chr8:114442522-114443082
Coord C2 exon
chr8:114441224-114441781
Length
561 bp
Sequences
Splice sites
3' ss Seq
ACGTTTCGGTTCCATTCCAGCCT
3' ss Score
6.83
5' ss Seq
AAGGTAGGA
5' ss Score
9.45
Exon sequences
Seq C1 exon
AAAGGAAAACTGCATGAGGGTTGGCCTGGTGGCCTATAGCAACGAAACAAGGGTGATCAGTTCTCTGAGCATGGGTGTCAACAAGACGGAGGTCTTACAGCGCATACAGGATCTGTCCCCTCACGTAGGGCAGGCCTACACAGGAGCTGCCCTCAGAAAGACGAGGAAGGAAGTCTTCAGTGCACAGAGGGGCAGTCGGAAGAACCAAGGGGTGCCTCAGATTGCTGTGCTGGTGACCCACAGAGCTTCAGATGACAACGTGACCAAGGCAGCTGTCAACCTCCGGCGGGAGGGAGTGACCGTCTTTACCATGGGCGTAGAGGGGGCTAACCCAGAACAGCTGGAGAAGATCGCATCCTACCCTGCCGAGCAGTTCACCTCCAAACTGAGCAACTTCTCTGAGCTGGCCACCCACAACCAGACGTTCCTGAAGAAGCTGAGGAACCAAATCACACACACAGTCTCTGTCTTCTCAGAACGGACTGAGACCCTCAAATCAG
Seq A exon
CCTGTGTGGACACAGAGGAAGCGGATATCTATCTGCTCATTGATGGTTCAGGGAACACGCAGCCCACAGACTTCCATGAGATGAAGATCTTCCTGTCCGAGGTGGTGGACATGTTCAACATCGCTCCCCACAAGGTGCGAGTCGGGGCCGTGCAGTACGCCGACACCTGGGACCTGGAATTTGAGATCTCTAAGTATACTAACAAGCCTGACTTGGGAAAGGCCATCGACAACATCAGGCAGATGGGTGGAAACACCAATACGGGTGCAGCCCTGAACTTCACCCTGACGCTGTTGCAAAGAGCAAAGAAGCAACGGGGAAACAAAGTGCCATGTCACCTGGTTGTCCTGACAAACGGCATGTCCCAGGACAGCGTCCTGGGTCCCGCGCATAAGCTGAGGGAGGAAAACATCCGTGTGCATGCGATCGGCGTCAAGGAAGCCAACCAAACACAGCTGCGGGAGATAGCGGGAGATGAAAAGCGAGTTTATTACGTGCATGAATTCGATGCCTTGAGGGACATAAGGAACCAAGTGGTTCAGGAGATCTGTGCTGAAGAAG
Seq C2 exon
CCTGCAGAGATATGAAAGCGGACATCATGTTTCTGGTGGACAGCTCTGGCAGCATTGGACTCGAAAACTTCAGCAAGATGAAGGTGTTTATGAAGAACCTGGTGAGCAAATCCCAGATCGGGGCTGACCGGGTGCAAATTGGTGTGGTCCAGTTCAGCCACGAAAACAGGGAGGAGTTTCAGCTCAACACATTCATGTCTCAAAATGACATTGCCAACGCCATCGACCAAATGGCTCACATTGGAGAGACAACCTTGACAGGCAGTGCGCTGACCTTTGTGTCTCAGTACTTCAGTCCTGAAAAGGGGGCCCGGCCCAATGTTAGGAAGTTCCTCATTCTCATCACGGATGGCGAGGCTCAGGACATAGTAAAGGACCCAGCAGTAGCCCTTCGAAAAGACGGTGTGATTATCTATTCTGTGGGAGTGTTCGGCTCCAATGTCACCCAGCTCGAGGAGATCAGTGGGAAGCCGGAGATGGTTTTCTATGTTGAGAATTTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000023007-'3-5,'3-4,4-5=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.048 A=0.021 C2=0.000
Domain overlap (PFAM):
C1:
PF0009223=VWA=WD(100=86.1)
A:
PF0009223=VWA=WD(100=91.5)
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:
CAACTTCTCTGAGCTGGCCAC
R:
TGTGAGCCATTTGGTCGATGG
Band lengths:
350-911
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]