RnoEX0023491 @ rn6
Exon Skipping
Gene
ENSRNOG00000031782 | Col6a4
Description
collagen, type VI, alpha 4 [Source:RGD Symbol;Acc:1564060]
Coordinates
chr8:114750002-114755786:-
Coord C1 exon
chr8:114755082-114755786
Coord A exon
chr8:114751205-114751749
Coord C2 exon
chr8:114750002-114750559
Length
545 bp
Sequences
Splice sites
3' ss Seq
GGCTTCTTCTCATTGGCCAGTTT
3' ss Score
4.54
5' ss Seq
AGAGTAAGA
5' ss Score
5.73
Exon sequences
Seq C1 exon
TGCCCAGGTCTTAACCAGTTTGGACCAGTTAACCTTCAGAGCAAGACGAGGAAGGACGAAGGCAGGGGCTGCTTTGGATTTCCTGAGGAAAGAAGTTTTTCTTCCGGAGAAGGGCAGCCGGTCCATTTGGGGTGTACAGCAGATAGCTGTGATCATTATGGAAAGTCCATCTCTAGACAATGTGTCTACACCGGCTTCCCACCTCCGCAGGACCGGGGTCACCATCTATGCAGTGGGCATCCAGTCTGCCTCTGAGAGTAAGGACCTGGAGAAGATTGCCACATACCCTCCTGGGAAGCACACCATTCACCTAGAGTCCTTTCTGCAGCTCGATGTTGTGAGAAAAATACTTAATAAGAAGCTCTGTCCTGAGACTTTGGGCAAAATGCCTCCTGTGGGCAGCATGCCTCCTGGGGCCGAAATGCCTCCTGGGGCCGAAATGCCTCCTGGGGGCAAAATGCCTCCTCTGACGGGTTGTACTCCACAGAGCATGCAAAAAG
Seq A exon
TTTGCACGCATGTGGAGAAGGCAGATATTTACTTCCTTATTGATGGGTCTGGCAGCATCAGTCCAAAGGACTTCACCGAGATGAAGGAGTTCATGAAGGACGTGATCAAAATGTTTCACATTGGACCCGACGGGGTACGATTTGGAGTCGTTCAGTACTCAGACAAAATTATAAGCCAGTTTTTACTCACCCAGTACACCAGCATGGAGAAGCTGGGGACAGCCATTGGCAACATCCAGCAGGGAGGAGGTGGTACCACCACCGGTGAGCCTTAAGCAAAATGGCCCTGGTCTTCAGAAACACTGCCAGAACCAATGTTGCCCAATACCTCATCGTCATCACTGATGGTCAGTCTTCAGACCCAGTGGCTGATGCTGCGCAGGGACTGAGGGACACTGGAATCAATATCTATGCCATTGGAGTAAGAGATGCTAATACCACCGAGCTTGAGGAAATAGCGAACAACAGGGTATTTTTCACAGATGATTTTCACTTCTTGAAAAGCATCCACCAGGAAGTCGTTCGGGATATCTGCTCCTTCGAGA
Seq C2 exon
ATTGTAGGAGCCAGAAAGCTGACATCATCTTCTTGATTGATGGCTCAGAATCCATCTCTTCTGAAGACTTTGAAAAGATAAAGGACTTCGTGAAGAGGATGGTGAATCAGTCTAATATCGGGGCTGATAAAATTCAGATTGGCCTTCTGCAGTTCAGCTCCACTCCCCGGGAAGAATTCACGCTTAAGAACAATTACTCCTCAAAGGACGAGATGTGTAGAGCCATCTCGAATGTTACACAGATAAATAGTGGTACCGAGACTGGGAAAGCCTTGAATTTCACTCTGCCCTTTTTTGACATTTCACAAGGAGGGAGACCCGGAGTTCATCAGTATTTGATTGTGATCACCGACGGGGACTCCCATGATGATATAGTTTCCCCAGCCAAAGCCCTCAGGGACAGAAACATAATTATTTTTGCTATTGGGGTGGGAAAAATTCAAAGAGCCCAGCTCTTGGCGATTACTAATGACCAGGACAAAGTATACCACGAAGAAAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000031782_CASSETTE2
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
In the CDS, with uncertain impact
No structure available
Features
Disorder rate (Iupred):
C1=0.178 A=0.038 C2=0.011
Domain overlap (PFAM):
C1:
PF0009223=VWA=WD(100=75.4)
A:
PF0009223=VWA=PD(50.0=90.2)
C2:
PF0009223=VWA=WD(100=93.0)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGCAGCTCGATGTTGTGAGA
R:
GAATTCTTCCCGGGGAGTGGA
Band lengths:
357-902
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]