RnoALTD0007412-2/2 @ rn6
Alternative 5'ss
Gene
ENSRNOG00000031782 | Col6a4
Description
collagen, type VI, alpha 4 [Source:RGD Symbol;Acc:1564060]
Coordinates
chr8:114679288-114693024:-
Coord C1 exon
chr8:114692942-114693024
Coord A exon
chr8:114692586-114692941
Coord C2 exon
chr8:114679288-114679378
Length
356 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGG
5' ss Score
10.51
3' ss Seq
TGTGCGTATGTTTGAACTAGGTG
3' ss Score
8.57
Exon sequences
Seq C1 exon
CCATGCTGGAGCTCCATGCAGCGAACATTGTCACAGCAGTAGTGACCTTCACAGAGGACCACAACCTCCCAGATGCCCTGCTG
Seq A exon
GTATGTGAGATGTGGGGAGGGCTGATGGGAAGAGGTGCAAGGCCTCATGGGAAGGGGTGCAAGGGCTGATGGGAAGAGGTCCTGGAGTTAGTCTGGTTTTTACTCCTCTACCAGGGATCACATGAATAGTAAGAGTGGTTCAGGGGAAGAATTCTCCAGAAATTTCTGAATATGGGAGAGATGAGGGAGTCTCAGTATGGACACTCTTGACAGAGCTACTAGAGACCTAACAGGCTCTTAGGAAGCACATGAACTGTGTTAAGGGCCTCACAGATGTTGTTGCATGTAATGCCCTCAAAGCTCTATTAGTTAGGCCTTGGTGCTCTCCACTGCAAGAAAATCAAGGCTTAGAGAAG
Seq C2 exon
GTGGATGGACTCAACACCTTTCACTTGTTTACCTGGGAGACGGAGCACCAGCAGGATGTGGAACGCCTGGTCAGCTGTACTCTCTGCTACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000031782-36-38,37-38-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
ORF disruption when splice site is used (sequence inclusion)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0009223=VWA=PU(86.5=91.1)
A:
NA
C2:
PF0009223=VWA=PD(12.4=71.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]