MmuALTA1035616-1/2 @ mm10
Alternative 3'ss
Gene
ENSMUSG00000048126 | Col6a3
Description
collagen, type VI, alpha 3 [Source:MGI Symbol;Acc:MGI:88461]
Coordinates
chr1:90777441-90779454:-
Coord C1 exon
chr1:90778756-90779454
Coord A exon
NA
Coord C2 exon
chr1:90777441-90777543
Length
0 bp
Sequences
Splice sites
5' ss Seq
GCAGTAAGT
5' ss Score
9.07
3' ss Seq
TTTTTTTTTCCCCTCTCTAGGTG
3' ss Score
13.85
Exon sequences
Seq C1 exon
GAAGGCTTCCCAACACTTTGCCAGGGTGGCTGTTGTGCAGCAGTCAACCTACGAGTCTGTGGACAATGCCAGTGTGCCGCCTGTGAAGGTGGAATTCTCACTGACAGACTATGGTGCCAAGGAAAAGCTGTTGGATTTCCTTAGCCGGAGGATGACCCAACTTCAGGGAACCATGGGCCTGGGCAATGCCATTGAATACACTATAGAGAACATCTTTGAAAGTGCTCCAAACCCACGGGACCTCAAAATTATGGTGCTGATGTTGACTGGTGACATGCAGAGGCAGCAGCTGGAGGAGGCCCAGAGAGCCATCCTCCAGGCCAAGTGCAAGGGTTACTTCTTTGTGGTTCTGGGCATTGGCAGGAAGGTGAATATCAAGGAGGTCTACAGCTTTGCCAGTGAGCCCAATGATGTCTTCTTCAAATTTGTGGACAAATCAACTGAGCTCAACGAGGAGCCTCTGATGCGCTTTGGGAGGCTGCTCCCATCCTTTGTCAGCA
Seq A exon
NA
Seq C2 exon
GTGAAAATGCATTTTACCTGCCTCCAGATCTCAGGAAACAGTGTGATTGGTTCCAAGGGGACCAACCAGTGAAGAATGGCGTGAAGTTTGGTCACAAACAGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000048126-53-45,53-44-1/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.314
Domain overlap (PFAM):
C1:
PF0009223=VWA=WD(100=82.1)
A:
NA
C2:
NO
Main Skipping Isoform:
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:
CTGCTCCCATCCTTTGTCAGC
R:
TTGTGACCAAACTTCACGCCA
Band lengths:
119-145
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types