MmuALTA1035618-3/4 @ mm10
Alternative 3'ss
Gene
ENSMUSG00000048126 | Col6a3
Description
collagen, type VI, alpha 3 [Source:MGI Symbol;Acc:MGI:88461]
Coordinates
chr1:90767389-90768488:-
Coord C1 exon
chr1:90768324-90768488
Coord A exon
chr1:90767512-90767603
Coord C2 exon
chr1:90767389-90767511
Length
92 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGT
5' ss Score
10.65
3' ss Seq
AATGCTCTCCATACCCAGAGTTA
3' ss Score
-10.23
Exon sequences
Seq C1 exon
ATATATGTAAGCTGTCCAGAGATGCTGGGACTTGTGTGGACTTCAAGTTACTATGGCACTATGACCTAGAGAGCAAAAGTTGCAAGAGATTCTGGTATGGAGGTTGTGGAGGCAACGAGAACAGATTCCACTCCCAGGAAGAATGTGAAAAGATGTGTAGTCCTG
Seq A exon
TTAACAGTTTGACAAGAGCCTAAGCATGGCCTTCAGGCAACACGTACCTCTGGGAGAAGGAGGAGGCAGCCATTTCTAACTCGTTTCTATAG
Seq C2 exon
AAGCCCTGGGTAGATGCCTCAGCACGGTGCCTTTTCATGCTTTGATTGACACTCAACCTCGGGAGGAAACCCTCTGCACGTGACCTGTCAATATGGTGCTAAATGTGTCTATGGACCCTGCTC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000048126-60-55,60-54,60-53,60-52-3/4
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (No Ref, Alt. Stop)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0001418=Kunitz_BPTI=WD(100=94.6)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTGGGACTTGTGTGGACTTC
R:
ATGAAAAGGCACCGTGCTGAG
Band lengths:
180-272
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