MmuALTD1013304-2/2 @ mm10
Alternative 5'ss
Gene
ENSMUSG00000026837 | Col5a1
Description
collagen, type V, alpha 1 [Source:MGI Symbol;Acc:MGI:88457]
Coordinates
chr2:28001570-28002590:+
Coord C1 exon
chr2:28001570-28001623
Coord A exon
chr2:28001624-28002027
Coord C2 exon
chr2:28002483-28002590
Length
404 bp
Sequences
Splice sites
5' ss Seq
ACAGTAAGT
5' ss Score
9.49
3' ss Seq
AACATTGTCTCTCCCCATAGGGT
3' ss Score
12.22
Exon sequences
Seq C1 exon
GGTTTCCAAGGCAAGACTGGCCCTCCAGGGCCCCCAGGAGTGGTTGGCCCTCAG
Seq A exon
GTGAGACCTTGCAGCATCCTGGGGCTGGGATTCTCTGGTGTTACAGAAACATGGGGCTACGGTCAGTTTTCTAGAGGGGTGGACCCCACTGGTGGAGAGGCATAAGTCCCATGGCAGGTATGTGCTAACTGTAGTAGATAAACTCCTTGAAAGGGGCTGTGCTGAGACAAAGCAGGTGACTCATGGAGCACTGCCCTGAGCTTGGCAGCAGAGCTCAGGTGACCCCAGAACAGTCAGGGCCAGGCTCTAGAGTTTGACTCTCCCCAAGGGCACAGGGGTCAGTAGAATCTTCTTGTCCCATTGTGGACATACTGGTCAGTGTCATGGAGTTCTGATTCCAACCAGCACAGATCAGTGAAGGGTATAGATTCCAGCTAGGGCTGACAGCTTTAGAGCCAAGGACA
Seq C2 exon
GGTCCCACAGGAGAGACGGGCCCCATGGGTGAGCGTGGCCATCCTGGTCCTCCAGGCCCTCCTGGTGAACAGGGCCTCCCAGGTGCTGCTGGGAAAGAAGGAACGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026837-55-47,56-47-2/2
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=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0139113=Collagen=PU(6.7=13.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
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]
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