MmuALTD0003404-3/3 @ mm10
Alternative 5'ss
Gene
ENSMUSG00000022371 | Col14a1
Description
collagen, type XIV, alpha 1 [Source:MGI Symbol;Acc:MGI:1341272]
Coordinates
chr15:55411570-55418817:+
Coord C1 exon
chr15:55411570-55411709
Coord A exon
chr15:55411710-55411721
Coord C2 exon
chr15:55418688-55418817
Length
12 bp
Sequences
Splice sites
5' ss Seq
ACGGTCTGT
5' ss Score
5.11
3' ss Seq
GTATTTTCCTTTCTACTCAGGTT
3' ss Score
9.52
Exon sequences
Seq C1 exon
TTCTCCAGACAGGAATCAGAAACCTGGTTGTAGATGACGAAACTGCTACTAGCCTGCGGGTATCGTGGGACATTTCTGACAGCAATGTGGAGCAGTTTAGGGTGACCTACCTGAAAGCCCAAGGGGACCCTATGGAAGAA
Seq A exon
GTGGTAGGAACG
Seq C2 exon
GTTATGGTGCCTGGAGTGCAAAACAGTCTCCTTCTGAAGGCTCTACTTCCAGACACTGAGTATAAAGTCACAGTAACCCCTGTCTATACTGTTGGAGAAGGCGTCAGCGTCTCCGCTCCAGGGAAGACTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000022371-20-25,21-25,22-25-3/3
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.053 A=NA C2=0.091
Domain overlap (PFAM):
C1:
PF0004116=fn3=PU(54.3=91.7)
A:
NA
C2:
PF0004116=fn3=PD(41.7=79.5)
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGACAGCAATGTGGAGCAGT
R:
AGACTGTTTTGCACTCCAGGC
Band lengths:
94-106
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