MmuALTA1012257-3/3 @ mm10
Alternative 3'ss
Gene
ENSMUSG00000024330 | Col11a2
Description
collagen, type XI, alpha 2 [Source:MGI Symbol;Acc:MGI:88447]
Coordinates
chr17:34046440-34047277:+
Coord C1 exon
chr17:34046440-34046502
Coord A exon
chr17:34047098-34047128
Coord C2 exon
chr17:34047129-34047277
Length
31 bp
Sequences
Splice sites
5' ss Seq
GAGGTAACT
5' ss Score
8.77
3' ss Seq
CCCTCCTGGTCCTTGGGAAGGAG
3' ss Score
2.29
Exon sequences
Seq C1 exon
TACCCCACCCCAGGTGAAGAGGAAGGAGTCCTGGAGTCCAGTCCCTTGCCATTCCTTGAAGAG
Seq A exon
GAGCAGACAGATCTTCAGGTCTCCCCAACAG
Seq C2 exon
CTGACAGTTTCCAGGCAGAGGAATATGGGGAGGGAGGCACAGACTCCCCAGCAGGGTTCTACGATTACACCTATGGCTATGGGGATGATTATCGTGAGGAGACCGAGCTTGGCCCTGCCCTCTCTGCGGAGACAGCTCACTCAGGAGCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000024330-15-9,15-8,15-7-3/3
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Skipping Isoform:
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:
CCAGTCCCTTGCCATTCCTTG
R:
TCATCCCCATAGCCATAGGTGT
Band lengths:
114-145
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