MmuALTA1002186-2/3 @ mm10
Alternative 3'ss
Gene
ENSMUSG00000004892 | Bcan
Description
brevican [Source:MGI Symbol;Acc:MGI:1096385]
Coordinates
chr3:87988272-87988837:-
Coord C1 exon
chr3:87988693-87988837
Coord A exon
chr3:87988440-87988462
Coord C2 exon
chr3:87988272-87988439
Length
23 bp
Sequences
Splice sites
5' ss Seq
TTGGTGAGG
5' ss Score
6.9
3' ss Seq
TAAATGTGTACCCCTTGCAGTGT
3' ss Score
6.83
Exon sequences
Seq C1 exon
CTCTATGAAAACTGGAACCCTGGGCAGCCTGACAGCTACTTCCTGTCTGGGGAGAACTGTGTGGTCATGGTGTGGCATGACCAGGGACAGTGGAGTGATGTGCCCTGCAACTACCATCTATCCTACACCTGCAAGATGGGGCTTG
Seq A exon
TGTCCTGTGGGCCTCCACCACAG
Seq C2 exon
CTACCCCTGGCTCAAATATTTGGTCGCCCTCGGCTGCGCTACGCGGTGGATACTGTGCTTCGATATCGATGCCGAGACGGGCTGGCTCAGCGCAACCTGCCGTTGATCCGCTGCCAGGAGAATGGGCTTTGGGAGGCCCCTCAGATTTCCTGTGTACCCCGGAGGCCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000004892-25-32,25-31,25-30-2/3
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0005916=Lectin_C=PD(42.5=91.8)
A:
NA
C2:
PF0008415=Sushi=WD(100=89.1)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATGTGCCCTGCAACTACCATC
R:
ATCGAAGCACAGTATCCACCG
Band lengths:
112-135
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