MmuALTA1038402-2/2 @ mm10
Alternative 3'ss
Gene
ENSMUSG00000057037 | Cfhr1
Description
complement factor H-related 1 [Source:MGI Symbol;Acc:MGI:2138169]
Coordinates
chr1:139557439-139560272:-
Coord C1 exon
chr1:139560086-139560272
Coord A exon
chr1:139557552-139557633
Coord C2 exon
chr1:139557439-139557551
Length
82 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGC
5' ss Score
10.22
3' ss Seq
TTTATCTTTTTTTTTCCAAGTGA
3' ss Score
6.74
Exon sequences
Seq C1 exon
TATTTACCAAACTAGCTTCCAGAAATGCCCTGAAACAGAAAGTCATGCTCAGCAGTTTTAACAACAGGGTTCCCAGAAGCACCACCAGGATTGGAGTGCTCTAGGCTTTAGAAGATGGGGTTCTGTCGCCTGTTGCTCTTAGCTATTGTTCTCCTAACCTCATGGTTCTCTACTGCCAAAGGTGAAG
Seq A exon
TGAGCCTTTGTGATTTTCCAAAAATAAGACATGGAATACTATATGATGAAAAGAAAAATGAGCCCTTTTCCTCTGTTCTTAG
Seq C2 exon
TGGGAAGATTTTATACTACTCCTGTGAATATAATTTTGCATCTCCATCAAATTCCTTCTGGACTCGCATCACTTGCACAGAATCAGGATGGTCACCAACTCCGAAGTGTCTCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000057037-0-1,0-0-2/2
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:
NO
A:
NA
C2:
PF0008415=Sushi=WD(100=92.4)
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
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTTCTGTCGCCTGTTGCTCTT
R:
TTCGGAGTTGGTGACCATCCT
Band lengths:
173-255
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