MmuALTA0004161-3/4 @ mm10
Alternative 3'ss
Gene
ENSMUSG00000029516 | Cit
Description
citron [Source:MGI Symbol;Acc:MGI:105313]
Coordinates
chr5:115967888-115969157:+
Coord C1 exon
chr5:115967888-115968085
Coord A exon
chr5:115968937-115968963
Coord C2 exon
chr5:115968964-115969157
Length
27 bp
Sequences
Splice sites
5' ss Seq
CAAGTAAGA
5' ss Score
7.61
3' ss Seq
GAATCCCCGTTTGCTACAAGGCA
3' ss Score
0.76
Exon sequences
Seq C1 exon
GTCATCACCGACCTGGAGGAGCAGCTGAACCAGCTCACCGAGGACAACGCCGAGCTCAACAACCAAAACTTCTACCTGTCCAAACAACTCGATGAGGCTTCCGGGGCCAATGACGAGATTGTGCAGCTGCGGAGTGAGGTGGACCATCTCCGCCGTGAGATCACGGAGCGGGAGATGCAGCTCACCAGCCAGAAGCAA
Seq A exon
GCACAACTCAGTGCTCCTGATTTGCAG
Seq C2 exon
ACGATGGAGGCTCTGAAGACGACATGCACCATGCTGGAGGAGCAGGTCCTGGACCTGGAGGCCCTGAACGACGAGCTGCTGGAGAAGGAGCGCCAGTGGGAGGCCTGGCGGAGCGTCCTCGGCGACGAGAAGTCCCAGTTCGAGTGTCGAGTTCGAGAGCTACAGAGGATGCTGGACACCGAGAAGCAGAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000029516-60-61,60-60,60-59,60-58-3/4
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.414 A=NA C2=0.154
Domain overlap (PFAM):
C1:
PF0149614=V_ATPase_I=PU(40.8=97.0)
A:
NA
C2:
PF0149614=V_ATPase_I=FE(40.8=100)
Main Inclusion Isoform:
NA
Other Inclusion 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:
GGCCAATGACGAGATTGTGCA
R:
GCATGTCGTCTTCAGAGCCTC
Band lengths:
121-148
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