MmuALTA0004163-3/3 @ mm10
Alternative 3'ss
Gene
ENSMUSG00000029516 | Cit
Description
citron [Source:MGI Symbol;Acc:MGI:105313]
Coordinates
chr5:115997674-116006091:+
Coord C1 exon
chr5:115997674-115997853
Coord A exon
chr5:116005758-116005784
Coord C2 exon
chr5:116005785-116006091
Length
27 bp
Sequences
Splice sites
5' ss Seq
CAGGTACTG
5' ss Score
9.04
3' ss Seq
CAGCTTTGGGCCTGTGACAGCTC
3' ss Score
2.88
Exon sequences
Seq C1 exon
GAGCCCTGCCCGAGCATATCTGGAAATTCCAAACCCTCGCTACCTGGGCCCCGCGATTTCCTCCGGAGCGATTTACCTGGCCTCCTCATACCAGGACAAGTTAAGGGTCATATGCTGCAAAGGAAACCTCGTGAAGGAGTCAGGCACTGAGCAGCACCGGGTGCCCTCCACCTCCCGCAG
Seq A exon
CTCCTGACTCCTCCTTGTCCCCAGCAG
Seq C2 exon
CCCCAACAAGCGAGGCCCACCAACATACAACGAGCACATCACCAAACGCGTGGCCTCCAGCCCGGCGCCACCGGAAGGCCCCAGCCACCCCCGAGAGCCAAGCACACCGCACCGCTACCGAGACAGAGAGGGTCGGACAGAGCTGCGCAGGGACAAGTCTCCAGGCCGCCCTCTGGAGCGGGAGAAGTCCCCAGGCCGAATGCTCAGCACTAGGAGAGAGCGGTCCCCAGGGAGACTGTTTGAAGACAGCAGCAGGGGCCGGCTGCCTGCAGGAGCAGTGAGGACCCCACTGTCCCAGGTTAACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000029516-89-109,89-108,89-107-3/3
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (No Ref, Alt. Stop)
No structure available
Features
Disorder rate (Iupred):
C1=0.192 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0078017=CNH=PD(5.4=24.6)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATGCTGCAAAGGAAACCTCGT
R:
CGTTTGGTGATGTGCTCGTTG
Band lengths:
117-144
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