MmuALTD1041929-5/5 @ mm10
Alternative 5'ss
Gene
ENSMUSG00000028495 | Rps6
Description
ribosomal protein S6 [Source:MGI Symbol;Acc:MGI:98159]
Coordinates
chr4:86854660-86856775:-
Coord C1 exon
chr4:86856728-86856775
Coord A exon
chr4:86856482-86856727
Coord C2 exon
chr4:86854660-86854955
Length
246 bp
Sequences
Splice sites
5' ss Seq
AACGTGAGT
5' ss Score
9.54
3' ss Seq
TTGCTCATCTGGATTTTTAGGTA
3' ss Score
7.57
Exon sequences
Seq C1 exon
CGCATGGCCACGGAAGTAGCCGCTGATGCTCTTGGTGAAGAGTGGAAG
Seq A exon
GTAAGGTTGTTACCGGCATCCATGTCCCAGCTTGGCGAGCGCAAGGGCTGTTTTGGGTTAAGTTTCATTAATAGAACCAAGTTTGGGGAAATGGGCCGAAAGGACATGCTTCTTTCTTGCTTGCCGTACGGAATTCAGGGTCTTAAAAAAAGCCTTTCATGTTCATGCTAGTAAAACCGGGGTAGTCAGGGTAAGTCAAAAGGAGAGAGATGGCTAGTTTACCTTAGTTGGAAACGGAGACAAAAC
Seq C2 exon
GTAAGAAGCCCAGGACCAAAGCACCCAAGATTCAGCGACTTGTTACTCCTCGTGTCCTGCAACACAAACGCCGACGTATTGCTCTGAAGAAGCAACGCACTAAGAAGAACAAGGAGGAGGCTGCAGAATACGCTAAACTTTTGGCCAAGAGAATGAAGGAAGCCAAAGAAAAGCGCCAGGAACAGATTGCCAAGAGACGTAGGCTGTCCTCACTGAGAGCTTCTACTTCTAAGTCTGAGTCCAGTCAAAAATGAGTCTTTAAGAGCAACAAATAAATAATGACCTTGAATCTTTCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000028495-3-12,4-12,5-12,6-12,7-12-5/5
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
In the CDS, with uncertain impact
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0109214=Ribosomal_S6e=FE(33.9=100)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Cow
(bosTau6)
No conservation detected
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:
AAGTAGCCGCTGATGCTCTTG
R:
GACTCATTTTTGACTGGACTCAGACT
Band lengths:
292-538
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