MmuINT0140196 @ mm10
Intron Retention
Gene
ENSMUSG00000026927 | Sdccag3
Description
serologically defined colon cancer antigen 3 [Source:MGI Symbol;Acc:MGI:1915362]
Coordinates
chr2:26385498-26386063:-
Coord C1 exon
chr2:26385990-26386063
Coord A exon
chr2:26385610-26385989
Coord C2 exon
chr2:26385498-26385609
Length
380 bp
Sequences
Splice sites
5' ss Seq
AATGTATGT
5' ss Score
5.87
3' ss Seq
TCAGTTTTTCCTCTACTGAGGGT
3' ss Score
-7.2
Exon sequences
Seq C1 exon
CTGAAAGATGAAAACTCTAAGCTCAGAAGAAAGCTAAATGAGGTTCAGAGCTTCTCTGAAACTCAAACAGAAAT
Seq A exon
GTATGTAAACTTGTAGTTGGGCATCACCTTAAACCCTCCTCTACCATTCAGGGAACCTGGCTCCACGGGCTGAGGAGCCTTGCTGCTTGTCATCCCTAGACCTAAAGCCGCAGACGCACTTTCCTGCTCTGCTTTAGTCTTTCTAAGACAGTCGGCTGGATTTTGTCTTGGTTGGCAGAGCTTGAGAAAATGGTCTCTGGGCCTTCTATTGGGAGCATAAAGCTACTCGGGCTGGAGGCCATTGACATCCTGTGGCTGCCTGAAGCAGCTGCTCCATCCATAGGTTCTAGTGGGTTTCACCAGCTAATCAGACTAAAGTGCTGTTGGAAGCATTCTTGACAGTGGCCTGGAGTACTTACCTCAGTTTTTCCTCTACTGAG
Seq C2 exon
GGTGAGGACACTCGAACGGAAGTTGGAGGCGAAGATGATCAAGGAGGAGAGTGACTTCCATGACCTCGAGTCAGTAGTCCAGCAAGTCGAACAGAACCTTGAACTGATGACC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026927:ENSMUST00000028293:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.480 A=NA C2=0.263
Domain overlap (PFAM):
C1:
PF0026115=Tropomyosin=FE(12.9=100),PF131661=AAA_13=FE(20.0=100),PF0076914=ERM=FE(13.3=100)
A:
NA
C2:
PF0026115=Tropomyosin=FE(19.9=100),PF131661=AAA_13=FE(30.8=100),PF0076914=ERM=FE(20.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGAAAGATGAAAACTCTAAGCTCAGA
R:
GGTCATCAGTTCAAGGTTCTGT
Band lengths:
185-565
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- 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