MmuINT1030793 @ mm10
Intron Retention
Gene
ENSMUSG00000026927 | Sdccag3
Description
serologically defined colon cancer antigen 3 [Source:MGI Symbol;Acc:MGI:1915362]
Coordinates
chr2:26387556-26388560:-
Coord C1 exon
chr2:26388492-26388560
Coord A exon
chr2:26387672-26388491
Coord C2 exon
chr2:26387556-26387671
Length
820 bp
Sequences
Splice sites
5' ss Seq
GAGGTAGAG
5' ss Score
4.86
3' ss Seq
TGTGGTGTTCGTTTTTTCAGGTG
3' ss Score
11.97
Exon sequences
Seq C1 exon
GTTTTGGCTATGGAAAGGGGAAATGTACTAACCAAGGTCCTTCGGGAGCCCCTGAGACGCGCTTTGGAG
Seq A exon
GTAGAGTAGCTCAGTGGGTCTTCTTTCCCTCTTAGACTCAGTGCCTGGCAGGGGTCTGGCCATGGGCTTTCAGGATGACAGGGTTTAAGGGGTATATACCTGGAGCCCAAAAGAGCAGTGGAGCCGGGCAGTGGTGGCGCACGCCTTTAATCCCAGCACTTGGGAGGCAGAGGTAGGCGGATTTCTGAGTTCGAGGTCAGCCTGGTCTACAGAGTGAGTTCCAGGACAGCCAGGGCTACACAGAGAAACCCTGTCTTGAAAAACCAAGAAAAAGAAAAAAGCGACATAAGATGTAGGTGTTATGAGACCCACATAAGCAACTGAGTCTGATAGGTGTGGAGGTAGAGGCTGGTCAACTAGGGTAGTTGGAGAGAAGGTCAGAGGAAGGGATGGCATAGAGCAGTTCCTGAGATGCACTGTGGCATCTCAGCAGCTTTGAATCGCCTACAGTAGCCTTCAGCCCACTGTGTTGTGTGTTTGTGTGTGCGCACAGGGGGTAGTATGTGTAGGGGGGTGGAGTGAAGTCAGCCTCAGCAACCTACAGGCTTTACTGGGGAACTGGGCATATGACTCAGAGGTAGATCAGTTACCTGAATGTGGGTGGACCCCTGGACTTGACCTTTGTTTGGCACAGCATTTTTTGTTTCTTTTAAAGTGGCAAGGGTTGTCTCAAGGAGGCCAAAGGGTGAGAGCCTGCATATTCTCTAACCTCTTTGGCAGCTCTCATGTTCTGTAATGTTCTTTGAGTTACAGTTGAAACGTGATGGTAACACAGGATGTTGGGCCCTTTCACAGTCTTCTGTGGTGTTCGTTTTTTCAG
Seq C2 exon
GTGACAAACTTGAAGACCTTGAAGAAGCCAATCCATTCTCCTTCAAAGAGTTTTTGAAAACCAAGAACCTCAGCCTGTCAAAAGAAGACACGACCACCAGCCGAATTTACCCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026927:ENSMUST00000028293:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.896 A=NA C2=0.415
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion 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:
GTTTTGGCTATGGAAAGGGGA
R:
TTGGGTAAATTCGGCTGGTGG
Band lengths:
183-1003
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