MmuINT0001920 @ mm10
Intron Retention
Gene
ENSMUSG00000026955 | Sapcd2
Description
suppressor APC domain containing 2 [Source:MGI Symbol;Acc:MGI:1919330]
Coordinates
chr2:25376164-25376803:+
Coord C1 exon
chr2:25376164-25376274
Coord A exon
chr2:25376275-25376351
Coord C2 exon
chr2:25376352-25376803
Length
77 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
CTGCCTGCTCGCCTGCCCAGGAG
3' ss Score
7.63
Exon sequences
Seq C1 exon
GCTCTGCCTTCGTCCTCTTTAGGGCCCCTGGGCCCTCCCTCACCCTCAACTCCAGTCTGGCAGCAACAGACCATCCTCATGCTGAAAGAACAGAACCGGCTTCTCACTCAG
Seq A exon
GTGAGGTGTGGGAAGATGGGGCTGGGGCTGGAGGCCCAGCAAACCCTGACCGCCTGCCTGCCTGCTCGCCTGCCCAG
Seq C2 exon
GAGGTGACTGATAAGAGTGAGCGCATCACGCAGCTGGAGCAGGAGAAGTCTGCACTCATCAAGCAGCTGTTTGAGGCCCGAGCGCTCAGCCAGCAGGATTCGGGACCTCTGGACTCCACTTTCATCTAGTTGGTTGTACCTCTCTAGGACAAGTGCACACAGACTTAGCTTCAGCTCCATGACACTGCCGGGAGCCTGTCTTCTGACTGAAGACCACCAGGGCTTAGACCTCAGAGCCCTCAAGGAGGCAGCTGCCTCCAGACTTGGGTGCTGCTAGAAATGTACTCTGCCGGAAGCTGCCACTTGCCACTGTCAGTGGGTGGCGGAGGATCATCCTCACGTTTACCTGATTTCAGGCAGCCCCTACAGAGAAGGGGGCATGTTTACGTCTGTCCTGATCCACCTGGCAGGGTTTCCTGGGATCACTGGCTTAGTAAAAAGTACTGGTCACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026955:ENSMUST00000114293:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.595 A=NA C2=0.364
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCAACAGACCATCCTCATGCT
R:
AAAGTGGAGTCCAGAGGTCCC
Band lengths:
171-248
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