MmuINT0139190 @ mm9
Intron Retention
Gene
ENSMUSG00000040188 | Scamp2
Description
secretory carrier membrane protein 2 [Source:MGI Symbol;Acc:MGI:1346518]
Coordinates
chr9:57428591-57429456:+
Coord C1 exon
chr9:57428591-57428719
Coord A exon
chr9:57428720-57429296
Coord C2 exon
chr9:57429297-57429456
Length
577 bp
Sequences
Splice sites
5' ss Seq
TGTGTGAGT
5' ss Score
5.84
3' ss Seq
CTCTCCTTGCTCCTTCCTAGTGC
3' ss Score
8.36
Exon sequences
Seq C1 exon
TGCGAGACAACAACTGGCCGCCACTCCCCTCATGGTGCCCTGTGAAACCCTGCTTCTATCAGGACTTCTCCACGGAGATCCCTGCTGACTACCAGCGGATTTGCAAGATGCTTTACTATCTCTGGATGT
Seq A exon
GTGAGTTCCAGGGTGCATTGGCAATGTCTTAAGATCCCGGGGTTTCTTTTGGGCTTTGCTTGCTGGGGTCAAGACCTCACAGACTCCATCCTTCCCAGTGTGTGGGCTAGCACGGGGAGGTTCTTTATGTCCTACCTAGGAACCTGCTCAAAAGGGCCAGCTTTTGAAAAGGAAAAGGGATTTCTGTGTTCCTGAAGAGTCCACCTCCGGAAAGGCTCAACGTGGCTCCTCACAGGCCTCTAGGTTCTTAGCAGTGAGGAAAGACTGCAGCTTCATTGTGGGCCTTTAAGAAAGAGTTAATTCATTCCACAAGAATTAGCCCAGGGTCTGCACCTCATTATGCCTATTCCTGAAACCTAGGTGTTCTGGGCATCTCTAAAGAAAACTTGGTCCCTGTATGAGGTCCTAGAGAAACAGGATCTGGAAGCTGACCTTCCCTTTGTATAGACTGAAGTCCCTATTACTTTTGCAGCCTCCTTCACAACGTGGCCTTTCCTAGGGAGTAGCTTGCTCTGTGGGCAGCCAATCCTCCAGCTGCCTTGGGTCAAGCCACTTGTCTCTCCTTGCTCCTTCCTAG
Seq C2 exon
TGCATTCAGTGACTCTGTTTCTAAACCTGCTTGCGTGCCTGGCCTGGTTCACAAGTGACGCAGCCAATGGAACAGCCTTTGGCCTCTCCATCCTTTGGTTTCTGATCTTCACTCCCTGTGCCTTCCTTTGTTGGTACCGACCCATCTACAAGGCTTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000040188-Scamp2:NM_022813:5
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF120723=DUF3552=PD(11.1=11.4),PF041448=SCAMP=PU(23.5=95.5)
A:
NA
C2:
PF041448=SCAMP=FE(29.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGCGAGACAACAACTGGCC
R:
AAAGCCTTGTAGATGGGTCGG
Band lengths:
286-863
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: