MmuINT0153337 @ mm10
Intron Retention
Gene
ENSMUSG00000042286 | Stab1
Description
stabilin 1 [Source:MGI Symbol;Acc:MGI:2178742]
Coordinates
chr14:31154341-31154718:-
Coord C1 exon
chr14:31154625-31154718
Coord A exon
chr14:31154500-31154624
Coord C2 exon
chr14:31154341-31154499
Length
125 bp
Sequences
Splice sites
5' ss Seq
AACGTTAGT
5' ss Score
1.4
3' ss Seq
TTTATTTATAACCCACACAGGCT
3' ss Score
4.74
Exon sequences
Seq C1 exon
GTGCGTCTGCCATGATGGTTTTGAAGGTAATGGCTTCTCCTGCAAACGCAGCAATCCTTGCTCGCGCCCAGACCGTGGTGGCTGCTCAGAGAAC
Seq A exon
GTTAGTTCATCTCTCTTGCTCTCTCTTCCTCTTTATCCCTTTTATTGACCCAGGGGCAGGATGGGGCTCCTTGATCTCCAGCCATGACCGTGCAACCTCGAGTCATTTATTTATAACCCACACAG
Seq C2 exon
GCTGAATGTGTCCCTGGAGACCTGGGTACCCACCACTGCATTTGCCACAAAGGCTGGAGTGGGGATGGCCGCATCTGTGTGGCCATCGATGAATGTGGGCTGGACACTCGAGGTGGCTGCCATGCTGATGCTCTCTGCAGCTATGTGGGCCCTGGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000042286:ENSMUST00000036618:24
Average complexity
IR
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:
PF129472=EGF_3=PD(42.4=43.8),PF0000822=EGF=PU(31.4=34.4)
A:
NA
C2:
PF0000822=EGF=PD(62.9=41.5),PF129472=EGF_3=PU(52.8=35.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping 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:
TGCGTCTGCCATGATGGTTTT
R:
CCCACATAGCTGCAGAGAGC
Band lengths:
242-367
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