MmuINT0011568 @ mm9
Intron Retention
Gene
ENSMUSG00000015850 | Adamtsl4
Description
ADAMTS-like 4 [Source:MGI Symbol;Acc:MGI:2389008]
Coordinates
chr3:95483914-95484497:-
Coord C1 exon
chr3:95484368-95484497
Coord A exon
chr3:95484119-95484367
Coord C2 exon
chr3:95483914-95484118
Length
249 bp
Sequences
Splice sites
5' ss Seq
ATAGTGAGT
5' ss Score
6.97
3' ss Seq
TCCCTCTCCCTCACCCACAGCTG
3' ss Score
10.79
Exon sequences
Seq C1 exon
GTGTTTGGCACCCCATTTTCCTCTGCATTTCCCGTGAGTCAGGAGAGGAGTTGGATGAACAGAGCTGTGCTGTGGGGGCCAGACCCCCAGCTTCCCCTGAACCCTGCCATGGACCCCCGTGTCCTCCATA
Seq A exon
GTGAGTACGGCCCACAGGGAGGGCTGGCCCTGTCCTTGCTCCCTGCCCTCGGGTTCTTACAGCACCTGGATGCAGGAAGATTAGATTAGAAAGGTTCACACCCCGTAGACAGTAAGGAAACCCTGGCAGCCTCCTTCCAGGCTAGAAATGCAGATGCCAAGTGTGAAATGACTCCTCTCCTATTCGGGTCCCAGTCTGTCACCCCCCCCCCCACATTTCCACCCATCGTTCCCTCTCCCTCACCCACAG
Seq C2 exon
CTGGGAGGCTGGCGAGTGGACATCCTGCAGCCGATCCTGTGGCCCTGGCACCCAGCACCGCCAGCTACTCTGCAGACAGGAATTCGGAGGTGGTGGCTCCTCGGTACCTCCAGAGCGCTGTGGACATCTCCCCCGGCCCAACATCACCCAGCCTTGTCAGCTGCACCTCTGTGGCCACTGGGAGATTAGCTCCCCCTGGAGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000015850-Adamtsl4:NM_144899:12
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.182 A=NA C2=0.058
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0009014=TSP_1=WD(100=81.2),PF0009014=TSP_1=PU(12.7=10.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCATTTCCCGTGAGTCAGGAG
R:
TAATCTCCCAGTGGCCACAGA
Band lengths:
294-543
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: