MmuINT0011571 @ mm9
Intron Retention
Gene
ENSMUSG00000015850 | Adamtsl4
Description
ADAMTS-like 4 [Source:MGI Symbol;Acc:MGI:2389008]
Coordinates
chr3:95481451-95481928:-
Coord C1 exon
chr3:95481731-95481928
Coord A exon
chr3:95481631-95481730
Coord C2 exon
chr3:95481451-95481630
Length
100 bp
Sequences
Splice sites
5' ss Seq
GAGGTCAGC
5' ss Score
5.66
3' ss Seq
TCTCTTCCCCTCCCTTACAGTGT
3' ss Score
11.37
Exon sequences
Seq C1 exon
TGCTCAGCCGAGTGCGGGACAGGAATCCAGAGACGCGCTGTGGTCTGCCTTAGGAGTGGGGAGACCCTTCAGGGAGACCCGGAAGCAGGAAGCACTGAGCAGGGCTGCCCTCTCAGAAGCCGCCCTCCCGATATGCGTGCCTGCAGTTTAGGGCCCTGTGAGAGGACATGGCGCTGGTTCACAGGCCCCTGGAGTGAG
Seq A exon
GTCAGCTGGGGGCCCTGAGATGCGGGACCGAAGGGAAACCAGTCCTGGCGAAGCCCCACATTTTAAACTTAAGAGTGATCTCTCTTCCCCTCCCTTACAG
Seq C2 exon
TGTTCCTCGGAGTGTGGGTCTGGCACACAACACAGAGACATTATCTGTGTGTCCAAGCTGGGGGCCGAGTTCAATGTGACTTCTCCCAGCAACTGTTCCCACCTACCCAGGCCGCCTGCCCTGCAGCCCTGTCAGGGGCAGGCCTGTGAGGACAAATGGTTCTCCACTCTCTGGAGTCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000015850-Adamtsl4:NM_144899:15
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.167 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0009014=TSP_1=PU(10.7=9.1)
A:
NA
C2:
PF0009014=TSP_1=PD(85.7=80.0),PF0009014=TSP_1=PU(11.8=10.0)
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:
TGTGGTCTGCCTTAGGAGTGG
R:
AAGTCACATTGAACTCGGCCC
Band lengths:
242-342
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: