MmuINT0011523 @ mm9
Intron Retention
Gene
ENSMUSG00000036040 | Adamtsl2
Description
ADAMTS-like 2 [Source:MGI Symbol;Acc:MGI:1925044]
Coordinates
chr2:26958289-26958741:+
Coord C1 exon
chr2:26958289-26958502
Coord A exon
chr2:26958503-26958585
Coord C2 exon
chr2:26958586-26958741
Length
83 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGC
5' ss Score
8.7
3' ss Seq
TCGCCCTGACTTCCTCGTAGTGC
3' ss Score
4.8
Exon sequences
Seq C1 exon
GTGGGAGACCAGCAGCTGGAGTGAGTGCTCACGTACCTGTGGTGAGGGCCATCAGTTCCGCATCGTGCGCTGCTGGAAGATGCTGTCCCCTGGATTTGACAGCTCCGTGTACAGTGACCTCTGTGAAGCCACGGAGGCTGTCCGGCCGGAGGAACGCAAGACATGCCGCAACCCAGCCTGCGGACCACAGTGGGAGATGTCTGAGTGGTCAGAG
Seq A exon
GTGAGCATCTACAGACGCTGGGGTGGTAGCCTGTTCCTGAGAACAGATGTGCCATGATGCTTCTCGCCCTGACTTCCTCGTAG
Seq C2 exon
TGCACTGCCAAGTGTGGAGAGCGCAGTGTAGTGACCAGAGACATCCGCTGTTCCGAGGACGAGAAACTGTGTGACCCCAGCACCAAGCCTGTGGGAGAGAAGAACTGCACTGGGCCTCCCTGTGACCGCCAGTGGACTGTCTCGGACTGGGGACCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000036040-Adamtsl2:NM_029981:14
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:
PF0009014=TSP_1=WD(100=83.3)
A:
NA
C2:
PF0009014=TSP_1=PU(14.5=15.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGTGACCTCTGTGAAGCCAC
R:
CACACAGTTTCTCGTCCTCGG
Band lengths:
176-259
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: