MmuINT0011573 @ mm10
Intron Retention
Gene
ENSMUSG00000015850 | Adamtsl4
Description
ADAMTS-like 4 [Source:MGI Symbol;Acc:MGI:2389008]
Coordinates
chr3:95676201-95677255:-
Coord C1 exon
chr3:95677111-95677255
Coord A exon
chr3:95676970-95677110
Coord C2 exon
chr3:95676201-95676969
Length
141 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAG
5' ss Score
9.65
3' ss Seq
CCATTGACCTCTGTCCTCAGATG
3' ss Score
10.41
Exon sequences
Seq C1 exon
TGTTCTCGATCCTGCCAGGGAGGCATGCAGACGAGGGAAGTCCAGTGCCTGAGTGGCAACCAGACTCTCAGCTCCCGATGCCCTCCTCACCTGAGACCTTCCAGGAAGCGGCCCTGCAACAGCCAACCCTGCAACCAGCGACCAG
Seq A exon
GTAAAGAGCGTCCCACCCACCCCAGTAGAGGGGATGGAGTTGGACTATGGGCAGATATGAGAAGAGCTGGTGGGATTGGGTACCACGCTCCCAGAGGGGATGATGTCAGTCCAGTCTTGTGCCATTGACCTCTGTCCTCAG
Seq C2 exon
ATGACCAATGCAAGGACAGCTCTCCACACTGCCCCCTGGTGGTACAGGCCCGGCTCTGCGTCTACCCCTACTACACAACTACCTGCTGCCGCTCTTGTGCCCATGTCCTGGAGCAGTCCCAGCTGGAACCGGCTTGAAACGGGTCCCAGAGACCCTGCCTTCGTGGTTTTCTTGTGCCACCCACTGACTAGCCCGCTCTGTACCCTCTGGCTTTTCACCTGGTCTCAGCCTTGCCAGAGGGATCCTCCAGGGTGAGAGACCTACAGTGTGATAGCTCAAGAAGTGTACCTGACCTGCCTGGGGGTCTGTCCTGTGTATGTTTATCACTTCCACAAAAGCAGCTTGAGAAAGAATAGGAAGTGGGCGGTGCCTGTATCCCTCATGCTTTTCTGGGCTGGGGAGAAAGGGGGAGAGAGCAAGGTTATATTTCCACACTAATCTGAGCTACATAGTGTGTGTCCCCCAGAAGTTCCAGGTCTGTGCCCCAATCCTCGTCTCCACATCTTCTAAATTACCCTGTTGTTCCCATCCCTGCCTTATCTAGTCTCTGTATTCCTACCTCCCTCATTAGCAGGGGCAGGGATCAGCCACTGCTACCCTACCTTACTGGGGAAGGACCACACCTCTCCAGGGCAGGGACCACTTGTGTCGAGGGTGAAAAAGAGAAACGTCAGCATAAGACATCCTAGCCCCAGTCGCCACTTCACACTGAAAATGATGCCCACCCCAGAAGTAATTTATTTTTTATTAAAGTTGGTTTTGACATAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000015850:ENSMUST00000117782:17
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0009014=TSP_1=PD(84.3=87.8)
A:
NA
C2:
PF086866=PLAC=WD(100=71.7)
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:
CCTCCTCACCTGAGACCTTCC
R:
GTCAGTGGGTGGCACAAGAAA
Band lengths:
252-393
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