MmuINT0011570 @ mm10
Intron Retention
Gene
ENSMUSG00000015850 | Adamtsl4
Description
ADAMTS-like 4 [Source:MGI Symbol;Acc:MGI:2389008]
Coordinates
chr3:95677808-95679764:-
Coord C1 exon
chr3:95679588-95679764
Coord A exon
chr3:95678006-95679587
Coord C2 exon
chr3:95677808-95678005
Length
1582 bp
Sequences
Splice sites
5' ss Seq
AAGGTGGGT
5' ss Score
8.23
3' ss Seq
GTCACTCTCCCTCCCAACAGTGC
3' ss Score
10.63
Exon sequences
Seq C1 exon
TGCTCTGTGCGCTGTGGTCGTGGTCAGAGGAGCCGGCAAGTTCGGTGTGTTGGCAGTAATGGTGATGAGGTGGACAAGCAGGAGTGTGCTTCAGGGCCCCCGCCGCCCCCCAGCAGAGAGGCCTGTGACATGGGCCCCTGCACCACAGCCTGGTTCTACAGTGACTGGAGTTCCAAG
Seq A exon
GTGGGTCCTATACTTCTGGCAAATCTGCCTTCCCTGGTGACTGTACCCCAGGCCATGTTGTCACACCCTGTTCAACACAGCCTTGATAAACTTTGTTTTTGACTTAGCCTAGGAATTCAGAGTTAAGTGGGAAAAACTTACATTCACACCCATCATTTTAGTACTTGGGAGGCTGGGCCAGCCTGGGCTACATAGTGAGTTCCAGGTCATATGGCAGCAATAGAACTTTTTTGTTCTGTTTTGTTTTTTTCGAGACAGGATTTCTTTGTGTAACCTGGCTGTCCTAGACTAGCTCTGTAGACCAGGCTAGCCTCAAACTCACAGAGATATACCTCCCTCTGGCTAGCAAGTGCTGGGACTAAAGGTGTGTGCTACCACCCCTTCCCCCCCTCAATCTGTCTTTTTGTTTGTTTGTTTGTTTGTTTGTTTGTTTTTCGAGACAGGGTTTCTCTCTATAGCCCTGGCTGTCCTGGAAGTCACTTTGTAGACCAGGCCGGCCTCGAACTCAGAAATCCGCCTGCCTCTGCCTTCCAAGTGCTGGGATTAAAGGCATGTGCCACCACCGCCCGGCTCAATCTGTCTTTTTAAAACAAACAAACAAACAAACAAACAAACAAACAGATGCAAGCTGGATACGGCAGTACTTTTCATCCCAGATAAGGCAGGAGAACTCTCTGTGAGTTTGAATTCTAGGCTAGCCAGGGCTACCCTGCCTCAAAAAACCATGGGCAACAAAAATCCAACCAACCAACCAACCAACCAACCAGACAAAAAAGAATAAAGAAAAAATGTGCTGGAGAGATAGCTCAGTAGTTATGGGCATTTCTGTTTTCCTAGAGGACCTGCATTCAGTTCTCAGTACCCACATCAAGTGGCTTACAATCACTGCTAACTCCAGTTCCAGGAGATCTGGTATCCTCTTCTGGCCTCTGTGAGCATATGTGGTATACACAGACACATACACACAAAACAGCAAAGTAAAACGCAGCAGGGGACTGGCCAGATGGCTCAGTAGGTGAAACTCCTTGTGTGGTAGGCCCGGCAATCTGAGTGAGGCTCTGGATCCCATGGTGGAAAAAGAGAACCAGCCCTTGGGCCCCTGCACTCACACACAAGCTGGACTCGCAAGCACACACCTTTAATTTCACTACTACGGAGGCAGAAACAGGAGAATCTCTCTGAGTCTGAGGCCAGACTGGTCCACACAGCCAGCTCCAGGATGACTAGAGCTACATAGAGAGACCCTGTCTTTAAAAGAATTGTACATACAGAAACAATAGGTTTCACACAAATAAATAAATAAATAGGTAAGATATGGTGTAGCTCAGTTGGCGGTGTTTGCAAAGCTGGCATGCATGAGGCCCGACTTTTGCTCCCCAGTGTCACATAAACCAGGTGTATGACACACACTCTTAACCCCAGCACCCAAGAGGTAGAAGCAAGAGGGTCAGAAATTTAAGTATCTCAGCTTTACACCAAGTTCAAGAACAGACTAGAACCCAGCTGTCTATCTCCTCTCCCAGGCTGGTATCCCCAGGGCTTCCTCACCTCCCAACACATAGGTCACTCTCCCTCCCAACAG
Seq C2 exon
TGCTCAGCCGAGTGCGGGACAGGAATCCAGAGACGCGCTGTGGTCTGCCTTAGGAGTGGGGAGACCCTTCAGGGAGACCCGGAAGCAGGAAGCACTGAGCAGGGCTGCCCTCTCAGAAGCCGCCCTCCCGATATGCGTGCCTGCAGTTTAGGGCCCTGTGAGAGGACATGGCGCTGGTTCACAGGCCCCTGGAGTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000015850:ENSMUST00000117782:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.195 A=NA C2=0.167
Domain overlap (PFAM):
C1:
PF0009014=TSP_1=PD(83.6=78.0)
A:
NA
C2:
PF0009014=TSP_1=PU(10.7=9.1)
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:
CTGTGGTCGTGGTCAGAGGAG
R:
CTGTGAACCAGCGCCATGTC
Band lengths:
350-1932
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