Special

MmuINT0011590 @ mm10

Intron Retention

Gene
ENSMUSG00000043822 | Adamtsl5
Description
ADAMTS-like 5 [Source:MGI Symbol;Acc:MGI:1913798]
Coordinates
chr10:80345043-80345413:-
Coord C1 exon
chr10:80345322-80345413
Coord A exon
chr10:80345104-80345321
Coord C2 exon
chr10:80345043-80345103
Length
218 bp
Sequences
Splice sites
5' ss Seq
CCGGTAACC
5' ss Score
5.28
3' ss Seq
GACCACCCTGGTTTTTGCAGACT
3' ss Score
7.5
Exon sequences
Seq C1 exon
GGTCCGGGAGAGTGGACGCCCTGGGGGTCTTGGAGCAGGTGTTCCAGCTCTTGTGGTCGGGGCGTCTCAGTGCGCAGACGCCAATGTGTCCG
Seq A exon
GTAACCCGGGAATCCCTCCCCTCCCCTCCCCTCCGCCGCAAGCCGGGCCGCGCCCTCTGCCTGCCTACACATGCTCTGTGCCCTTTAATCTTAAGAAGCCAGCTGGAATGCGGGTGGGGCTGGTGGGGGCGGAGGGTGGCTTGGCGGGTGATGGAAAGGGGTCCCTGAGAGGCTGTGTGGGGGTTCCTGCTACACTCAGACCACCCTGGTTTTTGCAG
Seq C2 exon
ACTTCCCGGAGAGGAACTTTGTTGGGGCGACAGCCATGAATACCGGGTGTGCCAGCTGCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000043822:ENSMUST00000105352:4
Average complexity
IR
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=PU(52.1=80.6)
A:
NA
C2:
PF0009014=TSP_1=FE(41.7=100)


Main Inclusion Isoform:
NA


Main Skipping Isoform:


Other Inclusion Isoforms:
NA


Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTCCGGGAGAGTGGACGC
R:
AGCTGGCACACCCGGTATTC
Band lengths:
148-366
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