MmuINT0018929 @ mm9
Intron Retention
Gene
ENSMUSG00000036093 | Arl5a
Description
ADP-ribosylation factor-like 5A [Source:MGI Symbol;Acc:MGI:1922673]
Coordinates
chr2:52271584-52272216:-
Coord C1 exon
chr2:52272156-52272216
Coord A exon
chr2:52271732-52272155
Coord C2 exon
chr2:52271584-52271731
Length
424 bp
Sequences
Splice sites
5' ss Seq
GTTGTAAGT
5' ss Score
8.3
3' ss Seq
GTAAACTTTTCCCCTCCTAGTTC
3' ss Score
7.22
Exon sequences
Seq C1 exon
AGCACAAAGTTATCATTGTTGGGCTGGACAATGCTGGGAAGACGACCATCCTTTACCAGTT
Seq A exon
GTAAGTATTAACTGCTTAAAGTTTAATTTTGTTGTTTCTAGTTATTCTCTGTGCTTTTGTGGTATTTGATGGATGAAATCAATGAAAAGTTATGTGGATGCAAGCAGACTAACCGTAAGCCAGAAGCCAGGGACTGTGTGCTGAGCTAGAAATTCGCACGATACCAGGCATGCTCATTGTTTTGCTTTGATCCTCTTGTTTTTAGAAAACAAGGTATCTGTTTATACACTTTGCCTGAATGATCTGTAATATTCTAAAACCATTATTTATTTGAGCTCTTTTATATCTTTAGCTGAATCATTGTGTGAGCGCAAAAACAAGGGCAATTGGGTCTGAGTTAGAAGCCATGTTGACGTACCTTGATGTAAGCATTGGTGAGATGAACTAGCTTCCTCACTAATTTTGTAAACTTTTCCCCTCCTAG
Seq C2 exon
TTCCATGAATGAAGTCGTACACACATCTCCTACAATAGGAAGCAATGTGGAAGAGATTGTGGTTAATAATACCCGTTTCCTGATGTGGGATATTGGTGGCCAAGAATCACTTCGTCCTTCCTGGAACACGTACTATACTAACACAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000036093-Arl5a:NM_182994:2
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:
PF0002516=Arf=FE(11.6=100)
A:
NA
C2:
PF0002516=Arf=FE(28.5=100)
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:
AGCACAAAGTTATCATTGTTGGGC
R:
TGTGTTAGTATAGTACGTGTTCCAGG
Band lengths:
206-630
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: