MmuINT0020603 @ mm9
Intron Retention
Gene
ENSMUSG00000021066 | Atl1
Description
atlastin GTPase 1 [Source:MGI Symbol;Acc:MGI:1921241]
Coordinates
chr12:71035857-71038118:+
Coord C1 exon
chr12:71035857-71035907
Coord A exon
chr12:71035908-71038061
Coord C2 exon
chr12:71038062-71038118
Length
2154 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAAG
5' ss Score
6.66
3' ss Seq
CTCTTGGATTCTCCTCCCAGCTT
3' ss Score
6.06
Exon sequences
Seq C1 exon
GTCTACAACTTGTCCCAGAATGTCCAGGAGGATGATCTCCAGCACCTGCAG
Seq A exon
GTGAAGCCCTTTCTGTGTATCTGCTGGGCTGGGGGACAGACTTTAGACACAGGACGACACAAGGGTCATCCTGGTGCCAGATGTCTTGTTCAGTCGTGTATGGCTCTGTCCTTTCGAATTTGCTTTCCATATTCCTTTGTTTCTAAACCTGCTTGTCCCCAGTGTTGAATATATAAATGTGGCAAATCAAATTGGACAAAGAATCTTCAGTGTAAAGAGACTCTAAATTGCAATGTCAAATCTTAAGGTTAAGACTTTGATAACTTGCCAGGTGTGGTGGCGCACGCCTTTAATCCCAGCACTCGGGAGGCAGAGGCAGGCGGATTTCTGAGTTCGGAGGCTAGCCTGGTCTACACAGTGAGTTTCAGGACAGCCAGGGGAACACAGAGAAACTCTGTCTCGAAAAACAACAACAACAACAACAACAACAACAACAACAACAACAAAAAGAATTTGATAACTTGTTGGTATTGCGTCTGTGTAAGCCAGATGTTTTCCTTGTGGACCTTGTGGCTCAGAACTGTTAGAGAGGGTGTGAGGACAGCTTGGAACTTGACTTGATCTGATCTGAAAGAGACTGTGGTGGTACCTAGCTAACCTTCATGTCTCAGAAATGAGGAGAGGGCGCCTGAGAAGATAAGTGGCTTGGTAAGGCTCCTGTGCCCACTCAGTGATAGAACTGGGTAAGAACACATGGCTGGTCCTGTCTTCTTCCCACTCACCAAGAAGTTGGAGTCTCAAGTAGAAGAGTAGATGTGTTCTAGAGATGTTTTCATGTGTGCAGTGTTGTATTCTCTTCTGTGTCCGCTCAAGTTGTTCTTGAGTAGGTAGCAAATCTATTCTTCCAATAGCTCTCTTTCTATGTGTTTTACATAAAATTTTACCTAATATGTGTATCAAGCCTATGTAGTGAAATGTGAAGCCTTACTAGATACAAAGGACAGTAGAGCAAAGTAACCCATGGCGTTGGATGTACCACGTGGAGTCCCCCCGGTGTTGCTCCCTCACGTATTCTGTGCCTCACATTGATCATTTATGACAAATAGGTGAGACACAGAATAATGGTGGGGTGTGCTTCCATAATAAAGGCACGTACCACAATGCAGCCAGCTACTTTCCTAGTGAACAGCGTGGCACCATTGCACACTGGCATATTTATCCATCTCTACAAAAGGATAATTTGTGCCAGTGATCCTGAGCTAACAGGATATTTTGATCATTTAATTTTTTTTCCTGTAAATGACAATACCTCCCTCTGAAGTTACTGTAAATTCAAGTTATGTCAGTACACAAGTGTGATAATAGTTGGACCTTTTAGACATACCCAGACTTTGAGCTCATTACTCCAAGTATCTAGTAATTACGCTTTGCTTCTTGAGTTTTACTACCCTGTGTGGAGGGCAGAATGAAGCTGGGATGCTACTGTAGAGGAGCGAGGGCTGGCTCTCAGCATTTTCCCTCAGCTCCACAAGCGGCAGCAGCTGTGAGAGGAGCTCATGCCGGCCACGTGGGGACACTGAGCCAGCCCGAAGCCCATCACTCACCTCCGAAAAGTTTGCATTTGTCCAAAAACAACAACAACAACAACAAAAACCTCTCCTCATGCTTCCTGTTGTTAACTGTAAGCAATTTAAAAAGAAGAAGAAGAAGAAGAAGAAGAAGAAAGTTCATTCAATTTCCAACTTTTAAAACCAAATGCCTAATTTTGTAACCCAGGTTGTTGTACCTTTAAATTTCCTTGGGCTACATATGTTATGTATTATGGCCCTTTAAGCCAAGGTAAGTCCTGCATGTGAGAAGTCTCTTCACATGTGCTTCCTTTGTACATTTGTTTTATCCAACACATGAGTTTTAGGGCTGGGGTCTACCTTTGGAGCAAGTGCTCAGAACATCATGTGCACACATGACGCACACATGGAGAAGAAAGAGAAACAGGCTTAAAGTGGGAGTTTCTTTGTACTGTGTTTGTAATTTTTAGATATGTAATTACTATAGCCCTGCTTTATATAACGAATGTGTTTTTATTATTTAATCTTAATACTGTAGCATGCTGTTACAGCTGGGGATGAATAGAAGAAATCCAACAAGTAAACGAATCTCCTCTCTCTCTCTCTCCTCTCCCTTCCCATCCCCTCTCTTGGATTCTCCTCCCAG
Seq C2 exon
CTTTTCACTGAGTATGGCAGGTTGGCAATGGAAGAAACATTCCTGAAGCCTTTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000021066-Atl1:NM_178628:6
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:
PF0226314=GBP=FE(5.9=100)
A:
NA
C2:
PF0226314=GBP=FE(6.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
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: