MmuINT0020608 @ mm10
Intron Retention
Gene
ENSMUSG00000059811 | Atl2
Description
atlastin GTPase 2 [Source:MGI Symbol;Acc:MGI:1929492]
Coordinates
chr17:79853834-79854610:-
Coord C1 exon
chr17:79854554-79854610
Coord A exon
chr17:79853906-79854553
Coord C2 exon
chr17:79853834-79853905
Length
648 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
3' ss Seq
ATATATATTTTATCTTTTAGGCA
3' ss Score
9.66
Exon sequences
Seq C1 exon
GCATACATTAAAATATATCAAGGAGAGGAACTACCACACCCAAAGTCTATGCTTCAG
Seq A exon
GTAAGAGTAAGGCAGTGTTGGGGGTGGAGAATGAAAACCATGGCTTCAGAGGGTTACAGTGTAACACAAGTGCTTTCTGTATGAGATGGTTTAATACAGGCCTCTCTGAACTAAATGCTTTTTGTGCTTTCATGAAGGGCTATTGCTTGAAGTAAGGATCAGTTTCGTTTACTAGTAACAAGCTGCCTCTGGATATACATTTCCTATATTCTAAAATTTACCACTTTGGGCAATTCCTCAGTTTTATAGTGGGTTAATAGTAATTATATTAAAGCTATGCAACAAAAGACAGTTGTGTGTTTGAAATGACTTTGGTGTAAATCTGGTTGTTCATACAAGGAATTCTTAATTCCCAGGACTCAGCACGTTTTGGGATTACATGTGTTTATCTCTGTCCATTTCCTGAGCACATGGTGATGTATTGTCTGCAGATCTGTTTTAGCACAAATCCCAGTCAGACAGGGAATCCTATTAAGCCTGCGTCATACCTTAAATACTGATACACCCAAAGGGAAGGAAAACTAGGGAGTGATAGTTTTTCTGTTCATTTCCATAGTTATTTGTTGTATATAATTTATTATGTTAATAGGAATTTATAGTCATTTTTTTTCACAGTAATGGGGTATATATATATATTTTATCTTTTAG
Seq C2 exon
GCAACAGCTGAGGCTAATAACCTGGCAGCAGTAGCAGGAGCAAGAGATGTCTATTGTAAAAGTATGGAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000059811:ENSMUST00000068282:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.167 A=NA C2=0.021
Domain overlap (PFAM):
C1:
PF028419=GBP_C=FE(13.7=100)
A:
NA
C2:
PF028419=GBP_C=FE(17.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
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
- 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