MmuINT0020609 @ mm10
Intron Retention
Gene
ENSMUSG00000059811 | Atl2
Description
atlastin GTPase 2 [Source:MGI Symbol;Acc:MGI:1929492]
Coordinates
chr17:79852525-79853905:-
Coord C1 exon
chr17:79853834-79853905
Coord A exon
chr17:79852957-79853833
Coord C2 exon
chr17:79852525-79852956
Length
877 bp
Sequences
Splice sites
5' ss Seq
CAGGTTGGT
5' ss Score
8.08
3' ss Seq
TTGTAATTTGGCTTATACAGGTA
3' ss Score
7.14
Exon sequences
Seq C1 exon
GCAACAGCTGAGGCTAATAACCTGGCAGCAGTAGCAGGAGCAAGAGATGTCTATTGTAAAAGTATGGAGCAG
Seq A exon
GTTGGTAACTAATGTTTAAACTTTATGCTACATAAGAGTAGCATAAAATAATTGAACTAATTTGCACTCCTTACATATTGTCATGCTACATTATTCTGTAATTGTCTTTTTTTTTTTTTTTTGGTCTCTGCTGGAATAATTTGTTAGAAAATAAATTACATGGCTAGCATGTAGGGTATGTTTTCTGACTTTCAATTCAGAATTTTCAGCTTGGGATGGAAGTAATAGTAGCTTGAGTCCAGGGCAGTTTCTTCACTAAGCGGCTGGTCTCTGAAGTACTTACCGTGTCACGTGCTCTTTAATCTGTTCTTTTGCTAAGAGTCTGTTGTGCTGCTTCTGTTTACTCGTGGGTAAAGAGAAGTCGGAGAGGGCAGTGTAAAAACTGCATTTTCAGTTTTGGTAGTTTAGTCACGATTGGAAAATTACTCGATTGACGCAGTGTCTTAGGGTTTCTATTGATGCAATGAAATACCAGGAGCAAAAGCCAGTTGGGGAAGAGGGAAGGGGTTATGTGGCTCACACTTCCATGTCACAGTTCATCACTGCAGGAAGTCACACAGGGTAGGAACCAGGTGACAGGAGCTGATGCAGAGGCCATGGAGGGGTGCTGCTTACTGGCTTGCTTTCCCCTGATTTGCTCAGCCTGCTTTCTTATAAGAACACAGGACCACAATGGGCTGGACCCTCCCTCATCAGTCACTAAGAAAATGCCTTACATCCTGATGTTATGTCAAGTTGACATAAGACCAGCCAGCACAGACAGTTGATGTAAGGAGCCATGTTAAGTAGTTTAATTTATGAGACTAAAATCTTTGAGCAAGGAACACTTTTCAAGTATTCTAGCATGTAATCTCTCTTTGTAATTTGGCTTATACAG
Seq C2 exon
GTATGCGGTGGTGATAAGCCGTACATTGCACCTTCAGATTTGGAGCGAAAACACCTGGATCTCAAGGAAGTGGCGCTCAAACAGTTTCGTTCTGTGAAAAAAATGGGTGGAGATGAATTCTGCCGCCGTTATCAGGACCAGCTTGAAGCTGAAATCGAAGAAACCTATGCAAATTTTATAAAGCACAATGATGGCAAAAATATCTTCTATGCTGCTCGCACCCCTGCCACACTGTTTGCAGTCATGTTTGCTATGTATATCATCTCAGGACTGACTGGCTTCATTGGCCTAAACTCTATAGCTGTCTTATGCAACCTCGTCATGGGGCTAGCACTGACGTCCCTTTGTACTTGGGCATATGTTAAGTACTCTGGGGAGTTCAGAGAAATCGGAACAATGATTGATCAGATTGCTGAAACACTGTGGGAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000059811:ENSMUST00000068282:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.021 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF028419=GBP_C=FE(17.6=100)
A:
NA
C2:
PF028419=GBP_C=PD(55.0=50.0)
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:
GGCTAATAACCTGGCAGCAGT
R:
TGAAGCCAGTCAGTCCTGAGA
Band lengths:
344-1221
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