MmuINT0020596 @ mm9
Intron Retention
Gene
ENSMUSG00000021066 | Atl1
Description
atlastin GTPase 1 [Source:MGI Symbol;Acc:MGI:1921241]
Coordinates
chr12:71056303-71060459:+
Coord C1 exon
chr12:71056303-71056374
Coord A exon
chr12:71056375-71060027
Coord C2 exon
chr12:71060028-71060459
Length
3653 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGA
5' ss Score
10.06
3' ss Seq
GAAGCCTCTCTTTCTGACAGGTT
3' ss Score
8.33
Exon sequences
Seq C1 exon
GCCACAGCAGAAGCTAACAATTTAGCAGCTGTTGCAACTGCCAAGGACACATACAACAAGAAGATGGAAGAG
Seq A exon
GTAAGAATTTAGGATTAAAAAAAAATAGTATCTTATCTTTGAACCCTTTCTTCCTTTCTTTTTTTGGTTTTTCGAGACAGGGTTTGTTTCTCTGTATAGCCCAGGCTGTCCTGGAACTCACTTTGTAGACCAGGCTGTCCTGGAACTAACTCAGAAATCTGCCTGCCTCTGCCTCCCGAGTGCTGGGATTAAAGGAGTGAGCCACCACGAGAGGCTCTGAACCCTTTCTTTAATGTCACATTCACATCATGTACATGCAAAGAAGTGACTTTAGTGGCACTTAGCTTGGTATGTATCAACATGTCATGTATTTGTAAGATACTTTAGAAACAGAGCATTACATGAGGACATGAGAAGGTGGGGCAGAATCAGCACGCAGATGAAGCCAACCTGGCCTATGTAATGACTTCAAGCCTAGCCTGAGATACAGCAGAAGGAAAACACATACATACAATGCACAGCAGAAGGAAAACACACACATACAATGCACAGCAAAAGGAAAACACACACATACAATGCACAGCAGAAGGAAAACACACATATACAATGCACAGCAGAAGGAAAACACACACATACAATGCACAGCAGAAGGAAAACACACACATACAATGCACAGCAGAAGGAAAACACACACATACAATGCACAGCAGAAGGAAAACACACATACAATGCACAGCAGAAGGAAAACACACACATACAATGCACAGCAGAAGGAAAACACACACATACAATGCACAGCAGAAGGAAAACACACACATACAATGCACAGCAGAAGGAAAACACACACATACAATGCACAGCAGAAGGAAAACACACACATACAATGCACAGCAGAAGGAAAACACTCACATACAATGCACAGCAGAAGGAAAACACACACATACAATGCACAGCAGAAGGAAAACACACACATACAATGCACAGCAGAAGGAAAACACACACATACAATGCACAGCAGAAGGAAAACACACACATACAATGCACAGCAGAAGGAAAACACTCACATACAATGCACAGCAGAAGGAAAACACACACATACAATGCACAGCAGAAGGAAAACACACACATACAATGCACAGCAGAAGGAAAACACACATATACAATGCACAGCAGAAGGAAAACACACACATACAATGCACAGCAGAAGGAAAACACACACATACAATGCACAGCAGAAGGAAAACACACACATACAATGCACAGCAGAAGGAAAACACACACATACAATGCACAGCAGAAGGAAAACACACACATACAATGCACAGCAGAAGGAAAACACTCACATACAATGCACAGCAGAAGGAAAACACACACATACAGTGCACAGCTTTTGGTTGGTCTGCTTGGTTTCGAGACAGGGTTTCTCTGTGTAGCCCTGGCTGTCCTAGAACTCACTCTGTAGACCAGGCTGGCCTCAAATGCAGATTTGCCTGCCTCTGCCTCCCAAGTGCTGGGATTAAAGGCGAGCACCACCATCACCACCCGGTTACAATGAAGTTTTTAAAACATTTAAAAATGAGTTCGCTCCTTTTTTTTTTTTTAAGATTTATTTATTTTATTTTTTGTGTATGAGAACATTGCTCTCTTCAGACACACCAGAAGAGGGCATCAGACCCCACTGCAGATGGTTGTGAGCCACCATGTGGTTGCTGGGAATTGAACTCAGGAGCAGTCAGTGCTCTTAACCACTGAGTCATCTCTTCAGCCCATTGAATTCTCTCCTAACAAAATATTCTTACTCACATTCTATTTGGACAGATTGCCACACTGGAAGGGTTAGTGACTAAAAATAAGATGCTGCTCTCTCCACTGTGCATACTTAATTCAACAGGCTTAATATTTCTCTTAAAATTTGTAAGAAACAAAAAACCCTCAAGAGCCAATATTTTTATGTAGTATATTTTCTCATTTTAGTTTTAACTAATGTGAGAAGTGCCATTTTCTCCTAAAAATGTAAGATCAAAGTGACATCTAAAATTGGTGGAAACTTACAATCAAGAGAAACATGATATATAATTAAAGAATAATCAGATGTATTGTCAATATTAAAATTGTAACCAAAGTTAAAGACATGGTTAATTAAAAAATCTCTTTGTAATGTTTTATGTGGATGCATGTGTGTGTCAGTAAGTGCCCATGCACATGTGGAAGCCAGTGAAAACTGTTGAGTAATTTCCTGTGGCTCAGAACCGTATCTCTTGAAGAGAGAGTCTCTCGCTGAGCTAGACACTAAGCTGGGCCAGTGAGCTGTAGGACTGCTTATCTCCATCCCTGAATGCTGGGCTATAGGCATGTGCACCTGTGACTAGTTTGTTTACATGGTTGTTGAAATTTGACCTCAGGTCCTCATGCTTGCATAAGCAATTATTTCTACCCCCTGAGCCATCTCCCCAGCCTACCTTGTAACTTTTTTAAAACTTGAAGGTGTAGTTCAAGAACATTTAATGTGCTTCTACTCAGCCTAAGAAAATATTCACTTGGCTCCATTCAAAGTAAAGCAGTACAAATGCTAAGAAAAATGTACTTCATAGTTCAATAGCTTTATATTTGATTATTTTAAACTCTATTGGTCAAAATTGCTTTGGTATAATTTGACTTCTAGAAGAGCTGAAATATAAGCAGTTTTCTCCACTTTGTGAACAAATAGTTGGCAATTACATTGGGTCATGTCTTTTCATCTTAAAAAACCTTGTTTAAATCATAGATACTATTTCCTATGTTTTTAGAGAGGAGGGCTGGGCATGGTGGCACGCCCTTAATCCCAGCGCTTGGACACAGAAGCAGGTGGATTACTGTGAATTTGAGGCCAGCCGCTCTACAGAGTACATTTGATGCCAGAGCTGTAATAGTGAGTCCCTGTGGAGAGAAACAGAGACAGAAGGGGGATTAAGAATGACTGTATTATCCAGGCATAATGGTGTAAGCCTGTAATCTCAGCCCTTGGGAGACAGAAGCAGGCAGATCCCTTGAGTTGGAGGCAAGCCTGGTCTACAGAGCTAGTTACAGGATATCCAGGGCTACACAGAAACCCTGTCTCGAAAAACACCAGCAGAAATCATAAAACGCCTTTATTATATAAGGCAGTATACTAGCCACATTTAGTGGTTAATCCTCGTGGATATGGAGGCAACTAGTTCAGACTGATGATGACAGGAATCAGCCTGTGAGAAATGCATCAAGTAATTCTGTCATGCAAACATCGCTACGTATGTACATATACCTAGATGTTTAGTCAGTCCCTCAACTTGTCTTCTTGATGCAATCAAAATACATAAATGCAGAGAGTATCAAGCTGTAGTTAGCATAACACAAAATACTATGTTACTGTACCGAACTTTTTTAATAAAGTAGAAATGGGCTCTAAAATACTGTTGAGAGAAGTGTAGTAAATATAATCATTTATTATGAAAATTCTGCACTGCATGAATTGTATACGTTATACTTTAAGCAATAGCAGTTGAATAGGCTGTTCATAGTAACTGTGCTCTGACTGACAACACAGTTCTGGCTGCAGTGTCTCGAGGTGGTGGAAGTGTAGCCCACCCCTTAGTCCATCACTCTTAGGAAGCATTCTGGTGTACTCCAAGAAAAGGCATGGACACAGTTGTTAATTTACTCCATATTACATAAACAGAAGCCTCTCTTTCTGACAG
Seq C2 exon
GTTTGTGGTGGTGATAAACCATTTTTGGCCCCTAACGACCTGCAAAGCAAGCACCTGCAGCTAAAAGAAGAATCTGTGAAGTTATTCCGAGGCGTGAAGAAGATGGGCGGGGAAGAGTTCAGCCGGCGTTACCTGCAGCAGCTGGAGAGTGAAATAGATGAACTCTACATCCAGTATATTAAGCACAATGACAGCAAAAATATCTTCCATGCTGCTCGAACCCCAGCCACACTGTTCGTTGTCATCTTTATCACATACGTGATTGCTGGTGTGACTGGATTCATTGGTTTGGACATCATAGCTAGCCTGTGCAACATGATCATGGGACTGACGCTTATCACCCTCTGCACCTGGGCATATATCCGCTACTCTGGCGAATATCGAGAGCTGGGTGCTGTAATCGACCAGGTAGCTGCAGCTTTGTGGGACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000021066-Atl1:NM_178628:12
Average complexity
IR-C
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:
PF028419=GBP_C=FE(18.0=100)
A:
NA
C2:
PF028419=GBP_C=PD(53.9=47.9),PF096855=Tic20=WD(100=54.9)
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: