MmuINT0022163 @ mm9
Intron Retention
Gene
ENSMUSG00000069895 | Atxn1l
Description
ataxin 1-like [Source:MGI Symbol;Acc:MGI:3694797]
Coordinates
chr8:112259360-112261639:-
Coord C1 exon
chr8:112261531-112261639
Coord A exon
chr8:112259426-112261530
Coord C2 exon
chr8:112259360-112259425
Length
2105 bp
Sequences
Splice sites
5' ss Seq
CCGGTGAGT
5' ss Score
10.9
3' ss Seq
TTTTTTTTTTTTTCCTTCAGTTT
3' ss Score
11.35
Exon sequences
Seq C1 exon
GGTGCCCGCTGGGTGTGGGGCGGCTCCGGGGCCGGGGATGGCGGCGGCCGCGGTGGCGGCGGCTCCGGGACGAGCGGGAGGAGTCCTGGGAGCTCCGTGAGATGGGCCG
Seq A exon
GTGAGTGTCGCCTGGAGCGGTGGCCGCTGGGATGGCCTGAGGCCAAGCAGGCCTGGGTTCGGAGCTCTAGTGGAAGGGCCCCCCTAGAAGCCCGTTGCCTCACCCCGGCCGCGGGCCCCCTAAACAGCGGGCAGAGCGAGCGAAAGAGGCCGTGCCTAGCCCCTCTAGATGCTGCTTTCCCGCCTGGCCCAGAAGGCGGCCTCAGGCCCTGATGCCCCGACGGGGTTGTCCCCGCGGGTCAGGATGTCCGAGTTCTCAGGGCGGGAAGGGGCCCCAAACAAGGAAGCGTCGCCAGCGGGGCCTGGCCTCACCTCCACGTCCGACCCCCTACCCCGACTAACCCTAAACGTAGACTCCCCCAGTTCAGGCCTGTACCCCTGTCGGAACAAGGATCATCAAAAGCCATCATCCCTGGTGTCTCTCCCTTTTTGCTGCTCCCTTTTTGTGGGGCGCACCTCTCCCTCAGTGAATTTGGGTCCCCCTCGGTGTGCAGTCTCTTGATTCCATTCCCTGCATGAAGAGGAGCTGCCTTCTCGGCTAGGTTGGCAGGTCTCTGGAATAGTTCCGTTGCCCCTTAGCTCAGGGCCACAAGTTGTGTCATTTCCCATGAGAAATTCTCCAAAGCTGCACCCTACACCCACACCCGGTTTCAGATTTTGAAGTGTTTTGCCTTGTGGGAACCTGGTGGGCAGGCTGAGCTTTCTTTTTGCCTCTTTCCGTCCTTTCATTATTTTGTGTTTGCTAACTCCTCGGTGACCCATAGACGGATTTTCCTTAGCTTTTTTTTTTTTTTTAGCTACAGAGGGCAAGCATCATTTTGGGGGATTAAGAAAATGAAAGAAAGCTGAGTGCTTTCAATTAAACGTTTGATGAAGAATGAGTGCGTGACTTGTACCCACTTGGTGATTTATTTGTGGCATTAGGAATCTGTTTTTCCACATTTCCATCTTTCGTGTACCCTTGAACCATGCCTATCTTAAGTAAACGTTGCCTTCAGTTGGATCGAGCTTGCAATATTCTGACTTTGACAGAACAGGTTCCTCGGTACTAGTCAATACTGCTAATCCAGTTGTTAGGACTTCGTTGGCCCCGGTTTTGGTTTTGGTTGTTTTCTTTTGAGAGGGTCTTATGGAGCTCAGGCTGACTTCTGACTTGCTAAATAATCGAATGTAGTTGGTGAGTACCTTGAACTCACGATCCTCTTCTTTCTACCTCAAAGGTAGTAAGATTACAAAGTGTCCACTCCCATTTCCAATCTGTGAGGTGCTAGAGATGTAACCTCGGGCTGGATGCATGCTAGGCAGGCACTTTACCAACTGAGCTGCATCCGGAGCCTTGAAAGGCCATGTTCTTTAATTATTGATGTTTCTGGCAAGTGTGGATTCAGATATTGGTAGCTTAGTAATAGTTTTGTTCCCCTTTGTTAGCTTCATAGAATCAAAATGGCGTTTTCATTTTCTTTCACATTTCATTCAGTACTTAGTGTAAAGTCACGTATAAAATTGTGTGTGTGCGCGCGCACATACACACACACAGGAGCCCTTTTACTTTTACTCAGAAAATCTGTTAATATAGCTTTCACTTTGAGTAACTCCCCCTTGACCTCTTTCTCTGCCCCAGAAACATAAATAATTGTTCCTTTTCCTCTAGTGACAGCTTTCTTATTTGAATAATCTCTACATCTGTGTGTTCATGGGCCACTAATAAAGCAGAAACTCCCAGCTTCTCATTGCTCACATGCAGGCAGTATGAAGTCTCTCATCTTTATTTGTGCATTTAAGCAAAATTTGGACTGGAAATGAGCTTGCTCATTGGGGAGTGGGGTAGAGAATGAAGAATGAAGGATGGTAAAGAAACCACTGAAATCAACACATAGAAATTTCTTTCCAGGGATGTCTTACAAAAATGAAAGCATAAAGATTTTTTTCATTCTTGTTTTTTTTGTTTTTTGTTGTTGTTTTGGTCTTGTGTGTGACGGCCAGAGGCCAGCTTTTAGGAGTCCCTGCAGCTTAGGTCCCAGGAAGGGAACAGGTCTGGGCAGCAAGTGCATTTACCTACTGAGCCATCTCATTAGCCCTGGATTGTTTTTTTTTTTTTTCCTTCAG
Seq C2 exon
TTTCCTGGGCACTCGGGTATACGTGCTGTTACCACTGGGTTGAGAATGAAGCAAGAACTTAGGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000069895-Atxn1l:NM_001080930:1
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
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: