MmuINT0022145 @ mm9
Intron Retention
Gene
ENSMUSG00000046876 | Atxn1
Description
ataxin 1 [Source:MGI Symbol;Acc:MGI:104783]
Coordinates
chr13:46051824-46060345:-
Coord C1 exon
chr13:46060184-46060345
Coord A exon
chr13:46051945-46060183
Coord C2 exon
chr13:46051824-46051944
Length
8239 bp
Sequences
Splice sites
5' ss Seq
ACAGTAAGT
5' ss Score
9.49
3' ss Seq
CACTTCCTGGACCTTCATAGAAG
3' ss Score
3.16
Exon sequences
Seq C1 exon
TTTCTACTACAGTGGAGGAGCCGTACAGGACCTGTTTCACTGCAGGGGGATCCAAAACAAGCCCTGTGGAGCCGCAGCTAGAGCTACAGCAGCCGCAGGACACTGTGTCTCTCCCTCTGTTACCCCTTCCCCACGCAACCCCAGATCCATTTACACTTTACA
Seq A exon
GTAAGTGGCTATTTTTTTTCCTCCTCTGATTCTTTCTCTCCCCCTCCCCCTTCCACCCCGATTTAGATTAAAATCACCCCCTCCCGCACCCCAATCTGCTCTCTCCGGAGAGGGGCCAAAGAACATCCAGCATACACCCCCCCTCCCCCAGTCTCAATGGGCTGCACGGAAAACAGCTGGAAGAGGAGCGAAGGAAACCGACGCGTCGTGGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGCAGGCGCGCGCGCGAGTGTATGTGTGACTGTGTGTACATACACTAGTGCCCGGCTCCAGCCTCCCGGCTCGGGACCCCCTCTGGGAGCAGGAGCGGCTAGCAAGGGCAGCAGATAGGGGCTGGGTGGGCGGCCGCCAGGAGAGGGGGCGCGCCCGGGCGGGGGGCGCGGGTGGGGAGAACGGCGGCGCCCCGTTTCGGCTGCTGCCGGTCCGGCGGCGGCGAGCGGATAGAGCCCGGTCCTCCTCCTTCCGTGTGGCGCAGGGGGAGGCGGCAGCCGCGGAGGGTCGCGCTGCCCTCTTCGCTCCTCTCCAGTCCCCCCTCCCGGGTGGGGGCGGTGAGCGCTGCGGGGGCTCGAGGGAGGGCTGGGCTTCCCCGCCCGGGGTCGCCTAGCTTGACAGAGGCAACCCCGAGCTTGGGGTCTCCCCGCCTAGGCCAGCCTCTCGGGGCTACGAGGGGACCAAGAGGGGACTTTGCGTGAGGCTAGGGGCGCGGAGAGGTGGCGCCTCAGGAGGCAAGGGCGCGCGGGCCATCGCAGCGCAGCGGGAGAAGACCGGCCCTAGCTGCAGCTGCCACCGCCGCCCTGTTGGTGCGGCCGCTTCCTGATCCAGAGCAGCAGCAGCAGACGCCGCCGCCACCGCCGGAGCTGGAGCCGGGAGCCCGCGAGCGCCCCAGCCCGGCCCGGCGACTCTGCCGGCGCCCGCAGCAGTAGCGGAGGAGCTGCGGGCGCTGCCCTGCGCCGGGACTGCTCTGCTGCGCGGCGGCAGAGAGGGTGAATGAAGACGGGAGGAGGGGAAGGAGGAGGTGGCGGCGGAGGAGGCGCTGCGGGGATTGGGATGTGCCCCGGAGCCCCGCGGCTCGTTCACTCGGGGCCCGAGTCGCCGCCACTGCCACTGCCAGGGCTGCCGCCGCCACCGCCGCCGCCTCCTACGTGGTTGCAGCCGAGCGCGCAGGCCGGTCCCGCAGGGGGCAGGGAAGGGGCCGGACGGGCGGAGCGAGAGGTGAGGCGGGGTCGGAGAGGAGGGAGTAAGTGCGTGTGAGTGTGTAGGTGCGTGTGTGCGTGTGTTCGCGCGCCGGGCGGGGACCAGGACCATCGCGATGGGGAGCGGGGAGTGGGGGTGGGGGTCCACGGTGGTCCCTTGGTTGACTCTGCAGCGCTTCGACCTCTCTTGAGCCGCCTCCTTCAACTCTGTGGCTTGTGCGCTTTCATTTTATTTCAGACCACGTAGAGAGCTGACTGCAAGAGGTGAAACAATTCAGGTTTTCTAGGGAGATTGAGCAAGGACCTTAGTGGTGGGGGGTGGAAGTAGGGTGCTGTATCTAGACTCTGCCAGGGGCGCGGGGGGTGGGGTGGGGGGAGGATCAGGGGTAAGAGGATGGGGTTTAGTTCGATCCCGTGGCTGTCCTGTTTTGTTTTGCTTTCTTGCTGTATAATCCTACAGATAAGAGGGCAATATAAATACTTGGGGAAGGTTGGGAAATTGCTGAAGAGTAGTAAGGGCGGAAAAAAAAAAAAAGAAGCCAGTCGGAAGCTGGTTATATAATGCGCTATGTGGCTAACAAGAAAGGCAAGCTATTTTTATTTTGTTTACCGTATGTTGTGCAGTAGGAACTCCTCCAAACTGGTTCTGTCCCCGAAGAGGTTTCTTAGTTTGTCAGAGAGAGAGCCACAGGATACAATTAGTAAAATTAGAAGACCCCACACCACCTACAGAATAAAAAGTAATGCTTTAGAGTTCTCACCTCACATTCTGCCTGGTATGCAGGGGAATGTGTGTATGCCCTATGTTTCCCTGTAGCAACCTAGTAGTGTCATCTCAGTGACATTTCTGTTTTATAATGCGAGCTCTTCTTAATATTTAAACAGCACTGCTATAGATCGTAGGCAACAAGGTAGTTACATGCTGGGTATTTTTAGGCGCAGCTGGTTACTTTTTTGCAATAGTGTTTGCTAAACCGTGTCCAGCTTTATGAAGAGCCCTGCCATTCCTAGAAGCCTGGGTTAAGCCTACCCTCTGGTTTACTGATGGTGGGTGGGTAGCTAAGACAGTTTGATAGCCGAGGGTTTTTATTTTTATTTTATTTTTGAATGAAGCTTATGCCAGGGGAAGCTAGAGGTAGCCACCAGAGAGAAGAAAAAACATGCGCAAGAACTCTTGGAAAGGGATTGCACCATAACAGCTTAGCTGTGGCATTTAATCTCCTCTGATTGTCCTCTAACTGGCCACGCATCAGTCAATATTTTAGCAGCTTTGCAAATAAATTGGCTTGAACGCCACCTTCCACATAAAGCTGAGGCTGAGAAGCCTCCTGCCTGTCTGCCTCTCTCATCATAGATACTGTCTGTGGTGTTAGTTTTCTGTACACTTACTCCAGCCCTGATCACTCATGTAATTAGATCAGGTTGCCATGGCTACAGACAGTGTTCCTTGGCCCATTCAGGTGGGTTTGCCTGAACTACTCCAAGTGTTTTATGCACAGTATTTGAGCTGCCCCGAACCGGGAGGGGAGAGACTTCACTGTTTCAATTGCTGTCTTCTTTCAGTCAGGAGACACTGAATGGGGCTTCGAGCTACTTAGCTTTTCTAAAGGGAAACCAACACGCTGTTCCTACTGGGGACAGTATGTAAATGCATCTCCCCAGATAGAGAAAGGAGCCTCACAATCCTGCTGGTGTTCATTGTGAGCAGATCAACAAGTATTTGATACTTGCTAGAAACCTTTCAGAGCTGACTAAAGCAACATTTTCTTTTTCAGTCTAGAGCCTTTGGCCTGGTAGGCACTTAACCCTTTCAAGTGTGAGAGGACAGCACACCCATGCTTTATAATAGAAATTGCTGACAGTGTTGGCTGGCTTTCTAGATGGTTTACATTATGAAAAGGAGATGACTTATCTGGCAAGCCTATCTCCACTGTTACAGTTTTAAACTTTACAGTCTACATTATAAAAAAAAAAAAAAGGATACTGACAGTAGGCAGGCATTGTGAATATTATCTTCCTTAATTTGGATCTGTTGCTCCTGATCTTTGATATCTTCAGAAGTAATTGAATATATATATATTGCAGCTAAGTGAGAGATGATACAAGCCATTCTATTGCTTGGAGCTTTACACAGTAAACAGTTTGTATGATACTACGGGTATAATTTAATGAACGTCTAGAGAGCTGCACTCTAGCACTTACGTTGGGCACCACCTTAAGCCTACTAAGGACAGAAAGATTATATTATAACTGAAAAGATAACAGAAAAGTAGCCCAACATTGCTCAGACAGTCCAAATGAAGGGGAATGTTTTAGGAACTTTGAATGTGACATGATTTAGTTGTGACCCTGCCAGTCAGTTTACAGTTTTAAAGCCATGTAGCTAAATCGGTTAAAATAGAAGAGAGAAAGACATATAAAGAGACACTCACCCCCCCACACACAAATCTCTCACCTCTCCAGTGCCAAGACTGAGAAAGTTGTGCAGTTTTCTTCCCAGGGGGTTTCTCAGTTTCCCCTGGTTACTGAGTTTATGTGGTGGGCACATTACTGTGGCCTGGTCCAGTAAAAAAAAGTATCACTGGTCCAGTGAAAAAAAGTATCACTGTGGTTAAAACGAGCTATTATTTCTGAGAGGCGAGTTCATGTGAAACCAGGATCTAAAATAAGAGGACAGAAATTTTAAGTTTTATCCACACCTTGGAGGGCCTCGATTCTATTCTGCGACAGACAGAGAAACGGCTTGACTTGCAGTTAGACGTGGGCCTGTGCCTTTCAGTGTACAAATGAGCTCTTGCCAAAATAAATACGAGAAGTGTCTGTACTTGATGGAGAACTGGAAAAGGCATCGTGTCCCTTCCCCCAGCCCCCATTTCGTTTTAAGAGGGCTTGGCAAGCAGTGGTATTTTGTTAGAAATAGCATAAAGAGACTTCAGGCCTCCCAGTTAGTTGCCTTTGAGAGAAAGATTAGAGAAAGACTCTTGAGCCATCAGGTTACATATCAAATAGCAGAAGATGGCCAAAAATTCCCAGTGCCCAGAATCCCAGGAACCAGGAACGGCCAGTGTGAAGAAACAACTAAAACGTTAGTCAACACTCCTATGACTCCCAGTCTGGCTGTCCTTAAAGTTCAAGGATTCACGTTCCTTTTGTATAATGTGACTTTGTTTTCTCTCCCGTGTTGAAATGTCAAGTGGATTTTGCTCCTGCACATACCTTGTAAGACGGCTTCTCCTGCCAAATAGACTGTAGCAGTTCGCCCTGCTTCCTATTAGGAGTCAGTCAATAAATGTACTTCACCAAAACCCTGAGCAGAACTCACATAAGCAGCTGAGTGTGGGAGTGAATGTTAATTTCTCTGAACTGGAGTCATCTGAAGACTCCGAAAAGCTTAAATACTTGCATATGAAAAGAGCCTTCTCAGGAGACAGCCTGTCAGTTTTTTAGGGGCTTGGGGCTGACTGACTTTACAGGCTTAGTATTTTTTTCGGAGTGTCACACAAGTCTGAATAACTGGCTTCAGAGAGAGAGGGAGAGAGAGACAGAGACAGAGACAGAGACAGAGAGAGAGACAGAGACAGAGACAGAGACAGAGACAGAGACAGAGACAGAGACAGAGAGAGGTTTGTGCAACCTGACTGCTTCGAAGAACAGACTTTGATCCTGGTCGTCATATTTCCCACCTGATAAGATTAACTGGTGCTTTTCCTATTTTGTTAAATGTTTGTTATAGACAGAAAATTGTAGAAATGGCAATGGAGGCCACCATTTCTACCTATGCAGTTTACTCTTTCGCTTGTTGCTTAAGATGTGAATGTCAGAGTCCTCAGTAATACTATCTCAGTTGCATTTAATTTCATTTAGTACAATAAATTCACTCATCGCAATTCTGTGAGCGGTAACATGATGTGCACATAGGATGCTAGCTTTATATAATTGGAAAAAATATTGGCCGTAAGAATTGTAATTGGTTTGAGTTTTTTTTTAATAAATTCTTAAAATTACAGACGAAAAGGAATGTCGTGAGATAATTTATCTTTATTGGTAGAAACAGCGTTTTTATTTTTTCTTTCCTAATTTTATTTTTATGTTTTTTTTACTCTAATCAGCCTAATGGCATATTTTATAGTCCTTATAAACCTTAACTCTTTAGGATAATTTAGTATAAATATTTGTACTTCCTGTTATTACTACTCCCACATGAACTAAAGCATGTTTAGAGCCATAATAGACAAACAGAGCAACTCGAGTCCTCCTTTGTGTGGCCCGTTGGACGTTAGCAGCCGTGTTCCATTGCTTTTTCTATAACTCTTAATGTATGCCATTTGTGGGCTAATGAAAACGCAATGATGACCACCCTTGTGTAAACAAAAATGGTGTTCTACTCGAAAAAGCCCTTTTCAGAAAACTGGAGGTGTTAAGAAGACCTCGGGGTAGGTGGTCCCATGATTGCAGGGCTTCATCTGATCTGAGAAGGACTCAACCTGCTTCCACCGAAATGCCCTTTAAGTGCGACAGGTTTAGAGTGACTTATCAGGTGCTTTTAGTGGCGATTCCAGCTGCCAACCTGTAAGCATGTCTGCTTCTTACGGAAAGAAAAGGCATTTTCTTGCCACTGTGTATGGCAGACTTTCTCTCTTCGTGCCCTCGGCCCTGGTCCTGATGCCTGTGTTCCCTCCTGGTTTTTATACATCATCTCAGTTTCAGTTATTTGGGGCCACCTTGCTTGGTAATCTTTCACTATTAATAGTATTGTGTTTCTCGGCTTTGTGCCTTTGAGATATTAAAGATTCCAATTTTAGTGTATGCAGTGTTTTATAGTTTATTGTCTCGCTTGTTGTTTGTGTGTTTTTACAGTGAGCTCATGTAGCCTTGCCTTTAATTCTCATGTTTCTCTCTCTCTCTCTCTCTATTTCTGATGGGATATGGCAAGCAAATAACTCCTACTCTGGCTAGGATAAGAGGACAAATGCTTTTTGAAAGAAGGAGGCATGCCAGTGCTAGAGTAAATTAATATTTTACAGCATTTGCATCACATTTGACTGTTCTGTGTACTTCAGCAGAAAGGGAGGAGACTGTAATTTGGACTCTATCAAGCCTTATCTGCCAGGTGATGTGTAAATAGGACTTTGTGTACACACAAATCCGTGTACAAGCGAACCCAAGTTCCCAGCCCTTGGAGCTTCTGGGAAAGTGATTATTAAGTATTTGGAAGCTTCCTTTGAAACGTTACCAGATAAAAATCAAAACTTCCCTTGCCCTTAAAATAAGTGCTGCGTTAAGATGAAATAGAATTTTGTGAACTCCTGTTGAACTCAGCCACCGTTTGTAAACCAACAGTCCTCTTGGTGGAAAGATGGTGACGTATTTTCATTTTGTAAGGGTATGGGGGTATTCCACTTATCTTTTCTCTCTGCACATGGATTACACTCGGGAAAACCAAAGACCGATAAAGCAAACAAACAAACAAACAAACAAAACAAAAAACTACTTCTTTTGCAGAGCAGACCCAAGCACGTACTAGATCCTTAAATAAATTGAGGGTGAATGGGTTCGTTAGAAGGAAGAATACTTTGGCTACTATTCATTACTTTGCAAAGTGCTGGAAAGGAATGGAAGTTATTTTCCTTTCCAGCTAGGCTGTGCTCTTAAAAATAGCGAGTGTGTATGGTTGAAAATAATTATGACTACTGAGATGAGTTGCCACGTACCCAAGGATATTTGGCTTCCTTACCTGTTTACAGATTATTCACGTTGGAGATCATGTTCGTATTCCAGAATAGTTCCTTTCTGACACCCAATATAATTCTGGCCCTTCTCCTTCCTACTGTTACCTGGCGAGAGCTTAGGAAACCCAAACTAAATTTAAAACAGCCTAAACACATATGCAGCTCAGCTCCAGTGGATCTGACTAGAAACCAGTTTAGCATTCACTTAGTTGACTGATAATTTTTTTCCCATCCCAACAGCATGGCTGGTTCTTTTGGTGTGATCTAGTTGCTAATTGGGTACCACCAGCACTTAAGTAAATAATTTTAATGACTAAGGATAAAAAAGAATGCTAGCGGATCAGGCCCTCTTCCTCTTTTGTTTCTGTTCGCACATTGTTAATTCACAAAAGTACCTCACAAGGACCAAGGGGTCATTCATTTCTTCTTTCATTTATCCATTCATACACTCATCATATAGCGAGTGACTTAGATTCACTATTGGGGCAAACTGAAAGTGAAGACAATGCCTGTTCAACAATAAACTTATTTACAATGTATGGCTGGCCACAGACCTCACTTGGTAAGAGTGCTTGTCTACCATGCCCCATAAACTGGGCATGGTGAGATATGCCTGTATTCCCAGCACTTGGGAGTTGGAGGCAGGTAGATCCGAACTTCAGGGCCATCCTCTGCTACATAGCAAATTTGAGGTCAGCCTGGGCTACATGAGACCTTTTCTCAGAATTGGATCTTTTTTTTTTTCCTCCTTCATTTGATTTTCCACTCACTTTTGCATTAGCAAGCTAATAGCTATGTTCTGTCATGGTTGTCTTTCAAGTTGCACGTGGATAAACAGTATATATAGATTAAAATTTTAGGCTTTTGGTCCAACTGCTGTCCCCATTTCCACTTGATACTGCTTGTGAGGAATGGCTGTGGCTACTTATTGGATGCCTGAGGAAAATGACAATAGCCATCTCAAACATGGAGACCAGGGTTTTCATTTGACTGAAGGGATGGCCTAGATTTCATATGTTGGCTCCCCTGAACCCTGTGGAATAAAGCCAGACCTGTTCGGCTGAGCTGATTGCTGAGCTGTGTAACTCCTCTATAACAAAATTCAAAGTGTGACGTTCTTAAGATTTGTATTTCAGTACCTACGTCTTAAGATAGATCTTTGTTTAAAGTGGTTTATTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTTGTTTTTGGTCCTCCATCTTGTATTTCTTCTGCACTTCCTGGACCTTCATAG
Seq C2 exon
AAGTATCCTGCACCGTGCAACAAGTACGAGGGCGGTCGCTTCAAGCTGCAGATCTGTCTGTCATCCTTATCCAACAGTCTCTTCCTCCACTCCCTCCACAGGGAAGGGCGTCACCTGTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000046876-Atxn1:NM_009124:1
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
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: