MmuINT0083788 @ mm10
Intron Retention
Gene
ENSMUSG00000027111 | Itga6
Description
integrin alpha 6 [Source:MGI Symbol;Acc:MGI:96605]
Coordinates
chr2:71819999-71822569:+
Coord C1 exon
chr2:71819999-71820254
Coord A exon
chr2:71820255-71822437
Coord C2 exon
chr2:71822438-71822569
Length
2183 bp
Sequences
Splice sites
5' ss Seq
AAGGTATGG
5' ss Score
9.26
3' ss Seq
TTTCCATTTCATTCCTTTAGGGA
3' ss Score
11.42
Exon sequences
Seq C1 exon
ACGTGTGCACATCGATATGAGAAACGGCAGCACGTCAACACGAAGCAGGAGTCGCGGGATATCTTTGGAAGATGTTATGTCCTAAGTCAGAATCTCAGAATTGAAGATGATATGGACGGAGGAGACTGGAGTTTCTGCGATGGCCGGTTGAGAGGCCATGAAAAGTTTGGCTCCTGTCAGCAAGGAGTAGCGGCTACTTTCACTAAGGACTTTCATTACATTGTTTTTGGAGCCCCAGGGACTTACAACTGGAAAG
Seq A exon
GTATGGCCTCTGTATTTACAGACACCTGGGATATCAGTAAAGTTTCTATAATATGCCCATGGTTTAGTACATTTTAAATGGGCTATAAGGTGTTTACTAAAGCAGGTAGAATATTAAAATAAAATCTCTCCTATGGATTTTAACAGTAAATGTTAAATGTTTTAGGGTCGGGGGTTTTTCTTCATCTGTGGAAGTGGTTAATCTTTTTCTCTAAGAATGTAGTAATTAATAGGGTTTGGGTTTTTTGTTGTTGTTGGTTGTGGTTTTTGTTTGTTTTTGTTGTTGTTTTCTGTTTGTTACTTGAAAGGTAAAACTGTTTGCTGTTGAAGTAAATGGTATGCACAAAGGACTGTGTTAACGTGGACATTGCATTGTGTGTTATTTTAGAAGGTCATGTTCTACTAATAGTTAATAACAAAAAGAACGGATGGCTGGCAGATGGGGGATTTTTTTGAGGCAAAAATTGGAGGCAATGTGAGGTAACGCTGTTTGGCAGTATTATATTATGGTGAGAAAAGGAGACATTGGGGCGTGGGAGGAAAATGTCCCATGGTTCTGATCAGATGAGTCGGGTCAATTCCTTTAATTAACATCAGTTTCTCTGGAAAACTTAGGAAGAATATAGAAAACTGCTGTAATCCATGATGAAGAGAACCACATCTGGTTTGGGAATAAAACATTTTGTGAAATTAAAAAAAAAAAAAAATTACGATGTGGAAGGTTGAGGCATGAGAACCAAAAAAACAAGGCTAGCCTCGACACTTCATGAAAACCCTGAGTCAGAATAAAGTGTGTGGGCAGGAATTGGGTGAGGCCGGGAGATGGCCCAGTGTTTAAGAGCACACACCAGCCTTGCAGGGAACCCAGTTTAGTTCCCAGCACCTGCATCAGACAGCTCACAACTGCCTGTAACTACACATGTGCTTGCACGCACGCACGCACACACACACACACACACACACACACACACACACACACACTAAAATAAAAGATATATTTTTAAAAAGAACTCTTTTAAAACTATTTGTGAAAAGAGCAGGGGTGTAGTTTGATATATAGGGCTTGCTAGCATGTATGTGAGGGCCTCTCCAGCGTCTCACACACACATACACACACATAAATTCTAGTCTCAACTGTTATTAAAATGGCCCTTGAGCCTGCATACGTCATTTTTTGACACTGGAGAGTTCTCCCTTTTTCCTCACTCACATCTATGATAGACTCTTTCATAGAACCAAACCTCACCGAAAGAACATTTTGTATCTAGAAAGAGTCTTTTTTGGCAGGAGTAGATGGCCATTATATTGTAAAACAGAACAATAAAAACACCCACCAGTTAGGTCCATTTTAATTCATGGAAAATAAATCTTCCAGCTTACCAGCTCTGACTTAAAATGTTAGTTTTAAAAGGTCATGTTGTATTTGGGTTTAATATACTGAAATATTTCTAAGAATTGTAGAATTTCCAAAAGATGAAATTTTCATTAAAGCAGTTTAAGGAGGTGATGCATATATTATTTTCACTTTACACTACAGAAAAGGAAACTTGATAGAGAATTATAGATAACAAAATAGTCATTTATTTCAAGGTCGTGTCATTCAGATTTAGTTTTCCACAGATTTCTGTTGACTAAGCAAACATTCCATTTTCCATCTAGCTTCTTGGCGTAATAAAAATAGTTTATTAGAATGCATGGGTGATGTTTAAGATTCCTAGAACAGATTTCTTTCACATAAAAACTTAAATGATCACTGGGTGGTAGTGGTACCTGCCTTCAATCCCAGTACTTACCAGTATTAAATATGATGAATCTAATTTTTGCTAGTTAAGTGGTCTTACCTTTTGATTTAATTTGCATTTCTTTGAAAATGAGCCATCTGAAAGCCAAATATGATGGTACACACCTTTAATCTCAGTTTGAGGCCAGTTTGGTCTACAGAGTGAGTTCCAAGACAGCCAGGACTATACAGAGAAATCCTGTCTTGAAACACTACTACCACCACCAAAATAAAAGGAAAAACTTACATGACCATGTTGAAGAATCTTAAACATCACCTCTTCATTCTCTTTCTCCTTCTACATGTTTGTTAGAACCATCTGTTTTATTTTGTCTCATCTTTATTTTTTATTTATTTATTTATTTTTGTTGTTGTTGTTGTTGTTTTCCATTTCATTCCTTTAG
Seq C2 exon
GGATCGTCCGTGTAGAACAAAAGAATAACACTTTTTTTGACATGAACATCTTTGAAGATGGGCCCTATGAAGTTGGTGGAGAGACTGATCATGATGAAAGTCTCGTGCCCGTTCCTGCTAACAGTTACCTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000027111:ENSMUST00000028522:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.012 A=NA C2=0.111
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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