MmuINT0083784 @ mm10
Intron Retention
Gene
ENSMUSG00000027111 | Itga6
Description
integrin alpha 6 [Source:MGI Symbol;Acc:MGI:96605]
Coordinates
chr2:71846164-71849506:+
Coord C1 exon
chr2:71846164-71846262
Coord A exon
chr2:71846263-71849380
Coord C2 exon
chr2:71849381-71849506
Length
3118 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGA
5' ss Score
9.22
3' ss Seq
GTCTCTTTTGTGCCCTGCAGGTT
3' ss Score
11.64
Exon sequences
Seq C1 exon
GAATATTCCAAACTGAACTACTTGGACATTCTCCTGAGGGCTTCCATAGATGTCACCGCTGCTGCTCAGAATATCAAGCTCCCTCACGCGGGCACTCAG
Seq A exon
GTGAGATCTGGGACCTTAAACTCAGAGATGGCCACTTCTCTACACCGTGGCTACAACCTGTGGTCATCTTCTTTGGTCCTCCTACTCCTCAGGTCCTGTTCCTCCTTAAAGGACAGTTTGAGGTTCTGCCATTTGAAGGTGTATTTTAGTAAAAGTGTTGAAAATAAAAAATGGACCCGAGCCAAGCCTAGTAATGCAGGTGTGTTAATAGCTGAGGCAGGAGGATCACTGATTTAGTCTGTCTGGATTTCAGAGTGAATTCAGGGCTGGCCTGGGCAATTTAGTGGGTCCCTGTTCCAAAATAAAAGTTTAAAAGAGTCAATAGATAGTTCGTGCTTCCTACCACCACCCAAGGCCCTCGGTCCAATCCCAGGTGCTACACACACCCCCAAAAATAGAAGCCTAGAGCAGAGCTGTGGTCAGGATGAGAACCGGGCAGCCACACAATGGAAGAATAGCTTACAGCCAGTAGGTAGTGAAGGCAGCCCATCCCTGAGACTGCAGCCATCCTAAGAATGTCTGTGCTATGTGTGGCCAATGGAGGATCCTAAAAAAGATATTTCTCTGTACATCTGGAATTGAGAAGCCAATCACAGTGGCTCACTTCTACAATCCTAGCACTTAGAAGGCCAAAGCAGGAGGGTTGTTGCAAGTTTGAGGGAGCCTAAGCTATTTAGTGAATCCCAGGTTAAAATAGACCACAGTGAGACCCTACCTCAAAACCCCTGTGAATGAAAGATTGAATGAATCGATCAATCATCAATCAGTCGATCGATCTATTAGTCTAGAATTGACTTTTGTAAAATAAGTCCCTGATGTTTCCTTTGGAACAAGCCTTGGCCATGGAGCAGCCTTTCCAATGACAGACAGAACTGTCCTGTTTCCTTGGACACCTTCAGAAGGAAGATTGTCTCTCCCTTACTGTCCTGTGACCTGTCAGTGGGGCTGAGAACGGGTCTCAGTTCTCAGTTCTAGAAGGTTACCACCCAAGGGCCTGATGTCAAGTCTGGTTGCCTATTCACAAAGGAAAATCCTTGTCTTGGGCATGTTATTTTATCCAGCCTCCTTGTAGAGATGGAGTCTCTGTATGATCCTACTTTCTTTCTAGCCTTTTGTCTAGAACCCATCTCTTTTGAAAATGGAGACATATTTTTTATTGCTGGTCTTCTACTACCTCCTATTTTCTGTGATTTTTGGGCTACAATAGCTCAGGACCCATGCTGGCACTTCCTTGTATATCCGAAGGTGCAGTGTTTAAGCCTGAATATTAGACCTTACTTTGAGCCTCAGGATGCCCTCTTCCTCGATCCCCTGACTTGTTTTGGGTTACACTTTTGTCCTCATCTCAGGGCTCGCTTCCTTTCTAGTCTGAAGATCATTTTCTCTGTTAATAACCACAAACTAGATTGTGTAATTCAGTCTTTTTAAAACCTAATCCTGCTTTAAAAAGAAAGAAAGAAAACTAGAAATCTGTTTATTAATTGCCCAATTTCAAGAGTTTAAGTATTTGCCACTCATAAGACACTTTTAAGTTTAGACAGTGTCATAAGAAGTGAAATCAGAAACCACACAATTGAGCCAGGTAAGATGATTGTATTTTGACATCAGTTTAATTAAATGCACATGCAAACAAGCACCTGTTAAAACACATGGGTGTCTTCCCTGTACTACGGTGCCAGAAGTGAAACTGAATAAAAGTGTTGAGGATTTCAATGTAATCCAAGAAAGAAGGGGCCGTGTATGTGTGTACACGTGTCTCCATTCTATTCCTAAGAATCATGTAGGGACTATCCAAGTTTCTTGGCTGCTGAAGACAGAAGAAATTGTAATAGAAATGAGTGCCCCATTCTTCCTGGCAGTGAGATTTTCATTCCAGGGGTTTCAAATTCAGAGAACTTGAGATACGTGTGCGTTTAGAAGATGGGCTTATATGCGCATAGAGGTGGATGGTAAATTTGATACTAAGTTTTATAAAAGTTGTGACAGCCCCTTTGCCAGATGACTTATACTGTTGTTCGGTCAGAGTGGGCTTTATAATGTAAATTGGGGCAGGTGTTTTGGCAGTTAACAAGCTGATGTGGCCTCTGTACTGGTTATTGGTGATAAAATTGGATACACCAGTAGAGTGTGTGAGCCCTTTCTGCTCTTGGCACATGGTAAATGATGTCACCTATGGAAAGCCACCCCCATGGAAACTCACAAAGTTTAATGAGTCCAAAGGGAAAAGTTACTTACTAGGAATTATAAAGCCTTATAGATGTTTCTTTTGTGTTGTTACAAATCCCTAAGACATTTTAGGACTGGAGCTAAACATTTTTGATGGGTGTTTGCCATTAATCAAATGCTTAGAATGTCTCATTGCTACAGCTGGAGTCTGAGTTACACCTGGAGAAACCTACCTTGTCCACACATACTGGCATGGTAAAAAGTCATTTTAGGAAATTAAAATGAGGATCTTTAGTTTGATAGCCTAAGGAAAAAAAAGTTTAATGGCTCCTCTTTGTTACAAAGCTTGTCCCCTGTTTCACAGTGTCTTTGGAATCTGAGGTTTGTAGAATAATTGCACCCAAACTTACCCGTTCCTTTCCACGGCTGAAAATTGACTAAACGTCTGATCCTTCTCAAAAGGATGTTGGCTGAAGGCTGGAGGTGGAGCTTGGAGGTAGTGTTTACTACACATGTGCAAAGCTTGACTCCAGTACAGCAAGATTTAAACACAACAACAGAACAAAACCAAGTAATTGTGGTGAAACACAGTTAGCTGCTGATAGCTGTTCAGACGCAAAAGGGAGTGGTGGGTACGTCATTGTATAGTTTTCTCTGCTTTTCTTTAAAACACACACACACACACACACACACACACACACACACTTACTTTAAGACTTACATTAGAAATACAACCCAGGCCTTTCCAGTTCTGGATAAGATTTTCAGGGAAAGCCCATTGAAGCAATATTCTGTGGTTATGAGAAATGGCTGACAAAGGAAGCGACTTGTCTGTCCTCCCGCTTTTTCATTCAGAACATGTATAGGAGCAGAACTGAGCCGAACTGAAGCCATCGGTACCTGATGTGAGCTGGCACCGGGTTTATAGTGGTGTCTCTTTTGTGCCCTGCAG
Seq C2 exon
GTTCGAGTGACGGTGTTTCCCTCAAAGACTGTAGCTCAGTATTCAGGAGTAGCTTGGTGGATCATCCTCCTGGCTGTTCTTGCCGGGATTCTGATGCTGGCTCTATTAGTGTTTTTACTGTGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000027111:ENSMUST00000028522:23
Average complexity
IR
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:
NO
A:
NA
C2:
PF151761=LRR19-TM=PU(51.4=85.7),PF0035715=Integrin_alpha=PU(0.1=0.0)
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:
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