MmuINT0083781 @ mm10
Intron Retention
Gene
ENSMUSG00000027111 | Itga6
Description
integrin alpha 6 [Source:MGI Symbol;Acc:MGI:96605]
Coordinates
chr2:71843129-71845881:+
Coord C1 exon
chr2:71843129-71843302
Coord A exon
chr2:71843303-71845782
Coord C2 exon
chr2:71845783-71845881
Length
2480 bp
Sequences
Splice sites
5' ss Seq
AAGGTATGC
5' ss Score
9.55
3' ss Seq
GTTTTGGCTATCACTTTTAGGAG
3' ss Score
7.09
Exon sequences
Seq C1 exon
GTGATTAACTTAGGCAAGCCTCTTAAAAACCTCGGCACAGCAACCTTGAATATACAGTGGCCCAAGGAGATTAGCAATGGCAAATGGTTGCTTTATTTGATGAAAGTTGAATCCAAAGGTTTGGAGCAGATTGTTTGTGAGCCACACAATGAAATAAACTACCTGAAGCTGAAG
Seq A exon
GTATGCTGACGGTTTTCCTGCATGCCCCCTCCCCCTCCCCACATCCCCTATCCCCCCCCTCCCCCAGAGTGAGTGGGGTAGGCTCGACTCTGCTCAGGAAGCTGCACTGTGGCGTGCTGACTTTTTCTGTGGGTGTCACAGTTTCCTCATTTATGACTGAGTTAGCCAGTGGGACAGAAGCGGTTTCGCTGATGCATGACTGTTATGGAACATCCACTTGTTGGGGCGAAGGACATTTTCTAAAGTGTTATGACCCAATAAGCTGTGTAAGGAGAACATGCCCCGGGGAGGAAGCAGTGGACATAAGCTGCACAGAGCGTCAGGAAGGCACAGCCAAGGCCTTTGTACTGAGGCAGACGACCTTGAACACTTGCAATCTTATTAATAGTAAGTGTTCATCGAGTCCCTTACTGTGTCACTGCCAGGCCAAGCACTGTGTATATTCTCTTGAGAATTTTGAGATAGTTTTTACTATCTCCCCCTTCCCCACAATGAATGCCCTGAGACATTAAGTACCCTCAAAATGGCACAGCTCTTAAGAGAGAGGTGGATTCTGCATAAGCACCCACCGACTTCGAAGCCTAATCCCTCTACTGCAGCACACTTACATAACTAGCCCAGGTGAGTGAGTTCCAGTGTGGTAGATGGCTGCTCTTTTTCTTTTAAATTCTTAGGGTTTTTGCTGTTGTTTAGTTGGGGTTTTTGTTGTTGTTGTTTTGAGACAAGGTTTCTCTGGGTCGCCCTGGCTGTCCTGGAACTCACCAGGTTGGCCTCAAACTTAGAGATCCCTCTGTCTCTGTCTCCCAAGTGCTGGGATTAAAGACATGAACCACTATGCCTGGCTTGGCTGTTTATTTTTGAGGCAGGTCTTATGTAGCCCAGGCTGGCCTTGAACTTTTGGGGTAACCAGAAATGACCTTGACATCTTGATTCTCCAGCCACTACCTCCCAAGTGCTGGTATTACATCGTGTGCTGCTGCGCCCATACGTGCTAGGCTAGGCTAGGCTAGGCTAGGCTAGGCTCAAACCCAGGGCTTCATGCATTCTAGGCAAGCATCCTGCTAGTTCAGCTACATCTCCAGCCCTCTTATTTTAAATTCCAAAGTGACTGTATAGTCGCAGATTTACAGCTTGCTCCTTGACTCAGCAACACTGAAAAACATACTGGCCTGTTATTTTTATTCTTAAGTATAAGTTGACTATCCCTTTCTAAGCAATCCTAAATGCAAAAATGCTGTAAAGATTGCTCATAGGAGAGACTCACCTTGTATAAGGAAGACATAATGCTAAAAGTTCTTATCTGTCTTAGTCTTCAATGCTCCTCTCTATGTTGATCATACAAAGGGCCTTGTGCTTTCCTGTTGTTCTTCATGGCTTCTTTTCATTATTCCATATGTGCTGACTCTCTCTGATGTGGTGGACATGGGGCTGAATGCTGGGGTAGGGTAGATCTCTGGTTTCTGATCTACTGACTAACAGTTTGATGCTGTGTATTGTGGTTGAGTGGAGAGACAGGAACTGAGGAGGTGTCTTTCTTTCCCCGAGTTTCAGTATCACACTAGGAATAAACTACTTAAATAAATAGAGTCCCCACCGATGAACTTTAAAATGGCCATAATGCTTGCTGGTTTTACCTTTCCTCTGCTTTTGATGGTGGGAAGGAAGATGGGACGCTTAATGGTAGCCTTGGCAGAATTTGGACTCGGTGAGACACTGAGCACACTAGAGGGATTGTTTGGCCTCCGGCCATGCCTGTGAAGGATAATTCTGATAAGGCTTCTTGAGGTGGGAAGACCCACACTGACGATAGATGGCATCAAGCCCTGGCCTGGGATGCTGGACCCAAGAGAAGGGAGAAAGTGAGCTGAGCACAGGCAGTCATTGCTCTCTGCTTCTCGACTGTGGATGCCATGTGACCAGCTGCCTTCAGCTCCTCACCTTCCACTGCCACATGGAACCGTGAGGCAAAGAAGGCCCCTTGTCTTAGTTAGGGTTTTACTGCTGTGGACAAACACCATGACCAAGGCAAGTCTTACAAAGGACAACATTTCATTGGGGCTGGCTTACAGGTTCAGAGGTTCAGTCCATTATTGTCAAAGTGGGAACATGACAGCATCCAGGCAGGCATGGTGCAGGAGGAGCTGAGAGCTCTACATCTTCATCTGAAGGTGATAGAGGAATACTGACTTCCAGGCAGCTAGAACCAGGGTATTAAAACCCACTCCCATGGTGACGCACCTACTCCAACAAGGCCATACCTACTTCAACACCTCCTAATACTGCCACTCCATGGGCTGAGCATATGCAAACCATCACACTCCTCCTGTAAGTTACCTATCTCAGGGTGTTTTATCATAGAACAGGAAAAGAAATATAAGAAGGTGAATACTACTGATGCTATAAATTTGGCTTCATTTTGGAGGTTTATAGAGCAGTGGCAGATTTACATAATGTTTGTCTGTTTTGGCTATCACTTTTAG
Seq C2 exon
GAGTCTCACAACTCAAGAAAGAAACGGGAACTTCCTGAAAAACAGATAGATGACAGCAGGAAATTTTCTTTATTTCCTGAAAGAAAATACCAGACTCTC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000027111:ENSMUST00000028522:20
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=0.180
Domain overlap (PFAM):
C1:
PF084417=Integrin_alpha2=FE(12.0=100)
A:
NA
C2:
PF084417=Integrin_alpha2=FE(6.7=100)
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