MmuINT0083786 @ mm10
Intron Retention
Gene
ENSMUSG00000027111 | Itga6
Description
integrin alpha 6 [Source:MGI Symbol;Acc:MGI:96605]
Coordinates
chr2:71853534-71856758:+
Coord C1 exon
chr2:71853534-71853663
Coord A exon
chr2:71853664-71855853
Coord C2 exon
chr2:71855854-71856758
Length
2190 bp
Sequences
Splice sites
5' ss Seq
TTGGTAATT
5' ss Score
5.73
3' ss Seq
CTGTCCCCCACCCCTTCCAGTGT
3' ss Score
9.02
Exon sequences
Seq C1 exon
TGTGGCTTCTTCAAGAGAAATAAGAAAGATCATTACGATGCCACCTATCACAAGGCTGAGATCCATACTCAGCCGTCTGATAAAGAGAGGCTTACTTCCGATGCATAGTATTGATCTACTTCCATAATTG
Seq A exon
GTAATTGATCAATGTTTTTCATCGCTAGCTTTGGGACCTGCTGTGGTTGTGGTGGCTAACTTAAGAGCGACAGCTTGCTGTGTCTGTCCCATTAACAGTTGTTTCCAAGTGGCTTGCCTTGCTTGGATTTATTTATTTTTGTTATTTCACTTGATAGCTCAGTTGTTGTTGTTGTTGTTGTTGATGATGATGTTGTTTGTTGTTGCACAAAGAATCTTCTGTTGCAGGTGAGTTATTTTGTGTTCTTGTTAAACAACACCACAGCAATGAAGGCAGCCACACTGGTTTGTCTGATTAGGTTTTAAGAGCTCCGTAGCTGCCCTTTGCCATGTGTTTTTGTATCGTGTCCCACTCGGAATTTCAAAAGTGCATGAGAAATCGGCCCAGATTTCTTGTTCGTTTTGGAATTCCCTGGGGGCAGGAGCTTTTGTCGACTGCCTGCTTAACCTGTTGCATGTGGGAGAGTTTGTGTATCTCCTGGGAGGAGGCTCTCTTGTCCTTGTCTCCATGGTTGTCCTTGTTCTAGAGCGATGGCCAGGCTTGGGGCGCTTCTTACTGCCGCTTGGACGTGGTCCTGTGCTAGCTAAGCATGCGCCCTCCTTTTCCCTCCTTTCTCTCCTGGGCCAAAGCCATTACAACAAAGAATCCTTGTCAGCACGTGGGCTTCTTGAATACTTCAGGACATGGTCCTTTCCCCAAGTAACCACCAGCGTGCAAAAAATTCTAGCACCCAAGTACTGGGGTGGTTTCTACTTCAAGATGTTGTAATGGAGTTTGACCAGGTTTCGTGTTCTTAGCCCCTTTCTTCCACCTTGGCTCTCAGCTGATTTTAAGTTCGTATTTCTCTCCTATGATTTATAAACCCATGGAAACAGGAACTATTGTCAATTCCCTTTTCTTTCCCATGGGCAAGAGGGATTTCAGTTACTGCTACAGTTCCTTTCCAAGGTATTGACCCAGTGATCCCAACATGGCCATTTTGATTGTACATTTCAACTGCATTTTCTTCTGTTTTTAAATGGGGCAGACAGAAATCATATTTTATAATAAGTATATTGGCTTTTTCTGCACAGAATTACAAATGAGACCATAGAGAAATGGCCTATACCAAACTCCAGGCTCATTTGGGATTGGGATTTTTGCCTTGCCTTGTGGCAATTTTATAACACAACATTCTTCAATATAATTATTCTATTCCTGTTGCCGTCACAAAATAAGGACATTAAATGATCATTCTACATAGATCCCTCTTCTGAACTGCATTTTTAAATTTGAAAAGACTCCTTTGAAAAGAAAAAAAAACATGTAAATTCTTATTTATAACTTCTAAAAATCTGGTTCAAAAATCTTAGGCATATTTTTTAAGTGAACTTTTGTTTAGATCAAAATTTTTTAAGTAAATAAAGTTTAATAATTTGGCTTCTTTACTTACCCCTCCCCTCCACAAGCCCCCTCCCCCTTTCTTTCTTTCCTTCCTGTTTTTAAAGGAAGAGGAGAAATTGGGGAATGCTCCAAAATTCAGTGTAGTGATGCTGCCCGTGAGTCCTGTGAGGCTCCTGACTGACTGGTGTTCTTATGCAACAAATTACTTTGTAACTCATTAACAAAACAGCGTAATTGGAAGCACCCCACCGAGTCTCCCCAATGACTATTGATAGAGGATTGATTGGAGGATGAGAGGCCCAGGGGGGAGAGAATCATGTTAGAGGAACATGGCGCACCAAACAGCGTTTGTAAAATTACCTGTGATCTGATTCACAGCTTATTAATGGGTGAGAAATAGTGATTTTTTTTCTTTATACCCTTAGAGAAATCCTCTTAAGCTGGCCATGGTATGCACACGCCTATTATCCAGCACTAGGGAGCTTCAGACCAGATGATGTTGAGTTTGAGGCAAACCTTGGCTACAAAGCAAGCTCCAGTTCCCTACACACAAATACAAGATGTTTTATAATGAAATAGCTGAGGCTATAAAAAGTAAAGAAGGTGGACACTGACTTTTCTGTGGGGCCCACATCCGTTCTCCCTGCTTACCCCACTGCCTACTTTTTCTTAAAAGGAATCAGTGCCTTTTCCGAGCACTCCAGAGGGAGACCTAGCTGCACTGAGTGCTTACAAGTTCTGGTGTATGCACCAGGTCTTCAGATTAACTAACTTCCATCTTGTTTTTCTGTCCCCCACCCCTTCCAG
Seq C2 exon
TGTGGATTCTTTAAGCGCTCTAGGTACGATGACAGCATTCCCCGATACCATGCGGTGCGGATCCGGAAAGAAGAGCGAGAGATCAAAGATGAGAAACACATGGATAACCTCGAAAAAAAACAGTGGATCACCAAGTGGAATGAAAACGAAAGTTACTCATAGAGAGGAGGGCACAGGAAAGAACACCTCACACTACCCAAAGCCCCCCCTTATTTTTTCCAGCTCAGAAATTCAGGTGGCTTCAAAGCCTGCTCAGCTCCCCCATATATGATTTCAGACTGACGACACCCAGTATGGACCTACAGTTTCAACTGTGGATATTGTTACACCTAAGGCTCCTGTTTTGCACAGCCAAATTTAAGACTGGTAGAGTGGATTTTTCTTTAACTGCCTTAATTTAACTTTCCGGATTGCCTTTGTTTTTGACGTGGCTGACTTCCACACGCTGGGGCAGGGCCTGCCCATCTGCACTGCTGGGATGCTCTCCCCCAGGTCACCTGTGCTAACAGAGTGGCTATCCCAGCCTGCTCCCACAAGCATTCTTCTCATAAGATTGACCTTGGCTCAAGACTGCCAATGGATAGCTGTGCCTCTGGTGAAAGTTCTGTCTTAAATGTGCAATAGAAGGTGATGTTACCCTTTGGCCTTCTTTCTCCATCTCCTAGAAGTGAGGACCCTTGCTGACGCCAAATGCACACAGGTTCCCGTCTCCCTTGTCACTAAAGCACAGGGTCGACAGACTTGAATGCTAGTTACATTTGTTTGTATATGATATTTATTTTTTTCTTCAAGCCATCTTGCTGTTGACTAATAGGCCAAAGATGCTTCTGGGTGGTTTAAGCAATGAGAATGAGAACCTGGGAGGTCTTGTTGTTGTTGTTGTTCTGACCTTACTTATTTACTGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000027111:ENSMUST00000028522:25
Average complexity
IR
Mappability confidence:
NA
Protein Impact
3' UTR
No structure available
Features
Disorder rate (Iupred):
C1=0.171 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF151761=LRR19-TM=PD(45.7=88.9),PF0035715=Integrin_alpha=PD(86.7=36.1)
A:
NA
C2:
PF151761=LRR19-TM=PD(56.3=90.7)
Main Skipping 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