MmuINT0083785 @ mm9
Intron Retention
Gene
ENSMUSG00000027111 | Itga6
Description
integrin alpha 6 [Source:MGI Symbol;Acc:MGI:96605]
Coordinates
chr2:71687438-71691720:+
Coord C1 exon
chr2:71687438-71687563
Coord A exon
chr2:71687564-71691590
Coord C2 exon
chr2:71691591-71691720
Length
4027 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGT
5' ss Score
11
3' ss Seq
AATACCTTGCTTCCTTGTAGTGT
3' ss Score
7.39
Exon sequences
Seq C1 exon
GTTCGAGTGACGGTGTTTCCCTCAAAGACTGTAGCTCAGTATTCAGGAGTAGCTTGGTGGATCATCCTCCTGGCTGTTCTTGCCGGGATTCTGATGCTGGCTCTATTAGTGTTTTTACTGTGGAAG
Seq A exon
GTAAGTTGTGTCTGTCTCTTGAGTTTGGGATGTAAACTTCATGTCTTTATAGATGAGGATTCACACTGACACATTTGTAGTTCCTTCTTTCATTATTTCTTTTTCCCAACATTATATATATATATGTATATATGTGTGTGTGTGTGTGTGTATATATATGTATGTATGTATGTATGTATGTATGTATTTAATGTATGTAAGTACGCTGCTATCTTCAGACACACCCGAAGAGGGCATCAGATCCCTTCACAGATGGTTGTGCACCATCATGTGGTTGCTGGGAATTGAACTCAGGACCTCTGGAAAAGCAGTCAATGCTCTTAAACACTGAGACATCTCTCTAGCCCCTTTTCCCAACATTTTATCATAAAATTATGGTAAATCTGCGAGACTTTTTATAAGGAATACCCATATATCTTAACAATTTATATTTAAAGATTACTCATATGTAAAAAGTTTCTAAAAATAAGTTTAATATCTCATATATAATTCAGCTTGTTTGGTAAATGACAATTTGAATTTTGCTACTTTATTTAGCATTCTCTGTGCCTGCAATCAAACCCTAAATCTAAGCCAACTTGACAGATAACAGTTGGATCTGAACATAAATTCCTGCTAATTTCCCCTTCTGTAAAGAAGCCTTCACGTCAGCCGCTGGGGATCATCAGCCTTACATCTAACTTAGGAGTAGGGAAACATGGCAGAAAGAGTACTCCATCTCACGGTTTCTCAGCCTGTAACAAGCATGGCAAACACTCGGGCTCAGTGTGATGGTCCTCATTAGACTCTAATCTTCTGACCGCACAAGGTGTGAGCGTCTCGCCCTGCTTCCTACCCATAAAGACTCATGCCATCAAAAGACTATGTAGGAGATAGTTATGAGTGTTTGTCAACAGATTACAACCTCTATAGATCTCATGTGAGTCTCAGGGAGTAATGGAGGTCCACCGTCCTTATGGGTGATTCCAGATTACAGAAATCTCTGGAAACTGGCACCTTGATGACTGACTTGGTAGAACCTGATATGATGTGAGGAGATAATATTTACAGTCTCACTCTTTGGTTTCATGAGTTGCATCGCAGAAACACTAGCCTTCTTATTACAATGCCATTGTGTGTGGAGTGCTTCCCAATGTGTTTATTCTAGAAGGCTTGTTGGTGGGAAGTAAGAATGCGCTAGGGTCAAACCACACTTTTCCTTCCATTGTGTCCGAGTATGACAGACGAAGGATACTCTGACTTGCCAGGTTTGAGTGAGTCTCCCCCCGACCCCCACCATTCTTCCAAACAACTTCCTTTTGCCAGGCTGAGATAATCTTGAGACTTGGTATCTGTCCATACCAGTAGCCTTCCTGATACACAGATTTTTTTTTTTAATGTTTTACTCCACTATATCTCAAGCAGTAGGTGTATCTGGCAAATACAGCCAATGAGTATTAGAGCTCTTGGTATAATTATTTGATGTTAAAAATTAATTTGGAGTTTTGATACCTGAAGATGTTCTTATATTCTCTGGAAGAGGCCACAAGGCCAGTCTTTTCCCAGAGCAGATTTTATTGGCGCTTGAATCCTTATGTAGTCATGACAGTAGATGCAGAGTTACAATTCCTGAGAGGTATATAATTTTGGGCAAATAATTTTCATCCCCCTGGATCTCAGCTGTTTAATAATTGGGTCAGACTAAATGATTTCATTGGGTTCTTTGCGTTCTAATTTCCAGAAATTAGATTCTAAAATGATCAGATACCTTCCTCAACCTCCATATGGAAATAGTCTTATTACTTCCTATTCTTCTTTATAAAAAAAAATTCATATTTAAACCAAGGAATTTAAGGATCAGAAAGGATTCTGGGGTTCTGGGATGTAGCTTATCAGTAAAGCAGCTTTATACTGTGTGCTAGGCTCTGACTTCATTCCCCAGCATTGTGGAGGGAAGGATAGGAAAGGATGATAGGTGGGCTATAATAATGTTCAGCAGTCTGTAAACTGAGCTTGTCCATCTACAGCAGTGTCAGTGGCTCCTGGAGAGCTCACTTTACCTAGAGGAACCCTGGTTTTATCTGTTTCATAAATACTGCCTCTTGTACAGGAGTCCTTATAGAAGTAAAAGACAAAAGTCCTCAGGGATCTTAGGACTATTCATTTTGCTGGGCACTGGTCCCTTTAATCCCTGCACTCGGGAAACAGGCAATTGGATATTTGAGTTCAAGGCTAGCTGGTCTACAGAGTGAGTTCCAGGGCAGCCAGGGCTATTCAGAGAAACCCTGTCAAAAACAAAACAAAAGACTGTTCGTTTTGGTTAACTTTTCTTCCTGCCCTATTTACTAGTTCCTGTGACTGCAACTTGGCTGTATTTACTGTGTATTACCCTGACAGCCACAGCCACAAGTACACATGAGATAGGCTAATCCAGTGCATCCCAGTGCAATGATCTATAATATGGAAATGTCCTGGAGTGGCATCATCCCCTGATTCCCTGGAGTCACCTTTGGCTGGTACAGTAGAAAAGTTGCATTTTCAATTTAAATTTGTCTAAACTTGAATAACCATGTACAGTTGGTAGCTCCCACCTTGCAAGAGGCAGATGTAGTGTGTGTCCCCCCCCCCCCCACCCCTTTATGAGTTGCTAGACTAGGAGGCACAATTTCTTCAGGAGATTTATTTGACTGTATTAGTTTGGGTTTAACTGCTGTGAAAAGACACCATGACCAAGGCAACTCTCATAAAAACAACATTTCATTGGGGCTGGCTTACAGGTTCAGAGGTTCAGTCCAGTATCATCAAGGCGAGAGCATGGCAGCATCCAGGCAGGCCTGGTGCAGGAGGAGCTGAGAATTGTACATCTCGTTCTGAAGGTGTAAAGGGCTGCAATCTACGTGCCGCCACTAGATGGTGCTAAACCTCATTGTGCGCAGCTGCGAGAGCACAGCCAGCCAAAGTCACCAGTCCATCTCCGAGGCTTTTGCCCAACCCCTGGGGGCTTTAACCTATCCCCAGGGTGCATGAGGATCATGGGTGTTGCTACCAGTCCTAGTTTAGACACGTCACCAAAAGTATTTAAGCCACACACTTTCTGAGCTTTCTTTGTCTACCTCAATATGATATAGAAGTAAAAGTTAACCGTGGAAGAATCTGGTGTGTCCTGTGTTTATTTCCCGCGGGACGGGGATAAGCTCGGGATATGAAGGCCTCTAAGAGAAGACTGACTTCCAAGCAGCTAGGACTAGGATATTAAAACCCACACCCACAGTGACACACCTACTCTGACAAGGCCATGCCTCCTAATAGTGCCACTCCCTGGGCCAAGTATATTCAAACCACCACACCAAGTTTTATTTCAAATGGTAGCTCCCACAGCCTGTGAACCAGATAGAAGTAAATAGGGAACGGTTTTTGTTGTTGACTCAAGAAAATAAGAACAGAAAGTAGAATTGCACTTTTGTGCTCCTTTAGAGTGACCTAAACTGAGGAGCCTGGGTTCCTCCCGTTTAAGGGTTGCACAGGTGGTTCAGAATCCAGGGAAACCAACAGCAATTACTCCTCCATTGGAATTTATTCTGTGATTCACACTACCAATTGGTCCAGAGGTACCCAGCTGAGAGTATTGGTCCATAAAATTTACTGCAGAAGCAGATAAACACACTATACTCATGTTTTATTTTGACTTGTACTGAGTTTTACAGACTTTATTTCCCATCATTTGTCTCAGTAGACCTCAGAAGGGACTGTTTTTGACTTTTCTAAAGAGTCCATTCTGCAAGGGAAAAAAAAAAAATCACTTGAAGTTCCCGTCCAATGTGCGTGTTTTCCTTTTAGGATGACCCTAAGATTTCTGCTACAAATAGAAAAGTCAACTAGTCAGTGCGTGTCATCTTTATGTAGAGACACTGAGTGACAGACTCTGTTAAATGCTGGCACAGGGTGACGGCACAGTGACTGCTCGCTTAAGTTAAAGTCTGAGGTGTTCTGTTTTTTAGCTCTCAAACACGAAACTGTAAAATTGACTAAATACCTTGCTTCCTTGTAG
Seq C2 exon
TGTGGCTTCTTCAAGAGAAATAAGAAAGATCATTACGATGCCACCTATCACAAGGCTGAGATCCATACTCAGCCGTCTGATAAAGAGAGGCTTACTTCCGATGCATAGTATTGATCTACTTCCATAATTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000027111-Itga6:NM_008397:24
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.171
Domain overlap (PFAM):
C1:
PF151761=LRR19-TM=PU(51.4=85.7),PF153471=PAG=PU(49.3=81.0),PF0035715=Integrin_alpha=PU(0.1=0.0)
A:
NA
C2:
PF151761=LRR19-TM=PD(45.7=88.9),PF153471=PAG=PD(47.8=91.7),PF0035715=Integrin_alpha=PD(86.7=36.1)
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
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: