MmuINT0083771 @ mm9
Intron Retention
Gene
ENSMUSG00000027111 | Itga6
Description
integrin alpha 6 [Source:MGI Symbol;Acc:MGI:96605]
Coordinates
chr2:71672066-71676485:+
Coord C1 exon
chr2:71672066-71672127
Coord A exon
chr2:71672128-71676324
Coord C2 exon
chr2:71676325-71676485
Length
4197 bp
Sequences
Splice sites
5' ss Seq
TATGTAAGT
5' ss Score
6.69
3' ss Seq
TTTTGTTCATTCCAACCTAGCAA
3' ss Score
4.65
Exon sequences
Seq C1 exon
CCTCAAGGTTAAAGCCTGTTTTGAATATACTGCGAAACCTTCCGGTTATAACCCTCCAATAT
Seq A exon
GTAAGTGCCCAGTACATTAAAAACATCTTCTCTCTGCTAGGTTGAAAGTTCTGTATAAATAACAGGAAAACAAAACTCTAGTGGCCAAAGTGAGCTCATAAAGTCTTGTCTAGAGGAGGAAGTTTGTCTGTGGTCTCCCCTTTAATCAGGAGGGAGGGAAGGCTCTCCATTTGCTCCCCATTTGAATTTTCCAGAGCAGCGAGCAGGTTTGGGATGGGATGTCTTGGGAGAGCACTTACCTGCTGTCACAACAGCTTCTTCCCTTTCAGTTTCTGAAAAGCCCTGTGGAAAATGGGTTGTGTGGTTGTGAGGTGAGGTGGCGGGTGGCTGTTGTGGAAAGATAGCTCTAGCAGCCAGAGCACAGCTGCGGCTGGTTCACTCGCCAAGTTAACCAGCCTCACTGACCCTCCCACGGAGACTGCAGCCCAACAATGTCTAAGCTGTGCTCAGTACGGGACCTTGAGTACCTGAAGGCTTGACCATAGGAGCAGAGAGCCGGCTGCTGCTTCTGGCTTCAGTTCTGCTTGACTCACAGCAAAGGACAAGTCCTTGGCCCTTGGGTTTAATTTTCCTGTCAGTTAAAACAGTGCCCCTAAGTCACCATTGTCTAGGGTTATGAAGCTGATCAAGGAGACAACCAGATGGAAGGCACTTTGTCTTTTAATTTATTAAATTACTGTCTTTTTCTGGCGCTCAGTGTGGGATTGGCATTCGTGCGTGTGTGTGCGTGTGTGTACATACATGTACTTACATGGTAAACCGAGCATGTGCTTTTGTGTGTAAGTATGCATGCACATATGTGTAGAAGTCAGAAGACATCTGCAAGTGTTTTCCATAATTGCTGGCTCTCTACCTTTACTCTTTGAGATAGATCTCTTGTTGAAAACGAAGCTTATTGCTTTAGCAGAGCTGGCTGGCCAGTGAGCCCCAGGGCTGGGCTGATGAGCACAGGCTGCTGTCCTTTCTTGGCTTTTCATATGGGTTCTGGAGATCCTAACTTCTGTCCTCAGGATTATACAGGACAGAGCCATCTCCACCGCCCTGGTACTGAGATGACAGGAAGGTCACTATGCCTGGCTTTAAAAAAGTCAATAGTCTGGAGATTTAAATGGTGTTTCCTCATTTTCTTGGCACTTTACAACCTGAACCATTTACCAACCTCTTGTTGCATTAATTTTTTAAAGATTTATTTATTTTATGTATATGAGTACACTGTCACTGTCTTCAGACACACTAGAAGGTATCGGATCCCATTACAGATGGTTGTGAGCTACCATGTGGTTGCTGGGAATTGAACTCGAGACCTTTGGAAGAGCAGTCAGTGCTCTTAACCGCTGAGCCATCTCTCCAGCCCCCTTGTTACATGTTTTTTGATGATAAGCAAACACACACCTTCTTCACCTGGATGCTTTTTACCTGCATTTGTAATGAATTCAAGAAATAAGAGTAGACTGGATTCTTGTAAAGGGAGAAGAAATGAGAAAACATTTCCCCCCTCAAACCATTGTTTGACGATAAGTGTCAGATCTCACCGGTGTGCTCCATCCAACAACTGCCTTTATAGAGCGGGGTTATGAGCTTTCCTCTAGCCTTAATGCAACATCTGTTGCTATGTGCGTCTCCTTTATAGTATGTACCCATTCCATTACCTGCGTGTTTATTGCAGCCTGTGATAGGTGGGCCTCTTCACTTGGAAGAACTCTTTCATTATACTTCCACAGTAATAACTTTACAGTGAAATAAAACAGAATTTCCACAAAGCTGAAGAAGTATAATACATTCAGCATCATATCCCAGTATCCCAAGAGTGAGCTTATTGTGGGGCCACGATATTTTAGCTTGACAGCCCTCTTCGTGCGATGTTGCATGCACAGATATTTATAATTGAGCCTTAATGAGTTTTCTTGGCTTGTTCCTCAGGAGGTCAGCACAGGTGACCTACAAGGATTTTAAGATGATGTGAGTTGTCTGGAGGTTACAGAGGTCAGCGAGGGTTTGGTAGCTAAACGGTTTTAATGTACCCATGCCCTCCTCTACTTCTGCCCTGAGGGGCACTCAGCCTGGGAGCCTTCATTTGGTTCATCGGGAAGTTAGCAGGTCACTGATAAGTGGATGGTGTCAGGGCTGCAGAAGGCCAAAAATGAGGGGCATTCCATTTGGCAGTCGTGACATTTAAGAATATCTCAGATGGACAGAGAAATTGCTATTGAAACTGCCAGTGCTTCTAAATTTTGGTCTTACCTATGTGAATAGGATTTCAGTGCAGAGATTGCATCACACTGTGTGCACATGCATACGTGTCACGCCCTGCGTAGGGTGGCATGGGGCCAGGTACTCCATTCCACTCATCTGTCCTGTGGATGATATTTTTATCAAGTGTGGCAGTTGGTGAACAAGGGTGATGCAGTCTTTGTCCTTAGTTCCTCCACACTCTGCAGGACAGTAAGTCCCAGTGTATAGCCTCAGAGGTAGAATTTTCTCAGTGGCTCAGGAGGAGCCAGGACAGGCTTTTGGGTTAAAGTCTGGGTCAAGATCTGAAGAGTAATGGATTAGGGTTTAGTTTGGAGTTGGGGAGGATAGAGAGGAGGAGGAGGAGAGGGGCCAGTGCAGAAGGGGAAGGGCGGTGAGACCTGGCCTCTAAGCCTCTGTATAAAGCAGCCAGCTTTTGTGTGCCAGGTAGAGACTTGGAGCTGTTGATGATGCTGCCCTTTGCTGTAGGGTTCAGAATTTCCGTTCTTACTTTTTGGTTTTTCAAGACAGGGTTTCTCTGTGTTGTAGCCCTGGCTGTCCTGAAACTTACTTTGTAGACCAGGCTGGCCTGGAATTCAGAAATCCACCTGCCTCTGCCTCCCAAGTGCTGGGATTAAAGGCATGCACCACCATGCCCGGCTGCCCTTTCTTAATTTATAAAGAGGACATTAAAACGCACAGTCTCATGGCCAGAAGTATAAATGGCTTGGTTAGTACAATGCTTGCCTAGTATGCACAAAGTCCTGGTCTAATCCCGGCGCTGTGTAAGTAAGTATAAAGCACTGGTTCCATTCTAGCACTGTATGAAGCAGGTGTGATGGTGCATGCTTGTAACTCCAGCACTCGGGACGTGCAGGAAGGAGGAGCAGTTCCAGGCAGCCAGGGCCACGTGAAATTTGTCTCAAACAAACAACAAACACTCAAAAGACATTTCCTTCCCCCTCGCATGAATGGTAGACTATAAGCTTTCTCCATTTTCTTGAGTTTTTCTTGGAGGCTGACTTCTCCTCCCTGTGTACACTCCTGTGCTTTCTTTCCTCTGATGGGTTTAGCAAGTGCTTAATGAATGCAAGTGATTGAAGTATTGGCCCATGAGAAGCATAGTTAGTAGCCCCATCCAGTGACCCAGTGAAGAATGCATTCCAGAGTCCAGAAGTGAGCTCCTGACAGTCCCGATCCTGGCCTGCCTCCACGGAGCAGCTGGCCACCTCTGCTGCAGGCTGGAGACTTGTGTATAAAAGCTGTGTGAGGCTAAACAACTGGCTTCCGGCTACTGAACACATGTCAGCCAGATCTGTCTGTCATCTACCATTCTATCTATTATCTATCTATCTTTTTAATCTGTTTTTTTCAGACAGACTCACACTGTAACTGAAGGTAGCTTTGAGTTCATGGCAGTCCTGTAAAAGAACGCACCCCTTGTTCCCAAGAACTGAGATTACAGGTGTCTCTTCCTGCTCTCAGTGACTTCTATCTTTAATATATGTGTCTCCTTTGATTACCAGTGCTATAATGCAAATACCAGTTCTGCTGTAGGAGCCTGCTTTCTCAGACAACTTTTCAAATAGCAAGGACTCTCCCCCGCCAAGGTCATGACGCATAGGCTGAAAGAGTCCCGGGGCAGGAACATTGGGGATTTCCAGTTATCTTTAGTATTCTTTGAGTTTCAGATATTCAGCCAGAAACTGATGGGTTCCTAGCTGCTGCAGAAGGTTCTAGCTTGTTCTCGAGCGCCCCCAGGTGGTCCAGTGAGAATTTAAAACACTAACAGCACTGGGAAGAACAATTGGATTAAAAACCCCTCTGGTCACCAGAAGGCCCCCTTCCAGGAGATTCTGAGAGGCGAAGGTTCTGGGGCAAGTGCTGTAAAAGAACTCATCTTCTTTGTAGTTCAGGGGGTGTGAAGATGCACTTTAAGTTAACGTGATTTTGTTCATTCCAACCTAG
Seq C2 exon
CAATTTTGGGTATTCTCGAAGCTGAAAAAGAAAGAAGAAAGTCAGGGTTGTCATCGAGAGTTCAGTTTCGAAACCAAGGTTCCGAGCCAAAGTATACTCAGGAGCTGACCCTGAATCGGCAGAAGCAGCGGGCGTGCATGGAGGAGACCCTCTGGCTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000027111-Itga6:NM_008397:11
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.333
Domain overlap (PFAM):
C1:
PF084417=Integrin_alpha2=FE(4.4=100)
A:
NA
C2:
PF084417=Integrin_alpha2=FE(11.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
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: