MmuEX0024613 @ mm9
Exon Skipping
Gene
ENSMUSG00000027111 | Itga6
Description
integrin alpha 6 [Source:MGI Symbol;Acc:MGI:96605]
Coordinates
chr2:71660495-71663776:+
Coord C1 exon
chr2:71660495-71660626
Coord A exon
chr2:71662380-71662496
Coord C2 exon
chr2:71663566-71663776
Length
117 bp
Sequences
Splice sites
3' ss Seq
CTCTCCATGCACACGGACAGGCC
3' ss Score
2.46
5' ss Seq
TAGGTTTGT
5' ss Score
4.07
Exon sequences
Seq C1 exon
GGATCGTCCGTGTAGAACAAAAGAATAACACTTTTTTTGACATGAACATCTTTGAAGATGGGCCCTATGAAGTTGGTGGAGAGACTGATCATGATGAAAGTCTCGTGCCCGTTCCTGCTAACAGTTACCTAG
Seq A exon
GCCTGCTGTTTCTGACCAGCCTTTCCTATACAGATCCCGATCAGTTTGTTTATAAAACACGGCCTCCCAGGGAGCGGCCTGACGCATTCCCTGATGTGATGATGAATAGCTACTTAG
Seq C2 exon
GCTTTTCACTGGACTCAGGGAAGGGTATTGTTTCTAAAGATGACATCACTTTTGTGTCTGGTGCTCCAAGAGCCAATCACAGTGGGGCTGTAGTTTTGCTAAAAAGAGACATGAAGTCCGCGCATCTGCTCCCTGAGTATATATTTGACGGAGAAGGCCTGGCTTCCTCGTTTGGCTATGATGTGGCAGTGGTGGACCTCAATGCAGATGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000027111-'11-13,'11-12,12-13
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.123 A=0.100 C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NO
C2:
PF135171=VCBS=PU(6.8=7.0)


Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATGAAAGTCTCGTGCCCGTTC
R:
CCATCTGCATTGAGGTCCACC
Band lengths:
250-367
Functional annotations
There are 1 annotated functions for this event
PMID: 7583007
Comparison of the integrin ITGA6 isoform alpha6AX1X2 (contains cassette exon X2 (HsaEX0032368)) with the alpha6AX1 isoform (lacks exon X2) using similarly transfected K562 cells showed no obvious differences between the alternative extracellular alpha6A isoforms with respect to ligand specificity and activation-dependency of ligand binding. After treatment with the anti-beta1 stimulatory antibody TS2/16, both the alpha6AX1beta1 and alpha6AX1X2beta1 integrin variants mediated cell adhesion to EHS tumor laminin (laminin-1), kalinin (laminin-5), human placental (laminin-2 and -4) and bovine kidney laminins. In contrast, the alpha6AX1beta4 and alpha6AX1X2beta4 integrins also mediated cell adhesion to laminin and kalinin without stimulation. Furthermore, the different transfectants did not differ in their ability to spread on kalinin. The presented data indicate that the X2 region in alpha6 is not involved in defining ligand specificity or affinity.
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: