MmuEX0024624 @ mm9
Exon Skipping
Gene
ENSMUSG00000025348 | Itga7
Description
integrin alpha 7 [Source:MGI Symbol;Acc:MGI:102700]
Coordinates
chr10:128391002-128395333:+
Coord C1 exon
chr10:128391002-128391127
Coord A exon
chr10:128393667-128393779
Coord C2 exon
chr10:128394677-128395333
Length
113 bp
Sequences
Splice sites
3' ss Seq
CTTATCCTTCAACATCCCAGTGT
3' ss Score
3.88
5' ss Seq
GGGGTAACT
5' ss Score
4.69
Exon sequences
Seq C1 exon
ATTCCAGTGATGGTGTACTTGGACCCCATGGCCGTGGTTGTGGAAGGAGTCCCCTGGTGGGTCATCCTCCTGGCAGTGCTGGCTGGGCTGTTAGTCCTGGCCTTGCTGGTACTGCTGCTGTGGAAG
Seq A exon
TGTGGCTTCTTCCGTCGGAACAGTCCAAGCTCCTCATTTCCAACCAACTATCACCGAGCCCATCTGGCCGTGCAGCCCTCGGCCATGGAGGCTGGGGGTCCAGGGACTGTGGG
Seq C2 exon
CTGGGATTCTTCAAGCGGGCGAAGCACCCCGAGGCCACCGTGCCCCAGTACCACGCAGTGAAGATCCCTCGGGAAGACCGACAGCAGTTCAAGGAGGAGAAGACAGGCACCATCCAGAGGAGTAACTGGGGCAACTCCCAGTGGGAGGGCTCCGACGCACACCCCATCTTGGCTGCCGACTGGCATCCTGAGCTGGGTCCTGATGGACATCCGGTGCCAGCCACTGCCTAACATCTGCTGTCCCAAGCCCAGCCCGTGGGTTCCTTCCGCCCTTTTCCCAAGATGGCTCCTTGGGATGGAGATAGTGGAGTAAGTTGCTAGCATCACGTTGAGATATGGCAGGCTCTGCTTTCTCAGGAGCACAGATCTTTCTCCCACCAGGAGAACCACCCCTCCATCTTCCCCATACAATGCTGTGAGACGAGGGGGCATGGCTGGAAGGGCAGGCATGTCCTGATACAGGGTGGGGAGAAGGGGTTCTGAGCTCCCTCTCACCCACC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000025348_CASSETTE1
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (No Ref, Alt. Stop)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.105 C2=0.481
Domain overlap (PFAM):
C1:
PF130441=DUF3904=FE(33.3=100),PF151761=LRR19-TM=PU(47.1=78.6)
A:
PF130441=DUF3904=PD(0.8=2.6),PF151761=LRR19-TM=PD(50.0=92.1)
C2:
PF0035715=Integrin_alpha=PD(86.7=16.9)


Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGGTACTGCTGCTGTGGAAG
R:
CAGATGTTAGGCAGTGGCTGG
Band lengths:
258-371
Functional annotations
There are 2 annotated functions for this event
PMID: 10094488
Two-yeast hybrid assay was used to examine interaction between various alpha integrins (including splice isoforms of integrin alpha 3 (alpha3A and alpha3B (these differ in presence of penultimae exon HsaEX0032352 (present in A, absent in B)), splice isoforms of integrin alpha 6 (alpha6A and alpha6B) (these differ in the presence of penultimate exon HsaEX0032370 (present in A, absent in B), and splice isoforms of integrin alpha 7 (alpha7A and alpha7B (these differ in presence of penultimate exon HsaEX0032377 (present in A, absent in B)) and four proteins, two of which are described as clones as they were identified in a cDNA screen (Mss4, BIN1, clone 63, and clone 80).
PMID: 10694445
HEK293 overexpressing integrin alpha 7 isoforms alpha7A (contains penultimate exon (HsaEX0032377)) or alpha7B (lacks penultimate exon) are shown to adhere to similar extends to laminin-1, a fragment of laminin-1, and laminin-2. Migration across surfaces with above mentioned laminins is also similar. Overexpression of either integrin alpha 7 isoform negatively affects surface expression other beta1-integrin associated alpha integrin chains (alpha1, alpha3, alpha5, and alpha6). Overexpression also lead to reduced adhesiveness for both isoforms. Note, while they state that the isoforms behave similarly, I do think that their data points toward differences.
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: