Special

HsaEX0032368 @ hg38

Exon Skipping

Gene
Description
integrin subunit alpha 6 [Source:HGNC Symbol;Acc:HGNC:6142]
Coordinates
chr2:172470974-172474280:+
Coord C1 exon
chr2:172470974-172471105
Coord A exon
chr2:172472774-172472890
Coord C2 exon
chr2:172474125-172474280
Length
117 bp
Sequences
Splice sites
3' ss Seq
CGTCCCGTGCATGCGTACAGGCC
3' ss Score
4.92
5' ss Seq
TAGGTTTGT
5' ss Score
4.07
Exon sequences
Seq C1 exon
GGATTGTTCGTGTAGAGCAAAAGAATAACACTTTTTTTGACATGAACATCTTTGAAGATGGGCCTTATGAAGTTGGTGGAGAGACTGAGCATGATGAAAGTCTCGTTCCTGTTCCTGCTAACAGTTACTTAG
Seq A exon
GCCTGCTGTTTTTGACCAGCGTTTCCTATACAGATCCTGATCAGTTTGTTTATAAAACACGGCCTCCCCGGGAGCAGCCTGACACATTCCCTGATGTGATGATGAATAGCTACCTAG
Seq C2 exon
AGCCAATCACAGTGGAGCCGTGGTTTTGCTGAAGAGAGACATGAAGTCTGCACATCTCCTCCCTGAGCACATATTCGATGGAGAAGGTCTGGCCTCTTCATTTGGCTATGATGTGGCGGTGGTGGACCTCAACAAGGATGGGTGAGAAAGCCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000091409_MULTIEX1-4/4=3-C2
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact

Alternative protein isoforms (No Ref)

No structure available
Features
Disorder rate (Iupred):
  C1=0.111 A=0.270 C2=NA
Domain overlap (PFAM):

C1:
NO
A:
NO
C2:
NA


Main Inclusion Isoform:


Main Skipping Isoform:


Other Inclusion Isoforms:


Other Skipping Isoforms:
Other assemblies
Conservation
Chicken
(galGal4)
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
ALTERNATIVE
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCGTGTAGAGCAAAAGAATAACACT
R:
CACCGCCACATCATAGCCAAA
Band lengths:
246-363
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

  • The Cancer Genome Atlas (TCGA)
  • Genotype-Tissue Expression Project (GTEx)
  • Autistic and control brains
  • Pre-implantation embryo development