Special

MmuEX6077695 @ mm9

Exon Skipping

Gene
Description
histocompatibility 2, M region locus 2 [Source:MGI Symbol;Acc:MGI:95914]
Coordinates
chr17:37618171-37619703:-
Coord C1 exon
chr17:37619428-37619703
Coord A exon
chr17:37618417-37618692
Coord C2 exon
chr17:37618171-37618295
Length
276 bp
Sequences
Splice sites
3' ss Seq
ATCCTACTCTTCCTCCTCAGAGC
3' ss Score
9.75
5' ss Seq
GGAGTAAGT
5' ss Score
8.57
Exon sequences
Seq C1 exon
GTTCTCACACCATCCAAAGGATGACTGGCTGCTACATTGGACCAGACGGGCACCTACTTCACGCATACCGTCAGTTTGGTTATGATGGGCAAGATTACCTCACTCTGAATGAAGATCTGAGCACCTGGACTGCAGCAGATGCGGCAGCTGAGATCACCCGTAGAGAGTGGGAGGCAACTAATGTGGCTGAGTTCTGGAGGGTCTACTTGGAGGGCCCTTGCATGGTGTGGCTCTTTAAATACCTGACAGTGGGAAATGAGACTCTACTGCGCACAG
Seq A exon
AGCCCCCAAAGGCATATGTGACCCATCACCCCAGACCTGAAGGTGATGTCACCCTGAGGTGCTGGGCCCTGGGTTTCTACCCTTCTGACATCATCATGATCTGGCAAAGAGATGGGGAGGACCAGACCCAGGACATGGATGTTATTGAGACCAGACCTGCAGGGGATGGAACCTTCCAGAAGTGGGTAGCTGTGGTGGTGCCTTCTGGGAAGGAGCAGAATTACACATGCCATGTGGCTCATGAGGGACTGCCTGAGCCCCTCACCCTGAGATGGA
Seq C2 exon
GTAGACCTCCTCAGTCTTTCATTTTCATCATAATAGTTGCTGTTGGCCTGGTTCTCCTGGGAGCTTCAGTGGCTACTCTTGTCATGTGGAAGAAGAGCTCGGGTGGGGAAAGGGGCAGCCTCTGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000016283-'4-4,'4-3,5-4=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact

Alternative protein isoforms (Ref)

No structure available
Features
Disorder rate (Iupred):
  C1=0.000 A=0.152 C2=0.024
Domain overlap (PFAM):

C1:
PF0012913=MHC_I=PD(49.2=94.6)
A:
PF0765410=C1-set=WD(100=89.2)
C2:
NO


Main Inclusion Isoform:


Main Skipping Isoform:
NA


Other Inclusion Isoforms:


Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCTGCTACATTGGACCAGAC
R:
GAACCAGGCCAACAGCAACTA
Band lengths:
304-580
Functional annotations
There are 1 annotated functions for this event
PMID: 11290782
Four membrane-bound (HLA-G1 to -G4) and two soluble (HLA-G5, and -G6) proteins are generated by alternative splicing. Only HLA-G1 has been extensively studied in terms of both expression and function. The authors provide evidence here that HLA-G2, -G3, and -G4 truncated isoforms reach the cell surface of transfected cells, as endoglycosidase H-sensitive glycoproteins, after a 2-h chase period. Moreover, cytotoxicity experiments show that these transfected cells are protected from the lytic activity of both innate (NK cells) and acquired (CTL) effectors, although to slightly different levels. The full-length transcript (HLA-G1) encodes three extracellular domains (alpha1, alpha2, and alpha3), a transmembrane region, and a cytoplasmic tail. Three other spliced transcripts encode membrane-bound proteins that lack alpha2 (HLA-G2; skipping exon 3, HsaEX0030116), alpha3 (HLA-G4; skipping of exon 4, HsaEX6046105), or both the alpha2 and alpha3 domains (HLA-G3).


GENOMIC CONTEXT[edit]

INCLUSION PATTERN[edit]