BtaEX0005633 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000022590 | BOLA
Description
Uncharacterized protein [Source:UniProtKB/TrEMBL;Acc:F1MWX3]
Coordinates
chr23:27863483-27865993:+
Coord C1 exon
chr23:27863483-27863752
Coord A exon
chr23:27863977-27864252
Coord C2 exon
chr23:27865946-27865993
Length
276 bp
Sequences
Splice sites
3' ss Seq
GAGTGGTCAGGGCGGGTCAGAGT
3' ss Score
-8.89
5' ss Seq
CAGGTATGA
5' ss Score
9.46
Exon sequences
Seq C1 exon
GCTCCCACTCCCTGAGCTATTTCAACACCGGAGTGTACCAGCCCGGCCTCGGGGAGCCGCGATTCTTTGCCGTCGGCTACGTGGACGACACGCAGTTCGCGCGGTTCGACAGCGACGCCCCGAATCCGAGAATGGAGCCGCGGGCGCCGTGGATGGAGCAGGAGGGCCCGGAATATTGGGAAGAGATGACACGAGATGCCAAGGAAAGTCAACAGAAATCCCGATTATGCTTGTACAACCTGCGCGGCTACTACAACCAGAGCGAGGCCG
Seq A exon
AGTCTCACATCCTCCAGGTGATGTTTGGCTGCGAAGTGGGGCCGGACGGGCGCCTGCTCCGTGGATTCTGGCAGAAGGCCTACGACGGCAGAGATTACATCGCCCTGAACGAAGACCTGCGCTCCTGGACCGCAGCGGACACGGTGGCTCAGATCACCAAGCGCAAGTGGGATGTCTCCGGGCAGGCAAAGATCCAACGGAACTACCTAGAGGTCAAGTGCGTGCAGTGGCTCCTCAGACACCTGGAGACGGGAAAGGACACGCTGCTGCGCGCAG
Seq C2 exon
GCAGTGACAGTGCCCAGGGCTCTGATGTGTCTCTCACGGTTCCTAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000022590_MULTIEX1-4/7=3-C2
Average complexity
C3*
Mappability confidence:
81%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.220 A=0.043 C2=0.824
Domain overlap (PFAM):
C1:
PF0012913=MHC_I=PU(50.3=98.9)
A:
PF0012913=MHC_I=PD(49.2=94.6)
C2:
PF066236=MHC_I_C=PD(51.7=88.2)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm10)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTCCCACTCCCTGAGCTATT
R:
AGAGACACATCAGAGCCCTGG
Band lengths:
304-580
Functional annotations
There are 2 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]
SPECIAL DATASETS
- Pre-implantation embryo development