Special

MmuEX1014395 @ mm10

Exon Skipping

Gene
Description
histocompatibility 2, Q region locus 7 [Source:MGI Symbol;Acc:MGI:95936]
Coordinates
chr17:35442267-35442999:+
Coord C1 exon
chr17:35442267-35442551
Coord A exon
chr17:35442678-35442794
Coord C2 exon
chr17:35442967-35442999
Length
117 bp
Sequences
Splice sites
3' ss Seq
ACCTGTACCTGTCCTCCCAGAGC
3' ss Score
8.68
5' ss Seq
CAGGTAGGA
5' ss Score
9.79
Exon sequences
Seq C1 exon
ATCCCCCAAAGGCACATGTGACCCATCACCCCAGGTCTTATGGTGCTGTCACCCTGAGGTGCTGGGCCCTGGGCTTCTACCCTGCTGACATCACCCTGACTTGGCAGTTGAATGGGGAGGAGCTGACCCAGGACATGGAGCTTGTGGAGACCAGGCCTGCAGGGGATGGAACCTTCCAGAAGTGGGCATCTGTGGTGGTGCCTCTTGGGAAGGAGCAGAATTACACATGCCATGTGAACCATGAGGGGCTGCCTGAGCCCCTTACCCTGAGATGGGGGAGATGGG
Seq A exon
AGCCTCCTCCATACACTGTCTCCAACATGGCGACCATTGCTGTTGTGGTTGACCTTGGAGCTGTGGCCATCATTGGAGCTGTGGTGGCTTTTGTGATGAATAGGAGGTGAAACACAG
Seq C2 exon
GTGGACAAGGAGGGGACTGTGCTCCAGCTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000060550-'5-14,'5-9,7-14
Average complexity
C3
Mappability confidence:
100%=50=100%
Protein Impact

Alternative protein isoforms (Ref, Alt. Stop)

No structure available
Features
Disorder rate (Iupred):
  C1=0.131 A=0.000 C2=0.500
Domain overlap (PFAM):

C1:
PF0765410=C1-set=WD(100=86.5)
A:
NO
C2:
PF066236=MHC_I_C=FE(78.6=100)


Main Inclusion Isoform:


Main Skipping Isoform:


Other Inclusion Isoforms:


Other Skipping Isoforms:
NA
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGAGGTGCTGGGCCCTG
R:
CACAGTCCCCTCCTTGTCCA
Band lengths:
253-370
Functional annotations
There are 3 annotated functions for this event
PMID: 2441874
This event
Qa region gene Q7 encodes a membrane-bound as well as a secreted form of the serologically defined antigen Qa-2. The Q7 gene introduced into liver-derived cells is expressed as a membrane-bound and as a secreted molecule. In transfected L cells it is expressed only as a soluble protein. Biochemical analysis suggests that the Q7 product is anchored to the liver cell membranes by a phospholipid tail.
PMID: 3486423
This event
Polyclonal activation of T lymphocytes induces a 3- to 4-fold increase in the biosynthesis of Qa-2 molecules but no increase in cell-surface levels. Analysis of the biosynthetic pathway of the Qa-2 molecule in activated lymphocytes reveals that approximately equal to 70% of the newly synthesized Qa-2 molecules are secreted as soluble molecules. In resting-cell populations, Qa-2 remains entirely cell-associated. This process is unique to the Qa-2 molecule, since other class I molecules (e.g., H-2Kb and H-2Db) synthesized by activated cells remain cell-associated.
PMID: 8127900
This event
AS event changes a membrane bound form into a soluble form. Critical to these experiments was preparation of an anti-peptide antiserum against an epitope encoded by a junction of exon 4 and exon 6. Supernatants of splenocytes cultured in vitro as well as serum or plasma contain two forms of soluble Qa-2 molecules. One form corresponds to a secreted molecule translated from transcripts from which exon 5 has been deleted; the other is derived from membrane-bound antigens or their precursors. The levels of both soluble forms of Qa-2 are inducible upon stimulation of the immune system, suggesting an immunoregulatory role for these molecules or for the mechanism leading to the reduction of cell-associated Qa-2 antigens in vivo.


GENOMIC CONTEXT[edit]

INCLUSION PATTERN[edit]


SPECIAL DATASETS

  • Ribosome-engaged transcriptomes of neuronal types
  • Neural differentiation time course
  • Muscular differentiation time course
  • Spermatogenesis cell types
  • Reprogramming of fibroblasts to iPSCs
  • Hematopoietic precursors and cell types