BtaEX6070126 @ bosTau6
Exon Skipping
Gene
ENSBTAG00000009924 | MR1
Description
Bos taurus major histocompatibility complex, class I-related (MR1), mRNA. [Source:RefSeq mRNA;Acc:NM_001190298]
Coordinates
chr16:63653825-63656110:+
Coord C1 exon
chr16:63653825-63654100
Coord A exon
chr16:63655127-63655402
Coord C2 exon
chr16:63656009-63656110
Length
276 bp
Sequences
Splice sites
3' ss Seq
TGAACTTCTTTTTTTTCTAGAGC
3' ss Score
9.16
5' ss Seq
AGGGTAAGG
5' ss Score
9.16
Exon sequences
Seq C1 exon
GGTTTCACACTTACCAGAGAATGATTGGCTGTGAGTTACTGGAGGATGGAAGCATCACGGGATTTCTCCAATATGCATATGATGGACAGGATTTCCTTATCTTCAATAAAGATACCCTGTCCTGGATGGCCATGGATAATGTGGCTGACATCATCAGGCGGGTATGGGAGGCCAATCGGCATGAGTTACAATATCAGAAGAATTGGCTGGAAGAAGAATGCATTGCTTGGTTAAAGAGATTCCTGGAGTATGGGAAAGATGCCTTACAAAGAACAG
Seq A exon
AGCCCCCCAAAGTCAGAGTCAATCACAAAGAAACTTTCCCAGGGATTACAACTCTTTACTGCAGAGCTTATGGCTTTTACCCCCCAGAAATTTCCATTAACTGGATGAAAAACGGGGAAGAAATTTTCCAAGATACCGATTATGGAGGCATTCTTCCCAGTGGGGATGGGACCTATCAGACTTGGGTGTCTGTTGAGCTGGATCCTCAGAATGGTGACATTTACTCCTGTCACGTGGAGCATGGCGGAGTCCACATGGTTCTTCAGGGTTTCCAGG
Seq C2 exon
AATCGGAAACTATACTTCTCGTGGTGAAAGCTGTTGGGTTCATTGTCCTCGCCATTGCCCTGGCTGGAGTTGGCATCCTAGCCTGGCGAAAGAGGCCCCGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000009924-'6-5,'6-4,9-5=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.005 A=0.027 C2=0.000
Domain overlap (PFAM):
C1:
PF0012913=MHC_I=PD(50.0=94.6)
A:
PF0765410=C1-set=WD(100=89.2)
C2:
NO
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGGAGGATGGAAGCATCACG
R:
AATGGCGAGGACAATGAACCC
Band lengths:
294-570
Functional annotations
There are 1 annotated functions for this event
PMID: 32963314
The full-length isoform, MR1A, can activate Mucosal Associated Invariant T (MAIT) cells. Using a transcriptomic analysis in conjunction with qPCR, the authors find that that MR1A and MR1B (skipping of HsaEX0040046) transcripts are widely expressed. However only MR1A can present mycobacterial antigen to MAIT cells. Coexpression of MR1B with MR1A decreases MAIT cell activation following bacterial infection. Additionally, expression of MR1B prior to MR1A lowers total MR1A abundance, suggesting competition between MR1A and MR1B for either ligands or chaperones required for folding and/or trafficking. Finally, the authors evaluated CD4/CD8 double positive thymocytes expressing surface MR1. Relative expression of MR1A/MR1B transcript is associated with the prevalence of MR1 + CD4/CD8 cells in the thymus.
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]