BtaINT0000883 @ bosTau6
Intron Retention
Description
Bos taurus killer cell lectin-like receptor subfamily K, member 1 (KLRK1), mRNA. [Source:RefSeq mRNA;Acc:NM_001075139]
Coordinates
chr5:100045783-100046106:+
Coord C1 exon
chr5:100045783-100045875
Coord A exon
chr5:100045876-100046070
Coord C2 exon
chr5:100046071-100046106
Length
195 bp
Sequences
Splice sites
5' ss Seq
CTTGTAAGT
5' ss Score
8
3' ss Seq
AACTATGATTATTTTAATAGCAT
3' ss Score
3.43
Exon sequences
Seq C1 exon
CATCTCCATTTGTCCTTGCCAGATCCATTGCTATAGCCATGGGGATTCGTTTCATTGGAATGTTAATAATATGCAGTGCCATGATCATAACTT
Seq A exon
GTAAGTGATAATAGAGAAAGTAATTAGCAGCAATATTTATCTAACCATTGTAGTGCATTAATTTAACTAGTATTCAGAGGCACAGAAATATAAACTAGTAATATTGAGTATATTTTTTATTGAGCTTATACTTTTGCTTAGACTATCAGTTACTAACAATATAAACTCTTTCAATAACTATGATTATTTTAATAG
Seq C2 exon
CATTATTCAACCAAGAAGCTCCAATTTCTTTGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000004917:ENSBTAT00000006469:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCATTTGTCCTTGCCAGATCC
R:
TCAAAGAAATTGGAGCTTCTTGGT
Band lengths:
122-317
Functional annotations
There are 1 annotated functions for this event
PMID: 25092887
NKG2D-FL overexpression increases T cell cytotoxicity while NKG2D-TR overexpression decreases surface expression of NKG2D-FL and reduces cytotoxicity. NKG2D-TR knockdown increases T cell cytotoxic activity. Isoforms differ in their subcellular localization.
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]