BtaINT0026386 @ bosTau6
Intron Retention
Gene
ENSBTAG00000019386 | BOLA-NC
Description
Bos taurus non-classical MHC class I antigen (BOLA-NC1), mRNA. [Source:RefSeq mRNA;Acc:NM_001105616]
Coordinates
chr23:28357680-28358332:-
Coord C1 exon
chr23:28358262-28358332
Coord A exon
chr23:28357950-28358261
Coord C2 exon
chr23:28357680-28357949
Length
312 bp
Sequences
Splice sites
5' ss Seq
CGGGTGAGT
5' ss Score
9.89
3' ss Seq
TCACCCCTCCCCGCTCTCAGGCC
3' ss Score
9.99
Exon sequences
Seq C1 exon
GTGCGTCATGGGGCCGCGAACCCTCCTCCTGCTCCTCTTGGGGGTCCTGGTCCCCCGAGACACACGGGCGG
Seq A exon
GTGAGTGCGGGGTCGGGAGGGAACGACCTCTGCGGGGAGAGGCGAGGGGATCTTCCGGGAGTCTGGTGGGCAAGACCCCAGGGAACGAGCGACCCCGACTGCTCTGCCCAGACCCGCCCCCTCCCCGGGTCCCGTCCTGTCCCTCCGTTGCATCCCGACCCCTCTTTTCTTCCCCCTCCGAAGTTCGGGCCGGTCTTCGACCTCTTCCATCTCATTGACCCTACGACCCTTCCGCCCTCCCTGTCCCATCACCTCGGACCCGGGACGCGCGCCGCGGGGAGGTCGGGCCGTCTCACCCCTCCCCGCTCTCAG
Seq C2 exon
GCCCTCACTCCATGAGGTATTTCCTCACCGCCGTGTCCCGGCCCGGCCTCGGGGAGCCCCGCTTCATCACCGTCGGCTACGTGGACGACACGCAGTTCGTGCGGTTCGACAGCGACCGTCCAGATCCGAGGATGGAGCCGCGGGCGCGGTGGGTGGAGGATGAGGGGCCGGAGTATTGGGATCAAGAGACGCGGATACAAAAGGAAAACACACAGACTTTCCGAGCAAACCTGAACACCCTACTCGGCTACTACAACCAGAGCGAGGCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000019386:ENSBTAT00000021451:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.242
Domain overlap (PFAM):
C1:
PF0012913=MHC_I=PU(0.1=0.0)
A:
NA
C2:
PF0012913=MHC_I=PU(50.3=98.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
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:
CCGCGAACCCTCCTCCTG
R:
GGCCTCGCTCTGGTTGTAGTA
Band lengths:
327-639
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]