BtaINT0026387 @ 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
chr23:28357206-28357949:-
Coord C1 exon
chr23:28357680-28357949
Coord A exon
chr23:28357482-28357679
Coord C2 exon
chr23:28357206-28357481
Length
198 bp
Sequences
Splice sites
5' ss Seq
CCGGTGAGC
5' ss Score
8.69
3' ss Seq
GGGTGGTCGGGGTGGGTCAGGGT
3' ss Score
-1.78
Exon sequences
Seq C1 exon
GCCCTCACTCCATGAGGTATTTCCTCACCGCCGTGTCCCGGCCCGGCCTCGGGGAGCCCCGCTTCATCACCGTCGGCTACGTGGACGACACGCAGTTCGTGCGGTTCGACAGCGACCGTCCAGATCCGAGGATGGAGCCGCGGGCGCGGTGGGTGGAGGATGAGGGGCCGGAGTATTGGGATCAAGAGACGCGGATACAAAAGGAAAACACACAGACTTTCCGAGCAAACCTGAACACCCTACTCGGCTACTACAACCAGAGCGAGGCCG
Seq A exon
GTGAGCGACGCAGCCAGGGTCCGGGTCACGACCCCCATCCCCAGGGACCGGTCCGGGTCCCCCCGAGTCGGCGAGTCCGAGGGTCACCCCAACATTGTAGAACACGCCCGGCCCCCTGCCTGGAGAAGCCGGTGGGGACTTGACCCGGTTTCATTTTCAGTTTGGGTTTAATCACCGCGGGTGGTCGGGGTGGGTCAG
Seq C2 exon
GGTCTCACACCATCCAGTGGATGCACGGCTGCGGCGTGGGGTCGGACGGGCGCCTCCTCCGCGGGTATAATCAGCTCGCCTATGACGGCAAAGATTACCTCGCCCTGAACGAGGACCTGCGCTCCTGGACCGCGGCGGACACAGCGGCTCAGATCACCAAGCGCAAGTGGGAGGCGGCAGGTGAGGCGGAGAGATTCAGGAACTACCTGGAGGGCGAGTGCGTGAAGTTGCTCCGCAGACACCTGGAGAACGGGAAGGACACGCTGCTGCGCGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000019386:ENSBTAT00000021451:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.242 A=NA C2=0.097
Domain overlap (PFAM):
C1:
PF0012913=MHC_I=PU(50.3=98.9)
A:
NA
C2:
PF0012913=MHC_I=PD(49.2=94.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTGAACACCCTACTCGGCTA
R:
TCCTGAATCTCTCCGCCTCAC
Band lengths:
242-440
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]