BtaINT0002118 @ bosTau6
Intron Retention
Description
Bos taurus major histocompatibility class I related protein (MIC1), mRNA. [Source:RefSeq mRNA;Acc:NM_001127317]
Coordinates
chr23:27726236-27727008:-
Coord C1 exon
chr23:27726748-27727008
Coord A exon
chr23:27726500-27726747
Coord C2 exon
chr23:27726236-27726499
Length
248 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGA
5' ss Score
7.66
3' ss Seq
GGGGGGTGGGGATGGGGCAGGCT
3' ss Score
-4.54
Exon sequences
Seq C1 exon
GATCCCACAGTCTTTTATACAACATGACTGTGCTTTCCCGGGATGGCTTTGTGCAGTCCAGGTTTTTTGCTGAAGGATACTTGGATCGTCAGGCCTTCCTGCACTATGATCACAAAAAAGGCAGGGCAGAGCCCTGGGGACGGTGGCCTGAAAAACTGGCAGCAGAGACGTGGGAGACAGAGACCATGGACTTGAATGAGAGCTGGAAGGAGCTCAGAAAACTTCTAGCAGAAATCCTGTCCCTGCAGGAGGAGAAAGGAG
Seq A exon
GTGAGAGTGCAGAGGGGGCAAGAGTTCTGTGGGCCATTTTCCTGGAAGGTCTGCGACCCAGAGCATGGGCCGCTTTCCTCTGAATTTGGGGGTGGGGATGAGGAAGTGGGGTCTGTGAGTTCAGCAGCACAGGGAAGACATGGAGGGGAGCAATGGGGAGCCCTCTATCTGGACTTTCTCACTTGGGTGCGAGGACAGAGGCCCTGGGGACCAGAGGAGTCACTGATGGGGGGGTGGGGATGGGGCAG
Seq C2 exon
GCTTACATTCCCTCCAGGAGACCGTGGGCTGTGATATCAATGAAGACAGCCACCCCCAGGGCTTCCGGCTTCTCTACTTCAATGGGGAGCTCCTCCTCTCCTGCTACCCGGAGCCCCACGGATGTACCCTGCCCCAGTCCTCGGCTCGGACCTTGGCCATGGAAATGGAGTTAAGCAAGCATTACCAGGCCCACGTGCAGGGAGAACTTTGTAGGAGACTGCGGAGCTACCTAGAATCCTGGCCGGGCTTCACGGAGAGGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000010166:ENSBTAT00000013413:2
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=0.011
Domain overlap (PFAM):
C1:
PF0012913=MHC_I=PU(51.8=98.9)
A:
NA
C2:
PF0012913=MHC_I=PD(47.6=89.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGGAGACAGAGACCATGGAC
R:
ACAAAGTTCTCCCTGCACGTG
Band lengths:
303-551
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]