BtaINT0096654 @ bosTau6
Intron Retention
Gene
ENSBTAG00000003914 | MVB12A
Description
Bos taurus family with sequence similarity 125, member A (MVB12A), mRNA. [Source:RefSeq mRNA;Acc:NM_001034283]
Coordinates
chr7:5614828-5615225:-
Coord C1 exon
chr7:5615049-5615225
Coord A exon
chr7:5614927-5615048
Coord C2 exon
chr7:5614828-5614926
Length
122 bp
Sequences
Splice sites
5' ss Seq
GCGGTGAGC
5' ss Score
8.02
3' ss Seq
GACCAGCGTTTGCGCTGCAGATC
3' ss Score
6.4
Exon sequences
Seq C1 exon
GTAGTTCAGGTTCCTGTCGAACTCCGTAGTCCAGCTGCGGCTGGAAGGTCCGAGGCTGTCTGCCGCCTTCGGTGCCTGTTTTGGAGGATGGATCCGGGGCCCGGGGCCAACGGGATGCCGTTGGCTGGCTTAGCCTGGTCGTCGGCCTCGGCGCCCCCGCCGCGGGGATTCAGTGCG
Seq A exon
GTGAGCGACGTCAGGGGGCCGGGGACGGGAAGGCAGCGGCACTAGGGGCCGGGGGTTGAATGGGGGGCAGCCGCGGCTGCGGCCAGGTGATATCCTGGCTCAGACCAGCGTTTGCGCTGCAG
Seq C2 exon
ATCTCCTGCACTGTGGAGGGGACGCCCGCCAGCTTCGGCAAGACTTTCGCTCAGAAATCTGGCTACTTCCTGTGCCTCAATCCTTTGGGCAGCCTAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000003914:ENSBTAT00000005111:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.233 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF102404=DUF2464=PU(7.9=66.7)
A:
NA
C2:
PF102404=DUF2464=FE(12.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
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:
TCCTGTCGAACTCCGTAGTCC
R:
AGGCACAGGAAGTAGCCAGAT
Band lengths:
243-365
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]