BtaINT0115656 @ bosTau6
Intron Retention
Gene
ENSBTAG00000010805 | POMT1
Description
Bos taurus protein-O-mannosyltransferase 1 (POMT1), mRNA. [Source:RefSeq mRNA;Acc:NM_001080330]
Coordinates
chr11:101656148-101656669:+
Coord C1 exon
chr11:101656148-101656278
Coord A exon
chr11:101656279-101656573
Coord C2 exon
chr11:101656574-101656669
Length
295 bp
Sequences
Splice sites
5' ss Seq
GATGTAAGT
5' ss Score
9.11
3' ss Seq
GTTGCACCCTCTTCTTGCAGATA
3' ss Score
10.09
Exon sequences
Seq C1 exon
GGGGGGCTGGCAAGGGTCACACAAGGTCAGCCTCTGGAGGTGGCCTTCGGTTCCCAGGTCACCCTGAAGAATGTCTTTGGCCAACCCGTGCCCTGCTGGCTTCACTCTCACCAGAGCACCTACCCTATGAT
Seq A exon
GTAAGTAAGGAAAGTCATGTTTTCAATCCAGAGATTATAACATGTTTTGGGGCTTTTTTTCCCCACATTTTTGCTGTTACCAATTTTCACTTTATGTGAAGGAGCTTGTGAGAATGAAAGAAATGGAGCTCTCAGACCCTAGTGTCACTGAGTCTCATTATATACCATCGCTGGAGGGACCAGCCCCTCTGGGATGGAAACATATCTGACGCCTCACTGGGTGGCGTCTGTAGCGACCTTGGGGGAGGTCGTGGGCCCCTGGCACCCCACCCACAGTTGCACCCTCTTCTTGCAG
Seq C2 exon
ATATGAGAACGGCCGTGGCAGCTCCCACCAGCAGCAGGTGACCTGCTACCCCTTCAAGGATGTCAACAACTGGTGGATTGTCAAGGACCCCGGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000010805:ENSBTAT00000014315:10
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:
PF0281514=MIR=PU(25.0=25.0)
A:
NA
C2:
PF0281514=MIR=FE(18.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGGCAAGGGTCACACAAGG
R:
CTCCCGGGGTCCTTGACAATC
Band lengths:
221-516
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development