BtaINT0115661 @ bosTau6
Intron Retention
Gene
ENSBTAG00000010805 | POMT1
Description
Bos taurus protein-O-mannosyltransferase 1 (POMT1), mRNA. [Source:RefSeq mRNA;Acc:NM_001080330]
Coordinates
chr11:101662709-101663200:+
Coord C1 exon
chr11:101662709-101662829
Coord A exon
chr11:101662830-101663102
Coord C2 exon
chr11:101663103-101663200
Length
273 bp
Sequences
Splice sites
5' ss Seq
GGAGTGAGC
5' ss Score
2.46
3' ss Seq
GGTCCCTGTGTGCCTGCCAGGCC
3' ss Score
7.53
Exon sequences
Seq C1 exon
CTGAGTGGAGTGCCCCTCCCGGACTGGGGCTTTCGGCAGCTGGAAGTGGTTGGGGAGAAGCTGTTTCGGGGCTACCACGAGAGCACTGTGTGGAACGTGGAGGAGCACCGCTACGGCAGGA
Seq A exon
GTGAGCGCGCCCGGCTCCTGGGGGTGGGGCAGCCTGCGGGCTCCAGGCCCCATTGTGGAGCCTCCCCCTTCCCACCCCACTCCCTCCTGGATGGGCGAGGGGGCAGTGCCACCAGAAGGCAGGGCAAAGAGAGCTTTTGACTGGAAAGATGGCCAGGCGGGTGGGGGACCATGGACCATGTCCTGCGGGTTCTTTGGAAAGCAGTGGCAGCTGCCGTGGGCGGCTCCCTGACCGGGTTCTGCTCGCGTCCCCTGGTCCCTGTGTGCCTGCCAG
Seq C2 exon
GCCAGGAGCAGAAGGAGAGGGAGCTGGAGCTGCACTCCCCCACCCAGGTGGACATCAGCAGGAACCTCAGCTTCATGGCCAGATTCTCCGAGCTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000010805:ENSBTAT00000014315:15
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.037 A=NA C2=0.242
Domain overlap (PFAM):
C1:
PF0281514=MIR=PD(21.0=90.2)
A:
NA
C2:
NO
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:
CTGAGTGGAGTGCCCCTC
R:
CTGAAGCTCGGAGAATCTGGC
Band lengths:
219-492
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development