BtaINT0115668 @ bosTau6
Intron Retention
Gene
ENSBTAG00000010805 | POMT1
Description
Bos taurus protein-O-mannosyltransferase 1 (POMT1), mRNA. [Source:RefSeq mRNA;Acc:NM_001080330]
Coordinates
chr11:101652750-101653487:+
Coord C1 exon
chr11:101652750-101652800
Coord A exon
chr11:101652801-101653340
Coord C2 exon
chr11:101653341-101653487
Length
540 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAA
5' ss Score
8.59
3' ss Seq
CTCTGTGCTCACTCTTCCAGAAT
3' ss Score
10.35
Exon sequences
Seq C1 exon
GTTATTTAGGAGGATTCGATGGTAACTTTCTGTGGAACAGAATTGGAGCAG
Seq A exon
GTAAAATATCATTGTCATCTCCCTTATTAATGTGCACGTATTAGAATTGAGAGGAAGTAGCTATCCTAGAGATTAAAAACTACGGTTTATTCATCTGAATCCAGGGTGTGATAGTTTGGGTACAAGTGAAAGACTTTCAAAAAGTCCAGTAAATTCCTTAATGCTTACTTGTAGTAAGTGTGTTATCCTTGGTCTTTGGTACACAAAGCACAGTGTACGTGGCACCTGTACATGCCACTGTCTGTGGCGGGTACCTTTTGTACATATACGTGTGTTGCCACAGTGTTTTTGGAAACAGATTGGGTAAATCTGTAAATAAGCGTTAACTCATTTCAGAGTCCTCAGCATCATCCCGTACTTACTGAGAACCGGCCCTTGACCACATGAAGCCGTGGCCCACACACTCGGTCCCTGACGAGACCCAGCCTTGCAGACTCGCGCTGTGGTCCGTGGGCATGTGCGCCGTGTGAGGAGATGTGGTGGTGTAGGGAGGGGGGTGTGTGCCCCATGCGCTCAGCCCCTCTGTGCTCACTCTTCCAG
Seq C2 exon
AATACAGCAGCAATGTGCCCGTGTGGTCCCTGCGCCTGCTGCCGGCCCTTTCGGGGGCCCTGTCGGTGCCCATGGCCTATGAGATCGTGTGGGAGCTCGGCTTCTCTCACTGTGCCGCCACGGGGGCTGCTCTGCTGCTGTTGATTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000010805:ENSBTAT00000014315:4
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:
PF0236613=PMT=FE(20.5=100)
A:
NA
C2:
PF0236613=PMT=FE(19.8=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:
GTTATTTAGGAGGATTCGATGGTAAC
R:
CAATCAACAGCAGCAGAGCAG
Band lengths:
198-738
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development