BtaINT0115672 @ bosTau6
Intron Retention
Gene
ENSBTAG00000010805 | POMT1
Description
Bos taurus protein-O-mannosyltransferase 1 (POMT1), mRNA. [Source:RefSeq mRNA;Acc:NM_001080330]
Coordinates
chr11:101654796-101655360:+
Coord C1 exon
chr11:101654796-101654889
Coord A exon
chr11:101654890-101655204
Coord C2 exon
chr11:101655205-101655360
Length
315 bp
Sequences
Splice sites
5' ss Seq
AACGTAGGT
5' ss Score
7.3
3' ss Seq
TCCCCTCCATCCTCTGGCAGGTC
3' ss Score
11.16
Exon sequences
Seq C1 exon
CATCAAGTACGTGGGTGTGTTCACATACTTGCTGGTGCTCGGGGTTGCTGCCGTCCACGCCTGGCACGTGATAGGAGACCAGACGCTGTCAAAC
Seq A exon
GTAGGTGCTGATGCCAAGGGGTGGGGCGGGGCTGGCCTGGGGGCAGGGCTGGGGGGGCAAGGCTGGGAGGTCAGGGGCGGGGTGGGGCTGGTAGGGATCAAGGGTGTAGGTCTGGGGTCAGAGTGAGGCTGATCCTGGGGGAGCAAGAGGCGGGGCTGGGCTGGGGGTAGAGCTGAGGGCAGGGCAGAGATATGGTGAGGTCGGGGGTAAGGCAGGGCTAGCTGTCGAGGGGCGGGGAGCAGGACGAGAACCCTGAAAGGAGGACTGGGCCCGCCTTCCCCCGGGTGGGGCGATGTCCCCTCCATCCTCTGGCAG
Seq C2 exon
GTCCGTGTGCTCTGCCACCTGCTCGCCCGAGCAGCAGCCCTGGTGGTGCTCCCGGTCCTGGTGTACCTGCTGTTCTTCTACATCCACCTGCTGCTGCTCTGCCGCTCCGGGCCCCACGACCAGATCATGTCCAGTGCCTTCCAGGCCAGCCTGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000010805:ENSBTAT00000014315:8
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(12.5=100)
A:
NA
C2:
PF0236613=PMT=PD(13.3=63.5)
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:
CATCAAGTACGTGGGTGTGTTCA
R:
CTGGAAGGCACTGGACATGAT
Band lengths:
238-553
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development