HsaINT0129579 @ hg19
Intron Retention
Gene
ENSG00000130714 | POMT1
Description
protein-O-mannosyltransferase 1 [Source:HGNC Symbol;Acc:9202]
Coordinates
chr9:134382755-134384409:+
Coord C1 exon
chr9:134382755-134382901
Coord A exon
chr9:134382902-134384297
Coord C2 exon
chr9:134384298-134384409
Length
1396 bp
Sequences
Splice sites
5' ss Seq
TCGGTAAGA
5' ss Score
10.53
3' ss Seq
GTGTTTCCTCTTTGAAACAGAGA
3' ss Score
7.65
Exon sequences
Seq C1 exon
AATACAGTAGCAACGTGCCTGTGTGGTCCCTGCGCCTGCTGCCAGCACTCGCGGGGGCCTTGTCGGTCCCCATGGCCTACCAGATAGTGTTGGAGCTCCACTTTTCTCATTGTGCCGCCATGGGAGCTGCTCTGTTGATGCTTATCG
Seq A exon
GTAAGACCTGCGCCCCTGCCTGCTCTTGCTGTCATGCAGGGAAGAACTGACCCTTTGGCCCGGAAGATCACATGGGCTTGGTGGGCGAGCTGCACCAGAAAGTGCATCTGGTTCATCCAAATTTGACGCTGCAAGTCACCCGCTCCCAGGCTGACCCCGTGGTTATGGGATTGCTGAATTGTGGGATCAGACTCTTATCAGCAGTCGGGGTATGGCAGTAGAAAACTGCCCAGATGCTGCTGCAAAGTCCATGCACACGTGGGCACCTCCATCTCCAACCAATCTTGTGACCAAATGATAACTTCCCCTTGTTCCACCACCTCCCAGGCCTTGGCCAATTGAGATGGACTCGTGAGTCAGTGGATCCTCTTCAGAGAGGGTCTTCCAGCTCACGTTTATGAACAGATGAAATTAAAGCAGATGAAAAGTTAGATTAGGCTGGGCGCAGTGGCTCACACCTATAATCCCAGCACTTTGGAAGGCTGAGGCGGGCAGATCACGAGGTCAGGAGTTTGAGACCAGCCTGGCCAACATGGTGAAACCCTGTCTAAAAATAACGAAAAATACAAAAAATTAGCTGGGTGTGGTGGCAGGTGCCTGTAATCCCAGCTACTTGGGAGGCTGAGGCAGGAGAATTGCTTGAACCTGGGAGGTGGAGGTGGCAGTGAGCCAAGACTGCGCCACTGCACTCCAGCCTGGGCAACAGAGCAAGACTCCATCTCAAAAAAAATAAATAAGCCGGGCACGGTGGCTCACACCTGTAATCCCAGCACTTTGGGAGGCTGAGGCGGGTGGATCACAAGGTCAAGAGATCGAGACCATCCGGGCCAACATGGTGAAACCCCATCTCTACTAAAAATACAAAAATTAGCTGGGCATGGTGGCACCCACCTTTTGTCCCAGCTACTCAGGAGGCTGAGGCAGGAGAATCGCTTGAACCCGGGAGGCGGAGGTTGCAGTGAGCCGAGATTGTACCACTGCACTCCAGCCTGGTGACAGAACAAGACTCTGTCTCAAAAAAATAAATAAATAAAATTAGCCAGGTGTGGTGGCATGCGCCTATAGTCCCAGCTACTCAGGAGCCTGAGGCAGGAGGATCCCTTGAGCCCTGGTGGTCAAAGCTGCAGTGAGCCATGATGGTGCCACTGCACTCCAGCCTGGGCGACAGAGCAAGACCCTGACTCAAAGAAAAGAAAGAGACAGTAGAAAATCAAAAGAGATGTGTATTGGGTGATGACTGTATGAGGCCTTGTGTCTATAGAATGTTTTAACATTCACAACAGCCCCACACAGTTGTATCGCTTCTGAAGTAATGCCTTTTTTCATGAGTGTTTTTCATCCTCATACGTTTTCCCTTGCTACCTTAAAATTGACATGTGTTTCCTCTTTGAAACAG
Seq C2 exon
AGAATGCTCTCATCACTCAGTCAAGGCTAATGCTTTTGGAATCAGTGTTAATATTTTTCAATCTATTGGCCGTGTTGTCCTACCTGAAGTTCTTCAACTGCCAAAAGCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000130714-POMT1:NM_007171:5
Average complexity
IR-S
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=PU(16.7=96.2)
A:
NA
C2:
PF0236613=PMT=PU(23.5=96.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATACAGTAGCAACGTGCCTGTG
R:
GCTTTTGGCAGTTGAAGAACTTCA
Band lengths:
254-1650
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)