HsaINT0129565 @ hg19
Intron Retention
Gene
ENSG00000130714 | POMT1
Description
protein-O-mannosyltransferase 1 [Source:HGNC Symbol;Acc:9202]
Coordinates
chr9:134378289-134379727:+
Coord C1 exon
chr9:134378289-134378700
Coord A exon
chr9:134378701-134379575
Coord C2 exon
chr9:134379576-134379727
Length
875 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGG
5' ss Score
7.13
3' ss Seq
GCTCCTCCCTTCTTTTCTAGGGC
3' ss Score
12.3
Exon sequences
Seq C1 exon
ACGCGCGCTGCTGCCCGTCTGGCCCCGCAGGCTCGGTGAATCGAACGTTGAGCAGGGCGGTGGGTGGTGCGGAGTGCCGAGCGGCCTCACCCCCAACCGTCGGCCCAGTCGGACGGTTCCGAGGCGTTGCCGGGAGCCGGGCGCGGCTCTGTGTGGACTCGGAGAAACGCGGGTACATTTGGGGACACCGGGGACGAGAGCCCAGCCCGGACTTGGGGGAGTCCGTCAGTGCCGGACGCGGGTCCCTGGCTTGCGGACGGGCTGGGGCCGGGGGCGTCCCCGTCTTTCCGGAGCTGGGGGCGGGGTTCGGGCCCGGGCAGATGCGGCGTTCGGGCGGCCGAGCCCCGAAGTAAGAACTCCGTGGCGCGTGCAGCCCTAGGGAGGAAGGGCGTGCTGCGGGTGCAGTCTCAGG
Seq A exon
GTGAGGACGGAGCTGGGGCCGACGCAGCCTCGGGAGTTGGTGGACGGGACAGGTGCGGCCTGTGGGGAAGAAGGGCCGGCCAGGGAGATGCGGTCTGCAAGGGGAGAGGAGGCACTCCCAGGACAGATGGGACCTTTTGGGACGAAGGCGCTCAAGGCAGATGCAGCTCAGGGAGGGAAGGGCGCGTCCAGGGTAGATGGGGCCTGAGGAGACCAGCGGGGCGCCAACGGCCAGATGCGGCTTTGGTGTGAGACAGGGTGTCCCAGGCCTGATGCAGCCTCAAGAGAAGCGGAGCTCAAGGGAAGATGAAGCCTGGAGGAGAACGTGGGGGCGCAGGGTGCAAATGCACCCTCCAGGCGAGAAAGGGAGCACCCGGGGATGATGTGCCGCTGGGATAGAAGGCAGGGAGGCACTGGGGGCAGATGCATCCTTGAGGAGAGATGAGGAGGCCCCGAGGCTCGGCCAGGTTGGGGTCCCTGGGCTGTAAGCAGCTGAGATGGCACCCAGGAGCTGCCCAGGGTCAGGTAGCTGTGGCCGCACTGTGGGCTTCTGGTCGTCGGGGAGGGAGGGGAGAAACCCTGGCGTTCCTTAGCAGTGTTCTCGCGCCCAAGACGTGCTCGGCAGGTTTTGTGGAATGAGTTGTTGAAAGGAGTGAATGTCCAGTCCTGAGATCCCCTGAATTCCCACCCGAGTTCACTGCTAGTGCCCCTCACCCCACATGTCTACCTGAACCAAGGCTCCAGGAACTTCGGTCTTTCTCAGCAGCCCGGCTGTGCTGTGGTTCTCCTCGTGTGTCCGGGAGCCGGGTGGCTGGGGATCCCTTCTGTAGCCTCTCGTGAGCCCTCATGGACCACGGCTCCTCCCTTCTTTTCTAG
Seq C2 exon
GGCGTCTGCCTGAGCCCGCTTTTCTACAAGATGTGGGGATTTTTGAAGCGCCCTGTAGTGGTGACGGCTGACATCAACTTGAGCCTTGTGGCCCTGACTGGGATGGGGTTACTGAGCCGGCTGTGGCGACTCACCTACCCGCGGGCTGTGGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000130714-POMT1:NM_001136113:1
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.000
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF0236613=PMT=PU(17.1=51.2)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Conservation
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGTGTGGACTCGGAGAAACG
R:
AAGTTGATGTCAGCCGTCACC
Band lengths:
344-1219
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
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)