DreINT0117596 @ danRer10
Intron Retention
Gene
ENSDARG00000067670 | pomt1
Description
protein-O-mannosyltransferase 1 [Source:ZFIN;Acc:ZDB-GENE-060929-966]
Coordinates
chr5:50469865-50471339:+
Coord C1 exon
chr5:50469865-50469958
Coord A exon
chr5:50469959-50471183
Coord C2 exon
chr5:50471184-50471339
Length
1225 bp
Sequences
Splice sites
5' ss Seq
CATGTATGT
5' ss Score
5.71
3' ss Seq
TTTGTCATTTGTCTGAAAAGGGC
3' ss Score
6.69
Exon sequences
Seq C1 exon
AGTAAAGTACATGGGTATGTTCACATACTTTCTACTGCTGAGCCTGGCAGCTGTACACACCTGGCAGCTTATTGGAGATCAAACCTTGAGCCAT
Seq A exon
GTATGTAATGGTTTATAAATATACATGTGTTTTAGATGAGGCTGCACAATACTGGATAAATATTGCAATGTTGTTAAATATTGCGATAGTGATGTTTCTTACAAAATAACATTTCCCTAGAAAAAAACTATTTTTATGAGCTATGATTTAAAATAATTTATTTTATTTAAAGATATTAAAATAATCAGGTAAAGATATTTACCTGTTTTTTTTACATTAAACATTTACCTGAAATTTAACATTTAGACTAAAAAACTGTGAAGATGCAAACATTTAGTCATTAGAACACTATGAATGAGTGAAAACCTCAGCAAATATTTTGACTCTGATTGGACTATGTTGTCATTTTCCTCTCGTTTTGACTCCCATCATAAAATATTGTTTTCCATAGCTGGGTTTACCTTTAGGCTGCTCCAGCCAATAGCAAAACAGCATCTACTTGGGAGGTGGGGATAAATATAGTAGGGCCCCATCTGATTGGTTGAGTTTAGATAAAAAGAAAAACAATGCATAAAATAAGTGAAGTTTATTTCTAAACTAAGTTCGAGTTGATCACGGCTGGTCCCGCATTAGCCAATTTCTGATTCCTCAATCAGACGATTACTAAACACCATAAATAACCTAAGTTCCATATTCATCTTCATTTTAAGGAATCCTCCCCTACTACTACTCTTTGCCTAAATTGGTGCCACGGCGGCCCAGTGGTTAGCACTGTTACCCAACAGCAAAAACTTAACTGGTTCTAGTCCTTACCAAGCCAGTTGACGTTTCTGTGTGGAGTTTACATGTTCTCCCCGTGCTCGCGTGGGTTCCCCTGGTTTCCTCACACCGTGCAAAAACATGCAACTTAAGTTAATTGACTAATCCAAAATGGCACTATAGACATGCTTCTAGTAGGTAATTATATTCTTATAACAATTCCTAATTGCTCATAGCTACTACAGCAGGGGAGTTCTCAAGATCTACCTGAGCTCAAACTCCACTCTTGCCCTGCAAATGGGAGGGAGCCCTGGGCTTGAGGATCTTATGAGCTCAGGGCTCTCTCTCAGGAAAGCATGCCAAACAAGCTTCATAATCGATCATCAGCTGAGTGTGAACTCTTGAAAGGCAGTTCATTTCATGTCTACGATATTATTGCAATACTGATAATTTTCTGTATATATTGTGCAGCCCTAGTTTTTGAGCACTGTGTATAACTTAATGATTTTGTCATTTGTCTGAAAAG
Seq C2 exon
GGCAAAGTAATGTTCCAGGTATTGGTTCGCTTCCTGGCACTCGTGGTGCTACCTGTCATCATGTACCTTGGGTTTTTCTACATTCATCTGACCTTGCTATATCGCAGTGGACCTCATGACCAGATGATGAGCAGTGCCTTTCAAGCAAGTCTCGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000067670:ENSDART00000092002:8
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(12.7=100)
A:
NA
C2:
PF0236613=PMT=PD(13.5=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:
AGTAAAGTACATGGGTATGTTCACA
R:
TCGAGACTTGCTTGAAAGGCA
Band lengths:
249-1474
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]