DreINT0117592 @ danRer10
Intron Retention
Gene
ENSDARG00000067670 | pomt1
Description
protein-O-mannosyltransferase 1 [Source:ZFIN;Acc:ZDB-GENE-060929-966]
Coordinates
chr5:50465587-50467337:+
Coord C1 exon
chr5:50465587-50465637
Coord A exon
chr5:50465638-50467190
Coord C2 exon
chr5:50467191-50467337
Length
1553 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAAC
5' ss Score
5.56
3' ss Seq
GTTATGTTTTTACATTTTAGAAT
3' ss Score
8.32
Exon sequences
Seq C1 exon
CGTATTTAGGAGGATTTGATGGCAACTTTGTTTGGAACAGAATTGGAGCAG
Seq A exon
GTGAACATCTCAAACACACTTATGTGGGGTTGACAAAGCCAAACAACTGTTCATTATAACCTCACAAATCTTTCATAACCTAATTTAGACTCTAAATTCTTCTAGAGGAGTTAAATTAATTTTTTTTAATTTTTTTTTATTTTGACAAATACAAATCAAAACTACATTCAAAACATGAAGTGCCTGACACAACAAAATTGCACATACAGGAATATACACTCACCTGCCACTTTATAAAATACACCTGTCCAACTGCTCGTTAACTCCTTTCAGCTAAGAACAGGATTTAGAGGCTACAATTCACTCACCAAAATTGGACAATAAAAGATTGGAAAAAACATTGCCTGATCTGATGAGCCTCAATTTCTGCTGTTACATTTGGATGGTATTGTCAGAATTTGGCGTCAACAACAAGAAAACATGGATCTATCTTGCCTTTTATCATCGGTTCAGGCTGGTTGTGGTGTTATGGTGTGGGGATTTTCTTGGCATGCATTGGGTCCTTGGCATGCACTGGTTAGTACCAGTTGAGCATCATATCCACGCCACAACCTTGCCGAGTATTGTTGCTGACCATGTCCATCCCTTTGTGAGTGTCCACAGTGTACCCATCTTCTGATGGCTACTGTACACTGCACACTACTCAAATGGCCTCCACAGTCACCATATCTCAATCCAAGAGAGCACCTCAGGCATGTGGTGGAATGGGAGATTGGCATCATGGATGTTCAGCTGACAAATCTGCAGTGATGGTATCTTATCAATTTCTGAGGAATATTTTCAATACTTTGTTGAATCTACTGCCTATTAAGGCAGTTCTGAAGGCAAAAGGGGTCCAACCTGGCACTTAAAAAATGTAACTATTTTAAGAGCCACGGTGAATAGAGATGTGTTTTATTCTGTACTAAAAAAAAAAAACTTAAAATAAAAAAAGTAATTTAGAACATTTCCTGCATAATATAACAAAAATATGCTACATGTTCTGATATGTTTATAGTGTATACATTTTTACAAATTTTTAAATGACAAATTGCCAATGTTTTATCTTCTGAAAGGGTATATATGGTGGAATAACCCTCATTTTCAGTGACAGCAAATCAATTGTCATATTCAGGAAAAAATGCTCTTAATGATTTTGTTTAAAGTTGGAAAAAATGTAATGAAAATGTTTTATTTTATTCAAACCCATAAAAATGTTGTCATTCCATAGAAAGTCTCTAAGTACAAAAGATCTATTGAAAAACCCTTTAATTTCTTTCCATAGCTTTATGTACAAAATATGTAGGTAATTTAAAGTCGCTCTTTGCCCGCCTAGGATGTTTTCCGAGGCCCCTGTTTGCATATGGGGACTAGTCTTTCAATCTGCTTTGACTAGATTTTACTGTCTAGCAATCTTCTAGTTAGAACACCAATTTAAAAAAGATGTACATCTCTTCAAGCTGTAAATCATATTTAAACTACATGACCCACTAAGAATTGTATAACAAAACATTTCAAACGTTTTCTGGCATAACACAGGCTTTAGTCTTACTAGTTATGTTTTTACATTTTAG
Seq C2 exon
AATACCCTGGTAATGTCCCTGTTTGGAGCCTTCGACTGATACCGGCTCTGGCAGGCTCTTTTTGTGTGCCACTTGCATATCTTGTAGTAGTGGAGCTGGGATACTCCCACTTCTCGGCACTGGGGGCCTGTGCACTTCTCCTCATGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000067670:ENSDART00000092002:4
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(7.0=100)
A:
NA
C2:
PF0236613=PMT=FE(20.1=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:
CGTATTTAGGAGGATTTGATGGCA
R:
CCATGAGGAGAAGTGCACAGG
Band lengths:
198-1751
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]