DreINT0117588 @ danRer10
Intron Retention
Gene
ENSDARG00000067670 | pomt1
Description
protein-O-mannosyltransferase 1 [Source:ZFIN;Acc:ZDB-GENE-060929-966]
Coordinates
chr5:50479012-50480429:+
Coord C1 exon
chr5:50479012-50479138
Coord A exon
chr5:50479139-50480251
Coord C2 exon
chr5:50480252-50480429
Length
1113 bp
Sequences
Splice sites
5' ss Seq
AAGGTATAC
5' ss Score
7.64
3' ss Seq
TGCTTCGTCTTCTCTCTTAGACT
3' ss Score
9.42
Exon sequences
Seq C1 exon
GCACAGATTCACTTTATAGGCAATATTGTTACTTGGACCACTGGAAACATTACACTGGTTGTGTACTGTCTTCTGTTTTTAACATACTTACTAAGACGGAGGAGGAAAGTTGAAGACATTCCACAAG
Seq A exon
GTATACAGATTTTTGTTTTAACCACAATGGAAAAAAGGTGGTTTCACATTTTTGCCCTGACATAACATAAGCCATTTTTACACTATTGTGCTGACTGGCCATTGGATGGTTAAGAAAACTTTATCTTTTGGACCAATGGATAACTGGCAATAAAATAGTTTTCGGTCAACTTAGACCCATGTACATGCTTTTATTATTTGTAAAAGATTTTATAGATCAATTTTGGTCAGTTAACTATTCCCTCAATATAATATATTGCATTTATTATTTGTGTAAAGTTTTACAGTTCAGTTTTGGTGAGATAACTAAATGTACACTAATTGGCCACTTTATTAGGTACATCTTATTAGTACCAAGTTGGACCCTTTTTTGCCTTCAGAACTGCCTTAATCCTTCATGGCATAGATTCAACAAGGTACTGGGAATATTGCTAAGAGATTTTGGTCCATATTGACATGATAGCAACACACAGTTGCTGCAGATATGTCGGCTGCACATCCATGATGTGAATCTCCTGTTCCACCACATCACAAAGGTGCTCTATAGGATTAAGATATGGTGACCATGTCAACATGCCTAAATGCAGAGTTGCTGCCATGTAATTGGCTGATTAGAAACTTGCATCAATGAGCAGTTGGACATTGGCTGGCGAGTCTATATATTTAATTAAAATATAACTAATTTTTTGATCAAAACTTATTTAAGTTTTCAGTGTTATGAAGGATATTGTGCGTATTCTGAGCTACTGTAACCTCAAACTGGATATTTCAGCAGATATGTGGTTCTCAAAGATGACTTATATTTGAGTTAATCTGCACTTATTGTTTACATTACAACTGCATTACCAAAGCTTCAACTGCCACATTTATATCACATTCCAGAGAGCTCTGTTATAAGCATGACCATGGAAAAATAAAACTGTATCCATGCTGACTTTCCCAGATCGCCACAGAAATGAATGGTTAAACACAGAGAACTATTCGGCTTGATAGTGGAAAAGCAGCTTTGTTGCACTGAAAGATTTCTTTAAATAAGTTGTGAGCAATATTAAAAGTAGTGGTGTTTGCTTTTCCATTAACTGTTCTTTCCTTTTTGCTTCGTCTTCTCTCTTAG
Seq C2 exon
ACTCTTGGGAACAGTTGGTTTTGGCTGGTGTGGTTTGCTTAGGAGGCTGGGCAGTGAATTACCTGCCATTCTTCCTAATGGAGAAGACTCTCTTTCTATATCACTATCTCCCAGCACTGACCTTCAAGATCTTGCAAATACCTATAGTCACAGAGCACCTGTACATCCACGTATTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000067670:ENSDART00000092002:18
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:
NO
A:
NA
C2:
NO
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:
GCACAGATTCACTTTATAGGCAA
R:
CAATACGTGGATGTACAGGTGCT
Band lengths:
303-1416
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]