DreINT0117585 @ danRer10
Intron Retention
Gene
ENSDARG00000067670 | pomt1
Description
protein-O-mannosyltransferase 1 [Source:ZFIN;Acc:ZDB-GENE-060929-966]
Coordinates
chr5:50477367-50478216:+
Coord C1 exon
chr5:50477367-50477487
Coord A exon
chr5:50477488-50478118
Coord C2 exon
chr5:50478119-50478216
Length
631 bp
Sequences
Splice sites
5' ss Seq
GAAGTATGA
5' ss Score
3.33
3' ss Seq
AAACCCTGATATCTGTGCAGGTC
3' ss Score
6.67
Exon sequences
Seq C1 exon
CTTAGTGGAGCCTCTCTGCCAGAGTGGGGTTTTAAACAGCTGGAGGTGGTGGGTGATAAGATTTATAAAGGCTACCAGCAGACCGGCATGTGGAACGTGGAGGAGCACCGCTATGGCAGAA
Seq A exon
GTATGAACATTAACAACTAAATCATTGAATTGCTTACATTATGCGTTTCTGTTAAGTGCATTTCTCGTAGTACGTACGGTCATTGAAAACCCATGGAGTTTTAAAACGGCATTTTCCAGACCTGGAAAAGGTTTGGAAAAACAAAAACCCACAAAGTTTTGGAAAAGTCATGGAAATTAGTTTTACAAATATTTGTATACTTACACAGGTTGCTTGTCTGTACTTCTTTTCTGTCCTTGGCCAATCACATGCTTTCACATTATATAAGTGCTGTGCAAGCATTCTCTAAATCAGTGTTTCTCAACCACAGCTCACCAACACTAGATGTTTTGGATGTCTCCTTTGTCTGTTTGCGTAAAGAGATATGTAAAATGTGCAGAGCTGGTGTTCCTCCAGGAACGTGGTTGACAACCGCTGATCTAAATACATTTTACATTGTTTTACAAAAAACGAAATAGATTATTGCATGTTTTACGATATGCTGTAATATAAATTTGAACGTGCATTGTTTTTTTTACCACACACATAGACATTACGTGTACTATTAGGTCATGAAGCTTTACATGAAAGTCTTGGAAAAGTCATGGAATTTTAGAGGTAAAAATGTGTTTAAACCCTGATATCTGTGCAG
Seq C2 exon
GTCAGGAACCAAAGGAAAGGGAGTTGGAGCTGAAGTCTCCTACTCACAGCGATGTCAACAAAAATCTCACATTTATGGCCAAATTTCTGGAACTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000067670:ENSDART00000092002:15
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.037 A=NA C2=0.302
Domain overlap (PFAM):
C1:
PF0281514=MIR=PD(21.0=90.2)
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:
TTAGTGGAGCCTCTCTGCCAG
R:
TGCAGTTCCAGAAATTTGGCCA
Band lengths:
217-848
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]