DreINT0117597 @ danRer10
Intron Retention
Gene
ENSDARG00000067670 | pomt1
Description
protein-O-mannosyltransferase 1 [Source:ZFIN;Acc:ZDB-GENE-060929-966]
Coordinates
chr5:50471184-50471926:+
Coord C1 exon
chr5:50471184-50471339
Coord A exon
chr5:50471340-50471795
Coord C2 exon
chr5:50471796-50471926
Length
456 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGG
5' ss Score
10.28
3' ss Seq
GTTTTGTTTCTCCTGTGAAGGGT
3' ss Score
7.45
Exon sequences
Seq C1 exon
GGCAAAGTAATGTTCCAGGTATTGGTTCGCTTCCTGGCACTCGTGGTGCTACCTGTCATCATGTACCTTGGGTTTTTCTACATTCATCTGACCTTGCTATATCGCAGTGGACCTCATGACCAGATGATGAGCAGTGCCTTTCAAGCAAGTCTCGAG
Seq A exon
GTAAGGGCCAGTTATTTGACATACAATGCTTTCCAAAAGTTTGGGGTGTGTACGCTTTTTTTTCTTTGATTTGTAAAGGATTAGTGCAACCATAAATGACAATTCTATTATCAGGTTTGCTACAGGTTTCATCAAGTCAAATTTAAGACTTTTAAGATCGTTTTAAGACCATTATGAATGAAAGGTTTTACTTTTCTTCTGGCCCAGTAAAGCATTAAAAAACATGGAAGATAATCAAACCATAAAGGTAAATAGAGTTAATAAATAAACTTTTTTTTAAACATTTATGTTAGTGGATTGCTAGAGATGTGTTGGTGATCGGATGGGTGTTAGCCCGATTGGGTAGCTTTACATGGATATAAGAAAATTAAGAAAATTATATTCCCAAAATGTTGAATCCTAGATGGCATAATGTAATAATTTGTTTTAATCCATTGTTTTGTTTCTCCTGTGAAG
Seq C2 exon
GGTGGTCTTGCCCGGATCACTCAGGGGCAGCCTTTAGATGTAGCATTTGGCTCACAGGTCACTCTCCGCACAGTCTCCGGTAAACCTGTGCCTTGTTGGCTTCACTCACACAAGGCCAACTATCCCATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000067670:ENSDART00000092002:9
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=PD(13.5=63.5)
A:
NA
C2:
PF0281514=MIR=PU(6.2=25.0)
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:
GGCAAAGTAATGTTCCAGGTATTG
R:
TGATGGGATAGTTGGCCTTGTG
Band lengths:
286-742
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]