DreINT0114608 @ danRer10
Intron Retention
Gene
ENSDARG00000060946 | pip5kl1
Description
phosphatidylinositol-4-phosphate 5-kinase-like 1 [Source:ZFIN;Acc:ZDB-GENE-060526-248]
Coordinates
chr5:31103142-31103489:-
Coord C1 exon
chr5:31103439-31103489
Coord A exon
chr5:31103297-31103438
Coord C2 exon
chr5:31103142-31103296
Length
142 bp
Sequences
Splice sites
5' ss Seq
AAGGTATAA
5' ss Score
7.08
3' ss Seq
TGTGTATATTTGTGCTGAAGGAC
3' ss Score
4.18
Exon sequences
Seq C1 exon
GATGAGCTGTGTGAGGATGACTACAGTCTTGAGGTTACTCAAATCCATAAG
Seq A exon
GTATAACTCCTCTAGCTGTAATTTTAGCAATTTTTGGCTGCGCCAAATGAAACTTGACAGAATGAATAAGCAGCTGTTAAGCATGTGCTTGAATTGTGCGTCAGATATTTCTGTTTCATTTGTGTGTATATTTGTGCTGAAG
Seq C2 exon
GACTTCAGGATGGAGACATACGCGGGGCCGGTGTTTGCAAGTCTGCGTCGTTCTTTGGGAATGACGGAGAAGGAGTATCAGCAGTCGCTCTCCTCTGAAGGCTGTTACCTGCAATTCATCAGCAACTCTAAGAGCAAGGCAGATTTCTTCCTAAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000060946:ENSDART00000141328:3
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:
PF0150413=PIP5K=PU(7.1=46.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GATGAGCTGTGTGAGGATGACT
R:
GGAAGAAATCTGCCTTGCTCT
Band lengths:
202-344
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]