DreINT0114612 @ danRer10
Intron Retention
Gene
ENSDARG00000060946 | pip5kl1
Description
phosphatidylinositol-4-phosphate 5-kinase-like 1 [Source:ZFIN;Acc:ZDB-GENE-060526-248]
Coordinates
chr5:31099889-31100284:-
Coord C1 exon
chr5:31100229-31100284
Coord A exon
chr5:31100002-31100228
Coord C2 exon
chr5:31099889-31100001
Length
227 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGG
5' ss Score
8.76
3' ss Seq
TCTTTCTCTCCATGTTAAAGGTA
3' ss Score
8.2
Exon sequences
Seq C1 exon
AAGTACTTTATTGTGATGCAAAGTGTCTTTTACCCTGATGACAGAATCATGGCAAG
Seq A exon
GTAGGGCTTGCTCTAAATGAAAATGGAGTGTTGTCCATTATCAGTCCTATAAATAGTTAATGTCTCAACGTATGTGCAGCACACTTGCAGTAATCCCCAGCCTTGCTGTTATTGATGGTTAAAAGCTTTGCCTTTTAGCTGTTACTTTTACCTTGCACTAATGATAAAAATAATGATCCTCTCAACTCTTGTAGTTGTACATTCACATCTTTCTCTCCATGTTAAAG
Seq C2 exon
GTATGATATAAAGGGCTGCGAGGTGAGCCGGTGGACGGATCCAGCTCCTGAAGGCAGCCACATCATAGTGGTTTTGAAGGATCTGAATTTCGAAGGACAGTTCATTCATTTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000060946:ENSDART00000141328:7
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:
PF0150413=PIP5K=FE(5.9=100)
A:
NA
C2:
PF0150413=PIP5K=FE(12.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACTTTATTGTGATGCAAAGTGTCT
R:
CTAAATGAATGAACTGTCCTTCGA
Band lengths:
165-392
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]