DreINT0116807 @ danRer10
Intron Retention
Gene
ENSDARG00000040002 | pnpla7b
Description
patatin-like phospholipase domain containing 7b [Source:ZFIN;Acc:ZDB-GENE-050309-66]
Coordinates
chr5:24551556-24552094:-
Coord C1 exon
chr5:24551926-24552094
Coord A exon
chr5:24551739-24551925
Coord C2 exon
chr5:24551556-24551738
Length
187 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAAT
5' ss Score
5.37
3' ss Seq
GCTGTGTTTGTTGTGTAAAGCTG
3' ss Score
5.09
Exon sequences
Seq C1 exon
TGTTCACGAGTATCGTTTGTCAAGCTGGCTGGGTCAACAAGAGGACATCCACCGCATTGTTTTATATCAATCTGATGGTTCTCTGACTCCATGGACTCAACGGTGCATTCGACAGGCAGACTGCATCATCATCGTGGGTCTGGGAGAACAAGAGCCCACTGTGGGAGAG
Seq A exon
GTGAATTGTTTTGAAATGTTTTTGAATTGATGCAAACTCACAATAACCTGATAAAACTGGTTTGTTTTAAATGAAATGAGTTGCCTCACAGGTGCTGATATGTACAGTAGTTGAATTAATTCTGCACATGTGTTTCTATTAGACTATTTGGTAAACTGAGCTTGTTGGCTGTGTTTGTTGTGTAAAG
Seq C2 exon
CTGGAGCGTATGCTGGAGAGCAGTGCTGTGAGAGCTCAGAAGCAGCTGGTTCTGCTGCACCGTGAGGACGGGCCTCCACCCGCTGGAACTGTAGAATGGCTTAACATGCGCAGCTGGATCTCACGACATCTGCACCTGTCCTGTCCTCACAGGGTCTTCTCCAGGAGGAGTCTGCCCAAATTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000040002:ENSDART00000145061:23
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
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGGACATCCACCGCATTGTT
R:
GCTGCGCATGTTAAGCCATTC
Band lengths:
243-430
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]