DreINT0116798 @ danRer10
Intron Retention
Gene
ENSDARG00000040002 | pnpla7b
Description
patatin-like phospholipase domain containing 7b [Source:ZFIN;Acc:ZDB-GENE-050309-66]
Coordinates
chr5:24556432-24556799:-
Coord C1 exon
chr5:24556722-24556799
Coord A exon
chr5:24556638-24556721
Coord C2 exon
chr5:24556432-24556637
Length
84 bp
Sequences
Splice sites
5' ss Seq
CAGGTACTT
5' ss Score
8.17
3' ss Seq
TTTGTGTATTTATGTGACAGGAT
3' ss Score
6.96
Exon sequences
Seq C1 exon
GATCCCAATCTTCTGGAAGATCGGGTGACACTGAGACAAGTAAAGGCGGGCTCTGTGGTTGCAAGTGAGGGAGATCAG
Seq A exon
GTACTTTTGAACCTCTTCAGTTTTAGCAATGGTCTATTAAACTATATCATGTCAATGTTTATCCTTTGTGTATTTATGTGACAG
Seq C2 exon
GATGTAAGCGTGCAGTTTGTCATCTCTGGAACGCTTCATGTGTACCAGAGACTGATTGACAGAGAAGAGCAATCATGTCTGTTTGTGGCCCACCCTGGAGAGATGGTGGGCCACCTGGCTGTTCTCACTGGAGAGCCTCTCATCTTTTCTGTGCGCGCCCAGCGTGACTGCTGCTTCCTGTCTATCTCCAAAACACACTTCTATGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000040002:ENSDART00000145061:15
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:
PF0002724=cNMP_binding=PU(16.3=57.7)
A:
NA
C2:
PF0002724=cNMP_binding=FE(73.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGACAAGTAAAGGCGGGCTC
R:
TCTCCAGTGAGAACAGCCAGG
Band lengths:
180-264
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]