DreINT0116802 @ danRer10
Intron Retention
Gene
ENSDARG00000040002 | pnpla7b
Description
patatin-like phospholipase domain containing 7b [Source:ZFIN;Acc:ZDB-GENE-050309-66]
Coordinates
chr5:24554413-24555071:-
Coord C1 exon
chr5:24554958-24555071
Coord A exon
chr5:24554489-24554957
Coord C2 exon
chr5:24554413-24554488
Length
469 bp
Sequences
Splice sites
5' ss Seq
CAGGTTAGT
5' ss Score
8.02
3' ss Seq
CATATTAAACTCTTTCATAGGTT
3' ss Score
6.87
Exon sequences
Seq C1 exon
GTGGAAGCTTTGACTCATCTGAACAGAGCCACTACAGTCCACGCAGTCCGAGACTCTGAACTGGCCAAACTGCCTGAAGGAGCTCTCAATTCTATTAAGAGGAAATATCCACAG
Seq A exon
GTTAGTTCATTAAAACTCTTCAACACATTTCACCAACAAACTTTTTTTGTCTTGTTTTTAGTCCAAATATCTACAAATTCTTATATCAAGAAGCATTTTCTAGGCAAGCAAATCATATTGTCTTGTTCTCAGAAATAATTAGTCTAAATTAAGTGAGTTTTTCCCTAAAATAGGTTAAATCTGGAAGTGGGGCAAGAAAATTCTTCTCATTTTTGCTTTGAAATAAAATTAGTTTGCTTACCCCATTGGCAGATTATTTTGCTTGTTTTAATTAAAAACTGACCTGATTTTGATATATAACATCTGGAATCAAGACAGCATTTTTGCTTGCTTAGAAAATGATTTAAACAGTTTTTGATATTTGGACTAAAAAGTAGACTTAAAGTATGGAAAGTATTTTGCACATTTTACACAATTACATGTAGTGTACAGTATATGCAGTATGTTGACATATTAAACTCTTTCATAG
Seq C2 exon
GTTGTGACTCGTCTGATTCACCTTCTTGGCCAGAAGATCTTGGGGAACATGCAGCAAGTGAATGGTCCACTCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000040002:ENSDART00000145061:19
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=FE(40.7=100)
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:
GTGGAAGCTTTGACTCATCTGA
R:
CTGAGAGTGGACCATTCACTTGC
Band lengths:
190-659
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]