DreINT0116728 @ danRer10
Intron Retention
Gene
ENSDARG00000010773 | pnpla6
Description
patatin-like phospholipase domain containing 6 [Source:ZFIN;Acc:ZDB-GENE-050107-4]
Coordinates
chr1:45205817-45206230:-
Coord C1 exon
chr1:45206136-45206230
Coord A exon
chr1:45205982-45206135
Coord C2 exon
chr1:45205817-45205981
Length
154 bp
Sequences
Splice sites
5' ss Seq
AAGGTGGTG
5' ss Score
0.25
3' ss Seq
TTCTGTTTGTTGTGTTTCAGGAG
3' ss Score
10.78
Exon sequences
Seq C1 exon
GAATGCAGAAGAGTCTGCGTTCAGATTTCGACATGGCGTATGAAAGAGGTCGTATCTCTGTATCTGCAGAGGATGGAGTGCCTGCTTTCACAAAG
Seq A exon
GTGGTGGTTTATTTGTAAATTTTGAACTGAAGTGAACAGCATTTAGTTACAGTAATTACAGTCTAATGGAAAACATTACTGAGATTAAGAGTCCCCAAAAAAGGATGATTAAATATCTGTCTTGAACAAGATGTTTCTGTTTGTTGTGTTTCAG
Seq C2 exon
GAGCAGCGGGAGAGGAAAGTGACCGTGGATGAGGTTCCTTCAGGTGTGTATTTGTATCCTGAGGAGGAATCAGGGATGGACATTTTTAGCTCATTTCAAGGACGACCAAACGCTACAGTGTTCGAGGAGGCCCAGAAGGAGATCCTCAGACTCATGAAGATCGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000010773:ENSDART00000140890:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.281 A=NA C2=0.145
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:
GCGTTCAGATTTCGACATGGC
R:
CTCGATCTTCATGAGTCTGAGGA
Band lengths:
244-398
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]