DreINT0116738 @ danRer10
Intron Retention
Gene
ENSDARG00000010773 | pnpla6
Description
patatin-like phospholipase domain containing 6 [Source:ZFIN;Acc:ZDB-GENE-050107-4]
Coordinates
chr1:45197897-45199558:-
Coord C1 exon
chr1:45199390-45199558
Coord A exon
chr1:45198080-45199389
Coord C2 exon
chr1:45197897-45198079
Length
1310 bp
Sequences
Splice sites
5' ss Seq
GAGGTAACA
5' ss Score
8.1
3' ss Seq
GCATTTTCGTATCTTCTCAGTTG
3' ss Score
7.1
Exon sequences
Seq C1 exon
TATTCACGAGTACAGGTTATCAGGTTGGTTGGCTCAGCAGGAGGACATTAATCGTATAGTGCTGTATCAGACGGACAGTGGAATGACCCCATGGACTCAACGCTGCATCCGACAAGCGGACTGCATCCTCATTGTAGGGCTCGGTGACCAGGAACCTGCACTTGGAGAG
Seq A exon
GTAACACTTGAGTCTATTCTCAATCTAGTGTTGTTTCTGACAACATTCATGAAAACTTCGTAAACTTCATTCCTAGTTCTAAAGAGGTGCACTTGCACTTTTCACCTTTAAGTGTAAAGGTTTATGAACTAATTTCGAGGAGCACATGCCTATGATTGACCACAATCATGTGATTGTTGGTCTTGCATAAACAATCACATGATCTGCCTATAAGATGAATCCATACGCACATAAATAGCCTGGTCTCCTTACCTTAGCCATCTTCGTCTTGAAGAATCCCTCTCCATCCACCCAGGCTCCTTCCCCTCTTTCGTAGCTTAATTTAGGGAAGTTCTCGAAACCTACCTGAGCTCAGACTCCCTGCCCCAGGCGAGAGTATTCTCCGAGCTTAGGGCTCTTTCCCGGGACAGAATGCCAAACACGCTTTAACCTTATCAAGCATCAGCTAAGTGTGAACTCCTGAAGCATCCTTGTTAGTGTTCACAACTACTATGCCTGAGACTTTGGTTTTAATCCTAATTGAATGGAGTGTATGTGTAGAACTGGAAATGTTAAACTGATGCTGTGGCCCAGATGAGAGGTAAATTTAGGGGTGGTGAAGGTAACACGATTCAATCTAGAATATCGACTGGTGATTGAGTTTCTGGCATTTACATCCTTGTTAGTGTATCCTACTCCTATGCTTGAGATGCCCATTCATTCCCACTTGGCGCAGTGTAAATAGATTTTGAGTGATTGTATTGGTGCCGTGACCCGGTTGGAATGTTTGAACGAGTAAGTTTACCAGAGGCCAGCTAGTAGCATGTGTGAGGGTAAATCCCAATGCTCTAATCTCATGAAGGTGAGCTATCAACTGATGCTAATAACTCTGGTCTAAGGCACATTTACACTATTCTAAGGATGTATGTAAAGGCAGAATCAAATATCATTGTGAATTCATTTAAGCAATTCTGAATTCATCGATAGCTCAAAGATCCATATCCCTATCAGGCACAGATTGTAATTTATCAGCATTTGAATAGCTACAAGTTTGGCTTGTGCAAACAGAATCAAGATGTGAACTTAGGGAAAAGTGGACATCTAATTGCACTTCCCACAAGTGAGTGGTCTTGTTAAGCCACCTGTAGGACACACTCCTTTAGGTATGACCGGAGGGAGGAAAAACGAACAAACTAAGACTTGTCATAGCTTTTATATACTACTGCTCTCTGACGATTTGAAGTCCTTTTATCCATACAAGTTATGTCTCCTAAATAAGTACATGTAATTCAAAGGTTTTGTTGTAATTTCGCATTTTCGTATCTTCTCAG
Seq C2 exon
TTGGAGCAGATGTTGGAGAACACAGCAGTGCGGGCTCTGAAACAGCTTATTTTGCTGCACCGTGAGGATGGTCCGGGCCCGTCAAGAACAGTCGAATGGCTGAACATGCGAAGCTGGTGCTCTGGACACCTTCACCTGAAGTGTCCTCGTAGAGTCTTCTCACGAAGAAGCCCTACCAAACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000010773:ENSDART00000140890:22
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=0.015
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:
CACGAGTACAGGTTATCAGGTTGG
R:
TGGTAGGGCTTCTTCGTGAGA
Band lengths:
343-1653
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]