DreINT0116813 @ danRer10
Intron Retention
Gene
ENSDARG00000040002 | pnpla7b
Description
patatin-like phospholipase domain containing 7b [Source:ZFIN;Acc:ZDB-GENE-050309-66]
Coordinates
chr5:24544678-24545773:-
Coord C1 exon
chr5:24545657-24545773
Coord A exon
chr5:24544827-24545656
Coord C2 exon
chr5:24544678-24544826
Length
830 bp
Sequences
Splice sites
5' ss Seq
CGGGTTCAG
5' ss Score
-4.66
3' ss Seq
TTTTTTACATTTCTGCAAAGCTG
3' ss Score
5.19
Exon sequences
Seq C1 exon
GCTCTCTGTGGAGGTATGTTCGGGCCAGTATGTCTCTTTCTGGATATCTTCCTCCATTATGTGACCCTAAAGATGGCCATTTGCTCATGGATGGAGGCTACATCAATAACCTTCCGG
Seq A exon
GTTCAGTGTGCTTTCAGATTTCTACAATTTTGCCATTAGCATCTTATTTTTATTTTACATCTTCAGTTATTTACCACTCACATGAGGAATCATGATCTGTATAGAATGTGTACAGCAGTTGGCCATTTAATATGATTGCCTGTTATACAATGGATTATACTTTAATCTGTCTCTAAGCTGATAGTTGCAACACAGGCTCATTGTGAATACGTACCCCATATACATTTCTGGAGAGCATGAGTTATGTAGCCAGAGGTAAATATGGCTGCATTTTGTTTTTATAACGAACGCTACAGGGTGGTATGACACCACTGTTGGCCTATTTTTCTTTTCACGCTACCAGCTGACCGCTTACCTCTGTGTGGACGTGTTTTCTGCTATTACCTGTTTGCCCAGTAGCTCGCCTCATATGTCGGCTGACTTGAGTTAAAGAGAAGAGTTGACTGTGACGACAGGGTTCGAGTCCGGTGAAGAACAGTTCCATAAAGCAGGGAAAACAAAAAAAAAAGCAAACAATAAACACTTATTAGTTTGGTTTAGGAAAGAGGATGGGTCAGTCAGTCAATGGACAGTGGCCTCTCGTGAATTTACAAGAGAAGAGGAGGAGCGAATGGCACTCGTTAGAGAAATTTGAGATCTAAAAAAAAACATACAAAGCGGCTTCTGTCGAATTTGTGGAAACAAAAACTGCACAAAAAAGTACCTCCTAGGATGCATTGCACACTGTCCAGAAATGTATACAGGGGCACATATCCATAATGAGCCGGTGTTGGCTAATTGTGAAGATGTTGGGGAGTTTTTGACATTATCTTTTTTACATTTCTGCAAAG
Seq C2 exon
CTGACACAGCTCGTTCGATGGGTGCCAAGCTGGTGATTGCAGTTGATGTGGGCAGTCAGGATGAAACTGATCTCACTAACTATGGAGACTCTTTATCTGGATGGTGGCTGCTTTGGAAACGCTTGAACCCACTGGCAGAAAAAGTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000040002:ENSDART00000145061:29
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:
PF0173417=Patatin=FE(23.4=100)
A:
NA
C2:
PF0173417=Patatin=PD(2.4=8.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCTCTGTGGAGGTATGTTCGGG
R:
TCACTTTTTCTGCCAGTGGGT
Band lengths:
262-1092
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]