GgaINT0124685 @ galGal4
Intron Retention
Gene
ENSGALG00000009039 | NPDC1
Description
neural proliferation, differentiation and control, 1 [Source:HGNC Symbol;Acc:HGNC:7899]
Coordinates
chr17:468470-468827:-
Coord C1 exon
chr17:468748-468827
Coord A exon
chr17:468567-468747
Coord C2 exon
chr17:468470-468566
Length
181 bp
Sequences
Splice sites
5' ss Seq
GAAGTAAGC
5' ss Score
6.95
3' ss Seq
TCTCCAACCTCTCCCCACAGGCA
3' ss Score
11.77
Exon sequences
Seq C1 exon
CCTGGGGACAAGACGCTGGCTCAGAGCGCCCAGATGTACCACTACCAGCACCAAAAACAGCAGATGCTCTCCATGGAGAA
Seq A exon
GTAAGCAGCCTCGTCTTTGCCAGAGCTGCCAGGGCTGAGTGTCCCAACAGCCCACGAGGACCACTCGCCGTCCTTCCGGAACCGCCCCACCCCGGCTCTGTCCTCGGCCAGCACCGTCTGGGTGGCTGTCCCGTGAACGAGGATCCCGTTGACCTCCCCTCTCTCCAACCTCTCCCCACAG
Seq C2 exon
GCATAAAGAAGAGCCCAAGGTGCCGGACTCCGCCTCATCCGATGAGGAGAACGAGGACGGAGACTTCACAGTGTATGAGTGCCCCGGGCTGGCTCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009039:ENSGALT00000014712:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.778 A=NA C2=0.848
Domain overlap (PFAM):
C1:
PF068096=NPDC1=FE(9.4=100)
A:
NA
C2:
PF068096=NPDC1=FE(11.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GACAAGACGCTGGCTCAGAG
R:
CCCGGGGCACTCATACACT
Band lengths:
162-343
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]