RnoINT0102525 @ rn6
Intron Retention
Gene
ENSRNOG00000013895 | Npdc1
Description
neural proliferation, differentiation and control, 1 [Source:RGD Symbol;Acc:1303156]
Coordinates
chr3:2629785-2630185:+
Coord C1 exon
chr3:2629785-2629864
Coord A exon
chr3:2629865-2630088
Coord C2 exon
chr3:2630089-2630185
Length
224 bp
Sequences
Splice sites
5' ss Seq
GCGGTGAGC
5' ss Score
8.02
3' ss Seq
AGCTACTTTGCTCCCACCAGGCA
3' ss Score
6.08
Exon sequences
Seq C1 exon
CCCGGGGACGAGCGTCTGGCGCATAGCGCAGAGATGTATCATTATCAGCACCAGAGACAGCAGATGCTGTGCCTGGAGCG
Seq A exon
GTGAGCACCCCAGCCTGAGGTGGCCACTCCCCCACCCCCCACAGCCCCACCCCCACCTCACACCTCCTCCCTACCCACACCTCACCTCACCATCCTTCCCTACCTCTTACTCCCTGCCCCCACACCCCAGCCCCAGGCCCCTGCCCAGGGCAACAGTACATTGAGCACCTACCTCTGGGCCCTTGGAGAGTGCACAGAGGACTCAGCTACTTTGCTCCCACCAG
Seq C2 exon
GCATAAGGACCCTCCAAAGGAACTGGAGTCAGCCTCCTCCGATGAGGAGAATGAAGATGGTGACTTCACTGTGTACGAGTGCCCAGGCCTGGCGCCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000013895:ENSRNOT00000018927:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.741 A=NA C2=0.909
Domain overlap (PFAM):
C1:
PF068096=NPDC1=FE(7.9=100)
A:
NA
C2:
PF068096=NPDC1=FE(9.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCATAGCGCAGAGATGTATCA
R:
GCCTGGGCACTCGTACACA
Band lengths:
148-372
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]