RnoALTD0020320-2/2 @ rn6
Alternative 5'ss
Gene
ENSRNOG00000013895 | Npdc1
Description
neural proliferation, differentiation and control, 1 [Source:RGD Symbol;Acc:1303156]
Coordinates
chr3:2630096-2630670:+
Coord C1 exon
chr3:2630096-2630160
Coord A exon
chr3:2630161-2630185
Coord C2 exon
chr3:2630283-2630670
Length
25 bp
Sequences
Splice sites
5' ss Seq
CCAGTGAGT
5' ss Score
8.28
3' ss Seq
TTGACCCAGTGTCTTCACAGACA
3' ss Score
4.86
Exon sequences
Seq C1 exon
GACCCTCCAAAGGAACTGGAGTCAGCCTCCTCCGATGAGGAGAATGAAGATGGTGACTTCACTGT
Seq A exon
GTACGAGTGCCCAGGCCTGGCGCCA
Seq C2 exon
ACAGGGGAGATGGAGGTGCGCAATCCACTGTTTGACCATTCCACGCTGTCAGCACCAGTGCCTGGTCCCCATTCCTCACCACCACTGCAGTGACTCCTAGGCTGATGCCCACAGCCCACCGGTGGGGACAAGCAAGTCCTGGTGTTCCCCATGGAAAAGAACAGCATTGTGACCCTCTGCATGCTTTTGGCAGGAGAGAGGCGCCAACCCCTGGGCTCCCTTGCCAGGGAGATTCTCTGCCTTATGTGGGAGATCCAGCATCTGCTTGCATATTCTCTGTCTGGTCTGAACCCTCAAACTGGAGATGCAAGTCCAGGAACCCTAGAGCCGAGGCATGGATAGAGAGTTCTGGAGATAAAAGCCAATTAAAGTCTTTTTCAAACCTGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000013895-18-21,19-21-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.909 A=NA C2=0.933
Domain overlap (PFAM):
C1:
PF068096=NPDC1=FE(9.7=100)
A:
NA
C2:
PF068096=NPDC1=PD(8.8=93.5)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCAAAGGAACTGGAGTCAGC
R:
CTGACAGCGTGGAATGGTCAA
Band lengths:
112-137
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]