RnoINT0145280 @ rn6
Intron Retention
Gene
ENSRNOG00000010002 | Stpg3
Description
sperm-tail PG-rich repeat containing 3 [Source:RGD Symbol;Acc:1561978]
Coordinates
chr3:2433894-2434257:-
Coord C1 exon
chr3:2434151-2434257
Coord A exon
chr3:2434052-2434150
Coord C2 exon
chr3:2433894-2434051
Length
99 bp
Sequences
Splice sites
5' ss Seq
CCAGTAATT
5' ss Score
0.54
3' ss Seq
GGCTGTTGGCTTCCTTGCAGGTC
3' ss Score
8.92
Exon sequences
Seq C1 exon
ATGAACTTTGACCAGAAGGCTGTGAAATTCCTGGCAAACTTTTACATCAATGGAGGCAAACACTGGACTCGGGGACCCCTGAGTCAGAAATCTCTTCACCTCACCCA
Seq A exon
GTAATTTCCGAGGGTAGTGGATGGGGGGTTGGGGTGGGGGGACAACCCAGTGGGAAGACCATTGGGATAGATGAACAGTGGCTGTTGGCTTCCTTGCAG
Seq C2 exon
GTCCAATGCTACTGTGCTATGGTGGGACCAGGAGCTGGAGGCTGCCTGGGATGAGATGTGGCTCCCAAAGATGAAGAGAGCTTCAAGCGGCTTCAAATTAAAATCAGGCACTCCTAATGAGTCCACACCTATTGGCACAGGGACTCTGAGGGAGCTGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000010002:ENSRNOT00000013278:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.111 A=NA C2=0.352
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCTGTGAAATTCCTGGCAAAC
R:
AAGCCGCTTGAAGCTCTCTTC
Band lengths:
183-282
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]