RnoINT0143991 @ rn6
Intron Retention
Gene
ENSRNOG00000025848 | Sspo
Description
SCO-spondin [Source:RGD Symbol;Acc:1549716]
Coordinates
chr4:78125685-78126065:+
Coord C1 exon
chr4:78125685-78125809
Coord A exon
chr4:78125810-78126018
Coord C2 exon
chr4:78126019-78126065
Length
209 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGT
5' ss Score
10.13
3' ss Seq
CTGCTGTGTCCCTCCTACAGTGT
3' ss Score
9.99
Exon sequences
Seq C1 exon
GGACTGCTGGAGCAGGATGGAGGTTGTATTCTCCCAGAGCAGTGTAACTGTTGGCATACCTCAGGAGAGGGAGCTAGGGTGACCCTAGCCCCTGGGCACCGCCTGCAGCTGGGTTGTAAGGAATG
Seq A exon
GTGAGTAACAGGGGAAAGAAGGGCAGAAGTGGGGAGGGCAAGGATACCCTGATCCAGCAGATGCCAAACTGAGAGCAAGTGACCCCAAGATGGCCAACTTTAAAGGTCTTTCACCTTGCACCAGAGGGCCCAGCTCTCAGGTTGTTGAGCCATTCAGGGCTCAGCAGATCCCTGTTTCCAAAGCCCACCCTGCTGTGTCCCTCCTACAG
Seq C2 exon
TGTATGCCAGAGCGGAGAGCTGCAGTGTTCCAGCCAAGGGTGCGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000025848:ENSRNOT00000035906:88
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:
PF0182612=TIL=PD(25.0=33.3)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGAGCAGGATGGAGGTTGTA
R:
CTTCGCACCCTTGGCTGG
Band lengths:
165-374
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]