RnoINT0137694 @ rn6
Intron Retention
Gene
ENSRNOG00000018649 | Slc35c2
Description
solute carrier family 35 member C2 [Source:RGD Symbol;Acc:1311250]
Coordinates
chr3:161805427-161805765:-
Coord C1 exon
chr3:161805597-161805765
Coord A exon
chr3:161805511-161805596
Coord C2 exon
chr3:161805427-161805510
Length
86 bp
Sequences
Splice sites
5' ss Seq
TCGGTGAGC
5' ss Score
9.1
3' ss Seq
TGTCGTGTCCTGTCCTGCAGGTC
3' ss Score
12.41
Exon sequences
Seq C1 exon
CGTGCAGCGCTGGTCCTGGTGGTCCTGCTCATTGCTGGCGGCCTCTTCATGTTTACCTATAAGTCCACGCAGTTCAACGTGGAGGGCTTTGCCTTGGTGCTGGGGGCTTCGTTCATTGGCGGCATCCGCTGGACCCTTACACAAATGCTTCTTCAGAAAGCTGATCTCG
Seq A exon
GTGAGCCCCCCGGGGAGGGTTGGGGGCCAGGTAAACCCAGGCTAACAGGCCCGGCCTGACAATAGTTGTCGTGTCCTGTCCTGCAG
Seq C2 exon
GTCTCCAGAATCCCATTGACACCATGTTCCACCTGCAGCCACTCATGTTTCTGGGGCTCTTCCCTCTCTTTGCCGTATTCGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000018649:ENSRNOT00000025238:7
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:
PF0315111=TPT=PU(18.5=49.1)
A:
NA
C2:
PF0315111=TPT=FE(18.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGCGGCCTCTTCATGTTTAC
R:
GCAGGTGGAACATGGTGTCAA
Band lengths:
170-256
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]