RnoINT0137601 @ rn6
Intron Retention
Gene
ENSRNOG00000015262 | Slc34a1
Description
solute carrier family 34 member 1 [Source:RGD Symbol;Acc:3708]
Coordinates
chr17:9761672-9762069:-
Coord C1 exon
chr17:9761940-9762069
Coord A exon
chr17:9761822-9761939
Coord C2 exon
chr17:9761672-9761821
Length
118 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGC
5' ss Score
10.22
3' ss Seq
CAATCAGACTCCCTCCTCAGTCC
3' ss Score
3.85
Exon sequences
Seq C1 exon
GACTCATTGTGGGTGCCCATCATGATGTCCTACAGCGAGAGATTGGGGGGACCGGCTGTCTCCCCACTTCCAGTCCGTGGGAGACACATGGTGCATGGGGCAGCCTTTGCTTATGTCCCCAGCCCACAAG
Seq A exon
GTAAGCATCACTCCCATACCGAGGCCTGCTGTCCCACAGTTGCCTACTGCTGTCCCTCTACCTATTTCTCCTGGGCTGCTGAGGCCTCTGAGAACTCCCAATCAGACTCCCTCCTCAG
Seq C2 exon
TCCTGCACAGGATTCCTGGGACAACCACCTATGCCATCTCCAGTCTGAGCCCGGTAGCCCTCACAGAGCACAGCTGTCCCTATGGGGAGGTCCTGGAATGTCATGACCCGCTCCCTGCCAAGCTGGCCCAGGAAGAGGAGCAAAAGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000015262:ENSRNOT00000033749:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.196
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCTACAGCGAGAGATTGGGG
R:
CTTTTGCTCCTCTTCCTGGGC
Band lengths:
249-367
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]