RnoINT0137603 @ rn6
Intron Retention
Gene
ENSRNOG00000015262 | Slc34a1
Description
solute carrier family 34 member 1 [Source:RGD Symbol;Acc:3708]
Coordinates
chr17:9761238-9761583:-
Coord C1 exon
chr17:9761455-9761583
Coord A exon
chr17:9761382-9761454
Coord C2 exon
chr17:9761238-9761381
Length
73 bp
Sequences
Splice sites
5' ss Seq
GAGGTAGGG
5' ss Score
7.81
3' ss Seq
TGCTGGCTTGTGTTCTCCAGGGA
3' ss Score
8.37
Exon sequences
Seq C1 exon
AGCCCAGGCTGTCCCAGAAGCTTGCCCAGGTTGGCACAAAGCTCCTGAAGGTGCCGTTGATGCTAGGCTTCCTTTACCTCTTTGTCTGCTCCCTGGACGTGCTCAGCTCTGCCTTCCAACTGGCCGGAG
Seq A exon
GTAGGGCCCGGGTGGAGGAGGTCAGGGGAAGGGTCCAGAAGGACCTCAGTTGATGCTGGCTTGTGTTCTCCAG
Seq C2 exon
GGAAAGTGGCTGGGGACATCTTCAAGGACAATGCCATCCTGTCCAACCCAGTGGCAGGGCTGGTGGTGGGAATCCTGGTGACAGTTCTGGTGCAGAGCTCCAGCACCTCGACATCCATCATTGTCAGCATGGTCTCCTCTGGCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000015262:ENSRNOT00000033749:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.114 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0269010=Na_Pi_cotrans=PU(11.7=38.6)
A:
NA
C2:
PF0269010=Na_Pi_cotrans=FE(33.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAAGGTGCCGTTGATGCTAGG
R:
GAGCTCTGCACCAGAACTGTC
Band lengths:
183-256
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]