RnoINT0137608 @ rn6
Intron Retention
Gene
ENSRNOG00000015262 | Slc34a1
Description
solute carrier family 34 member 1 [Source:RGD Symbol;Acc:3708]
Coordinates
chr17:9752975-9753438:-
Coord C1 exon
chr17:9753375-9753438
Coord A exon
chr17:9753143-9753374
Coord C2 exon
chr17:9752975-9753142
Length
232 bp
Sequences
Splice sites
5' ss Seq
AATGTAAGT
5' ss Score
8.62
3' ss Seq
TCCTGATACCACCCTTTTAGGCA
3' ss Score
6.02
Exon sequences
Seq C1 exon
GCTTCCACTTCTATGTCCAGGGTAGAGGCCATTGGCAGCCTTGCAAACACCACCATGGAGAAAT
Seq A exon
GTAAGTATCTCTAACATGGGAGGTAACCCACATGACAGCCCTGCACAGCCGTGCCCTGGCTGGCCGCTGCTCTGTCCAGCCCCGGGAAAAGCAGCTGACCTCTGGGCTTATAGCAGGGCCTGGTGCAGAGGCTGAAGAAGCTTGAGGTGGGGCGTCTTAAGCTCACAGCCCAGTGGGTTGGGAAAGGTGGGAGGCAGGTGTAGGGTAAACACTCCTGATACCACCCTTTTAG
Seq C2 exon
GCAACCATATCTTCGTGGATACTGGGCTGCCCGACCTGGCCGTGGGGCTCATTCTGCTGGCGGGCTCCCTGGTGGTCCTGTGCACTTGTCTTATCCTCCTCGTCAAGATGCTCAACTCTCTGCTGAAGGGCCAAGTGGCCAATGTCATCCAGAAGGTCATCAACACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000015262:ENSRNOT00000033749:9
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:
NO
A:
NA
C2:
PF0269010=Na_Pi_cotrans=PU(19.3=47.4)
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:
GCTTCCACTTCTATGTCCAGGG
R:
GTGTTGATGACCTTCTGGATGACA
Band lengths:
230-462
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]