RnoINT0137605 @ rn6
Intron Retention
Gene
ENSRNOG00000015262 | Slc34a1
Description
solute carrier family 34 member 1 [Source:RGD Symbol;Acc:3708]
Coordinates
chr17:9759168-9759599:-
Coord C1 exon
chr17:9759488-9759599
Coord A exon
chr17:9759364-9759487
Coord C2 exon
chr17:9759168-9759363
Length
124 bp
Sequences
Splice sites
5' ss Seq
GCGGTGAGC
5' ss Score
8.02
3' ss Seq
AATGTGATATCCCTGCTCAGGGC
3' ss Score
6.9
Exon sequences
Seq C1 exon
TGTTGGAGGTGAGCTCCGCCATTCCGATAATCATGGGCTCCAACATCGGGACCTCTGTCACCAACACCATTGTGGCCCTGATGCAGGCGGGGGACAGGACTGACTTCAGGCG
Seq A exon
GTGAGCTGGGGAAGGAGGGTGGTGGTTCATCCTTGTTGGGGAGAAGGCAGGACTAAGTGCCGGGACTCCTCAGCTTGGGCACGCTTTGGGTCTAGCGGTCCTGCAATGTGATATCCCTGCTCAG
Seq C2 exon
GGCTTTTGCAGGGGCAACAGTGCATGACTGCTTTAACTGGCTGTCTGTTCTGGTCCTGCTGCCCCTGGAGGCTGCCACGGGCTACCTGCACCACGTCACCGGGCTTGTGGTTGCCTCCTTCAACATCCGTGGTGGCCGTGATGCCCCTGACCTTCTCAAGGTTATCACAGAGCCCTTCACAAAGCTTATCATCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000015262:ENSRNOT00000033749:6
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:
PF0269010=Na_Pi_cotrans=FE(25.5=100)
A:
NA
C2:
PF0269010=Na_Pi_cotrans=PD(29.0=63.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AATCATGGGCTCCAACATCGG
R:
TTGAGAAGGTCAGGGGCATCA
Band lengths:
243-367
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]