RnoINT0137625 @ rn6
Intron Retention
Gene
ENSRNOG00000010451 | Slc34a3
Description
solute carrier family 34 member 3 [Source:RGD Symbol;Acc:708551]
Coordinates
chr3:2452685-2453152:-
Coord C1 exon
chr3:2453029-2453152
Coord A exon
chr3:2452772-2453028
Coord C2 exon
chr3:2452685-2452771
Length
257 bp
Sequences
Splice sites
5' ss Seq
CAGGTATCA
5' ss Score
7.33
3' ss Seq
ACCTGACCTGACCCCTGCAGGGA
3' ss Score
7.29
Exon sequences
Seq C1 exon
ATCTAGGATTGGGCCTGGGTCTTCCACTTCTTGAAATCCATGCCGAATTCCCTTGCTGGCGACCAGGTCCCCAACCCTACTCTGGATGCAATTGGCCTGGTGGACTGGAGTCTGAGAAATGCAG
Seq A exon
GTATCAGGTATCCCTGGGTTCCTATCTCTTGACAACTGCCCTAGGCAAAAATGAGATTTCACTAGCTTTCTTCTTGAAGTTGAGTGGTCTCTTCACACCTTTAACCTGAGCCAGACTCATTGGGCCCATTCCCCACCCCTGCTTCCGTACTTCACCCATGGCCCTTGCCCCCCGCCCCAGCCCACTCCCCTCTGACTTTCTTCTGTCCTTCCCCTTGGGAATTCTATATACAGCCCTACCTGACCTGACCCCTGCAG
Seq C2 exon
GGACCTCTGGTTCCACCCCAGGCTTAGAGGAGGGAGGCACAGACCCCTGGACCTTCTCTCAGCTGAAGAATACTGACCAACTCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000010451:ENSRNOT00000014060:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.241 A=NA C2=0.445
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Mouse
(mm10)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATCTAGGATTGGGCCTGGGTC
R:
TGAGTTGGTCAGTATTCTTCAGCTG
Band lengths:
208-465
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]