RnoINT0138609 @ rn6
Intron Retention
Gene
ENSRNOG00000018525 | Slc4a9
Description
solute carrier family 4 member 9 [Source:RGD Symbol;Acc:628811]
Coordinates
chr18:29355875-29356324:+
Coord C1 exon
chr18:29355875-29356049
Coord A exon
chr18:29356050-29356190
Coord C2 exon
chr18:29356191-29356324
Length
141 bp
Sequences
Splice sites
5' ss Seq
CAGGTACGT
5' ss Score
10.65
3' ss Seq
TGAGGCCTGTCCACTTCCAGGGA
3' ss Score
8.35
Exon sequences
Seq C1 exon
GCTTTTTGGGGGTCTTGTTCAGGACGTGCGCCGGAAGGCATGCTGGTACCCCAGCGATTTCCTGGATGCCCTACATCCCCAGTGTTTCTCAGCGGTGCTCTACATTTACCTGGCCACAGTCACAAATGCCATCACTTTTGGGGGTCTTCTGGGAGATGCCACCGAAGGTGCCCAG
Seq A exon
GTACGTGGGTTTGTCGGATGGGATTGGCATCAACTTTGGTGTTCCACTTGCCTGACCTCTCGGCACCGTGAGTGGGGCTGAGAAGCTTGGGCTCCTATGTCGGGATGACTGGATCCTATGGTGAGGCCTGTCCACTTCCAG
Seq C2 exon
GGAGTGCTGGAGAGTTTCCTGGGCACAGCGGTGGCTGGAGCCACCTTCTGCCTGATGGCAGGTCAGCCCCTCACTATCCTTAGCAGCACAGGGCCAGTGCTGGTATTTGAGCGCCTACTTTTTTCTTTTAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000018525:ENSRNOT00000025137:9
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:
PF0095516=HCO3_cotransp=FE(11.3=100)
A:
NA
C2:
PF0095516=HCO3_cotransp=FE(8.6=100)
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:
TACCCCAGCGATTTCCTGGAT
R:
TAGGCGCTCAAATACCAGCAC
Band lengths:
246-387
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]