RnoINT0138607 @ rn6
Intron Retention
Gene
ENSRNOG00000018525 | Slc4a9
Description
solute carrier family 4 member 9 [Source:RGD Symbol;Acc:628811]
Coordinates
chr18:29355224-29355722:+
Coord C1 exon
chr18:29355224-29355378
Coord A exon
chr18:29355379-29355605
Coord C2 exon
chr18:29355606-29355722
Length
227 bp
Sequences
Splice sites
5' ss Seq
AAGGTACCT
5' ss Score
8.49
3' ss Seq
GAGGTTCCCATTCTGCCCAGATT
3' ss Score
4.66
Exon sequences
Seq C1 exon
CAATTCCAGTGGTCAGTTCGTAGGGCAAGCAATCTTCATGACCTTCTGGCAGCCCTAGATGCCTTCCTACAGGAGGTGACAGCTCTACCCCCAGGTCGGTGGGACAGGACAGCCCGGATTCCCCCGCCCAAATGCCTACCCTCTCAGCACAAAAG
Seq A exon
GTACCTGGGGGTTGTAATTTCACGCTGATCTTTCCCTTGGTTATGGGTCTGCCACACTCCCTAGCTAACCTGGGCATTCACAAGGAGCGATCTAACTTCTGATCAGTTCAGAGGCGCCCTCAGCCGCCACCTCCGTAGCCTCCAGGGGGCGGGGCGTCCTGTACCCAAAAGTCAAATCTGAGGTTGGTTGGAGGAGTCAGCCCATCTGAGGTTCCCATTCTGCCCAG
Seq C2 exon
ATTTCCCTCGAAACTGCAGGAGGTCACCAGCCTCTCCCGCCAGAGTGCTGCCTTGGCAGAAAACAAGCACCACCATGGGCCGCACACACCCATCCCAGAATTGCAAAGGACGGGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000018525:ENSRNOT00000025137:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.135 A=NA C2=0.475
Domain overlap (PFAM):
C1:
PF075658=Band_3_cyto=PD(25.7=69.2)
A:
NA
C2:
PF0095516=HCO3_cotransp=PU(1.2=15.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCAGTGGTCAGTTCGTAGGG
R:
CTGCCCGTCCTTTGCAATTCT
Band lengths:
268-495
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]