RnoINT0138604 @ rn6
Intron Retention
Gene
ENSRNOG00000018525 | Slc4a9
Description
solute carrier family 4 member 9 [Source:RGD Symbol;Acc:628811]
Coordinates
chr18:29354249-29354589:+
Coord C1 exon
chr18:29354249-29354298
Coord A exon
chr18:29354299-29354431
Coord C2 exon
chr18:29354432-29354589
Length
133 bp
Sequences
Splice sites
5' ss Seq
AAGGTTTGT
5' ss Score
7.81
3' ss Seq
AACCTCTCTCTACTATGCAGCAC
3' ss Score
5.66
Exon sequences
Seq C1 exon
GGTCTAATGCTTTTAGAAAGGCTTCTCGTGATGAGGACACTCTGCTGAAG
Seq A exon
GTTTGTGGCCCTTCCTTTCAAAAGGCTGGGAGGAAGATCAGAAATTAACAGACACCCACCCTCTGCCAGGCTCCTCCGTTGTTGAGTTTCTGCCAACATCCCCCTCCCTAAGTAACCTCTCTCTACTATGCAG
Seq C2 exon
CACCAGAACCCCCTGAGACAGAAGCTGCCTCCAGGAGCTGAGGCAGCGGCAGTGTTGGCAGGAGAGCTGGGCTTCCTGGAACAGCCACTAGCGGCCTTTGTAAGACTGCAGAACCCGGTGGTGCTGGAGCCTCTTACAGAGGTGGTCCTGCCTAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000018525:ENSRNOT00000025137:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.412 A=NA C2=0.113
Domain overlap (PFAM):
C1:
PF075658=Band_3_cyto=PD(3.4=17.6),PF075658=Band_3_cyto=FE(11.4=100)
A:
NA
C2:
PF075658=Band_3_cyto=FE(37.1=100)
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:
GGTCTAATGCTTTTAGAAAGGCTTCT
R:
GGCAGGACCACCTCTGTAAGA
Band lengths:
202-335
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]