RnoINT0138603 @ rn6
Intron Retention
Gene
ENSRNOG00000018525 | Slc4a9
Description
solute carrier family 4 member 9 [Source:RGD Symbol;Acc:628811]
Coordinates
chr18:29353796-29354298:+
Coord C1 exon
chr18:29353796-29353909
Coord A exon
chr18:29353910-29354248
Coord C2 exon
chr18:29354249-29354298
Length
339 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGA
5' ss Score
10.06
3' ss Seq
TGTGTACTCCTGATTTGCAGGGT
3' ss Score
7.59
Exon sequences
Seq C1 exon
AGCAGGTCGTCAGTGGCGAGTCGCTGAGCCCAGAACTGAGAGGGCAGCTTCAGGCCTTGCTCCTGCAGAGACCCCAGCACCACATCCAGACCACAGGCATCCGGCCCTGCAGAG
Seq A exon
GTAAGAGAGCCCTCTTTGGGCCTAGGATCAAGATTCTGGGATAGGAAGGTCCCAGGAATCTTCTACGTTTTCTTGAGTCAGGAATGGCCTAGTCTTGTCTTAATCCTCAAGGCAAGAGAAAGCTGGTGGCTATGGTGAGGGCAGAGGAGAGGGAGTGCCGTGGACATAACAGCCCAGGCTCTCCAATGGGCGTACTTGGATGTGCTAGGAGTTCTTCATGCGTTATCTTCTCATCAAATCTTTAGTTTCCATGGAGGGCTGTATCACCGTTATCCCCTAGTTAGGAAGCCCTGTGAGCCTGCCCCTAAAGCTTGTGCTCTGTGTACTCCTGATTTGCAG
Seq C2 exon
GGTCTAATGCTTTTAGAAAGGCTTCTCGTGATGAGGACACTCTGCTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000018525:ENSRNOT00000025137:3
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=0.412
Domain overlap (PFAM):
C1:
PF075658=Band_3_cyto=FE(42.7=100),PF075658=Band_3_cyto=PU(2.9=10.3)
A:
NA
C2:
PF075658=Band_3_cyto=PD(3.4=17.6),PF075658=Band_3_cyto=FE(11.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Chicken
(galGal4)
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]