RnoINT0138469 @ rn6
Intron Retention
Gene
ENSRNOG00000020138 | Slc4a3
Description
solute carrier family 4 member 3 [Source:RGD Symbol;Acc:3712]
Coordinates
chr9:82747755-82748390:+
Coord C1 exon
chr9:82747755-82747938
Coord A exon
chr9:82747939-82748290
Coord C2 exon
chr9:82748291-82748390
Length
352 bp
Sequences
Splice sites
5' ss Seq
GAGGTTAGT
5' ss Score
7.15
3' ss Seq
TTCCAGTTCTGCGTCCTCAGAAG
3' ss Score
5.09
Exon sequences
Seq C1 exon
CCATCCCAACGATGACAAGGACAGTGGCTTTTTCCCTCGAAATCCGTCAAGCTCCAGTGTGAACTCAGTCTTGGGGAATCACCACCCAACTCCTAGTCATGGCCCTGATGGTGCAGTACCCACCATGGCTGATGACCTAGGGGAGCCAGCCCCATTGTGGCCACATGACCCTGATGCAAAGGAG
Seq A exon
GTTAGTGTACCTTGCCTGACCTGGGCCTGGGAATCTAGAATATGCCCAGTTTAGTTGAGATCGGGAGGGCTGGGTGCCTGGCACCGTGCCAAGCATGCTGTGGGTCTGGGGGCACACAAGGGCTCCCCGTGCTGACGATACAGGGTTTTGGTGTGGTGATGTGCCTGACCCACGGGAGTCATTCAGCTGATAAGGCTGAGGTGGGGTAGGGCATAGAGGAGGGTGAAGTGTCCTCCTAAGAGGCTGAAGAGAGAGGAAGCAGAGCTTAGACCTAGGGCCAGGACAAGGGCTGGAAGGGCCTACCGTGGCCTCTAGGCTGGGTCCCAGCCCTATTCCAGTTCTGCGTCCTCAG
Seq C2 exon
AAGCCCCTCCACATGCCTGGGGGAGACGGTCACCGGGGGAAAAGCCTGAAACTGCTGGAGAAGATCCCTGAGGACGCTGAGGCCACTGTCGTGCTTGTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000020138:ENSRNOT00000027337:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.952 A=NA C2=0.588
Domain overlap (PFAM):
C1:
PF075658=Band_3_cyto=FE(22.6=100)
A:
NA
C2:
PF075658=Band_3_cyto=FE(12.2=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:
AACGATGACAAGGACAGTGGC
R:
CACGACAGTGGCCTCAGC
Band lengths:
270-622
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]