RnoINT0138447 @ rn6
Intron Retention
Gene
ENSRNOG00000014347 | Slc4a2
Description
solute carrier family 4 member 2 [Source:RGD Symbol;Acc:3711]
Coordinates
chr4:7270996-7271407:-
Coord C1 exon
chr4:7271242-7271407
Coord A exon
chr4:7271111-7271241
Coord C2 exon
chr4:7270996-7271110
Length
131 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAAG
5' ss Score
4.41
3' ss Seq
CCTCTCACCCCCATCCCCAGCGT
3' ss Score
6.55
Exon sequences
Seq C1 exon
CCACCCAAGTGATGAGAAAGAATTCTCCTTCCCCCGGAACATCTCAGCGGGCTCTCTGGGCTCTCTCCTGGGGCATCACCACGCCCAGGGGACTGAGAGTGATCCTCACGTCACTGAGCCTCTCATCGGTGGTGTTCCTGAGACCCGGCTGGAGGTGGATAGAGAG
Seq A exon
GTGAAGCGGGATGCATCCTACCTAGGGGCTGGCAGAAGGGGCTGAGCAAACCCGATGTGGAAATGCAGCCAGGGCGTGTGGGAGGTGCTGCCTGGACTGATTTGTCCTGTTCCTCTCACCCCCATCCCCAG
Seq C2 exon
CGTGAGCTGCCGCCCCCAGCCCCACCTGCAGGTATTACCCGCTCCAAGTCCAAGCATGAGCTGAAGCTGCTGGAGAAGATCCCTGAGAATGCAGAGGCCACAGTGGTCCTCGTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000014347:ENSRNOT00000019666:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.714 A=NA C2=0.462
Domain overlap (PFAM):
C1:
PF075658=Band_3_cyto=FE(20.4=100)
A:
NA
C2:
PF075658=Band_3_cyto=FE(14.1=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:
ATTCTCCTTCCCCCGGAACAT
R:
CTGTGGCCTCTGCATTCTCAG
Band lengths:
248-379
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]