RnoINT0138454 @ rn6
Intron Retention
Gene
ENSRNOG00000014347 | Slc4a2
Description
solute carrier family 4 member 2 [Source:RGD Symbol;Acc:3711]
Coordinates
chr4:7266489-7266932:-
Coord C1 exon
chr4:7266690-7266932
Coord A exon
chr4:7266579-7266689
Coord C2 exon
chr4:7266489-7266578
Length
111 bp
Sequences
Splice sites
5' ss Seq
CGGGTATGT
5' ss Score
8.79
3' ss Seq
CATGGTGCTTGCCCTCTTAGATC
3' ss Score
9.08
Exon sequences
Seq C1 exon
ATCTTTCAGGAGCACCCCCTCCATGGCTGCTCAGTCTCCAACGACTCAGAGGCAGACAGCAGCAGTAACAATATGACTTGGGCAGCAACCACACTGGCACCAGACAACAGCAGTGCGTCTGGGCAGGAGAGGCCCCGGGGCCAGCCTAACACTGCCTTGCTATCACTGGTGCTGATGGCCGGCACTTTCTTCATCGCCTTCTTCCTGCGCAAATTCAAGAACAGCCGGTTCTTCCCTGGCCGG
Seq A exon
GTATGTACGTTTGCAGACTGGAGGAGCTGAAGACAGGAAGGGGATGGCTTGAAGTACCGGGAAATTGCATGGCCTATCCCAGGCCTCTGAGCATGGTGCTTGCCCTCTTAG
Seq C2 exon
ATCCGGCGGGTAATTGGGGACTTTGGGGTGCCCATCGCGATCCTCATCATGGTGCTTGTGGATTACAGTATTGAGGATACCTACACCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000014347:ENSRNOT00000019666:17
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.099 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0095516=HCO3_cotransp=FE(16.3=100)
A:
NA
C2:
PF0095516=HCO3_cotransp=FE(5.9=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:
TGCTCAGTCTCCAACGACTCA
R:
CCCAAAGTCCCCAATTACCCG
Band lengths:
243-354
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]