RnoINT0138472 @ rn6
Intron Retention
Gene
ENSRNOG00000020138 | Slc4a3
Description
solute carrier family 4 member 3 [Source:RGD Symbol;Acc:3712]
Coordinates
chr9:82749529-82750116:+
Coord C1 exon
chr9:82749529-82749754
Coord A exon
chr9:82749755-82749897
Coord C2 exon
chr9:82749898-82750116
Length
143 bp
Sequences
Splice sites
5' ss Seq
AAGGTCAGA
5' ss Score
6.8
3' ss Seq
ACTCTTTCCTGTTTTCCCAGAAC
3' ss Score
8.89
Exon sequences
Seq C1 exon
CTGTTTCACGAGGCTGCCTACCAGGCAGATGACCGGCAGGACCTTTTGGGTGCCATCAGCGAGTTTTTGGACGGTAGCATTGTGATTCCCCCATCGGAGGTAGAGGGCCGAGACCTACTCCGTTCCGTGGCTGCCTTCCAGCGAGAGCTGCTGAGGAAGCGACGGGAGCGGGAACAGACCAAAGTGGAGATGACCACCCGGGGAGGCTATGTGGCCCCTGGCAAAG
Seq A exon
GTCAGACCCCAGCCCACTCCTGACTCCCTGAATCCTGTGAGCTCTTTCCATCCCTGCCTCCCAGAGCTGTGGGGGATGCAGCTAGGGCCTCCAGACAGGATGGAGTGGCCTGGGTTTCACCAGACTCTTTCCTGTTTTCCCAG
Seq C2 exon
AACTGTCTTTGGAGATGGGAGGCTCCGAGGCAACCTCTGAAGATGATCCCCTGCAGCGGACAGGCTCAGTGTTTGGGGGGCTAGTACGGGATGTGAAGCGCCGGTACCCACACTACCCCAGTGACCTACGGGATGCACTGCACTCTCAGTGTGTGGCTGCCGTGCTGTTCATTTATTTCGCAGCCCTCAGCCCTGCTATTACCTTTGGGGGTCTGCTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000020138:ENSRNOT00000027337:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.132 A=NA C2=0.162
Domain overlap (PFAM):
C1:
PF075658=Band_3_cyto=PD(13.3=47.4)
A:
NA
C2:
PF0095516=HCO3_cotransp=PU(28.9=77.0)
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:
GTGATTCCCCCATCGGAGGTA
R:
CGCTTCACATCCCGTACTAGC
Band lengths:
245-388
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]