RnoINT0138480 @ rn6
Intron Retention
Gene
ENSRNOG00000020138 | Slc4a3
Description
solute carrier family 4 member 3 [Source:RGD Symbol;Acc:3712]
Coordinates
chr9:82752888-82753581:+
Coord C1 exon
chr9:82752888-82753141
Coord A exon
chr9:82753142-82753411
Coord C2 exon
chr9:82753412-82753581
Length
270 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGC
5' ss Score
7.23
3' ss Seq
GCTCTGTGTTACTCTTCTAGGTC
3' ss Score
11.1
Exon sequences
Seq C1 exon
GCTCATCGTCAGCCAGAAGGCACGGAGGCTACTCAAGGGTTCCGGCTTCCATCTTGACCTGCTGTTGATTGGCTCTTTGGGTGGCCTCTGTGGGCTCTTCGGCTTGCCCTGGCTCACAGCCGCCACTGTCCGCTCTGTCACCCATGTCAACGCGTTGACGGTGATGCGTACTGCCATTGCACCTGGTGACAAGCCCCAGATCCAGGAGGTGCGGGAGCAGCGAGTCACCGGGGTGCTCATTGCCAGCCTCGTGG
Seq A exon
GTGAGCACCGGACTCTCTCCATAGACTTGCTTTCTTGGGCCCGACGGCTTTAAAAACCTCATCATCCCGGGCTTGACCCTCCTGAATCTGCAGGCTCATCAGCTTGGCTCTCCCCCAGGTCTCCAACCTGTCACCTCACACTGGGATAGGTTCCCTGCTTCCCCTTTGTCCTGATGCATCTCTATGTGGGAGGCCCAGATTGGTCAGATCAACACATCCCTTGCCAGGGTCTGCCTGAGCAGGATAGGCAGCTCTGTGTTACTCTTCTAG
Seq C2 exon
GTCTGTCTATCGTCATGGGAGCTGTGCTGCGCAGGATCCCGTTGGCCGTGCTCTTTGGGATTTTCCTGTACATGGGAGTCACATCACTGTCTGGTATCCAGTTGTCCCAGCGTCTGCTGCTCATTTTCATGCCAGCCAAGCATCACCCCGAGCAGCCCTACGTGACCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000020138:ENSRNOT00000027337:20
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=0.000
Domain overlap (PFAM):
C1:
PF0095516=HCO3_cotransp=FE(28.4=100)
A:
NA
C2:
PF0095516=HCO3_cotransp=FE(18.7=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:
TTGATTGGCTCTTTGGGTGGC
R:
AGACGCTGGGACAACTGGATA
Band lengths:
305-575
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]