RnoINT0138594 @ rn6
Intron Retention
Gene
ENSRNOG00000018525 | Slc4a9
Description
solute carrier family 4 member 9 [Source:RGD Symbol;Acc:628811]
Coordinates
chr18:29358018-29358442:+
Coord C1 exon
chr18:29358018-29358206
Coord A exon
chr18:29358207-29358328
Coord C2 exon
chr18:29358329-29358442
Length
122 bp
Sequences
Splice sites
5' ss Seq
GTGGTGAGT
5' ss Score
8.95
3' ss Seq
AGAGTCCGCTCTATGGCCAGGTG
3' ss Score
5.35
Exon sequences
Seq C1 exon
CACCCAGGCCTGGTCAATGCTTCCTTCCTGCCACCATCCGAGTGCATCCGGCAAGGAGGTTACCCTCGTGGCCCTAGCTGTCACACGGTGCCAGACATCGCCTTCTTCTCCCTTCTCCTCTTCTTTACTTCTTTCCTCTGTGCCATTGCCCTCAAGCACGTAAAGAACAGCCGCCTCTTCCCCTCTGTG
Seq A exon
GTGAGTGTCATTTTCCTTTCTTCGTGGAAGGGCTGATTTTGGCCCTGGCTCCTTTCCCAAATGGGAAAGGGTAAAACAAACGGGATGGCAGGCCCAGACTAAAGAGTCCGCTCTATGGCCAG
Seq C2 exon
GTGCGAAAGGTGTTCAGCGACTTTTCCTCAGTCCTGGCCATCCTGCTGGGCTGTGGCCTTGACGCCTTTCTGGGCCTAGCCACACCGAAGCTCTTGGTACCCACAGAATTCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000018525:ENSRNOT00000025137:13
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(12.1=100)
A:
NA
C2:
PF0095516=HCO3_cotransp=FE(7.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CACCATCCGAGTGCATCCG
R:
CAAGAGCTTCGGTGTGGCTAG
Band lengths:
254-376
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]