RnoINT0138519 @ rn6
Intron Retention
Gene
ENSRNOG00000010378 | Slc4a5
Description
solute carrier family 4 member 5 [Source:RGD Symbol;Acc:1303009]
Coordinates
chr4:114967356-114968401:+
Coord C1 exon
chr4:114967356-114967530
Coord A exon
chr4:114967531-114968267
Coord C2 exon
chr4:114968268-114968401
Length
737 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
CCTGCTCTTTCACACAACAGGGA
3' ss Score
7.04
Exon sequences
Seq C1 exon
GTTTTTTGGAGGACTGCGTCTGGATGTAAAGAGGAAGCTGCCCTGGTTCCCAAGTGACTTCTATGATGGCTTCCACATCCAGTCCATCTCTGCTGTCCTGTTCATCTACCTCGGCTGTATCACCAATGCTATCACCTTCGGTGGGCTTCTGGGGGATGCCACAGACAATTATCAG
Seq A exon
GTGAGTGTGAGCTGGGTGTACATGGTGAGAGTAAGGAGTTTCAGTTTGTAATCTCAACACCATGGTTGTGTCTACAGCCCCAAGTCTGGTCATCACTTACTGTAACTGTTTATTCCTCCAATAAAATAACAATTTTATGGATGACATAAATAGGCTGGACTTTTAGGGAGATCACTCACATTGATGTTTGCTACTTTCCCCACTGATATTTAATGAACTCTATCAGCATGTTAAGTTGGCTAATTATGACCTTGTCCCTACATTTTAATTTTATTTTTAAATTATTTTGTTATGTATGTGGGTGTTTCTGCTTGCATGTATATCTGTGTACTGTGTGTACCCCTGAAGGCTGGGAACCTGAGGCACACTGCACAGCCTGTAGGCAGCTCAACAGGCTGAAGACTTGTCCTTTCCAGGTGGTTCAATTGCTCTGAGCCTCTTCCAGACAGCTCAGTTTGTCTGAAACTATCTCTCAGCAGGCCTTATATTTATGTGTGTGGTGGGGGACTGACTAGTTTATCTTGTCAGCTTCAGGGACTTCCTGAGGCTGTAAAGTTGTTCATTTCCTGAATTTAAGGAGCATTCCTGTAGGATGGAAAGTTTCACTCCCTCTTCTCACATAAAGATGCCATGTCCTAATGAGCTTCCCTCCAAGATAGAAGGTTTCAATCTCAGAGGAAACTGCTGTACAACAGTCTCTTCTGTGTGCCTGAGCCGCCTGCTCTTTCACACAACAG
Seq C2 exon
GGAGTAATGGAGAGCTTCCTGGGCACTGCCATGGCTGGCAGCTTGTTCTGCCTCTTCTCGGGGCAGCCTCTCATCATCCTCAGCAGCACAGGACCCATCCTCATCTTTGAAAAGCTCCTCTTTGACTTCAGCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000010378:ENSRNOT00000014249:13
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(11.1=100)
A:
NA
C2:
PF0095516=HCO3_cotransp=FE(14.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTTTTGGAGGACTGCGTCTGG
R:
TGCTGAAGTCAAAGAGGAGCT
Band lengths:
306-1043
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]