RnoINT0137912 @ rn6
Intron Retention
Gene
ENSRNOG00000004966 | Slc38a11
Description
solute carrier family 38, member 11 [Source:RGD Symbol;Acc:1306005]
Coordinates
chr3:51416063-51416646:-
Coord C1 exon
chr3:51416608-51416646
Coord A exon
chr3:51416184-51416607
Coord C2 exon
chr3:51416063-51416183
Length
424 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAA
5' ss Score
8.59
3' ss Seq
CACTTTATCTATTCAAACAGAGA
3' ss Score
6.36
Exon sequences
Seq C1 exon
ATGAGCTACCAGCAGCCACAGCTGAGGGGTCCTCTGCAG
Seq A exon
GTAAAACTGGCAACGGGGGCGGGGGGGGGGGGGCAGAAGCTGAACAACTTCCATAAGTTTCAGGCTGGGGTCTTGGTTTGGCAAAAAGGGGTAGATCTGACTTCATCTAACCTACGCCGATTTGGCAAACACTTTTCAATAACATTAGTAACCTTTTTAATTTCATGAGGTTGACTCTTGACAAACTCGAGTTGGGTCAAAGTGGTTGGGCAGCTACAGCATGGAGACTTGTAGAGACCTAAGGGTAGACTTTAAGTTCTTTTGGATTACCGGCCATTCTTGTTTTCACGGCTTATTGACATATTATTAACACTATAGGCATAACTTGGTGGCATTACTATGTTTGAATCCTGAATTGCTTATTCGTCTGACGTTTTTCATTTTCAAACTAGTGAATATTTAATCACTTTATCTATTCAAACAG
Seq C2 exon
AGAGAGACAGACCCGAGTGACAGAGAGAGCCTGGTCTCCGGACATGAACACGGAGGGAAATCGAGTCAGTCTGCAGCTGTTTTCAATGTAGTCAATTCTGTTATAGGATCTGGGATAATAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000004966:ENSRNOT00000006634:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.615 A=NA C2=0.390
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0149013=Aa_trans=PU(22.9=53.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]