RnoINT0137465 @ rn6
Intron Retention
Gene
ENSRNOG00000005900 | Slc2a6
Description
solute carrier family 2 member 6 [Source:RGD Symbol;Acc:1309317]
Coordinates
chr3:5570502-5571310:-
Coord C1 exon
chr3:5571158-5571310
Coord A exon
chr3:5570611-5571157
Coord C2 exon
chr3:5570502-5570610
Length
547 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGA
5' ss Score
7.54
3' ss Seq
CCCAGTCCCCTGCCCCACAGCCC
3' ss Score
7.08
Exon sequences
Seq C1 exon
AGTAGCCGAGTGTCGTGGGCGGAGGCCTGGGAGCCCCGTGTGTACCGGCCTATTCTCATTACAGTGCTGATGCGTTTTCTGCAGCAGCTGACAGGCATCACTCCCATCCTCGTGTACCTACAGACCATCTTCGACAGCACGTCCGTGGTGCTG
Seq A exon
GTGAGAACCCAGGCGGCCAGCACTGCCCAGAGTCCCTAGACTGTTGAGAAGAGTGCAGGCAGGAAGTTAGGTGGCTGAGACCTAGATGCCTCTCATTCACGACCTGCCTCAATTGCATTCTTCTTAATTGAAGCTTACTGCTTTAAAATATACAGAGTAACAAAAGAAGGCACTTTGCTAGAATATGGAGGTCTTGGGATCTTGGCCCCAGACTCAGATCCCAAGTGGGCCTGTGTGGTCCCTAGGAGCTCGGTTCTTCCAGCAGTGAGGTGTGAAGATGAGAATGACTCAGATCTACCATTACTGTCCGACCAGGGTCTGTGCCCACTACAGCCAGTAGTAGACATAGTAGATAAGCCCCTGCTGGGAAACCAAATAAAGGTTGGGGCACAGAAAAAGTACCTAGGGATCGATAGCTAGGATAGCTCATAGCCAAAGGGGGGAGCAGTGACCCTGGACTTAGGGTTGAGTGTCCTTAGTGCATTAGGGTCAGGGTAGGGTGTAGGACACCAGGCCAGGTCTCTCAGCCCAGTCCCCTGCCCCACAG
Seq C2 exon
CCCTCCCAGCAGGATGCAGCTATAGTTGGTGCTGTGAGGCTCCTGTCTGTGCTGATTGCCGCTGTCACCATGGACCTGGCCGGCCGGAAAGTCCTGCTCTATGTGTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000005900:ENSRNOT00000008034:6
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:
PF0008319=Sugar_tr=FE(16.4=100)
A:
NA
C2:
PF0008319=Sugar_tr=FE(11.8=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:
AGTAGCCGAGTGTCGTGGG
R:
CTGACACATAGAGCAGGACTTTCC
Band lengths:
262-809
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]