RnoINT0137463 @ rn6
Intron Retention
Gene
ENSRNOG00000005900 | Slc2a6
Description
solute carrier family 2 member 6 [Source:RGD Symbol;Acc:1309317]
Coordinates
chr3:5571574-5572521:-
Coord C1 exon
chr3:5572418-5572521
Coord A exon
chr3:5571783-5572417
Coord C2 exon
chr3:5571574-5571782
Length
635 bp
Sequences
Splice sites
5' ss Seq
CAAGTACCA
5' ss Score
-0.16
3' ss Seq
ACCGAAGCCTCTCTCACCAGGTC
3' ss Score
6.49
Exon sequences
Seq C1 exon
GTGTACGTGTCTGAGATTGCACCCCCGGGTGTTCGCGGGGCCCTGGGGGCCACGCCGCAGCTCATGGCCGTGTTTGGATCCCTGTCTCTCTATGCCCTTGGCAA
Seq A exon
GTACCATCCTGTGCTTGAGCATTCAGGTTCTGAGATGGGGGAATGGGACTCTCCCTGAAGAAACCCAGCAGTGATAAACAGGACGCCTGGTTTCCTAGCCCCAGTAGGCACCGTGTCTCTGAGCATTGAGGCCTATCCTTCTGCAGCAGCTTCGGACGGACCACCTCCCCACAGCACAGGGGTGTCCTGTTAGTTCATGGGGGGAGCCCATACAGGAGTTTGCCTGCCTGGGTGGTGGGGGTGAGACACCCAGGTCCAGCCTTCCCACTATTCTCCCACTATACTGAGACCGTGTAAGGATCTCACTTTAGTACCAGGGTCCAGGCAATTCTTTTTTTTTTTTTAAAGATTTATTCATTTATTACATATAAGTACACTGTAGCTGTCTTCAGACACACCAGAAGAGGGTATCGGATCTCTTTACAGATGGTTGTGAGCCACCATGTGGTTGCTGGGAATTGAACTCAGGACCTCTGGAAGAGTAGTCGGGTGCTCTTAATCGCTGAGCCATCTCTCCAGCCCCAGGCAATTCTTAAAGTCCCACATTGCCCCTCCTACAGGGACTTGGGCAGTCGGGAAGCTAGGCTGGGAGAGCAACAGAGGGCCCATCTGCTCACCGAAGCCTCTCTCACCAG
Seq C2 exon
GTCTTCTGCTGCCTTGGCGATGGCTTGCCGTGGCCGGGGAGGGGCCTGTTCTGGTCATGATCCTGCTGCTTAGCTTCATGCCCAACTCGCCTCGCTTCCTACTGTCTAAGAGCCGGGATGAGGAAGCACTGCAGGCGCTGATCTGGCTGCGAGCGGACTCTGAGGTCCACTGGGAGTTTGAGCAGATCCAGGACAACGTGCGGAGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000005900:ENSRNOT00000008034:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0008319=Sugar_tr=PU(21.6=94.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Mouse
(mm10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TACGTGTCTGAGATTGCACCC
R:
CTGTCTCCGCACGTTGTCC
Band lengths:
310-945
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]