RnoINT0137267 @ rn6
Intron Retention
Gene
ENSRNOG00000018170 | Slc27a1
Description
solute carrier family 27 member 1 [Source:RGD Symbol;Acc:620927]
Coordinates
chr16:20013630-20014002:+
Coord C1 exon
chr16:20013630-20013767
Coord A exon
chr16:20013768-20013837
Coord C2 exon
chr16:20013838-20014002
Length
70 bp
Sequences
Splice sites
5' ss Seq
CAGGTGCGG
5' ss Score
9.13
3' ss Seq
ATGTGCCCGTCTCCCTGCAGGTG
3' ss Score
14
Exon sequences
Seq C1 exon
GGGAACCTGGCCTTCTCGTGGGCCAGATCAACCAGCAAGACCCTCTGCGGCGCTTCGATGGCTATGTTAGTGACAGCGCCACCAACAAGAAGATTGCCCACAGCGTGTTCCGAAAGGGGGACAGCGCCTACCTTTCAG
Seq A exon
GTGCGGAGCCGCGTGGCCGGGCTGGCTGTCAGAATGCAAAGCCCGGTCCCATGTGCCCGTCTCCCTGCAG
Seq C2 exon
GTGACGTGCTAGTGATGGACGAGCTGGGGTACATGTACTTCCGTGACCGCAGCGGGGATACCTTCCGATGGCGCGGCGAGAACGTATCCACCACGGAGGTGGAAGCCGTGCTGAGCCGCCTGTTGGGCCAGACGGACGTGGCTGTGTATGGAGTGGCTGTGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000018170:ENSRNOT00000024659:10
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=0.036
Domain overlap (PFAM):
C1:
PF0050123=AMP-binding=FE(10.6=100)
A:
NA
C2:
PF0050123=AMP-binding=PD(5.5=42.9),PF131931=AMP-binding_C=PU(30.3=41.1)
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:
CTTCTCGTGGGCCAGATCAAC
R:
CGGAAGTACATGTACCCCAGC
Band lengths:
170-240
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]