RnoINT0137268 @ rn6
Intron Retention
Gene
ENSRNOG00000018170 | Slc27a1
Description
solute carrier family 27 member 1 [Source:RGD Symbol;Acc:620927]
Coordinates
chr16:20013838-20014472:+
Coord C1 exon
chr16:20013838-20014002
Coord A exon
chr16:20014003-20014325
Coord C2 exon
chr16:20014326-20014472
Length
323 bp
Sequences
Splice sites
5' ss Seq
CAGGCAAGC
5' ss Score
2.13
3' ss Seq
CAGCTGAGCCCTCTTTGCAGGAG
3' ss Score
3.91
Exon sequences
Seq C1 exon
GTGACGTGCTAGTGATGGACGAGCTGGGGTACATGTACTTCCGTGACCGCAGCGGGGATACCTTCCGATGGCGCGGCGAGAACGTATCCACCACGGAGGTGGAAGCCGTGCTGAGCCGCCTGTTGGGCCAGACGGACGTGGCTGTGTATGGAGTGGCTGTGCCAG
Seq A exon
GCAAGCTGGGGATACGGGGTGGTTGTGGGGTGCAGGAGCCCCGTGGCGTCCATCCAGAAGGGACCTGCAGGTACAGTACCCGCGGGCCATGCACAAGGTGAAAAACTGTGTTGCTGCTGACTGGGTGGGGCACTGGGTTGGGCATCTATTCACATTCCTATTATTGGGCCTCAGTTTGGGGATCCTTTCTCAGGATCAGAGGGCTGGAAACAGAGCCCCTTATAAAATGAATACTACCAGGACTAATGTTATCCCAGTCAGAGAGTAATGACCAGGACTAACTTCAGGTGGGCAGGGCGTTCTCAGCTGAGCCCTCTTTGCAG
Seq C2 exon
GAGTGGAGGGGAAAGCCGGCATGGCGGCCATTGCAGACCCCCACAACCAGCTGGACCCTAACTCAATGTACCAGGAATTGCAGAAGGTTCTTGCATCCTATGCCCAGCCCATCTTCCTGCGTCTTCTGCCCCAAGTGGATACAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000018170:ENSRNOT00000024659:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.036 A=NA C2=0.080
Domain overlap (PFAM):
C1:
PF0050123=AMP-binding=PD(5.5=42.9),PF131931=AMP-binding_C=PU(30.3=41.1)
A:
NA
C2:
PF131931=AMP-binding_C=FE(64.5=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:
GTGACGTGCTAGTGATGGAC
R:
TGTTGTATCCACTTGGGGCAG
Band lengths:
311-634
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]