RnoINT0137298 @ rn6
Intron Retention
Gene
ENSRNOG00000014369 | Slc27a4
Description
solute carrier family 27 member 4 [Source:RGD Symbol;Acc:1307383]
Coordinates
chr3:8372855-8373336:+
Coord C1 exon
chr3:8372855-8372992
Coord A exon
chr3:8372993-8373171
Coord C2 exon
chr3:8373172-8373336
Length
179 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGC
5' ss Score
8.05
3' ss Seq
ACTAACTGTACCCTCCCTAGGTG
3' ss Score
9.45
Exon sequences
Seq C1 exon
GCCAGCCAGGCCAGCTGGTGGGTCGCATCATCCAGCAGGACCCCCTACGCCGTTTTGATGGCTACCTCAACCAGGGTGCCAACAACAAGAAGATTGCTAGTGATGTCTTCAAGAAAGGGGACCAAGCCTACCTCACTG
Seq A exon
GTGAGCCCCCTGCTGTTTGCTACCCCTTCCAGACGGGACAGGGAGAGATGAGGAGAGCTTCCACAGTCTCAGAGAGCACATCCTGGACTCCCCGAAGCCCAGCCCCTGTGGTAACTGTCTGACTCAACCTGGGTCTGGAGCCAGGCTGGCCCAGTCATGACTAACTGTACCCTCCCTAG
Seq C2 exon
GTGACGTGCTGGTGATGGATGAGCTGGGCTACCTGTACTTCCGAGACCGCACAGGGGACACGTTCCGCTGGAAAGGGGAGAATGTGTCTACCACTGAAGTGGAGGGCACACTCAGCCGCCTGCTTCAGATGGCAGATGTGGCTGTTTATGGTGTTGAGGTGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000014369:ENSRNOT00000019500:10
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=0.054
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:
CCCCTACGCCGTTTTGATGG
R:
AACAGCCACATCTGCCATCTG
Band lengths:
243-422
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]