RnoINT0137299 @ rn6
Intron Retention
Gene
ENSRNOG00000014369 | Slc27a4
Description
solute carrier family 27 member 4 [Source:RGD Symbol;Acc:1307383]
Coordinates
chr3:8373172-8373558:+
Coord C1 exon
chr3:8373172-8373336
Coord A exon
chr3:8373337-8373411
Coord C2 exon
chr3:8373412-8373558
Length
75 bp
Sequences
Splice sites
5' ss Seq
CAGGTACGT
5' ss Score
10.65
3' ss Seq
TGTGTACCCTCCCACTCCAGGAG
3' ss Score
8.99
Exon sequences
Seq C1 exon
GTGACGTGCTGGTGATGGATGAGCTGGGCTACCTGTACTTCCGAGACCGCACAGGGGACACGTTCCGCTGGAAAGGGGAGAATGTGTCTACCACTGAAGTGGAGGGCACACTCAGCCGCCTGCTTCAGATGGCAGATGTGGCTGTTTATGGTGTTGAGGTGCCAG
Seq A exon
GTACGTGTGGAGAGGAGGGGATGGTGGGCATGTCAGGACATTGCCTGCCACTGACTGTGTACCCTCCCACTCCAG
Seq C2 exon
GAGCTGAGGGCCGAGCAGGAATGGCTGCTGTGGCAAGCCCCACTAGCAACTGTGACCTGGAGAGCTTTGCACAGACCTTGAAAAAGGAGCTGCCCCTGTACGCCCGCCCCATCTTCCTCCGCTTCTTGCCTGAGCTGCACAAAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000014369:ENSRNOT00000019500:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.054 A=NA C2=0.000
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:
CGCTGGAAAGGGGAGAATGTG
R:
GCAAAGCTCTCCAGGTCACAG
Band lengths:
170-245
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]