DreINT0149866 @ danRer10
Intron Retention
Gene
ENSDARG00000102362 | slc25a12
Description
solute carrier family 25 (aspartate/glutamate carrier), member 12 [Source:ZFIN;Acc:ZDB-GENE-031006-11]
Coordinates
chr6:3806396-3806671:-
Coord C1 exon
chr6:3806619-3806671
Coord A exon
chr6:3806477-3806618
Coord C2 exon
chr6:3806396-3806476
Length
142 bp
Sequences
Splice sites
5' ss Seq
ACTGTGAGT
5' ss Score
7.94
3' ss Seq
TGTGTGTGTGTGTCCTCCAGGTG
3' ss Score
12.79
Exon sequences
Seq C1 exon
GTCTTCTTCCGCAGCTCATTGGAGTGGCTCCAGAAAAAGCCATCAAGCTCACT
Seq A exon
GTGAGTGTTATTAAACTGACTGTTTAGTTTTTAATGAGCTGCTCATGATGAAGCAATTACATTAGTAATGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTCCTCCAG
Seq C2 exon
GTGAATGACTTTGTGAGGGACAAATTTACTACAAATGATGATACGATACCTTTGGCTGCTGAGATTCTTGCCGGTGGATGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000102362:ENSDART00000167753:10
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=0.000
Domain overlap (PFAM):
C1:
PF0015322=Mito_carr=FE(17.2=100)
A:
NA
C2:
PF0015322=Mito_carr=PD(12.1=44.4),PF0015322=Mito_carr=PU(14.1=48.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTCTTCCGCAGCTCATTGGAG
R:
ACATCCACCGGCAAGAATCTC
Band lengths:
131-273
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]