DreINT0149878 @ danRer10
Intron Retention
Gene
ENSDARG00000102362 | slc25a12
Description
solute carrier family 25 (aspartate/glutamate carrier), member 12 [Source:ZFIN;Acc:ZDB-GENE-031006-11]
Coordinates
chr6:3808861-3809186:-
Coord C1 exon
chr6:3809102-3809186
Coord A exon
chr6:3809020-3809101
Coord C2 exon
chr6:3808861-3809019
Length
82 bp
Sequences
Splice sites
5' ss Seq
GAGGTGCTC
5' ss Score
2.13
3' ss Seq
CCTGTAGTGTTTGTGTGCAGCCA
3' ss Score
5.43
Exon sequences
Seq C1 exon
CATTCGCATGGGGAGGTTTCTCGGCCTGTGTGGCTGCAGGCTGCAGAGTCGGCCTACAGGTTCACTCTGGGCTCCATCGCTGGAG
Seq A exon
GTGCTCATTTCTTGCTGGATTAATTAGATAATTATTAATTTGTGTTTAAGAATGCATTGTAACCTGTAGTGTTTGTGTGCAG
Seq C2 exon
CCACCGGTGCTACAGCCGTGTACCCTATAGACCTGGTGAAAACCCGCATGCAGAACCAGCGCTCCACCGGCTCCTTCGTAGGAGAGCTCATGTACAAGAACAGCTTCGACTGCGCCAAGAAAGTCCTGCGATACGAGGGATTCTTTGGCTTTTATAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000102362:ENSDART00000167753:8
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=PU(15.2=51.7)
A:
NA
C2:
PF0015322=Mito_carr=FE(53.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TACAGGTTCACTCTGGGCTCC
R:
TCCCTCGTATCGCAGGACTTT
Band lengths:
171-253
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]