GgaINT0049673 @ galGal4
Intron Retention
Gene
ENSGALG00000009545 | SLC25A12
Description
solute carrier family 25 (aspartate/glutamate carrier), member 12 [Source:HGNC Symbol;Acc:HGNC:10982]
Coordinates
chr7:17439605-17440323:+
Coord C1 exon
chr7:17439605-17439689
Coord A exon
chr7:17439690-17440164
Coord C2 exon
chr7:17440165-17440323
Length
475 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGT
5' ss Score
10.03
3' ss Seq
CTCCGAATGCTTTCTCACAGCTG
3' ss Score
6.91
Exon sequences
Seq C1 exon
CAATCGTTTGGAGAGTTAAGCAGGCCTATCTGGCTCCAGGTAGCTGAGTCAGCCTACAGGTTCACTTTGGGCTCAATTGCTGGAG
Seq A exon
GTGAGTAATTTGTCTGCATTTCAGGCCTGGGTTTGTAGTCTTTCTTGCCAGACTCTTTGGGACCACCTAAGGTGCACTTTCTTGGTTATGCAGGTGAAGCATTGAAGGGTGCAGCCACTTCTGGTTGTGTCACTCTCGCTTCCTTTATCCCTTCTATTCTAGTACCCGTTTAGGAACAACTGAAACTGTACTCACTTGAGAAAGACATTTGCTTACTGATAGCTCTTACTGCTGCTTTTTCTGATCGGTGTTCTTTGTTCTCTACAACTTGTTCTATGTAATACATAATAAATCCATTCTCCTGGAGACTTTTTTGTAGATTTTCAGTATTGTTCTTACTTCCAACATCTCAGAGATCTTACCAGCTTGTATATATCTGTGTGTTGAAATTACTGTTAAAGAAAGTCACCATAATGATTATGTACTACACCAACAGAGAAGCTGCAGAAGTAATGCTCCGAATGCTTTCTCACAG
Seq C2 exon
CTGTTGGTGCTACGGCAGTATATCCCATAGACCTGGTGAAAACTCGTATGCAGAATCAGCGCTCCACTGGTTCAGTCGTAGGAGAGTTGATGTATAAAAACAGCTTCGACTGCTTTAAAAAGGTTTTGCGTTTTGAAGGCTTTTTTGGTCTTTACAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009545:ENSGALT00000015535:10
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=PU(15.2=51.7)
A:
NA
C2:
PF0015322=Mito_carr=FE(53.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAATCGTTTGGAGAGTTAAGCAGG
R:
AAAAAGCCTTCAAAACGCAAAACC
Band lengths:
230-705
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]