DreINT0149980 @ danRer10
Intron Retention
Gene
ENSDARG00000005690 | slc25a23a
Description
solute carrier family 25 (mitochondrial carrier; phosphate carrier), member 23a [Source:ZFIN;Acc:ZDB-GENE-121214-154]
Coordinates
chr1:54303309-54304063:-
Coord C1 exon
chr1:54303896-54304063
Coord A exon
chr1:54303460-54303895
Coord C2 exon
chr1:54303309-54303459
Length
436 bp
Sequences
Splice sites
5' ss Seq
GAGGTGTGT
5' ss Score
6.14
3' ss Seq
CTCCATCTCCTCTGTCTCAGACG
3' ss Score
7.38
Exon sequences
Seq C1 exon
GTGCTGAAGACTCGGTTAACTCTGCGTAAAACGGGCCAGTATTCAAGCGTAGCAGACTGTGCCAAACAGATCCTGCAGAAGGAGGGCGTTCGGGCCTTTTATAAAGGCTACCTGCCAAACATGCTGGGCATCATCCCGTACGCGGGCATAGATCTCGCCGTCTATGAG
Seq A exon
GTGTGTGTGTGTTTATTCACCTTACATTTGATCCTCATGTTCGCGACACTGTCAAGACATCACGTTTCCCTCTCAGAAACATTGTCAAACTTTACTTTTAGTCATTTAGCAGATGCTTTTGTAAAAAGCGAATTACATTTGACAGGCAATACACACAACAAGTGCTCAATATACAAAGAAACCCATATGTGTTTTTTTTTTTTATACGGGTGGTTTGTCAACCCCACTCACCTGGCATTTTTTTGTGATTTTTAACATTTCCTTGTTTTTGTTTAGTTTTTTATTCATGGGTCTTTCCCCTCCATACTTTTATGCGTATGTAAATCGCTTTGAGATGCTACTTTTAAAGGTGTTGTGTTGAATAAAGCTTGTTGTTACTGTTGTAATGTTTGTTGTTGTTTGCTGACTGTTTCTCACTCCATCTCCTCTGTCTCAG
Seq C2 exon
ACGCTAAAGAACGCATGGCTGCAGAGGCACACTGAAGGCTCGGCGGACCCCGGGGTTCTGGTTTTGGTGGGCTGTGGGACGGTTTCCAGCACCTGTGGGCAGCTGGCGTCGTACCCGCTCGCACTCATACGCACACGCATGCAGGCGCAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000005690:ENSDART00000152666:8
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=FE(59.1=100)
A:
NA
C2:
PF0015322=Mito_carr=PD(9.7=17.6),PF0015322=Mito_carr=PU(37.9=70.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGAAGACTCGGTTAACTCTGCG
R:
CGTGTGCGTATGAGTGCGAG
Band lengths:
302-738
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]