DreINT0003759 @ danRer10
Intron Retention
Gene
ENSDARG00000068130 | C5H9orf9
Description
chromosome 9 open reading frame 9 [Source:HGNC Symbol;Acc:HGNC:1367]
Coordinates
chr5:29069785-29070528:-
Coord C1 exon
chr5:29070326-29070528
Coord A exon
chr5:29070136-29070325
Coord C2 exon
chr5:29069785-29070135
Length
190 bp
Sequences
Splice sites
5' ss Seq
ACAGTTAAG
5' ss Score
-12.18
3' ss Seq
TTAATCCCCTTTCTTTACAGCTA
3' ss Score
10.85
Exon sequences
Seq C1 exon
GTCCAAAAGTACATGAATCACCATTGCAGCAATTCAACTGACAGGAGCATCTTTTTACTCTTTCTGGAAATTATTTCTGATCTTGAAGGTGTTTTAAAACAACTGGAGTCCTCAGTGTCCAGCAGAAACACTTCATGTGAGGGATTGGAGACCTGCAAAGAGCTCCTGAACCCCAGCAGCAACATCAGTCAGCAAAGGGCACA
Seq A exon
GTTAAGTAACAGTAAAATTACACTACTTCTTACATAAATATAAACAATTGCTGTCTGAATGATTAACCTTCGGAATTTAACCCACTTTAAGGATGCGGGAGTCTCATTAAATAAAATCAGATGGTAACATAATGCTCAAGGCTCCCAAGAATCATTGCTTATTATTTGACTTAATCCCCTTTCTTTACAG
Seq C2 exon
CTATCCACACAATGTGATCAACCGGCTGAGCTGTGATGAAGCAAGAAATTTCTATGGTGGGATTGTGAGCATTATTCCACTGACTTTGGACCTTCTCGCTGCCTACATCAGAGGAAGTGCAAAACGTCTAAGTTCAGCATCTACAGTAACACCTAATCAAACGTTGACAAAGAATGTTGGAACCGGGATCGATGCTAGCCTTGAAAAAGACACCAGTAAGCACCAGAGAAGTAAGTCCTCAAAGAAGAAAAAAGGATCTGGTGGTTGGCATGCAGGAAAACCAGCCTGGAAGCCACCCGGAAATACAAGGAGATAAAAAAAAACTGATATTTACAGATGTTTTGTTCTTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000068130:ENSDART00000098336:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.059 A=NA C2=0.571
Domain overlap (PFAM):
C1:
PF151201=DUF4561=FE(39.0=100)
A:
NA
C2:
PF151201=DUF4561=PD(32.6=52.8)
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:
AGACCTGCAAAGAGCTCCTGA
R:
TAGCATCGATCCCGGTTCCAA
Band lengths:
252-442
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]