GgaINT0125647 @ galGal3
Intron Retention
Gene
ENSGALG00000003509 | C9orf9
Description
NA
Coordinates
chr17:7367469-7368205:+
Coord C1 exon
chr17:7367469-7367671
Coord A exon
chr17:7367672-7368057
Coord C2 exon
chr17:7368058-7368205
Length
386 bp
Sequences
Splice sites
5' ss Seq
TAAGTACGT
5' ss Score
5.1
3' ss Seq
GGCTTCCTTCTGTCCCACAGATA
3' ss Score
10.4
Exon sequences
Seq C1 exon
GTACAGTCCTACATGGACCACCACTGTAACAACTTAACGGACAGGCGTATCCTCACCATGTTCCTAAACATCTGTAATGACCTGAGCAATCTCTGCCACAAGCTGGAAACTCTACATCCTGGTAACAGCACAACCAATGAAATTTTGGAAAGATGCAAGCTGCTCCTTAACCACAGCAATGATCTGAGCACCATCCGAGCTAA
Seq A exon
GTACGTCCTTCTGTCAGCTGAATTCTGTGGAGGCCATTGCTGATACAGGAAGACTGTTGCAAGAATGCATATTCCTACTTGACCTCCCTGTTGGTTACTGTTGTAACACAATTCTGGCTCCTCCCTGCTATTTCTGCTCTGTGTATAGTTAATTTCTGTGGAGCAGGTGTCTGCATGTGCTCTTGAACTCCTGCAGACTGAGGCCAGCAGCCACAATGCCATGTGCGGCACAGCTCCTTTCTCAAGTCCTATCAGTGCCCTTTTGTCCTGGGGACATTGCTGTCTACATCTCCACCCTTCCCTGTGGGCCTCAGGGAGGCACTGCTGGGCTTACCAGGGCTGCATTGCCTGGACTACTCAACAAACGGCTTCCTTCTGTCCCACAG
Seq C2 exon
ATACCCCCACGATGTTGTGAATCACCTGAGCTGTGACGAAGCAAAGAATCACTTTGGAGGTGTGGTGAGCCTCATCCCCATTGTCCTAGATGGTGTGAAGGAGTGGCTATCCCACACTGAGAAGCTGCCGCGACGCATGCTGTGTAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003509:ENSGALT00000005551:2
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:
PF151201=DUF4561=FE(40.1=100),PF0114712=Crust_neurohorm=PU(95.6=95.6)
A:
NA
C2:
PF151201=DUF4561=FE(29.3=100),PF0114712=Crust_neurohorm=PD(2.9=4.0)
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:
TGGACCACCACTGTAACAACT
R:
ATTACACAGCATGCGTCGCG
Band lengths:
338-724
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]