GgaINT0016673 @ galGal4
Intron Retention
Gene
ENSGALG00000003377 | SIMC1
Description
SUMO-interacting motifs containing 1 [Source:HGNC Symbol;Acc:HGNC:24779]
Coordinates
chr13:9753153-9753473:-
Coord C1 exon
chr13:9753317-9753473
Coord A exon
chr13:9753238-9753316
Coord C2 exon
chr13:9753153-9753237
Length
79 bp
Sequences
Splice sites
5' ss Seq
GAGGTATCT
5' ss Score
7.27
3' ss Seq
AAAACTATCTATTGTCGTAGGAT
3' ss Score
6.17
Exon sequences
Seq C1 exon
GGAAGCCCTCTTAAACACCATGGAGAGCAACCTGCTGCGCTGCAAACTGCTAGAGATGATGTTCCAGCACAGTTGTAAGGTCCCCACAAACTTGCCCTTGTCTCTGTCCAAGATCCTCTATTTTCTAGGCCACTCCTCCGTGCTGCTGCAATACGAG
Seq A exon
GTATCTATCCATCCTTCTCCCTTGTGTGGCATCTCCTGATAAAACCTCTCCTAAAACCAAAAACTATCTATTGTCGTAG
Seq C2 exon
GATGAAGTAGCTACATGGCAAAAATGGGATGAGCTGCTGCAGTACTTGAGCTTGCTGCTGCTGAGTTACCAAAATGTAGTAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003377:ENSGALT00000005337:8
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:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCGCTGCAAACTGCTAGAGAT
R:
AAGCTCAAGTACTGCAGCAGC
Band lengths:
174-253
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]