GgaINT0016668 @ galGal4
Intron Retention
Gene
ENSGALG00000003377 | SIMC1
Description
SUMO-interacting motifs containing 1 [Source:HGNC Symbol;Acc:HGNC:24779]
Coordinates
chr13:9756135-9756829:-
Coord C1 exon
chr13:9756609-9756829
Coord A exon
chr13:9756205-9756608
Coord C2 exon
chr13:9756135-9756204
Length
404 bp
Sequences
Splice sites
5' ss Seq
AATGTACGT
5' ss Score
6.58
3' ss Seq
AGATGGTGCTATCCTTGCAGGCT
3' ss Score
6.76
Exon sequences
Seq C1 exon
CGGAAACCCGAGCTCATCCCCAGCAGTAAGATGAGCATGGTACGCACCACCATGGAGGAGAACTTCCTGGAGGGAACCTTGCATTTCCTCAGTGACTTCATCTCCCGCCAGCACTGCCCTCCCAAAGAAATCGTCTCCCATCTGATCAGACACATCCTGTTGAACTCCCACCAGGAGGAGATCCTCCAGAACACCTACACGCTGCTGATGAAGATCCAAAT
Seq A exon
GTACGTGTTCCCTTTGCCACCATTCCCTGGGGCTGGCTAGGTGCCCTAGTACAAGGGTTACCCTGTGTAGTCCTTACCAGAGGACAGACAGTAAGTGTCCCTGTAACTCATGATGGTCCTCTGGGCTGCAGTAAGGGCTGGAGCAGCTCTATGCTGCCTTTGCTGTGCTGCAATCAGGTAGAATGTTACATGAGGCCACAGGTGTGCCAGTGCTCTTTGTAGAGTACAGCCCATCAGGTGCTTCCAAAAATCTGACACAGTCAGGGGAGGAGAAAGGGGGAGGGCAGAGCTGAAAAGGGGGGCTGCAGCAAGCAGAAACGGGGGGGGGCTTGGGGTGGAGGATGCCTGACCTCAAGGCAGACAGTGTGGCAGTTCAGCACAAATAGATGGTGCTATCCTTGCAG
Seq C2 exon
GCTCCATCCAGCCAACACGACCACAGTAGGATGGGACTGGATGCTGCTGAAATACACCATGGAGAACGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003377:ENSGALT00000005337:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.135 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:
GAAACCCGAGCTCATCCCCAG
R:
CGTTCTCCATGGTGTATTTCAGC
Band lengths:
287-691
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]