GgaINT1028531 @ galGal4
Intron Retention
Gene
ENSGALG00000028301 | TRIM47
Description
tripartite motif containing 47 [Source:HGNC Symbol;Acc:HGNC:19020]
Coordinates
chr18:4606459-4606899:+
Coord C1 exon
chr18:4606459-4606554
Coord A exon
chr18:4606555-4606668
Coord C2 exon
chr18:4606669-4606899
Length
114 bp
Sequences
Splice sites
5' ss Seq
AAGGTGCCT
5' ss Score
5.39
3' ss Seq
CCCTCTCTCCTCGCACTCAGGGT
3' ss Score
10.2
Exon sequences
Seq C1 exon
GCCCAGCGAGCCAAATTCCTCAGCAGTGTGGACAACGAGCTGGAGGAGCTGGCTGTGACCATCGCACAGACCAGGAAGATGGTGGAGCTCATCAAG
Seq A exon
GTGCCTTAAGGGATGGCCCTGCTCCGTTAGTGGGGCAGTGGTGGAAGCTGGGGGGGCTCTGGGTGCCCCCTCCCTTGCTTGCAGTGATGCCGACCCCTCTCTCCTCGCACTCAG
Seq C2 exon
GGTGTTGCCAGCAAGGAGAAGGAGCGGGTGGAGAAGCTCTTTGCAGAAGCTTCTGAGCTGCTGGCCACCTTCCAGAAGGAGGTGGCCGCCTTCATCGAGGACAGCGAGCGCTCCATGCTGGGGGAGACCGAGGCTGACCTCCGCTGGAAGGAGGAGAGGAGAGCCAAGCTGGCCCAGGGCAAGCAGAACCTGGAGAACATCCCCAGCACCGACACCATCTACTTCCTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000028301:ENSGALT00000045376:3
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=0.130
Domain overlap (PFAM):
C1:
PF058526=DUF848=FE(27.9=100)
A:
NA
C2:
PF058526=DUF848=PD(62.2=89.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGAGCCAAATTCCTCAGCAGT
R:
CTCTCCTCTCCTCCTTCCAGC
Band lengths:
253-367
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]