GgaINT1028532 @ galGal4
Intron Retention
Gene
ENSGALG00000028301 | TRIM47
Description
tripartite motif containing 47 [Source:HGNC Symbol;Acc:HGNC:19020]
Coordinates
chr18:4606669-4607588:+
Coord C1 exon
chr18:4606669-4606899
Coord A exon
chr18:4606900-4607392
Coord C2 exon
chr18:4607393-4607588
Length
493 bp
Sequences
Splice sites
5' ss Seq
CAGGTGCGT
5' ss Score
9.73
3' ss Seq
ACTCTGTCTTTTTGGCTCAGGAG
3' ss Score
7.04
Exon sequences
Seq C1 exon
GGTGTTGCCAGCAAGGAGAAGGAGCGGGTGGAGAAGCTCTTTGCAGAAGCTTCTGAGCTGCTGGCCACCTTCCAGAAGGAGGTGGCCGCCTTCATCGAGGACAGCGAGCGCTCCATGCTGGGGGAGACCGAGGCTGACCTCCGCTGGAAGGAGGAGAGGAGAGCCAAGCTGGCCCAGGGCAAGCAGAACCTGGAGAACATCCCCAGCACCGACACCATCTACTTCCTTCAG
Seq A exon
GTGCGTGGTGGGCACGGAGGCGAGGAGAGGAGCAGGTGGTGTCTGTTGGGTTCGGTCCCCCGTCACACAGAGCTGGGGGGATGTGAGGCTGTGGGGTCTCCCTCCTGTTTGCGGCATCCTCTCCCTGCTGCAGGGCTGGGCTGGGCTGCCAGAGCTTCGTCCTCCATCACCCACGCCTGCAGCCAGGACTGCAGCCCAGGCTCAGTGCCTCGGTTTGGGGATGGGGTGCCCCACTGCCCCATGCAGTATTCCTGGATGTTTTGAGGAGGAGACGCTGCTCTTCAGATGGGCATGGCCTGAGCCTGGGTTTGAAAGGGAGCGAGGAGAAGGAGCCAGGGACACGTGGCTGCCCTCCTCCCTTCTGCAAGGCTGCTTTGGGGCCAAGTCCTGCGAGCTGCCAGTTCCCAAATCCTCCGGGGCCGGGTGGGGTTGCGGAACAAGAGGCGGCTTCGGCTTGTTTGAAACCTCCTCTAACTCTGTCTTTTTGGCTCAG
Seq C2 exon
GAGTTTCAAGCCTTAAAAATAGCCATGGAAGACAACCTCTCTCCGGCTCCGAGCTTCCAGAACGAGCTCAACTTCACCAAGTGCTCCCAAGCCGTCTGCGCCGTCAAGGATGCGCTGTCAGCTGCCCGCAAAAGCCAGTGGGACTGTTTGCAGGGGAAAGGAGTGGATGGGATGAGCTTCCCGAAGACGGAGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000028301:ENSGALT00000045376:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.130 A=NA C2=0.030
Domain overlap (PFAM):
C1:
PF058526=DUF848=PD(62.2=89.6)
A:
NA
C2:
NO
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:
GTTGCCAGCAAGGAGAAGGAG
R:
CTGACAGCGCATCCTTGACG
Band lengths:
349-842
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]