GgaINT1028533 @ galGal4
Intron Retention
Gene
ENSGALG00000028301 | TRIM47
Description
tripartite motif containing 47 [Source:HGNC Symbol;Acc:HGNC:19020]
Coordinates
chr18:4607393-4608187:+
Coord C1 exon
chr18:4607393-4607588
Coord A exon
chr18:4607589-4608112
Coord C2 exon
chr18:4608113-4608187
Length
524 bp
Sequences
Splice sites
5' ss Seq
AAGGTCTGT
5' ss Score
6.43
3' ss Seq
TCTCTGTTTCTTTTCCCCAGCAA
3' ss Score
9.74
Exon sequences
Seq C1 exon
GAGTTTCAAGCCTTAAAAATAGCCATGGAAGACAACCTCTCTCCGGCTCCGAGCTTCCAGAACGAGCTCAACTTCACCAAGTGCTCCCAAGCCGTCTGCGCCGTCAAGGATGCGCTGTCAGCTGCCCGCAAAAGCCAGTGGGACTGTTTGCAGGGGAAAGGAGTGGATGGGATGAGCTTCCCGAAGACGGAGGAAG
Seq A exon
GTCTGTGCCCACCTGGCCCCGTGCCCACGTGGGGAACCCAAGGGTGCATCCTCCTGACGGGGCTGGGAGATGCCTGCGGGCTTCGGGGCTCCTGGAGGTGCTGGCCCCTCTCCCGGGCACGGTTGCACAATCGCTGTCTGAGCTACCGCCTCCTCCTTGAGGTTTTATGAATTTTTCCACGGAGACCAAAGGCTTGAGAGGCAACAAACAGCTTGGGAGCTATGCACGGCCCTGTGGGAGGGGGCAAGTGGCCAAAGCGCTGTGAAAGGGGACTGTTCCTTCCCAGGACAGAAAGCCCCCTTCACTGGGCAGGCTGCGGGCTCCCTGGGCTGCAGGGTTAGAAACCACAGCGACTGGAGGTCCGGGATGCTCCCCGCTGTGCTCTCATTTAGGCTGAGCTCCCTCCCGTCCCTCGTTTTCCTGGATGCCAATGGGGCCGCAGGGGGCGATGCTTCAGGAGTGCCCCGATTGATGGCAGCGGTTTTGCTGTGACAAACCTTTCAGTCTCTGTTTCTTTTCCCCAG
Seq C2 exon
CAATGACCAAGTCTCAATTTCCAGACAAGTCGAACAATCCCGCCTGCCTGGAGAGCCGCGATTACTTCCTGAAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000028301:ENSGALT00000045376:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.030 A=NA C2=0.269
Domain overlap (PFAM):
C1:
NO
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:
GAGTTTCAAGCCTTAAAAATAGCCA
R:
TTTCAGGAAGTAATCGCGGCT
Band lengths:
270-794
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]