BtaINT0152785 @ bosTau6
Intron Retention
Gene
ENSBTAG00000018920 | TRIM47
Description
tripartite motif containing 47 [Source:HGNC Symbol;Acc:HGNC:19020]
Coordinates
chr19:56375390-56375980:+
Coord C1 exon
chr19:56375390-56375620
Coord A exon
chr19:56375621-56375781
Coord C2 exon
chr19:56375782-56375980
Length
161 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
TGGGCATCTGTTTGGCACAGGAG
3' ss Score
3.78
Exon sequences
Seq C1 exon
AGCGCAGCCGTGGCAGAGCGGGAGAGGGTGAGCCGGCTGTTTGCCGAGGCTGCGGCCGTCCTGCAGGGGTTTCAGACCCAAGTGCTGGGCTTCATCGACGAGGGGGAGGCGACCATGCTGGGCCGCTCCCAGGGCGACCTGCGGCGGCAGGAGGAGCAGCGGAGCCGACTCAGCAGGGCCCGCCACAACCTCAGTCAGGTCCCCGAAGCCGACTCGGTCAGCTTCCTGCAG
Seq A exon
GTGAGGGCGGCTCCGTGGGTGCAGCGGGCACCGAAGCTGCAGGAGGAGGCTGCGGGGGGCTGCCTTCATGGCTGTGCCGGCCTCCTGGCGGAGCTGTCTGTCTCCTGCCCGGAGGAGCTGCTGCGGCCGGCTCAGCCTTAATGGGCATCTGTTTGGCACAG
Seq C2 exon
GAGCTCCTGGCACTCCGGCTGGCCCTGGAGGAGGGGTGTGGCCCTGGGCCCGGACCACCGAAGGAGCTCAGCTTCACCAAGTCCTCCCAGGCTGTGCGCGCGGTGCGAGCCGTCCTGGCTGCAGCCTGTTCCAGCCAGTGGGAGCAGCTGCGGGGGCTGGGCGGTGACGAAGACGGGCTGCAGAAGCCGGGCACGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018920:ENSBTAT00000025190:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.299 A=NA C2=0.463
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTTTCAGACCCAAGTGCTGG
R:
GACTTGGTGAAGCTGAGCTCC
Band lengths:
247-408
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]