BtaINT0152784 @ bosTau6
Intron Retention
Gene
ENSBTAG00000018920 | TRIM47
Description
tripartite motif containing 47 [Source:HGNC Symbol;Acc:HGNC:19020]
Coordinates
chr19:56374997-56375620:+
Coord C1 exon
chr19:56374997-56375092
Coord A exon
chr19:56375093-56375389
Coord C2 exon
chr19:56375390-56375620
Length
297 bp
Sequences
Splice sites
5' ss Seq
AAGGTCAGA
5' ss Score
6.8
3' ss Seq
CCCCCCACTGTCCTGTGCAGAGC
3' ss Score
8.65
Exon sequences
Seq C1 exon
GCCGAGCAGCCCAAAGTCCTGAGCGCCGTGGAGGACCGCATGGATGAGCTGGGCGCGGGCATTGCTCAGTCCCGGCGCACGGTGGCCCTCATCAAG
Seq A exon
GTCAGATCTTGTCCAACCCCGCCCCCATCCACCCCTGCCGCAGGCTCCCAGCGCTGTGAGCTTTCAGCATGGCACCCTCCACCCCAGAGAAACCTGTGCCCAGGGTGTGGCCCAGCTCCACTGAGCACGCCTATCTCCCCCCTGACCTGGCACAGACCCAGGGCAGTTCGGGCTTGTGCCTCTGTCCACCCCCCCACCCAACAAGACATGGTGGGAAGGCGGGGGTCTGAGAAGGTGGCCAAAACGTCTTTGGGGTGTTCTCTGTCCTCATTGCTTGCCCCCCACTGTCCTGTGCAG
Seq C2 exon
AGCGCAGCCGTGGCAGAGCGGGAGAGGGTGAGCCGGCTGTTTGCCGAGGCTGCGGCCGTCCTGCAGGGGTTTCAGACCCAAGTGCTGGGCTTCATCGACGAGGGGGAGGCGACCATGCTGGGCCGCTCCCAGGGCGACCTGCGGCGGCAGGAGGAGCAGCGGAGCCGACTCAGCAGGGCCCGCCACAACCTCAGTCAGGTCCCCGAAGCCGACTCGGTCAGCTTCCTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018920:ENSBTAT00000025190:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.188 A=NA C2=0.299
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:
GAGCAGCCCAAAGTCCTGAG
R:
CCTGACTGAGGTTGTGGCG
Band lengths:
292-589
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]