BtaINT0152783 @ bosTau6
Intron Retention
Gene
ENSBTAG00000018920 | TRIM47
Description
tripartite motif containing 47 [Source:HGNC Symbol;Acc:HGNC:19020]
Coordinates
chr19:56373299-56375092:+
Coord C1 exon
chr19:56373299-56374009
Coord A exon
chr19:56374010-56374996
Coord C2 exon
chr19:56374997-56375092
Length
987 bp
Sequences
Splice sites
5' ss Seq
GAGGTAGGG
5' ss Score
7.81
3' ss Seq
CTCGAGGGTGTCGTCCACAGGCC
3' ss Score
6.73
Exon sequences
Seq C1 exon
ATGGACGGGAGTGGACCCTTCAGCTGCCCCATCTGCCTGGAGCCGCTCCGGGAGCCGGTGACACTGCCCTGCGGCCACAACTTCTGCCTCGCCTGCCTGGGCACGCTCTGGCCGCACCGCGGAGCGGGTGGCGCCGGCGGCCCCGGAGGCACGGCACGCTGCCCGCTGTCCCAGGAACCCTTCCCCGACGGCCTCCAGCTCCGCAAGAACCACAAACAGTCCGAGCTGCTGCAGCTCCGCCAGGGCTCGGGCCCGGGGCCCGGCCCCTGCCCGGCCCCGGCCCCCAGCCCCTGCCCGGCCCCGGCCCCCGGCCCGGCCCCGGCCCCCGAGCCGGCAACACCCAGCGCGCCGCCCAGCGCCCCGGAGCCGTCGGCTCCCTGCGCGCCCGAGTCATGGCCGCCCGGCGAGGAGCCGGTGCGATGCGATGCGTGCCCCGAAGGCGCCGCCCTGCCCGCCGCGCTCTCCTGCCTCTCCTGCCTCGCGTCCTTCTGTCCCGCGCACTTGGGTCCGCACGAGCGCAGCCCCGCGCTGCGCGGACACCGCCTGGTGCCGCCGCTGCGCCGGCTGGAGGAGAGCCTGTGTCCGCGCCACCTGCGGCCGCTCGAGCGCTACTGCCGCGCCGAGCGCGTGTGCCTGTGCGAGGCCTGCGCCGCCCAGGAGCACCGGGGCCACGAGCTCGTGCCACTGGAGCAGGAGCGCGCGCTCCAGGAG
Seq A exon
GTAGGGCGCGGGCGCGGCGGGCGGGCTGGGGCGGGTGATGGGGCTCGCGCGCCGGCCGAGGACCCCTCATTGCTTTGCCATCCTTAATTCCCCTCTCTAACCTGAAGACCTCTGCGGTGCCTTCCAGCCCTGACCGTCATCCGCTCGCTGTGGGACATTCTTTTCGGAATGAGAATGAGGGTTGGAGGGACCCAGTGAGAACTCGAAAAGGATGCAAAAATCGGGCTGGAAGACTTGAGGCTGGGGCGGAGCCCATGGTGGGAGGGTGGTTAAAGGAGCCTGGTGGGGTCCGCAGGGTCCCCGGCGGGCGGCCGGTGCCTTGGCCGGGCTCCCGCCTGTCCCGCTCAGATCTGCCTGGGCTGAGGGTCTGGATGGGTGTGGCAGACGACAGGAGTGCGGCGGAGGGTGGACTGAGCACACAGACCGCTCTGTCCGGCTGTTCCGGGGGCTGGTGGTGGGCGCATGTACTGGCTGTCCAGCCCTGTTACCTCCGCCCCCAGTTTCCTTTGGCCCCAGGCCTGGTCTTGGCGCCTCTGGCCTTGGGATTTTCCGTCTCTCCTGCCTGAAGTGGTGACTCATAAGACCCAGGGGATTTGCCCGGAATCCCCATTTTTCAGGCTTGGATTGGGGACACAGATTCTTGAGGGACGGTGATTCTCAGACCTTGCGCAGGGCCCCTCCTCACTTTCTGCTTCTTTCCTGCGGAGGGAAGTTCTCAAATCACAGTGAGCAACATGGAGAACCCAGAGGGCCCTGGACTTGCTCACCAGTCAAAGAGGGGAGGCAGGCAGCCCATGGCCCACCAGCCTGCCCTCTCCAGGGCATTCCGAAAGGGCACCAGCCTGGGCTTGAGGCCCCTCTGGTATATCATAACCACTCCCTGTCCACCTGGACCCAGATACCACTCCTGGTCACCCCCACCTCCCCCTTGGTGAGGCCTGGGACACTACTTCCAGACCCCTTTCTCCTCGAGGGTGTCGTCCACAG
Seq C2 exon
GCCGAGCAGCCCAAAGTCCTGAGCGCCGTGGAGGACCGCATGGATGAGCTGGGCGCGGGCATTGCTCAGTCCCGGCGCACGGTGGCCCTCATCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018920:ENSBTAT00000025190:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.481 A=NA C2=0.188
Domain overlap (PFAM):
C1:
PF152271=zf-C3HC4_4=WD(100=19.8),PF0064319=zf-B_box=WD(100=17.3)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTCCTGCCTCTCCTGCCTC
R:
CTTGATGAGGGCCACCGTG
Band lengths:
346-1333
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]