RnoINT0155926 @ rn6
Intron Retention
Gene
ENSRNOG00000008215 | Trim47
Description
tripartite motif-containing 47 [Source:RGD Symbol;Acc:1597317]
Coordinates
chr10:104657270-104659188:-
Coord C1 exon
chr10:104658484-104659188
Coord A exon
chr10:104657366-104658483
Coord C2 exon
chr10:104657270-104657365
Length
1118 bp
Sequences
Splice sites
5' ss Seq
GAGGTGGGG
5' ss Score
4.41
3' ss Seq
TAATCTCTCGGGGTCCACAGGTT
3' ss Score
6.97
Exon sequences
Seq C1 exon
CCGGGTAGCGGCGGAGCCATGGACGGCAGCGGGCCTTTCAGCTGCCCCATCTGCCTGGAACCGCTCCGGGAGCCGGTGACACTACCCTGCGGCCACAACTTCTGTCTCGCTTGCCTGGGCGCGCTCTGGCCGCACCGGAGCGCGGGCGGCACCGGTGGTTCCGGAGGTCCGGCTCGCTGCCCACTTTGCCAGGAGCCTTTTCCCGACGGCCTGCAGCTCCGCAAGAACCACACGCTGTCCGAGTTGCTGCAGCTCCGCCAGGGCTCGAGCCCCGGACCCATGTCCGCCCCGGCTCCAGGCTCGGCCCGGGGCGCGACGCCCGAGCCCTCCGCACCCAGCGCACCACCTCCGGCTCCGGAGCCCTCCGCTCCCTGCGCGCCCGAGCCGTGGCCCGCGGGTGAGGAGCCGGTGCGCTGCGACGCGTGCCCCGAGGGCGCCGCCCTGCCCGCCGCGCTCTCCTGCCTCTCCTGCCTCGCCTCCTTCTGCTCCGCGCACCTGGCCCCGCACGAACGCAGCCCCGCCCTGCGCGGCCACCGCCTGGTGCCCCCGCTGCGCCGGCTGGAGGAGAGCCTGTGCCCGCGCCACCTGCGGCCGCTGGAGCGCTACTGCCGCGTGGAGCGTGTGTGCCTTTGCGAGGCCTGCGCCACTCAGGAGCATCGGGGCCACGAGCTCGTGCCGCTGGAGCAGGAGCGCGCGCTTCAGGAG
Seq A exon
GTGGGGCCCCTTGAGCGGGCTCGTGGAGATAGGTGACAGCCAGGGCCGGAGAGCTACTTAGTCCCTCACTCTAATCCGGGTGTGTCTGTTACATATTTGTTTTATCCTTGTGGCTGTGCACATGGAGATCAAAGAAGCAACTTTGTGGGGTTGGTTCTCTCCTCCCGCCTTTACAGGGATTTCATCTCTCTGACTCAATAGGCTCTGCCTTAGATTCCCATTCCCCTTCTATCCTGAGGATCTTGACAATTTCTTCCGGTCTACACTGTCATTTGCTGGGGCTGGCATGGATGGAAGGGGGGTCAGGAGGGACCAGTGAGTAGATGAAAGAATGGCAAAAAGCCAGGTTGGTGGAGGTGTAAAGCCAGAGAGGGATCTGTGTTAGGCCTTGGAGGCTGTGGGAGTCAGGAGCCGCTGGATGCGGGCGGGGCTCCATGGCTGATGCCTTCTTGTTGCTGGTCCCAATTCAGATTTGTCCTGAACTGAGTCAGCCACTTTGGATGGGTGTGGCAGGCACCAGGAGAGCGATGATGGTTGAGCTGGTCACACAGATCTCCTCTGTCCGAATGTTCTGGGGCCGTTAAGGAGCTAGTGCCCAGTGTCCCGCTACCTCCCGCCCCCAGTTTCCTTTGGCCTTCATCCCAGTCTTGGCGCCTCTGGCTTTGGGATTTTCCGCCTCTCCTGCCTGGAGCTGTGACTCATAAGGCCCAAGGGATTTGCCCGGAATCCCCATTTTTCAGAGCTGGGTTGGGGGTGAAGGCTCTTTTGAAACTAGTCCCCAGGACTATTTAGTGGACTCTCTTCTGGTTCAGTCCCACCCCCTCTCACACTTTGCCTCTTCCCCACTGGGAAAAACAATCCCAAGTAGAGAATCACAGGTGGCCCTGTAACTGGCTTCTCTGGTCAACAGGTAGTCAGATGCCCACAGCCTGCCTCCTTGGCAGGTATTTGGATATGGCACCCACGGGCTTGGGCCAGAGCTGCCTTGGGCATATTCTGGGATATAGTGACCATTTCCAGTCCCTTCATCTACAATTGTCACTGCCTAGCCCCCCAAATGCTGAGATCTGTTGCAGGTCAGGGACCTTTGTCAGACACTAATCTCTCGGGGTCCACAG
Seq C2 exon
GTTGAACAGTCCAAAGTCCTGAGCGCTGTGGAGGACCGCATGGATGAGCTGGGTGCCGGCATTGCACAATCCCGCCGTACTGTGGCCCTCATCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000008215:ENSRNOT00000010887:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.341 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF152271=zf-C3HC4_4=WD(100=21.8),PF0064319=zf-B_box=WD(100=17.9)
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:
CTTGATGAGGGCCACAGTACG
Band lengths:
346-1464
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]