RnoINT0155643 @ rn6
Intron Retention
Gene
ENSRNOG00000022598 | Trerf1
Description
transcriptional regulating factor 1 [Source:RGD Symbol;Acc:1307167]
Coordinates
chr9:15689304-15690656:-
Coord C1 exon
chr9:15690272-15690656
Coord A exon
chr9:15689371-15690271
Coord C2 exon
chr9:15689304-15689370
Length
901 bp
Sequences
Splice sites
5' ss Seq
CCAGTGAGT
5' ss Score
8.28
3' ss Seq
CGCTAGCTTTTGTGTTTCAGGCA
3' ss Score
6.93
Exon sequences
Seq C1 exon
GAAATCCCCCGGAAACATCCGCCCATCACCGCCAAAGTTGAGGAGCCCCTCAAGACCCCACCAGAGAAGAAGAAGTTCCGGCACCGGCCTGAGCCCCTCTTCATCCCACCACCGCCTTCTTCCTATACTCCCAACCCCACCTCTTACTCGGGGGCCACCCTGTACCAGAGCCAACTGCGCTCCCCACGCATCCTCGGGGACCACCTGCTCCTGGACCCCGCCCACGAACTGCCCCCCTACACACCGCCACCCATGCTGAGCCCCGTGCGCCAGGGCTCAGGGCTCTTCAGCAATGTCCTCATCTCTGGCCACGGCCCTGGAGTGCACCCCCAGCTGCCCCTCACTCCCCTCACGCCCACGCCACGCGTGCTGCTGTGCCGTTCCA
Seq A exon
GTGAGTCGTCCCTTAAACCCTGGTGTCACCCCCTGTTGATTTGGATACTACCCTGAGTGGGTGGGGAGTCTCACTTTCTTCAACTGGCTAGTTTACCCCCGTGGATTTCTGTGAAATATCCGTTATGTGTTCCACACACGATGCGAGGTGTTCTTAATGCCTCCGCATCGCATTAAGTAACTCGAGGGAATCAGTCTGAGGAGAGAAGGGAGTCAGTGTCTTTGGGATAAAGCACACCAAGACTGCTTCGGATGGTCAAAAAAAGATGCTTAAGATAAATATTTAGCCGTTATTCGCATGGGAGCTATTATAAGCAAGAGTAAATCGTAATATTTACTGTGCTTAAAAAAAAAAAAAATCAACCATGAACCCTGTAGGTCATGTGCTAGTGTAGCCCCGACGACTATAGGAACTGAGGCAGAAGGAATGAGGGGAGGGTGAGACCAGCCTGAGCAGCACAGGAAAACCCCATCTCCTCAGTAGATATTGGGGGTTGGGGGGAGAAGAGAGATCTTTGTAGCTAGGTTTCTTTCTGGTTGCCTAGAAACCATGTAGCTAAACCAGGCATTTTTTTTTTTTTCCTCACACTGAGAAATGGCTGTCTTAACGCCTGTAATCCCAAGCACTGGGGAGGCTGAGGCTTAAAGCTGGAGGTGAGGAAATTCAAAACCAGATTGAGCTACACATCTAGACCCTGTCAAGGAGCTGAAGGATGGGGAGAGAGAGAAAGAAAAAGAACCTCGTGAATCCATCCACCTTTCTGGAAATTGATATGGGTTGGGTAGGAGAAGCGCCTTGTCATTGCTGCCTGGCTAATTCCTGGTCAGCGAGCTTCCATCTGTCTTCGTGTCTTGGGACGTTTTCCCTTGTTGTCCAGTAAACGCTAGCTTTTGTGTTTCAG
Seq C2 exon
GCAGCATCGATGGCAGCAATGTGACAGTCACCCCAGGACCCGGAGAACAGACTGTGGATGTTGAACC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000022598:ENSRNOT00000035907:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.744 A=NA C2=0.739
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAAGAAGAAGTTCCGGCACCG
R:
CTGTCACATTGCTGCCATCGA
Band lengths:
347-1248
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]