RnoINT0155644 @ rn6
Intron Retention
Gene
ENSRNOG00000022598 | Trerf1
Description
transcriptional regulating factor 1 [Source:RGD Symbol;Acc:1307167]
Coordinates
chr9:15687273-15689370:-
Coord C1 exon
chr9:15689304-15689370
Coord A exon
chr9:15687413-15689303
Coord C2 exon
chr9:15687273-15687412
Length
1891 bp
Sequences
Splice sites
5' ss Seq
ACCGTAAGG
5' ss Score
6.08
3' ss Seq
TTCTTTTCCTTTCATTAAAGACG
3' ss Score
5.37
Exon sequences
Seq C1 exon
GCAGCATCGATGGCAGCAATGTGACAGTCACCCCAGGACCCGGAGAACAGACTGTGGATGTTGAACC
Seq A exon
GTAAGGAAGAACCAGTTACTCTTTAGGGATAAGTCTCAGATAAGGAAAGGTCTGGAAGCTTCTAGAAGGGTAGTCAGTATTTCTGTATTCAGTGGCCACTGAGAGGGGAGAGTTGTGGAAATGGTAGGATCATGGCCTCCTCCCTACCACGTCCTCATAGCTGCTAGTGTTTCAGAGACTCGGGGCTAAATGTGAAACCCTAGATTCAAACAATCTAGTGTCCCTACCTCCACGGGCCAGCTTCTAGACTCATATACGTTCATATCCCCCATGGCACCGAGGCCTCTCTCTTGAAGGTGCTTAACTAGAAGAGAATCCTTCTGAATGTTCTTTTTCCCATGTTCCCTCTGTGACTCTCGGCCAGTCTTCCAAATGGACTTGTTGAGTATCACGGATTTGAATCATTTTCATGATCAATGGGAGGTACAGTATCCACACACACATTGGTGGCTTGACCTCCAGAGGGTACCGGAAACCTCTGATAGGACCATGCCCTGCGTATTAGCACTAAAGTGCCACAATCGTGTCTGATAAGTGAGACCTAATCTATCCAAGCAGATAGACCATCGTGTTATCTGTCATAGACTATAGATCCCAACTGAAGAACAGGTAGGCAGTTTATAGTGTGGGTACTGTAGACAAAAGGATGGGTCACATCCAGGGCCGGTAGAAGTGGCTTGGCTTGCGATTTCATCCCGTTACTTAAAATAGAATAAAAGTCGTACTTACAGAATTACTCCAGGATTTTCTCACTTCATATTTTCCTCAACTATTAATTCCGTCTAAGTATTCCAGCTAATGTTAGCTGGTCACGGGTTACTGAAAACCACAGAGAGCTGTATATAAAGAGACACTGCTTCACTACGGAAGGGAAAGGTGATTCTTTCCATGAATGAAAAGAGCCCATGGGGTGGAGCTTTGTAGAGTCCAGAATCAGAAAGCTTGGGTTGACACATTCTCATTTTGATTTTTACTGAGTCGGGTTTTTGAGGCCTTTGTTGGTGCCTTGAATGGGAATCGTGATTACAGTCCTGTTCGTGTCCCTGGCCTTTTGAGCTTAGATGGCATGGTACATGTAGGAGTGGTCTGGAAGGCATAAATACTTCACATTGCTGCCCACGCTTAGCCTCCTCCCTTCGTTCTGGGTATGATCTAGCCATGCTCTCAACAACTCCTCTCTTGGAATTAGCTGTCCTTTCATTCCAGTTTCCACTGAGAGGCTGAAAGCTGAGACGTTGTAGACTGCCCCCATCCCCTTCCCCAGGTCCCCAACTTTAAGAGGCCTAACTTGGACCCACCAGCAGTGTAAATGACACTGAGCCTTATTAATATTGTAAAGCTTGAGTCTTTTGCTGGGCAGTCTCCCAACTACTCTAACCCAACTAATCCGGGCACTACATTCCACCGTGTGGCCAGGTCTGCCTCTCTGCTCCATTCTCATCTGACCATTCACCTCTGTGTCTCCTGGGTGAATCTCCCATATCTGATTCCTGCTCAACTATTGGCCGTCAGATCTTTATTACAGCCAATCAGATACAAGTCTAGAGTGTCTTGGGCAAATGAGGAAGAATGAATATTTATAAAATATAAGACCAGCGATAGGCCATGTAAAAATAACAAGACCAAGACCTTGCTAGTCTTTAGCTCTCTGCTGGTACAAAAATTGACAGTTGAATGTGCAGAGACACACCCTCACACAGTGTACCCCAACCCCCAACATTAAAAACTGATCTTACCAGTAAAAAGGGCCATGCCTGGACTTGGAGGACCCTGTTCTGGCATTCTCCTAGCAGAGGAAGCTGCTCCCCTGATGCCTGCAGTTCCGACAGTTGCCTCTGGTCTAGGCTGTCGCATTGAAGCCCATACTGTTTTTCTTTTCCTTTCATTAAAG
Seq C2 exon
ACGCATCAACATTGGCTTAAGATTCCAAGCAGAGATCCCAGAACTGCAAGACGTCTCCGCCATGGCTCAGGACACACACAAGGCCACACTGGTATGGAAGCCGTGGCCTGAGCTAGAAAACCAGGCCCTCCAGCAACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000022598:ENSRNOT00000035907:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.739 A=NA C2=0.021
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0144819=ELM2=PU(78.9=93.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGCATCGATGGCAGCAATGT
R:
CTTGTTGCTGGAGGGCCTG
Band lengths:
206-2097
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]