RnoINT0155637 @ rn6
Intron Retention
Gene
ENSRNOG00000022598 | Trerf1
Description
transcriptional regulating factor 1 [Source:RGD Symbol;Acc:1307167]
Coordinates
chr9:15697117-15700312:-
Coord C1 exon
chr9:15698584-15700312
Coord A exon
chr9:15697164-15698583
Coord C2 exon
chr9:15697117-15697163
Length
1420 bp
Sequences
Splice sites
5' ss Seq
CAGGTATCT
5' ss Score
7.33
3' ss Seq
CCTGTTTGGCTCCAAATTAGATG
3' ss Score
4.54
Exon sequences
Seq C1 exon
GTGTCTGGTCCGTACCTCAGCCCGGGTGAGGATGTAGGCACCTCGGCTCCACTGATGACTGGTTCAAGCCAACAGGGACCCCTGCCTCCAGCCACCCTCACAGACATGTCAGCCGTGGAGTAGGGTGGACTCTTTCTCTCATCTTCTCAGGGTTTCAGGATTTTTTTTTCTTCATTTCCTCTTTTTTGTTGTTTTTTTTGTTTGTTTGTTTGTTTGTTTTGTTTTGTTTTGATTTTCGTTTTGTGGCTGAACATTCATAAGCACGGAGGACATCATGGGGGACCAGCAACTGTACAAGACCAATCACGTGGCCCACGGTGGTGAGAACCTCTTCTATCAACAGCCACCCCTTGGCGTGCACAGCGGGCTGAACCACAGCTATGGGAATACAATCTCGGGGGCTGGAATGGACGCCCCGCAGGCCTCACCCATCTCTCCTCACTTCCCTCAAGATACTCGGGATGGTCTCAGCTTGCCTATTGGCTCCAAAAACCTTGGCCAAATGGATGCCTCCAGGCAGGGAGGATGGGGAAGCCATGCAGGACCTGGGAGCCATGTCCAGCTTCGTAGCAACTTGGCCAACTCAAACATGATGTGGGGGGCGCCGGCCCAGGTGGAACCCACGGATGGCTACCAATACACGTATTCCCAGGCCAGCGAGATCCGGACCCAGAAACTCACCAGTGGTGTTTTGCACAAGCTGGACTCTTTCACCCAGGTGTTTGCCAACCAAAACCTGCGAATTCAGGTCAACAATATGGCCCAGGTGCTGCACACCCAGTCAGCAGTGATGGATGGAGCCTCTGACAGTGCCCTCCGTCAGCTGCTGTCTCAGAAGCCTGTGGAGCCCTCAGCATCAGCCATAGCTTCTCGCTACCAGCAGGTGCCCCAGCAGCCTCACCCTGGTTTCACAGGTGGACTGCCCAAACCAGCCCTTCCAGTCGGGCAGCATGCTCCCCAAGGGCACCTGTATTATGACTACCAGCAGCCCCTGGCCCAGATGTCCGTGCAAGGCGGACAGCCACTGCAAGCCCCTCAGGTGCTGTCCAGCCATATGCAGCCATTGCAGCAGCACCAGTATTACCCACAGCCGCCGCCTCAGCAGCAGCAAGCCGGACTGCAGCGGCTCTCCGTGCAGGAGATGCAGCAGCAGCAGCAGCAGCAGATTCGCCCCTCACCGCCTCAGCAGCAGCAGCAGCAGCAGCAGCAACAGCAGCAACAGCAGCTCCAACTGCAGCAACGGCAGAGTTCACTGCAGATACCTCAGTATTATCAGCCCCAACCCATGATGCAACACTTGCAAGAGCAGCAGCAGCCATCCATGCACCTGCAGCCCCCTTCGTACCACAGGGACCCTCACCAGTATACCCCGGAGCAGGCACATGCGGTCCAGCTGATCCAGCTGGGCTCCATGCCCCAGTATTACTACCAGGAGCCTCAACAGCCCTACGGTCACCCCCTCTACCAGCAGAGCCACCTGTCCCAGCACCTGCAGCGTGAAGACAGTCAGCTGAAGACCTACTCCAGTGATAGGCAGACCCCAGCTCTGCTGAGCTCTCACGGGGACATGGGACCTTCTGATACAGGGGTGGCAGATCCAGCAAGCTCAGAAATGACCCGGGTCACCAGTACCCTTCCTCACCAACCGCTCCTGTCCCCCAGTGGGATCCACCTCAACAGCATGGGATCTCAGCATCAGCAGCCGTCTCCCAGTGCGATGTGGCCCCAG
Seq A exon
GTATCTCAAGGTTCCTTCCCGTATCTGCACGTGCGACAGACTCAGCCAGGAGTGAGTCTCTGCAGTGCCCAATCCTGCCTCCAACCTTTACCCTTTACGTTCTTCACACATTTCCCACAGGTTAACCTACACATGCCAGGCACTGTCTGCTCCAGACACTTGGAATACAAAATCGATTTGGATTCCGTCTTTGGCCCTGGGGTTTTGTCACCTCACTAAAGAGATGGGCAGAACACTGTAGTGTGTCTGAAACAGTTAACATAATGATCAGCACCAGGGGCCAGAGGGTTGGCTCAGCTCAGGCATGGGATGCAGGGCAGAGCTCGGCAGTAAATGCTTGTAATCCCAGCACTGGAGAGGCAGCGACCAGAGGATCCCTGGGCTCACTGACCGGCCCAGCTAGCTGACTCATAGAGTTCTGACTAGTAAGAAGCCTGTCTCAAAGGTAGCAAGTTGGGCCACCATGATGGCTCAGCAAGGAAAGGCACTTACTGCCTCTGCTGCAGACCTGAGTTCCAACCCCCAGGACTGAGGAGAAAGGAGAATACTGCCACCCCCCCCCGAATGAATTGTCTGTTCACCTCCACACACATGTTGTGGCAACACATATACACACACATATGGATGGATGGATGGATGGATGGATGGATGGATGGATGGATGGATGGATAGGAAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGAGTGTAATAAAAATGTTGATGTGAACAGTGCCTAGGGAACAATAGCCAAGGCTAGCCTAACCTCTAGCCTTCACTAACATGCCCACAGGTGTGTATAGAACCACATGCACCTTCGTGTACAGTGTCTATGTCAGGGGCAAGAGGACCACAGAGTAGGGATATCTCATCCCCACTGAACTCTATCCTTGGGGTAGCGACACAGATTGTCCTGTGACTTCCGCACAAACACGGTCGGTGCACATGGATGCTCCCCACCCACGGCCCACACCACCTTTACACACGCCATACATGCAGTCATATACACAAAGTTCTTTAGTTTTGATGGCTATCTGGTCCCCTGGAATGTTGCTGTGCCACCCAGTTCCTGTCTGTCCTTTTCTGGGGTGGACTCTGTTAGTGCAGACTGGACACAACCAGAATAAGGTGGATGGAAGGGGGTTGAGTCTTAGTGGGCTTGGGGCTGGCATCGGCTGTGAGTTCAGGGAGTAGTGGGCAGAAACCAGATGCAGAACAAAGGCCTGAGTAGACATGTCGGGGTAATTGTGGGCAGAGAAAGTTCTGGAAGGGTAGATCCTTGTGTTCAGACAACTTGAGAGTCCTCCCTTTAGAAATACATGTTTGTTTGTTTTTTCTCTTTTCTTGTTTTCTTCCGGTGCCCTGTTTGGCTCCAAATTAG
Seq C2 exon
ATGCACTTACCTGATGGGAGAGCCCAGCCTGGATCTCCGGAATCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000022598:ENSRNOT00000035907:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.843 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACTACCAGGAGCCTCAACAGC
R:
TTGATTCCGGAGATCCAGGCT
Band lengths:
351-1771
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]