RnoINT0128597 @ rn6
Intron Retention
Gene
ENSRNOG00000053405 | Rpap3
Description
RNA polymerase II associated protein 3 [Source:RGD Symbol;Acc:1303036]
Coordinates
chr7:139178327-139180631:-
Coord C1 exon
chr7:139180504-139180631
Coord A exon
chr7:139178449-139180503
Coord C2 exon
chr7:139178327-139178448
Length
2055 bp
Sequences
Splice sites
5' ss Seq
GAAGTAAGT
5' ss Score
9.82
3' ss Seq
AATTTTATTGTGTTCAATAGATA
3' ss Score
6.91
Exon sequences
Seq C1 exon
GGCAATGGATTTTTCAAAGAGGGGAAGTACGAGCAAGCAATCGAATGCTACACCCGTGGGATAGCAGCGGACAGCACCAATGCCCTGCTCCCCGCTAACAGAGCCATGGCCTACCTCAAGGTTCAGAA
Seq A exon
GTAAGTTCTGCCTGTATTTCACTTTCAGGATGAAATTCACTTAGCTTGCAACTTTAAATAATTAATTAACAAAGTTAACTTTAGTTGATTTGGTATTTTGTCATCTGTCTTCTTTGTTCGGATCTTCCCCCTCCTTCTAGTCTCCTCTGTTTTGTAGCGATGCTAGGTTAGAATTCAGGACCTCTCATGTGCTAGAGAAGTGCTTCAGCGCTCAGTGCTGAGCCAAGCCGGCAGGGGGTTTATTCCCAAGCAAACCGTAATGTAATTTCATTACAGTTAATGAGAGTGAAACGCAGAGAGAAGGAGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTTTGTGTGTGTGTGTGTGTGTGTGTACGTGTGTACATGTGATACCGTGTGTTTATCATGTGAGTGTTATCTTTACATTTTTAACAGAATTGTACAGTGTAAGTATATTGTATGTTATTTTAAATTTTTTGTATTACATTTATGTGTGTGGGTGGTATGTGTGGAAGTCAGGACAGGTTGCAGAAATTGGTTCTCTCTTCCTCCCACATTGGTTTGGGGGTCAAACCTACGTCATCATGTTTGTGGGCAAGGACCTTTACTTACTGAGCTACCTTACTCTTGAAGTAAGATCACGTGTAGACAAGCAGTAGGTGGAATACTGCCATGATACTGACATAATAATGAGTGTTACGGAGGTGTGCGTGATAAAATGAATAATGATATGTGTGTTTTATTGGTGACAGAGTTATAGGTTCCGCTATAATTGACAGAAAGCCAAATTTCACTTATTGAAACTAAGGACGCAATCTATTTCAAGTTTCGCACTCCTCAGAAGACTTCATGTCAGGAAGGTGACTAAGGAGGAAAATGTTGGTTGCATATTTAACCTTATTTAAGGGATAGACACAGCTTAAGCATTGTCTTTTATTGATTAGCCAAGAATGGTTTCTCATCTTTTGAGAGCTTAAGAAAACCTGGATCTTGCTGTTAAACAGTCCTGTGTTAGTTCAGTCATTTTAACACCCCAAATGGTTTGACTAAATATAAGAATAATGCTTTGTGGGGGTGAGGCTGCCTCTGAGTACGTCGTGTTAGTTTTGTTGTCTGTGTTCATAAGAACCTGGTAACGTGTGTCGAGTCAGCAGAGCTTAAGTTAAAGGATAGACTGATGTTATTTGTACTCTGTGTTCATTTCTCTGGTATGTGCTCTGGGGACTCACAGAACGACACTTAGGAAGTAGCAGTGAAATAATTTTATGTTCGGAAGTCACCACAACAAGAGGAACTGTGTTAAAGTTGCAGGGGCCACTGAGTTAGAGGCTCATGTCCTGACATGGGTGTTCAGAATTAAAGACAAGGATGGGAGTAAAAAAGTCTGCAGTTTATGTGACAAGGCGACAGAGAAGACCAAAGCCCCTCTGTGTGGGGCTTCGTGATCCTCAAAAGTGCAGGGTCTGTGCAAGCATCTTAAAACGAGAGGTCGGAGCAGTGATGCACAGAATCATAGCGCAGAGCTTGGACAAGGACATTTTCAGTGTGCTGCAAAGCAAAGTAAGAAATCAGAGTTGTGTGTAGTGGTTCCAAGCTTGGCAGGAGGATCAGAAGTTCAAGGTCATTCTAAGGTCACCCTAGGTCGTCTGATCTGAGGCTGTGAGCCACCTCTCCTCACTCCCTAGTCTGGTTCTCTTTCCTTCCTTTCCAGATGGTCTGAAGATCTGGTGGGAATGAGAAAATTGGAATGATCTTTCTCCTTAAAGACAGAGTTTTGGGAATTGTTAATTGAAGTCATATGTTGCTGGGCAGAGGAGGGAGGGTAGCAAGTTCTAAGCCAGCCTGGCCCACATAGTAAGACTGTAGTCTCAAACAAAACAACAGAGGACAAGTTGTGACAACTTGGTTCTTTCCTTCTACCTTGTGGGTCCCAGCAATGGATTCAGGTTGTTAGGCTTGGCAACAAGCACTTTTATCCACTGGACCATCTCTCCAGCCCTCATTCTATTTTCTATGAGCTACATGTTGTCCAGTTGGTAATTTTATTGTGTTCAATAG
Seq C2 exon
ATATGAAGAAGCTGAAAGAGACTGCACACAGGCTATCTTACTAGATGGTTCATATTCAAAAGCTTTTGCCAGAAGAGGAACTGCAAGGACATTTTTGGGAAAGATCAATGAGGCCAAGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000053405:ENSRNOT00000083926:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF134141=TPR_11=FE(61.8=100)
A:
NA
C2:
PF134141=TPR_11=PD(23.5=38.1),PF0051523=TPR_1=PU(64.7=52.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]