RnoINT0128583 @ rn6
Intron Retention
Gene
ENSRNOG00000053405 | Rpap3
Description
RNA polymerase II associated protein 3 [Source:RGD Symbol;Acc:1303036]
Coordinates
chr7:139175921-139178448:-
Coord C1 exon
chr7:139178327-139178448
Coord A exon
chr7:139175992-139178326
Coord C2 exon
chr7:139175921-139175991
Length
2335 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGA
5' ss Score
10.57
3' ss Seq
TTTTTTAAAATTCTCGTTAGATT
3' ss Score
6.14
Exon sequences
Seq C1 exon
ATATGAAGAAGCTGAAAGAGACTGCACACAGGCTATCTTACTAGATGGTTCATATTCAAAAGCTTTTGCCAGAAGAGGAACTGCAAGGACATTTTTGGGAAAGATCAATGAGGCCAAGCAAG
Seq A exon
GTAAGACTAGAAAATCTGACACATTCACCTGATGACCCCACAGAATAGCTGACATGCTCACCCTATCAGACTCCTGAGGTGTAGAAGCAAAGAGTTTTGTAGTTTTCCACAGTGATTTTTGCAAAGCACTTTGGGGATGAAGGTGAGTCTGAAAACTGAACCTCGAATAGTGTGCAAGATTATTTATAACATACTGTGGTTAATCACCAAGTGAAAGGAAGGAAAGTTTGAAGAGGGGAAACAAGAACTAGTCAAGAAGAGAGGGTATCAGCAGCTGGGCATCGAGGTTAACGTGAGGGCTACATTGATTCCTTTCTTACTCTTTTGTTTTGGTTTGGTTTTTGGAACAGAGTTTCTTATATAGCCCTGGAATTTAATGTGTGGACCAGGCTGACCTTGAGCCTTCCTGAGTGCTGGGATTAAAGGCAGCTCCAACACACACGCCTGGCCTTTCTCATTCCCGATGTGTGCGTTTGTTTGTTTTCCCTCCTGTCCTGTGCCCTGTGCCCTGTGCCCTGTGCTGCAGGTCCCTGTGCTGCAGTCTTCGTCAGTCTTCAGAGAACTGACCTGGTCTTACCCATGTTTCCCTCATTGCGTTTGTTCCCTGTTCCTTCGGTTTCACTTGCTGTTCTCTCTCTCTCTCTCTGTTTCCTTTGAAATCTATGCTGGGAAGAAAAAGATGAGAGCCTATTCTAGCTAGTTTTATCTGATTGGCATAAGCCAGTCATCTGGAGGAGGAAGCTCCAACTGAGAAACGCCCCTAACCACTTGTTCTGTAGGCAAGCCTGTGGGACATTTTCCTGATGGCTAATTGCTAGGTGAGAAACTGGCCACTGTGAGCAGTGCCACCCCTGCTGGCCTGGAGGTCCTGGGTGCTCTGTGCAAGCCAAATGCTGTGGGGAGCAAACCACTAAGCAGCACCCTGTGGCCCCTGCACCACTGCCTGCCTCCAGGCTCTGCCCTGATTTCCTCAGTGATGGGTTATGGCCTGAGGGCTGTGAGCTCAAATGAGCCCCGTCTTCCCTAAGCTGCATCTGGTCATGGGATTTAGCACAGCAGTAGAGACTTGAAGACAGAGTCCTGGGATTAAACCCAGGCCCTGTGCCATTTTTCTTCCAACTTCCTGTGTTGGTAGTCACAGAGTAGAGGTCAGGCTTTTCCTTTCCTGATAATTACATTTAAATCGGGCAGTTAATCCAGCCAGGCATAGTGGCAGCCCATTGTTTTTTGTTTTATCAAGTTATGGTAAGATTGCACAGCACTAATTTGATATTTTTACCATTTGATGTGTATATTTTCAGTGTTGTGCAACCGTTTGTCCTTATTCTAAACGGTGTATCAGGTGCTAACTGTCCGTTCCTCTTCCTCCTCCCTTATAGCCCCTGGCAGCCGCTGTTTTCTGTTAACCTGATTACTGTCCTACTGGTTAGCCAGGGGATGTGAACTCCTCAGCCCCCGAGTGCTGGGGTTTTAGGCGTGTGCTACCGCATTGGGCTAAACTTGGTCCTGTCAGACCTGCCGATTGGTAGGCTCATGGCGGTATTGCTGCTCTGCTCCATTTACCTTAGAATGTTATCAAGCTTTCTGTGTGCTGAGACGTCATCACAGCTTCTTCTTAAAGTTTTTTTAAATTTTCTTTTTTACATTTTATTTTATTGAACATGTGCATTTACATGCATGGATGTCATAGGCACACACGTGTAAGTCAGGCCAACTTGCAGAGAGCTCATTCCTTCCTTCACCAGCTTCAGTGTGGGGGCAGGGGATGCTGGTTAGCCCTGGCTGGCCTAGCATTTGCTATGTAGACCAGGCTAGGTTTCAGCTCACACGAGTCCTGCCAGTGCCTCCCAAGTCCTAGGACCACAGGCGTGCGTGCATGTGACCACACCTGGTTTCATCACCTTAAACACTGAGTAACATTCCGGGGTGTGGCGTTCTCTGAGGGGAGTTATTCCCTCATTCATTAAGTGTGAGTGTGGTTATGTGCAGTGCTCCTTCGGTCTCTCTGTGTCATCTGCAAATCCAGGGTGGAGCATGAGGTCTGAGAAAGTCCATGGGAACAGCTTGACAAACCCTGTCCTTACCGCCACTCCCCTCAGGGTCCCGAGTAAAGCTCACTGAGAAAGGAGATGTCTGAGCCCCAGCATTGGGCGGCAGAGACAGGATGGTTAGGGTCTGCGCTGTCTTTGCACAGCTGGTGCAGGGACATCTGGGCTGCACCAGCACCTGTTGCAAAAGCCAAAATAAGTAAACAAAATAAAAGGATTGTTAACTAAAGATGTCATGTTTTGAATGCCATAAAAGTAATTTTGCTATTTTTTAAAATTCTCGTTAG
Seq C2 exon
ATTTCGAAACTGTTTTACTTCTGGAACCTGGAAATAAACAGGCAGTGACCGAGCTTTCCAGAATTAAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000053405:ENSRNOT00000083926:10
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=PD(23.5=38.1),PF0051523=TPR_1=PU(64.7=52.4)
A:
NA
C2:
PF0051523=TPR_1=PD(32.4=45.8)
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]