HsaINT0142375 @ hg19
Intron Retention
Gene
ENSG00000005175 | RPAP3
Description
RNA polymerase II associated protein 3 [Source:HGNC Symbol;Acc:26151]
Coordinates
chr12:48096471-48099844:-
Coord C1 exon
chr12:48099735-48099844
Coord A exon
chr12:48096630-48099734
Coord C2 exon
chr12:48096471-48096629
Length
3105 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
GGTTGTTCAAAACTCTGCAGACC
3' ss Score
5.16
Exon sequences
Seq C1 exon
GCTTGTGGGGAAGCGCAGGAGGCGGGGCTTTGCGTGAGTCACTGCCGGGCTCGGCGTGAGTCGCTGCGGGGCTGACGGGGTGGCAGTGCGGCGGGTTACGGCCTGGTCAG
Seq A exon
GTGAGCGGGCGTTGCGGTTCTCGCTGCCCGGAGCAGCGTAGGAGATCCTTGGGGTGGCCGGTGGGAGGAGGGGTAGCGGTTATGGGTACCGGTGAGGCGGGGCGGGCCGGGGCTGGCGGTGGAGGCGCGCGTTGAGGCGGCGCGTCGGTGTCCAGGGCAGCGGCGTCTCGGGTCGCGCGTTCCCGGAGGGGCTCGCCCCCGCAACCCGGGCCTGCGCGCTCTGCTTTGCAGGCGGACCCTCCACCCTGCTGCGATTTTGCAGTGCTCGGGAAGGCAGAGCCGCCCTCCCGCAAAGACCGAGGTGGGGCCCGCCCCCTTGCGGCGTGGGTGTGCGGTGTTCGCCGGGACAGCGGGTGTGAAAGTGATACCCCCAGCGCTGGAAGTTTTTGATTGCTGGCTCGCACCCCCGCCCCATCGCAGGGTCCCTGGGAGAGTTTTTGGGCCTGCTCGAGCAGCAGCGGTGATGGGTGAAATGGAAAAGCATCTAACCCCCGTCAGCATCTCACTGACTTGTTGCGCTTTTATTCATTTATTTGAGTTCCCAACAAAGCGTTGTACTAGTTTTGTTTTTGAATGAGTTGTGCATATATGGTCAAACATGGACACTGCCTGAAAGAAGCTTAAACCTAATTTAGTTGTTGAGGCTACGAGTCAGAAGACCTATCTGCATCTGCAACTGTCCCTTCTTAGTGAGGTATTTTTCACTGTCCTAAACAAATGTTTTTCTAATTCCGTCTCTCTCCCTCCCACCTTACTTCTCTTCCCTCCGCCTAAAGCTTTGACTCTTCTCCTACCTTTTTGGAGATTTTGCCCCATCACTCATCCTTTTTCCTGTATCTTTTACTTTGTTGCTTTTTCCCCAGACTATGCTCAAGAACAAGTCTTATATTATCAAAGGCAAATGTACTGTAATCTCCATATAATCTCATTTACGTAACTCATTTCATTCCCCCCCCTCCTTTTTTTTTGGTCCCAGGCTGGAGTGTAGTGGGCCCGTCACCGCCCACTGTGGCCTCGATCTCCCGATCCTCCCACCTCAGCCTCCTGAGTAGCTGGAACTATAGGCACCCTCCACCACGCCTGGCTAATTTTTGTGTTTTTAGTAGAGATGGGGATCTCGAAGTGTTGCCCAGGCTGATCTAGGAACTCCTGAGCCCAAGCTATTCCCCCTGCCCCCCAACCTCTGCCTCCCAAAGTGCCGGGATTACAGGCATGAGCCACCTGCGGTTGGCCTTCCACCCTTTAAAAAAAATCTTATTGAAACTCTAAATAGAGGTCAGGCGCGGTGGCTCATGCCTATAATCCCAGCACTTTGGGAGGCCGAGGTGGGCGGATCACTTGAGGTCAGGAGTTCGAGACCAGCCTGGCCAACGTGGTGAAACCCCGTCTCTACTAAAAAAAAAAAAAATACAAAAATTAGCCGGGCGTGGTGGCCTGCACCTGTAATCCCAGCTGCTCGGGAGGCTGAGGCAGGAGAATCACTTGAACCTAGGAGGTGGAGGTTGCAGTGAGCTGAGTTTGCGCCACTGCACTCCAGCCTGGGCGACAGAGCAAGACTCTGTCTCAAGAAAAAAAACAAAAACTCTGAATAGTCTTTTTATGACTAAATATAATGCACTTTCTTTCCCTCTGTGGCATTTGGCACTGCTAACCTCTCACTTTCTTCAACTCATTTTTTGTCATCTGTAACAGTACACTCTAGGTTTTTCTCCCAACTGTCTAGGTGCTACTGCCTACTTTTTTCTTCCTTGGCATCTCTTTCTCCGTTTAGTGTTCTCCAGGTTCACCCCATTCCCCAGTTGTCACAATGGTTAAACATGGCCACATCCTTGATTCTAGCTTCTACCTTTCTGCTAGTGACACCGGAATTTATCTCTATTCCTACATAGCTACCTATGGGGTATCTCTTCGCCCCATTAGCACTCAAATTCAGCATATCCCAAACAAATAATCTGACTTTCCGTTTGCCCTCCAACTTTGATGCCTCTTTTCCTTTTAACATTGTATTTCTTGACTCAAAATGGCATCAGTAATCTTACCGGGGTCCCAAGCCAGAAATCTAGGCCACTGTTTGAGTCTTTCTCTGTTCTCCAACACCTCAGTCTAGTCAGTCATCAAGTTCTTTTTATTTTACTACCTTGATATTTTCACATAACTTTCAGAATATAGGTTAGACCTCATGGCCTGCCATTTCAAGTCTGTCCCATGTCCACCTCTTTAATTTTCTTTTCCTTCATTCTCCCTCATAATTCCTCACTCTGCCTGCCCACTCCTCCCTGTTAGTCACTTGGCGGGCCCCTTTGAAATCCAGCTAAAGTTCCAACACCTCTGGGGACTCCTTCCGTGACACCACCACCCTACTATCTGATCCATGCCTATTTTTTGCAGTCAGTTCCATAGCATCTGTATGTACCTCTGACGCAGGGTTCTCAACCAGGGGTTATTTTACCTCTCAGGGAACATTTGGCAGTGTCTGGGATTCTTCGTTGTCACAATCCATGAGAGGAAGGGATAATCCTGGCACCTAGTTGGTAGAGGACAGAAATGTTGCCAACCCTCCTACAATGCACAGGACAGCACTCTTAAAATAAATTTTTTGGCCCAAAATGTCAGTAGTCCCAAGGTTGAGAAACCCTGCTTAACATATTTTGTTACTAGTGCTTTATATATTTTTTTCTTCTCCACTGCACAAGGGACCTTGTCTTGTTTTTGCATCCCTAAATCTTGATTCAGGGCCTTTCACATAGTAGAAGTTAAATGTTGGAAGAAAAAGAAATAAAGGAGGTAATCGCTCAACTCCAGAGATGAGCAGCCTGTCTGCTACCACAGGCTACCTGATAATTTCAGTGATTTTTCTCCCCATTACCTTTCTTTAATGTTGCCTTTCAAGGATGCTTCAACTTGTCTATTTTTCATTTGTTTATTCAGCAACTGATTTATTTTTAAAATATTATATTGATTTTTCTTTATTCAGCATCAGTTGGCTGTCTTCTGTCCATGTATCTTGGCCACTTATGAAGTGGTAAAAGATAATTAGCTAGCTTTCAGAAAAATAAACCAAATAGGCCTATTCTTATCAGAGGTTGGTTGTTCAAAACTCTGCAG
Seq C2 exon
ACCATAATGACTTCAGCAAATAAAGCAATCGAATTACAACTACAAGTGAAACAAAATGCAGAAGAATTACAAGACTTTATGCGGGATTTAGAAAACTGGGAAAAAGACATTAAACAAAAGGATATGGAACTAAGAAGACAGAATGGTGTTCCTGAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000005175-RPAP3:NM_001146075:1
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.745
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
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]
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)