HsaINT0142391 @ hg19
Intron Retention
Gene
ENSG00000005175 | RPAP3
Description
RNA polymerase II associated protein 3 [Source:HGNC Symbol;Acc:26151]
Coordinates
chr12:48075479-48080690:-
Coord C1 exon
chr12:48080563-48080690
Coord A exon
chr12:48075601-48080562
Coord C2 exon
chr12:48075479-48075600
Length
4962 bp
Sequences
Splice sites
5' ss Seq
GAAGTAAGT
5' ss Score
9.82
3' ss Seq
AATTTTATCATGTTCAATAGATA
3' ss Score
5.12
Exon sequences
Seq C1 exon
GGGAATGGATTTTTCAAAGAGGGGAAATATGAAAGAGCAATTGAATGCTATACTCGAGGGATAGCAGCAGATGGTGCTAATGCCCTTCTTCCAGCTAACAGAGCTATGGCCTATCTGAAGATTCAGAA
Seq A exon
GTAAGTATTGGTTACATTTTAGTGCTGTTCAGGATAAAAATTTACAATAAATTGGTAAATTTTTACCATAAGTTACCTAACATGCCAATTATGGCGTGTTAGGTTAGCTCACATGCCAATTTATGGTAAATTTAAGTAAGTTAAAATTTAATTTATGTATTTTTGAGCATTTAAATTAAAGTGAAATGAGAGGGGAAAAGTAGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTATGTGTATGTGTGTGTTTATGTACCTGTGGTATACATAGTTCCAGGCACAAGGTGTGTATTCAGTAGATGTTCTTGTTAATATTTTCCCGCTTTTAAGTCTGGCATTACACAGTTTACCAGTTTTTCTCTAGTCGCTTTATGTATAGTATTCTGGATCTTGATTAAAAATTATTTTTCACTTCAGAGCCCCTTGGGCAAAGTCTTATCTGGAAATGTTTTATATACATACATGTATAACAAAAGAGAACTGCTGTCATTGAAACTGCTGATTAATAACATATGTAACAAACATTTGATCCTATATTAACCAGCTTTTTCTGGTTGTGCCCAAGTTGGACAATCAGTAGAATTATATCCGATGGCAGAAACTTAGACTTAGACTTTGTTTCTCTTGTTATACTTTACAGACTAATGCCAGAATTTTAAAAAGCCTGTAAATAGTATAAATAGGAATTCGAAACTTCTTCAGTGCCATGAATTCCCCTTTAGCTGTATGTTGAACGCTTCTCAGGATATTTTTAAATGCTTAACTGTACAACTAGGATTACAAAGGAAACCAATTATATCAAAATATAGTTTTGAAAATATTAAAAATTGTGATATAGTAGTATATTTGATTTTTTATTAACACACCTCAAAATGAGAAATTACATTTAAAATACAGGCAAGTGCTGTATTTTATGCTCACCAATATTCAGAATTACAGTACAAATTTAACCTGCTGCTTATTTGCATGTGATTGTACTGTATTTGAAACTACATTTAAAATACAGACAAGTTAATGTTAAAAAAATTTTAAAGACATGATTGTAAGGTTTCAGTAAGGACACCAAATTTTGGGATGATCCTCGACACATCTTCCACGTACTGATCAACAAGCAAGTGTGGATAGGGAATACCTGAAGCAACGTAGATGATTAGATTTCCAATGTGATAACACATGCCTTAGCTCTTTGTCTTCTGAATAACTACTAGGGCAGAGTTGCCCAACAGTTGCCAGCCTTGTCACAAGAGTATCTATAAACCAGACACTGCAATCACATGCAAATAAGCAACAGGTTAAATTTTTACTGTAATTCTGAATAGTGGTGAGCATAAGCAATATTTTGAGATACCAGTAACCGTTATAATGTGATATGGAAATATCTGATTTTTTTTTTTTTTTTGAGACAGAGTCCCCCTCTGTCACCCAGGCTGGAGTGCAGTGGTGTAATTTTGGCTCACTGCAACCTCCACCTCCCAGGTTCAAGCAATTCTCCTGCCTCAACCTCCCAAGTTGCTGGGTCTACAGGCATGCGCCATGACACCTAGCTAATTTTTGTATTTTTAGTAGAGATGGGGTTTTGCCATGTTGGCCAGGCTGGTCTCAAACTCCTGACCTCAGGTGATCTGCCCGTCTCGGCCTCCCAGAGTGCTGGGATTACAGGCAGGAGCCACCGCGCCCGGCCAAAATATCTGATTTTTATTGGTGACAAAGTGATAGATACTATTGTCTGCATTTGTATTTGAAAGATAGCTAAATTTTATTTGAAGTTTAGTGAAAACAGTGATACAGTTTTTTTCCTAAACAAGTTTCCACATCCCTCAGACAATCTCAGGTTAGGAGCTCCTGTCATAGAAATAAATTCTGATTATATATTTAACCTCATTTAAAGTAATAGATATCACTGGAGATAGATTCTTTTGTTGACTAGTCAGAGTGAAGATCATTGCATCTCTTGCTCACTTATGAAAATTTTGATTTTTGCTATCGAAGAATTGTGCATTGGTTTAAAAATTGTAAAGCCTGAGTTCGTTGGTTTGACTAATGCTAAGAGTAATGCCTTCTTACAGGTGAGAGATTATATATGCATTTATAAGATATCTAATTTATTGTATCAGTTTTATTTCTTTAGTTTATAATCGTATTAGTGGAATATATTATACCAAGTTAGCAGAGTATATTTTAAATTAAAAGAACTTATGACTCTTACTTGTATCTTTTCCTAGTGTATCTTTTAGATTCACAGTTAATATCAGAATTTTTTTCTGTACATGGAGACTGTTGTTATGTATTACGGACTATGTGAGGAACATAAAAAAGCAACATTTCAAGCTTAGACTACTCCTAGTTTAGGTAACCATCCTATAGCTTGAGGTTCTATAAACTGTGTCAAATTAGAGCTAATTAGAACCAGCAGTATAGTCAGTCTTACCTACCAGTGTGCGGGGTAGCAGTAGGGAGTAAGAAGAAATTCACCTAGTTAGGCCAACCGGGATTCCTAGAGAATGTGCTTTCTGGAGGTGATAGTCTAAATTAGTAGTTTGCATTGGGAGATGAGCAAGACATCCTTGAGTTACAATAATGGAGTGCCTGTGAGCTGGCAAATTGTGGAATGTAGGCTGGTAGATGGTTAGCTTCAGAAAGGCTGAAGAAATAAGAAGATAATCAGAAATAAGGACAGAAGTTTGGGCCAACATTGTAGTCCTTGAAGAGGACTGACCAAGAACAAATCTGAGTCCTATTCTTAGAGGGAGTAAAGCATAGATTTAGAGATAGGATAAGAAGAAAATAACCCAGTAGTATTAGATATTAGATTTGGGAAACAGGGTTGAGAGTTGGTCACAAAAATAAGGTAGAATCTTGGTTGCTGGAACTGGAACCAGACTAAGACTTGATTTAGTAGAGGGTGGTTCACTTAATGGTGATTAGGGGCGGCATTTACACTAGAGCCAGAGTAGACCTAGGGCAAGTGGACCTGACTGAAAATCAGAAGGAATCAGGGCTAAGGAGCTAGGCAGAGATGATAGTTTTTCGCACTCACCATTTTTATTCTATTTTTGATTAGTTTGTCTTTTTCTCCAACCACCTAAAAGATGTTTGTTGATTGGATTTTTCTAAATTCACTTTACAAATGGAGTGCACAGGAGACGTGTAATAATTTTAAAGGACTTAGGTGAGTCTATTTTCAAAGAATAATCGTCTACCTCTGTGGCAACTTCAGACTTTTAGAAAAATTGTTGGGTTTTCTTCAGCTGTACAGTAGAACATGCAATTAAATATGCAATTAAATATACAATTAAAATGATTTCCTAAACATTTATATTCTAAATTTTCTTTGAATTTGGGTGTTGGAAATTTTTTGATTTACTTATTCAGCAAATATTTATTGTGCTAAAATGTATCAGGTGTTCTGTGAGGCACTGTGGAAGGTATTAAGTATACAAATATTAAATGTATAGTTGTTTTTAAGAAACCCGAAATTTGCAGGGAGTGACAGAAAAGGAGACCAATATTTGTGAAAATACGCTAAGATAGCGCTATGAAGGACACGTGCTATAGGAGTTCAGAGTGGGAAGAATACTGGCATAGACTGAGTCCAGGCAGGGGAATTCCTGGAAAGCATCTTGAAATTGTTTAGGAGTAGTATGAGTTAGTGAGGTGAAAAAACAGGAAACAGGTCAAGTGTTCTAGTGCAGGTTCAAAGACGTGGGAGTAGGCAGGTTGATGGTACCTCAACCTGGAAAGGGTGAGTGGTTCGTATTATGGCTGTTATTGCAGGGGACAGTGGCAGAGAGAAGGCCAGATACTCAGGCAGGCCCCTGACTTTGCGCTCCAAAGGAATTGGACTTTATCTTGAAAAGTATGGGGGCCATGCAGGTATCTTGAATGATATAATCAGGCAAGTAGAAAATAACATTGATAAGGGCATGAACACAGATATATTCTTTATCTCTTGCTGGAAAGTGAGTTAAATAAATCAGAGATGTTTAAGTTCATTCGAAATTCTGATTTTTTTCATATGAGATTTTGTTTTGAGGGCAAGATGACATCCATTTAGGCCTTGGGGAGAATGCAATTACAGGAGTGTTTTTTTTTTTTTTAATATTCTTATGAAACTTTTCAAACTTATACAAAAGTAGTATAATAAACTCCATGTGTCCATCATCTAGTTCTAACAAGCCATACTTTTTTTGGTCATATTTGTTTCAGCATTTTCCCCCCGAATTATTGTAAAGCAAATCATAAACATTATGACGTTTATTGCTAAAGAAAGGATATTTTATACATAACCACAACCATTAGCACTCCTAAGAAATTAACAATAATTCATTAATGTCCTATTAATATATGGGAATGTCTGAAGTTTTTTTGTTATTGGGTTTTTTTGGTGGAGGGGGTTGAGCTCTTCTTAAGCACCTTGTTGTTGTAGAGCAGTAATGAGTAAGTCTGTAAGTCTGAATTGATTGCTGGTTGCATGGCTGAGTAGAATTTATGCAAAGTATTAGATGATATGCTATCACATTCGTACCAAGTTCTCATTTTTTTGTTTTTCTATGAGTATGGGAGGTTTACTGTGGGTAAATGTTAATAAAGTTTTATTAGAAAACTAATGCCAGTCAAAATTCTAATGTAATACCTGTGCATATTGAGACTTGGAGAAGAGGTAGGCAGAGAAGCAGTGGCATTCTTTTGTCTGCCCTAGTCATATTTTTGCATTATTATTTCATCGCTCCAGCAGACTCTCCTAACATTCCCTCAATCTGGTACCTTCTCCCTCCTCACCAAATGATTCCAGGATTTGGTGAGAATAAAAAATTTATAAAATAGTTCTCCACTTCAAACACAGATTTAGAAGTTAGTGATTGAAATTATATACAAGCTTTTTAAATTAGAAACTTAGTTTATATGACATTTTTCCATAAGCTGCCTTTTTTCCAGTCAGTAATTTTATCATGTTCAATAG
Seq C2 exon
ATATGAAGAAGCTGAAAAAGACTGCACACAAGCCATTTTATTAGATGGCTCATATTCTAAAGCTTTTGCCAGAAGAGGAACTGCAAGAACATTTTTGGGAAAGCTAAATGAGGCAAAACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000005175-RPAP3:NM_001146076:8
Average complexity
IR-S
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
Associated events
Other assemblies
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]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development
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)