HsaINT0141771 @ hg19
Intron Retention
Gene
ENSG00000170633 | RNF34
Description
ring finger protein 34, E3 ubiquitin protein ligase [Source:HGNC Symbol;Acc:17297]
Coordinates
chr12:121855307-121858137:+
Coord C1 exon
chr12:121855307-121855714
Coord A exon
chr12:121855715-121858044
Coord C2 exon
chr12:121858045-121858137
Length
2330 bp
Sequences
Splice sites
5' ss Seq
CAGGTACGA
5' ss Score
10.03
3' ss Seq
GATACGTTGTATAAGTGTAGGTA
3' ss Score
0.03
Exon sequences
Seq C1 exon
CATGTTTGCTGTGACTGCAAGAAGGATTTTTGCTCCGTTTGTTCAGTCTTACAAGAAAATCTCCGTAGATGTTCTACTTGTCACTTATTACAAGAGACAGCATTTCAGCGCCCTCAGTTAATGCGACTGAAGGTGAAGGACCTGCGGCAGTATCTCATTCTGAGAAATATACCCATAGATACTTGTCGTGAGAAAGAAGACTTGGTGGATCTAGTACTGTGCCATCATGGACTAGGCTCTGAGGACGACATGGACACAAGCAGTCTGAATTCTTCAAGGTCCCAGACTTCTAGCTTTTTTACACGTTCGTTTTTTTCAAACTATACAGCCCCCTCTGCTACTATGTCTTCGTTTCAGGGAGAGCTTATGGATGGAGACCAAACATCCAGATCTGGAGTGCCGGCACAG
Seq A exon
GTACGAGGGGGTAACTAATTACACCCAGGGCCCGGCACGCTTATTCTTGGCCGTATATGGTGGGGCCTTTAGTGCTTGATGACTTCTGATAAACTTCAAGTCATGTGCTGGAGTGAAGCTTCCACACCCAGCTGAACTCTGCACTTAAAGGCTGTCCTGATGTATAGTGTCTGCTGAGGTGCTAGGTGGCTCCAAAGTCTGCTGTCTGAAGGGTCCCAAAATAGCTCATCAGTCTCTTGGCCTTAGTTAATTTCTCTGTCTTACACAGTTAGACACTAACTGTTGAAGAAATGGCTGTGAAAAAGTAGCACATACACATTTGTAGTGTTATGTGTTAGTGCACGTGTTTCAGTGACCACAGAAAACAATCAGTAGTGTAAGTTAGCCTAATGCCCATTTGTCTTGCTACAGTGAAATTGTTCTAATTTAGTTAATGAAAGAGCCATCTGAATTAGTGAAAAAATGTAGTTATTTACTAATTGTAATTAATAATATTGTCCCAGTGAGGTCCTTGGACATCCTGATTGAATAACATGTAAAGGCTTGTAATTAATATTTACTTGTACGTGAGTGATTCTAAACTGCTGAAAGAAATGTTTTGAACAAATTTTTTCACGCTTAATTTTCTTCTCTGAAGAAGGGGGTTATTAAAAGTAGAGGAAAGCTGGATGCGGTGGTGTGAGCCTGCAGTCTGATACTTGGCAGGCTGAGGCAAGAGGATTGCTTTAGTTCAGGAGTACGAGGCTGCAGGTGTACCATGATTGCAACTGTGAATAGCCACTGTACCCCCAGCCTGGGCAACATAGCAAGACTTTTTTTTTTGTTTGGAGGCAGAGTCTCACTCTGTTGCCCAGGCTAGAGTGAAGTGGCGAGATCTTAGTTCACTGCAACCTCTGCCCCGCTGGGTTCAAGCAATTCTCCTGCCTCAGCCTTCCGAGTAGCTAGGATTACACCCCAGTTAATTTTTGTATTTTTAGTAAAGATGGGGTTTCACCATGTTGGTCAGGCTGGTCTCGAATACCTGACCTCAGGTTATCTACCTGCCTTGGCCTAAGTGCTAAGATTACAGGCATGAGCCAACCGCGCCTGGCCAAGAGTGTCTTTTAATTAGTAAATGAATAAATGCAGAGGGAAATTTGGTCTAATTGCCTTCTAGATATAGTCCTGTGTCCTCTAATAATGTTTTGGTCAGTGATAGACCACATACACGGCAGTGGTTCTGTAAGATTATAATACCATATTTTTATTGTACCTTTTTTGTGTTTAGATATGTTTAGATACACAAATACTTATTACTGTGTTATAGCTGCCTACAGTATTCAGTACACTAACGTGATGTACGGCTTCGTAGCCGGCCATGCCCTATAGCCTAGGTGTGTAGCAGGCTGTGCCATCTAGGTTTGTGGAAGTACACTGTGATGTTCGCACAATGACAAAATCGCCTAAGGACACATTACTCAGAACGTCTCCTAGTCGTCAAGCAACACATACTGTAGTCGTAAATTAGATAAGTCCAAGCCAGGAGTTTTATTATTCTCCCAAATGAGAATTGGCATATTTATGCTGCAAACATAAGGCACAGCTGACTTACATACCCCTTTTGGGTATACACCACCATTTGGGTGATGTGGATTGTTGGATGCTACAGTATGGTGCCTGGCAATCAGGGTGGAATATTTGAAATTGGGAACCGACCTAGCTTATTGGAGAGCTATTGTCAAATATAGTCAAAAGAAAATATGTGAAGGAAGGTACATAACCCAAACTGAAGAGATTTGTGTTTTCTAAAGTGTTCTGATTGAGAAATTTTAAAAACTAGAATTAGCCTCAGCCATCAGTGAAGTCTAGAAAGCCTTCGTTGGAATTAGATTGTCTAAGTACGCTGTGGTAGGACTGAGATCTTTCAAATCAGATGCCCCTGATGCTTGGGCTGACCCATCAGAGCTTTAGCTTTTTTCTGTCTGCATCTTACAGGCTCCAGTTAAACTAGCCATTTGCAGGTACTTTGATAATGACACAGTGCTGTCCCATATCCTTAATGGCTTTGGCATTCCATTATGGGACCTTCCTGAGAGAGTTAATACTCTGGTTAGATTTTATAACTTTACACACACACAGGAATTTGTGTTTTGAGCTAACTTTATGGAAGGTAGGTTCTTCATGCAATTTTGTAGGGCCCAACTTTTTGGAAGGGTCAGCAGCATTCTGAATCCAAAGATGTGCATTATGCTGGCTTTCTGGTCATCATGGGGAGCATCAATGACAAGGTTTTCTCTAGTGATAAATACAGATTGATTCCTGACCTAATCAGATACGTTGTATAAGTGTAG
Seq C2 exon
GTACAAAGTGAAATCACTTCAGCAAACACAGAAGATGATGATGACGACGATGATGAGGATGATGATGATGAAGAAGAAAACGCAGAGGATCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000170633-RNF34:NM_025126:3
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.221 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF045468=Sigma70_ner=PU(27.3=15.4),PF0306610=Nucleoplasmin=PU(61.5=47.1)
A:
NA
C2:
PF045468=Sigma70_ner=FE(39.0=100),PF0306610=Nucleoplasmin=FE(28.8=100)
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)