ROCR (regulator of chondrogenesis RNA) - Rat Genome Database

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Gene: ROCR (regulator of chondrogenesis RNA) Homo sapiens
Analyze
Symbol: ROCR
Name: regulator of chondrogenesis RNA
RGD ID: 11575181
HGNC Page HGNC:52946
Description: INTERACTS WITH sodium arsenite
Type: ncrna (Ensembl: lncRNA)
RefSeq Status: VALIDATED
Previously known as: LINC02095; long intergenic non-protein coding RNA 2095
Allele / Splice: See ClinVar data
Latest Assembly: GRCh38 - Human Genome Assembly GRCh38
Position:
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381772,021,851 - 72,025,979 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1772,021,851 - 72,058,073 (-)EnsemblGRCh38hg38GRCh38
GRCh371770,017,992 - 70,022,120 (-)NCBIGRCh37GRCh37hg19GRCh37
Cytogenetic Map17q24.3NCBI
HuRef1765,410,823 - 65,415,376 (-)NCBIHuRef
CHM1_11770,082,068 - 70,086,196 (-)NCBICHM1_1
T2T-CHM13v2.01772,895,044 - 72,899,170 (-)NCBIT2T-CHM13v2.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
References
Additional References at PubMed
PMID:11329013   PMID:29084806   PMID:31690584  


Genomics


Clinical Variants
Name Type Condition(s) Position(s) Clinical significance
GRCh38/hg38 17q23.2-25.3(chr17:36449220-83086677)x3 copy number gain Developmental Delay and additional significant developmental and morphological phenotypes referred for genetic testing [RCV000052483]|Developmental delay and additional significant developmental and morphological phenotypes referred for genetic testing [RCV000052483]|See cases [RCV000052483] Chr17:36449220..83086677 [GRCh38]
Chr17:58617905..81044553 [GRCh37]
Chr17:55972687..78637842 [NCBI36]
Chr17:17q23.2-25.3		 pathogenic
GRCh38/hg38 17q24.3-25.3(chr17:69209079-83086677)x3 copy number gain See cases [RCV000052486] Chr17:69209079..83086677 [GRCh38]
Chr17:67205220..81044553 [GRCh37]
Chr17:64716815..78637842 [NCBI36]
Chr17:17q24.3-25.3		 pathogenic
GRCh38/hg38 17q24.3-25.3(chr17:69916435-83102552)x3 copy number gain See cases [RCV000143342] Chr17:69916435..83102552 [GRCh38]
Chr17:67912576..81048189 [GRCh37]
Chr17:65424171..78653717 [NCBI36]
Chr17:17q24.3-25.3		 pathogenic
GRCh38/hg38 17q23.1-25.1(chr17:36449220-75053130)x3 copy number gain See cases [RCV000137437] Chr17:36449220..75053130 [GRCh38]
Chr17:57595736..73049225 [GRCh37]
Chr17:54950518..70560820 [NCBI36]
Chr17:17q23.1-25.1		 pathogenic
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:170
Count of miRNA genes:81
Interacting mature miRNAs:83
Transcripts:ENST00000430908, ENST00000543512
Prediction methods:Microtar, Miranda, Rnahybrid
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system sensory system visual system adipose tissue appendage entire extraembryonic component pharyngeal arch
High
Medium 2 6 137 22 3 572 3 1 133 9 330
Low 26 5 342 194 282 173 727 16 536 26 324 56 21 33 354 1 2
Below cutoff 347 359 629 194 214 195 730 452 2170 151 273 452 7 1 108 497

Sequence


Reference Sequences
RefSeq Acc Id: ENST00000412640
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1772,037,314 - 72,057,719 (-)Ensembl
RefSeq Acc Id: ENST00000424417
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1772,040,647 - 72,057,734 (-)Ensembl
RefSeq Acc Id: ENST00000430908
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1772,021,851 - 72,030,604 (-)Ensembl
RefSeq Acc Id: ENST00000540802
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1772,021,851 - 72,058,073 (-)Ensembl
RefSeq Acc Id: ENST00000543512
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1772,021,851 - 72,034,092 (-)Ensembl
RefSeq Acc Id: ENST00000630770
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1772,040,809 - 72,046,347 (-)Ensembl
RefSeq Acc Id: ENST00000674584
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1772,021,853 - 72,057,665 (-)Ensembl
RefSeq Acc Id: ENST00000674753
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1772,021,851 - 72,027,197 (-)Ensembl
RefSeq Acc Id: ENST00000674854
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1772,021,851 - 72,030,832 (-)Ensembl
RefSeq Acc Id: ENST00000675006
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1772,021,861 - 72,034,188 (-)Ensembl
RefSeq Acc Id: ENST00000675756
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1772,021,855 - 72,030,594 (-)Ensembl
RefSeq Acc Id: NR_110876
RefSeq Status: VALIDATED
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh381772,021,851 - 72,025,979 (-)NCBI
CHM1_11770,082,068 - 70,086,196 (-)NCBI
T2T-CHM13v2.01772,895,044 - 72,899,170 (-)NCBI
Sequence:
Promoters
RGD ID:15097084
Promoter ID:EPDNEWNC_H1927
Type:initiation region
Name:ROCR_1
Description:regulator of chondrogenesis RNA [Source:HGNCSymbol;Acc:HGNC:52946]
SO ACC ID:SO:0000170
Source:EPDNEWNC (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.; Paired-end sequencing.
Position:
Human AssemblyChrPosition (strand)Source
GRCh381772,030,583 - 72,030,643EPDNEWNC

Additional Information

Database Acc Id Source(s)
COSMIC ROCR COSMIC
Ensembl Genes ENSG00000228639 Ensembl
GTEx ENSG00000228639 GTEx
HGNC ID HGNC:52946 ENTREZGENE
Human Proteome Map ROCR Human Proteome Map
NCBI Gene LINC02095 ENTREZGENE
RNAcentral URS000075C0E6 RNACentral


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2017-11-14 ROCR  regulator of chondrogenesis RNA  LINC02095  long intergenic non-protein coding RNA 2095  Symbol and/or name change 5135510 APPROVED