HNRNPCL3 (heterogeneous nuclear ribonucleoprotein C like 3) - Rat Genome Database

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Gene: HNRNPCL3 (heterogeneous nuclear ribonucleoprotein C like 3) Homo sapiens
Analyze
No known orthologs.
Symbol: HNRNPCL3
Name: heterogeneous nuclear ribonucleoprotein C like 3
RGD ID: 9587730
HGNC Page HGNC:51235
Description: Predicted to enable RNA binding activity. Predicted to be active in nucleus.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: heterogeneous nuclear ribonucleoprotein C-like; heterogeneous nuclear ribonucleoprotein C-like 2; heterogeneous nuclear ribonucleoprotein C-like 3; Heterogeneous nuclear ribonucleoprotein C-like 4; hnRNP C-like-2; HNRNPCL2; HNRNPCL4
RGD Orthologs
Alliance Genes
More Info homologs ...
Allele / Splice: See ClinVar data
Latest Assembly: GRCh38 - Human Genome Assembly GRCh38
Position:
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38113,060,769 - 13,062,878 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl113,060,769 - 13,062,878 (+)EnsemblGRCh38hg38GRCh38
Cytogenetic Map1p36.21NCBI
CHM1_1113,186,474 - 13,187,473 (+)NCBICHM1_1
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
nucleus  (IBA,IEA)

Molecular Function
RNA binding  (IBA,IEA)

References

References - curated
# Reference Title Reference Citation
1. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:12477932   PMID:21873635   PMID:23349634   PMID:28302793   PMID:29229926   PMID:31586073   PMID:31665637   PMID:32640226   PMID:35384245   PMID:36373674   PMID:36574265  


Genomics


Clinical Variants
Name Type Condition(s) Position(s) Clinical significance
GRCh38/hg38 1p36.22-36.21(chr1:12293275-13111197)x3 copy number gain See cases [RCV000135466] Chr1:12293275..13111197 [GRCh38]
Chr1:12353332..13178669 [GRCh37]
Chr1:12275919..13101256 [NCBI36]
Chr1:1p36.22-36.21		 benign
GRCh38/hg38 1p36.21(chr1:12779298-13075120)x1 copy number loss See cases [RCV000136259] Chr1:12779298..13075120 [GRCh38]
Chr1:12839441..13142569 [GRCh37]
Chr1:12762028..13065156 [NCBI36]
Chr1:1p36.21		 benign
GRCh38/hg38 1p36.21(chr1:12666714-13181499)x3 copy number gain See cases [RCV000136288] Chr1:12666714..13181499 [GRCh38]
Chr1:12726725..13385572 [GRCh37]
Chr1:12649312..13258159 [NCBI36]
Chr1:1p36.21		 benign
GRCh38/hg38 1p36.21-36.13(chr1:12724785-16034788)x1 copy number loss See cases [RCV000137720] Chr1:12724785..16034788 [GRCh38]
Chr1:12784752..16361283 [GRCh37]
Chr1:12707339..16233870 [NCBI36]
Chr1:1p36.21-36.13		 pathogenic
GRCh38/hg38 1p36.21(chr1:12627415-13993978)x3 copy number gain See cases [RCV000138029] Chr1:12627415..13993978 [GRCh38]
Chr1:12687421..14320473 [GRCh37]
Chr1:12610008..14193060 [NCBI36]
Chr1:1p36.21		 likely pathogenic
GRCh38/hg38 1p36.31-36.21(chr1:6303641-15799093)x1 copy number loss See cases [RCV000137948] Chr1:6303641..15799093 [GRCh38]
Chr1:6363701..16125588 [GRCh37]
Chr1:6286288..15998175 [NCBI36]
Chr1:1p36.31-36.21		 pathogenic|likely benign
GRCh38/hg38 1p36.21(chr1:12852720-13330100)x1 copy number loss See cases [RCV000139263] Chr1:12852720..13330100 [GRCh38]
Chr1:12912573..13448340 [GRCh37]
Chr1:12835160..13320927 [NCBI36]
Chr1:1p36.21		 likely benign
GRCh38/hg38 1p36.22-36.21(chr1:9428538-15815791)x1 copy number loss See cases [RCV000140873] Chr1:9428538..15815791 [GRCh38]
Chr1:9488597..16142286 [GRCh37]
Chr1:9411184..16014873 [NCBI36]
Chr1:1p36.22-36.21		 pathogenic
GRCh38/hg38 1p36.22-36.21(chr1:12264268-13119398)x3 copy number gain See cases [RCV000141874] Chr1:12264268..13119398 [GRCh38]
Chr1:12324325..13186871 [GRCh37]
Chr1:12246912..13109458 [NCBI36]
Chr1:1p36.22-36.21		 uncertain significance
GRCh38/hg38 1p36.22-36.21(chr1:11021751-15236671)x3 copy number gain See cases [RCV000141823] Chr1:11021751..15236671 [GRCh38]
Chr1:11081808..15563167 [GRCh37]
Chr1:11004395..15435754 [NCBI36]
Chr1:1p36.22-36.21		 likely pathogenic
GRCh38/hg38 1p36.22-36.21(chr1:10264397-15780840)x1 copy number loss See cases [RCV000141438] Chr1:10264397..15780840 [GRCh38]
Chr1:10324455..16107335 [GRCh37]
Chr1:10247042..15979922 [NCBI36]
Chr1:1p36.22-36.21		 pathogenic
GRCh38/hg38 1p36.31-36.13(chr1:6554885-16056011)x3 copy number gain See cases [RCV000142906] Chr1:6554885..16056011 [GRCh38]
Chr1:6614945..16382506 [GRCh37]
Chr1:6537532..16255093 [NCBI36]
Chr1:1p36.31-36.13		 pathogenic
GRCh38/hg38 1p36.31-36.13(chr1:5363826-18360302)x1 copy number loss See cases [RCV000142771] Chr1:5363826..18360302 [GRCh38]
Chr1:5423886..18686796 [GRCh37]
Chr1:5323746..18559383 [NCBI36]
Chr1:1p36.31-36.13		 pathogenic
GRCh38/hg38 1p36.31-36.13(chr1:6853513-17326813)x3 copy number gain Developmental Delay and additional significant developmental and morphological phenotypes referred for genetic testing [RCV000051795]|Developmental delay and additional significant developmental and morphological phenotypes referred for genetic testing [RCV000051795]|See cases [RCV000051795] Chr1:6853513..17326813 [GRCh38]
Chr1:6913573..17685411 [GRCh37]
Chr1:6836160..17557998 [NCBI36]
Chr1:1p36.31-36.13		 pathogenic
GRCh38/hg38 1p36.22-36.21(chr1:12149586-13111056)x3 copy number gain Developmental Delay and additional significant developmental and morphological phenotypes referred for genetic testing [RCV000051796]|Developmental delay and additional significant developmental and morphological phenotypes referred for genetic testing [RCV000051796]|See cases [RCV000051796] Chr1:12149586..13111056 [GRCh38]
Chr1:12209643..13178528 [GRCh37]
Chr1:12132230..13101115 [NCBI36]
Chr1:1p36.22-36.21		 pathogenic
GRCh38/hg38 1p36.23-36.21(chr1:7165036-13111056)x1 copy number loss See cases [RCV000053755] Chr1:7165036..13111056 [GRCh38]
Chr1:7225096..13178528 [GRCh37]
Chr1:7147683..13101115 [NCBI36]
Chr1:1p36.23-36.21		 pathogenic
GRCh38/hg38 1p36.23-36.13(chr1:9034671-16441465)x1 copy number loss See cases [RCV000053756] Chr1:9034671..16441465 [GRCh38]
Chr1:9094730..16767960 [GRCh37]
Chr1:9017317..16640547 [NCBI36]
Chr1:1p36.23-36.13		 pathogenic
GRCh38/hg38 1p36.32-36.13(chr1:3006193-17688934)x1 copy number loss See cases [RCV000053714] Chr1:3006193..17688934 [GRCh38]
Chr1:2922757..18015429 [GRCh37]
Chr1:2912617..17888016 [NCBI36]
Chr1:1p36.32-36.13		 pathogenic
GRCh38/hg38 1p36.32-36.21(chr1:4898439-13111056)x1 copy number loss See cases [RCV000053724] Chr1:4898439..13111056 [GRCh38]
Chr1:4958499..13178528 [GRCh37]
Chr1:4858359..13101115 [NCBI36]
Chr1:1p36.32-36.21		 pathogenic
GRCh38/hg38 1p36.22-36.12(chr1:10556797-22557907)x1 copy number loss See cases [RCV000053760] Chr1:10556797..22557907 [GRCh38]
Chr1:10616854..22884400 [GRCh37]
Chr1:10539441..22756987 [NCBI36]
Chr1:1p36.22-36.12		 pathogenic
GRCh38/hg38 1p36.22-36.13(chr1:10621776-16520709)x1 copy number loss See cases [RCV000053763] Chr1:10621776..16520709 [GRCh38]
Chr1:10681833..16847204 [GRCh37]
Chr1:10604420..16719791 [NCBI36]
Chr1:1p36.22-36.13		 pathogenic
NC_000001.11:g.10115497_16283149dup duplication not specified [RCV002286386] Chr1:10115497..16283149 [GRCh38]
Chr1:1p36.22-36.13		 likely pathogenic
GRCh38/hg38 1p36.33-35.1(chr1:99125-34026935)x3 copy number gain Trisomy 12p [RCV003447845] Chr1:99125..34026935 [GRCh38]
Chr1:1p36.33-35.1		 pathogenic
GRCh38/hg38 1p36.22-36.13(chr1:11121625-16324498)x1 copy number loss See cases [RCV000053766] Chr1:11121625..16324498 [GRCh38]
Chr1:11181682..16650993 [GRCh37]
Chr1:11104269..16523580 [NCBI36]
Chr1:1p36.22-36.13		 pathogenic
GRCh38/hg38 1p36.22-36.13(chr1:10809039-16422500)x1 copy number loss See cases [RCV000053765] Chr1:10809039..16422500 [GRCh38]
Chr1:10869096..16748995 [GRCh37]
Chr1:10791683..16621582 [NCBI36]
Chr1:1p36.22-36.13		 pathogenic

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 adipose tissue appendage entire extraembryonic component
High
Medium
Low 1 2
Below cutoff 1060 1511 796 179 740 95 2105 935 1824 59 712 733 84 682 1423 1

Sequence


Reference Sequences
RefSeq Acc Id: ENST00000617807   ⟹   ENSP00000478017
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl113,060,769 - 13,062,878 (+)Ensembl
RefSeq Acc Id: ENST00000681473   ⟹   ENSP00000505668
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl113,061,158 - 13,062,878 (+)Ensembl
RefSeq Acc Id: NM_001382358   ⟹   NP_001369287
RefSeq Status: VALIDATED
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38113,060,769 - 13,062,878 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001369287 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAI71859 (Get FASTA)   NCBI Sequence Viewer  
  AAI71865 (Get FASTA)   NCBI Sequence Viewer  
  B7ZW38 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSP00000478017
Reference Protein Sequences
RefSeq Acc Id: NP_001369287   ⟸   NM_001382358
- UniProtKB: P0DMR1 (UniProtKB/Swiss-Prot),   B7ZW38 (UniProtKB/Swiss-Prot),   A0A0G2JPF8 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSP00000478017   ⟸   ENST00000617807
RefSeq Acc Id: ENSP00000505668   ⟸   ENST00000681473

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-B7ZW38-F1-model_v2 AlphaFold B7ZW38 1-293 view protein structure
AF-P0DMR1-F1-model_v2 AlphaFold P0DMR1 1-293 view protein structure


Additional Information

Database Acc Id Source(s)
AGR Gene HGNC:51235 AgrOrtholog
COSMIC HNRNPCL3 COSMIC
Ensembl Genes ENSG00000277058 Ensembl, ENTREZGENE
Ensembl Transcript ENST00000617807 ENTREZGENE
GTEx ENSG00000277058 GTEx
HGNC ID HGNC:51235 ENTREZGENE
Human Proteome Map HNRNPCL3 Human Proteome Map
NCBI Gene HNRNPCL3 ENTREZGENE
PharmGKB PA166123693 PharmGKB
UniProt A0A0G2JPF8 ENTREZGENE
  B7ZW38 ENTREZGENE
  P0DMR1 ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2019-02-19 HNRNPCL3  heterogeneous nuclear ribonucleoprotein C like 3    heterogeneous nuclear ribonucleoprotein C-like 3  Symbol and/or name change 5135510 APPROVED