Gene Gene information from NCBI Gene database.
Entrez ID 147372
Gene name Collagen and calcium binding EGF domains 1
Gene symbol CCBE1
Synonyms (NCBI Gene)
HKLLS1
Chromosome 18
Chromosome location 18q21.32
Summary This gene is thought to function in extracellular matrix remodeling and migration. It is predominantly expressed in the ovary, but down regulated in ovarian cancer cell lines and primary carcinomas, suggesting its role as a tumour suppressor. Mutations in
SNPs SNP information provided by dbSNP.
7
SNP ID Visualize variation Clinical significance Consequence
rs61745250 G>A Conflicting-interpretations-of-pathogenicity, benign Coding sequence variant, non coding transcript variant, synonymous variant, missense variant
rs121908250 A>T Pathogenic Missense variant, non coding transcript variant, coding sequence variant
rs121908251 C>G Pathogenic Missense variant, non coding transcript variant, coding sequence variant
rs121908252 C>G Pathogenic Missense variant, non coding transcript variant, coding sequence variant
rs121908253 G>A,C Uncertain-significance, pathogenic Missense variant, non coding transcript variant, coding sequence variant
miRNA miRNA information provided by mirtarbase database.
573
miRTarBase ID miRNA Experiments Reference
MIRT721095 hsa-miR-584-3p HITS-CLIP 19536157
MIRT721094 hsa-miR-4277 HITS-CLIP 19536157
MIRT721093 hsa-miR-3183 HITS-CLIP 19536157
MIRT721092 hsa-miR-4723-3p HITS-CLIP 19536157
MIRT721091 hsa-miR-6769b-3p HITS-CLIP 19536157
Gene ontology (GO) Gene Ontology (GO) annotations describing the biological processes, molecular functions, and cellular components associated with a gene.
26
GO ID Ontology Definition Evidence Reference
GO:0001525 Process Angiogenesis IEA
GO:0001945 Process Lymph vessel development IEA
GO:0001946 Process Lymphangiogenesis IEA
GO:0001946 Process Lymphangiogenesis IMP 19935664
GO:0001946 Process Lymphangiogenesis ISS
Other IDs Other IDs provides unique identifiers for this gene in OMIM, HGNC, and Ensembl databases.
MIM HGNC e!Ensembl
612753 29426 ENSG00000183287
Protein Protein information from UniProt database.
UniProt ID Unique identifier for the protein in the UniProt database. Click to view detailed protein information.
Q6UXH8
Protein name Collagen and calcium-binding EGF domain-containing protein 1 (Full of fluid protein homolog)
Protein function Required for lymphangioblast budding and angiogenic sprouting from venous endothelium during embryogenesis.
Family and domains

Pfam

Accession ID Position in sequence Description Type
PF07645 EGF_CA 134 174 Calcium-binding EGF domain Domain
PF01391 Collagen 245 293 Collagen triple helix repeat (20 copies) Repeat
Tissue specificity TISSUE SPECIFICITY: Detected in fibroblasts and urine (at protein level) (PubMed:25326458, PubMed:36213313, PubMed:37453717). Not expressed in blood or lymphatic endothelial cells. {ECO:0000269|PubMed:19287381, ECO:0000269|PubMed:25326458, ECO:0000269|Pub
Sequence
MVPPPPSRGGAARGQLGRSLGPLLLLLALGHTWTYREEPEDGDREICSESKIATTKYPCL
KSSGELTTCYRKKCCKGYKFVLGQCIPEDYDVCAEAPCEQQCTDNFGRVLCTCYPGYRYD
RERHRKREKPYCLDIDECASSNGTLCAHICINTLGSYRCECREGYIREDDGKTCTRGDKY
PNDTGHEKSENMVKAGTCCATCKEFYQMKQTVLQLKQKIALLPNNAADLGKYITGDKVLA
SNTYLPGPPGLPGGQGPPGSPGPKGSPGFPGMPGPPGQPGPRGSMGPMGPSPDLSHIKQG
RRGPVGPPGAPGRDGSKGERGAPGPRGSPGPPGSFDFLLLMLADIRNDITELQEKVFGHR
THSSAEEFPLPQEFPSYPEAMDLGSGDDHPRRTETRDLRAPRDFYP
Sequence length 406
Interactions View interactions
Associated diseases Disease associations from ClinVar (causal & non-causal) and other databases (OMIM, Orphanet, GWAS, etc.).
21
Evidence Score: ★☆☆☆☆  Gene-disease association found in Text Mining only ★★☆☆☆  Found in Text Mining and Unknown/Other Associations ★★★☆☆  Reported in Unknown/Other Associations across ≥2 Sources ★★★★☆  ClinVar: Pathogenic/Likely Pathogenic (<5 Variants) ★★★★★  ClinVar: Pathogenic/Likely Pathogenic (≥5 Variants)
Causal Diseases associated with Pathogenic or Likely Pathogenic variants in ClinVar
Phenotype Name Clinical Significance dbSNP ID RCV Accession Evidence Score
Hennekam lymphangiectasia-lymphedema syndrome 1 Pathogenic; Likely pathogenic rs121908250, rs121908251, rs121908252, rs563023244, rs121908254, rs201954546, rs1487519669 RCV000000474
RCV000000475
RCV000000476
RCV000000477
RCV000000479
View all (2 more)
★★★★★
ClinVar: Pathogenic / Likely Pathogenic (≥5 Variants)
Unknown / Other Associations ClinVar entries with uncertain/conflicting evidence, and associations from other databases (OMIM, Orphanet, GWAS, etc.) where the gene is not established as causal.
Phenotype Name Clinical Significance Source Evidence Score
BIPOLAR DISORDER GWAS catalog
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
BONE REMODELING DISEASE GWAS catalog
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
CARCINOMA, HEPATOCELLULAR CTD
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
CCBE1-related disorder Uncertain significance; Likely benign; Conflicting classifications of pathogenicity; Benign ClinVar
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
Associations from Text Mining Disease associations identified through text mining
Disease Name Disease (Merged) Source PMID Relationship Type Evidence Score
Adenocarcinoma of rectum Adenocarcinoma Of Rectum BEFREE 29364474
★☆☆☆☆
Found in Text Mining only
Atrial Septal Defects Atrial Septal Defect HPO_DG
★☆☆☆☆
Found in Text Mining only
Benign neoplasm of central nervous system Benign Neoplasm Of Nervous System HPO_DG
★☆☆☆☆
Found in Text Mining only
Breast Carcinoma Breast Carcinoma BEFREE 17523142
★☆☆☆☆
Found in Text Mining only
Breast Neoplasms Breast neoplasm Pubtator 19935792 Inhibit
★☆☆☆☆
Found in Text Mining only
Breast Neoplasms Breast neoplasm Pubtator 28419078 Associate
★☆☆☆☆
Found in Text Mining only
Carcinoma of lung Lung carcinoma BEFREE 29207117
★☆☆☆☆
Found in Text Mining only
Cholangitis, Sclerosing Cholangitis BEFREE 28073151
★☆☆☆☆
Found in Text Mining only
Cholestasis Cholestasis BEFREE 24086631
★☆☆☆☆
Found in Text Mining only
Cholestasis Cholelithiasis Pubtator 24086631 Associate
★☆☆☆☆
Found in Text Mining only