Gene Gene information from NCBI Gene database.
Entrez ID 9871
Gene name SEC24 homolog D, COPII component
Gene symbol SEC24D
Synonyms (NCBI Gene)
CLCRP2
Chromosome 4
Chromosome location 4q26
Summary The protein encoded by this gene is a member of the SEC24 subfamily of the SEC23/SEC24 family, which is involved in vesicle trafficking. The encoded protein has similarity to yeast Sec24p component of COPII. COPII is the coat protein complex responsible f
SNPs SNP information provided by dbSNP.
11
SNP ID Visualize variation Clinical significance Consequence
rs148676365 C>T Pathogenic Coding sequence variant, missense variant, 5 prime UTR variant
rs730882211 C>G Likely-pathogenic Missense variant, coding sequence variant, genic upstream transcript variant
rs759594785 ->G Pathogenic Coding sequence variant, genic upstream transcript variant, frameshift variant
rs760670617 G>A,C Pathogenic Coding sequence variant, missense variant
rs786204845 G>A Pathogenic Stop gained, coding sequence variant, genic upstream transcript variant
miRNA miRNA information provided by mirtarbase database.
210
miRTarBase ID miRNA Experiments Reference
MIRT001230 hsa-miR-605-5p qRT-PCRWestern blot 19336450
MIRT001230 hsa-miR-605-5p qRT-PCRWestern blot 19336450
MIRT016795 hsa-miR-335-5p Microarray 18185580
MIRT022130 hsa-miR-124-3p Microarray 18668037
MIRT024462 hsa-miR-215-5p Microarray 19074876
Gene ontology (GO) Gene Ontology (GO) annotations describing the biological processes, molecular functions, and cellular components associated with a gene.
33
GO ID Ontology Definition Evidence Reference
GO:0000149 Function SNARE binding IBA
GO:0000149 Function SNARE binding IEA
GO:0000149 Function SNARE binding IPI 18843296
GO:0001701 Process In utero embryonic development IEA
GO:0005515 Function Protein binding IPI 16189514, 18843296, 21516116, 24405750, 25416956, 27802162, 31515488, 32296183, 33961781, 35271311
Other IDs Other IDs provides unique identifiers for this gene in OMIM, HGNC, and Ensembl databases.
MIM HGNC e!Ensembl
607186 10706 ENSG00000150961
Protein Protein information from UniProt database.
UniProt ID Unique identifier for the protein in the UniProt database. Click to view detailed protein information.
O94855
Protein name Protein transport protein Sec24D (SEC24-related protein D)
Protein function Component of the coat protein complex II (COPII) which promotes the formation of transport vesicles from the endoplasmic reticulum (ER). The coat has two main functions, the physical deformation of the endoplasmic reticulum membrane into vesicle
PDB 3EFO , 3EG9 , 5KYU , 5KYW , 5KYX , 5KYY
Family and domains

Pfam

Accession ID Position in sequence Description Type
PF04810 zf-Sec23_Sec24 360 398 Sec23/Sec24 zinc finger Domain
PF04811 Sec23_trunk 437 681 Sec23/Sec24 trunk domain Domain
PF08033 Sec23_BS 686 770 Sec23/Sec24 beta-sandwich domain Domain
PF04815 Sec23_helical 781 883 Sec23/Sec24 helical domain Domain
PF00626 Gelsolin 899 974 Gelsolin repeat Domain
Tissue specificity TISSUE SPECIFICITY: Ubiquitously expressed, with higher amounts in placenta, pancreas, heart and liver. {ECO:0000269|PubMed:10329445}.
Sequence
MSQQGYVATPPYSQPQPGIGLSPPHYGHYGDPSHTASPTGMMKPAGPLGATATRGMLPPG
PPPPGPHQFGQNGAHATGHPPQRFPGPPPVNNVASSHAPYQPSAQSSYPGPISTSSVTQL
GSQLSAMQINSYGSGMAPPSQGPPGPLSATSLQTPPRPPQPSILQPGSQVLPPPPTTLNG
PGASPLPLPMYRPDGLSGPPPPNAQYQPPPLPGQTLGAGYPPQQANSGPQMAGAQLSYPG
GFPGGPAQMAGPPQPQKKLDPDSIPSPIQVIENDRASRGGQVYATNTRGQIPPLVTTDCM
IQDQGNASPRFIRCTTYCFPCTSDMAKQAQIPLAAVIKPFATIPSNESPLYLVNHGESGP
VRCNRCKAYMCPFMQFIEGGRRYQCGFCNCVNDVPPFY
FQHLDHIGRRLDHYEKPELSLG
SYEYVATLDYCRKSKPPNPPAFIFMIDVSYSNIKNGLVKLICEELKTMLEKIPKEEQEET
SAIRVGFITYNKVLHFFNVKSNLAQPQMMVVTDVGEVFVPLLDGFLVNYQESQSVIHNLL
DQIPDMFADSNENETVFAPVIQAGMEALKAADCPGKLFIFHSSLPTAEAPGKLKNRDDKK
LVNTDKEKILFQPQTNVYDSLAKDCVAHGCSVTLFLFPSQYVDVASLGLVPQLTGGTLYK
YNNFQMHLDRQQFLNDLRNDI
EKKIGFDAIMRVRTSTGFRATDFFGGILMNNTTDVEMAA
IDCDKAVTVEFKHDDKLSEDSGALIQCAVLYTTISGQRRLRIHNLGLNCS
SQLADLYKSC
ETDALINFFAKSAFKAVLHQPLKVIREILVNQTAHMLACYRKNCASPSAASQLILPDSMK
VLPVYMNCLLKNCVLLSRPEISTDERAYQRQLVMTMGVADSQL
FFYPQLLPIHTLDVKST
MLPAAVRCSESRLSEEGIFLLANGLHMFLWLGVSSPPELIQGIFNVPSFAHINTDMTLLP
EVGNPYSQQLRMIM
GIIQQKRPYSMKLTIVKQREQPEMVFRQFLVEDKGLYGGSSYVDFL
CCVHKEICQLLN
Sequence length 1032
Interactions View interactions
Pathways Pathway information has different metabolic/signaling pathways associated with genes.
  KEGG  Reactome
  Protein processing in endoplasmic reticulum
Pathogenic Escherichia coli infection
  COPII-mediated vesicle transport
MHC class II antigen presentation
Cargo concentration in the ER
Antigen Presentation: Folding, assembly and peptide loading of class I MHC
Associated diseases Disease associations from ClinVar categorized as Causal (Pathogenic/Likely Pathogenic) or Unknown.
116
Causal Diseases associated with Pathogenic or Likely Pathogenic variants in ClinVar
Phenotype Name Clinical Significance dbSNP ID RCV Accession
Cole-Carpenter syndrome 2 Pathogenic; Likely pathogenic rs760670617, rs786204845, rs786204846, rs2530136674, rs1726439532, rs2530206539, rs759594785, rs1578383414, rs1182434832, rs1578456973, rs1372766642 RCV000169755
RCV000169756
RCV000169757
RCV003445422
RCV003445429
RCV004577422
RCV000790642
RCV000790643
RCV000790644
RCV000790647
RCV000790734
SEC24D-related disorder Likely pathogenic; Pathogenic rs769202646 RCV003409935
Unknown Diseases with uncertain, conflicting, or no pathogenic evidence in ClinVar
Phenotype Name Clinical Significance dbSNP ID RCV Accession
Acute myeloid leukemia Benign; Likely benign rs35392900 RCV005906431
Adrenocortical carcinoma, hereditary Benign; Likely benign rs35392900 RCV005906435
Cervical cancer Benign; Likely benign rs35392900 RCV005906436
Cholangiocarcinoma Benign rs6847706 RCV005918484
Associations from Text MiningDisease associations identified through Pubtator
Disease Name Relationship Type References
Glioma Associate 31761927
Neoplasms Associate 31761927