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SEC24D (SEC24 homolog D, COPII component)

Gene
Entrez ID Entrez Gene ID - the GENE ID in NCBI Gene database.
9871
Gene nameGene Name - the full gene name approved by the HGNC.
SEC24 homolog D, COPII component
Gene symbolGene Symbol - the official gene symbol approved by the HGNC, which is a short abbreviated form of the gene name.
SEC24D
SynonymsGene synonyms aliases
CLCRP2
ChromosomeChromosome number
4
Chromosome locationChromosomal Location - indicates the cytogenetic location of the gene or region on the chromosome.
4q26
SummarySummary of gene provided in NCBI Entrez Gene.
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
SNPsSNP information provided by dbSNP.
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
miRNAmiRNA information provided by mirtarbase database.
miRTarBase ID miRNA Experiments Reference
MIRT001230 hsa-miR-605-5p qRT-PCR, Western blot 19336450
MIRT001230 hsa-miR-605-5p qRT-PCR, Western 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 information of associated ontologies with gene provided by GO database.
GO ID Ontology Definition Evidence Reference
GO:0000139 Component Golgi membrane IEA
GO:0000149 Function SNARE binding IBA 21873635
GO:0000149 Function SNARE binding IPI 18843296
GO:0001701 Process In utero embryonic development IEA
GO:0002474 Process Antigen processing and presentation of peptide antigen via MHC class I TAS
Other IDsOther ids provides unique ids of gene in databases such as OMIM, HGNC, ENSEMBLE.
MIM
HGNC
e!Ensembl
Protein
UniProt ID 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
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
PathwaysPathway information has different metabolic/signaling pathways associated with genes. Each record is hyperlinked to a complete information page which also includes links to the KEGG/Reactome pathway database.
 
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
Causal
Disease name Disease term dbSNP ID References
Cole carpenter syndrome Cole Carpenter syndrome, Cole-Carpenter syndrome, COLE-CARPENTER SYNDROME 2 rs786204843, rs760670617, rs786204845, rs786204846, rs759594785, rs1578383414, rs1182434832, rs1578456973, rs1372766642 25683121, 25683121, 27942778
Coronal craniosynostosis Coronal craniosynostosis rs1566992093
Dentinogenesis imperfecta Dentinogenesis Imperfecta rs121912985, rs1560477489, rs121912987, rs121912989, rs1560480632, rs67707918, rs66883877
Developmental delay Global developmental delay rs28941770, rs199469464, rs281865469, rs143747297, rs398123009, rs587777428, rs786205133, rs606231459, rs797044854, rs797045027, rs864309504, rs878853160, rs886039902, rs886042046, rs886041291, rs886041382, rs1057518991, rs1057518699, rs753254213, rs748294403, rs762552974, rs1135401795, rs1553121073, rs1553122926, rs1364690005, rs1554086554, rs1554210415, rs1554168326, rs1554776342, rs1553873247, rs1567860112, rs779009256, rs1557447255, rs1564568350, rs780011005, rs1597464953, rs1200336864, rs1569513017, rs1587459606, rs1570332505, rs748888652, rs1575155995, rs2087029320, rs1589669105, rs1601769604, rs1184981709, rs749201074
Unknown
Disease name Disease term dbSNP ID References
Acrocephaly Acrocephaly
Communicating hydrocephalus Communicating Hydrocephalus
Congenital pectus excavatum Congenital pectus excavatum
Dwarfism Dwarfism

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