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WormBase Tree Display for Gene: WBGene00004749

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Name Class

WBGene00004749SMapS_parentSequenceF57C7
IdentityVersion1
NameCGC_namesdn-1Person_evidenceWBPerson1831
Sequence_nameF57C7.3
Molecular_nameF57C7.3a
F57C7.3a.1
CE05996
F57C7.3b
CE32681
F57C7.3b.1
Other_nameCELE_F57C7.3Accession_evidenceNDBBX284606
Public_namesdn-1
DB_infoDatabase (11)
SpeciesCaenorhabditis elegans
HistoryVersion_change107 Apr 2004 11:29:36WBPerson1971EventImportedInitial conversion from geneace
StatusLive
Gene_infoBiotypeSO:0001217
Gene_classsdn
Allele (60)
StrainWBStrain00031428
WBStrain00000144
WBStrain00050774
RNASeq_FPKM (74)
GO_annotation (19)
Ortholog (42)
Structured_descriptionConcise_descriptionsdn-1 encodes a homolog of vertebrate syndecan-2, a type I transmembrane heparan sulfate proteoglycan; by homology, SDN-1 is predicted to play a role in cell-cell and cell-matrix adhesion; loss of sdn-1 activity via RNA-mediated interference (RNAi) indicates that SDN-1 is required for backward locomotion and for normal development of the egg-laying system, particularly gonadal and vulval structures; SDN-1 is expressed in a subset of neuronal cell bodies and their associated processes in the nerve ring, and also in select tail neurons.Paper_evidenceWBPaper00011289
WBPaper00018603
Curator_confirmedWBPerson1843
Date_last_updated17 Jun 2004 00:00:00
Automated_descriptionInvolved in embryo development; epidermis morphogenesis; and nematode larval development. Located in cell surface. Expressed in several structures, including neuroblasts; neurons; pharynx; somatic nervous system; and vulva. Human ortholog(s) of this gene implicated in several diseases, including Hodgkin's lymphoma; cleft lip; and glucose metabolism disease (multiple). Is an ortholog of human SDC1 (syndecan 1); SDC2 (syndecan 2); and SDC4 (syndecan 4).Paper_evidenceWBPaper00065943
Curator_confirmedWBPerson324
WBPerson37462
Inferred_automaticallyThis description was generated automatically by a script based on data from the WS291 version of WormBase
Date_last_updated29 Nov 2023 00:00:00
Disease_infoPotential_modelDOID:9296Homo sapiensInferred_automaticallyInferred by orthology to human genes with DO annotation (HGNC:10659)
DOID:8567Homo sapiensInferred_automaticallyInferred by orthology to human genes with DO annotation (HGNC:10658)
DOID:4195Homo sapiensInferred_automaticallyInferred by orthology to human genes with DO annotation (HGNC:10658)
DOID:3910Homo sapiensInferred_automaticallyInferred by orthology to human genes with DO annotation (HGNC:10658)
DOID:9352Homo sapiensInferred_automaticallyInferred by orthology to human genes with DO annotation (HGNC:10659)
DOID:5844Homo sapiensInferred_automaticallyInferred by orthology to human genes with DO annotation (HGNC:10661)
DOID:674Homo sapiensInferred_automaticallyInferred by orthology to human genes with DO annotation (HGNC:10659)
Molecular_infoCorresponding_CDSF57C7.3a
F57C7.3b
Corresponding_CDS_historyF57C7.3:wp83
Corresponding_transcriptF57C7.3a.1
F57C7.3b.1
Other_sequence (22)
Associated_feature (27)
Experimental_infoRNAi_resultWBRNAi00109528Inferred_automaticallyRNAi_primary
WBRNAi00109334Inferred_automaticallyRNAi_primary
WBRNAi00048861Inferred_automaticallyRNAi_primary
WBRNAi00102205Inferred_automaticallyRNAi_primary
WBRNAi00109237Inferred_automaticallyRNAi_primary
WBRNAi00065732Inferred_automaticallyRNAi_primary
WBRNAi00033032Inferred_automaticallyRNAi_primary
WBRNAi00109625Inferred_automaticallyRNAi_primary
WBRNAi00109431Inferred_automaticallyRNAi_primary
Expr_pattern (12)
Drives_constructWBCnstr00000700
WBCnstr00001405
WBCnstr00001406
WBCnstr00019775
WBCnstr00020032
WBCnstr00035413
Construct_product (13)
AntibodyWBAntibody00000804
WBAntibody00002534
Microarray_results (26)
Expression_clusterWBPaper00032976:dosage_compensated_genes
WBPaper00033065:cyc-1(RNAi)_downregulated
WBPaper00033070:Rhine_downregulated
WBPaper00036375:enriched_in_PVD_OLL
WBPaper00037950:CEP-sheath-cells_adult_enriched
WBPaper00038438:Harposporium_24hr_downregulated_RNAseq
WBPaper00038438:P.lumniescens_24hr_upregulated_TilingArray
WBPaper00040285:H2S_24hr_upregulated
WBPaper00044260:1-methylnicotinamide_downregulated
WBPaper00044260:nicotic-acid_downregulated
WBPaper00044736:flat_dev_expression
WBPaper00044786:lem-2(tm1582)_upregulated
WBPaper00045521:Oogenic
WBPaper00045729:gld-2(RNAi)_downregulated
WBPaper00046497:B.thuringiensis_0.1mix_downregulated_12h
WBPaper00046497:B.thuringiensis_0.5mix_downregulated_12h
WBPaper00048988:neuron_expressed
WBPaper00049545:cco-1(RNAi)_upregulated
WBPaper00049545:jmjd-3.1(+)_upregulated
WBPaper00049545:rgef-1p-jmjd-1.2(+)_upregulated
WBPaper00050234:lin-28(RNAi)_upregulated
WBPaper00050370:dpy-21(e428)_L3_upregulated
WBPaper00050412:cco-1(RNAi)_upregulated_N2
WBPaper00050488:adult_vs_dauer_regulated_N2_20C
WBPaper00050859:upregulated_P-granule(-)GFP(+)_vs_control_day2-adult
WBPaper00050859:upregulated_P-granule(-)GFP(-)_vs_control_day2-adult
WBPaper00050859:upregulated_pgl-1(ct131)_vs_control_day1-adult
WBPaper00050990:arcade_intestinal-valve_expressed
WBPaper00050990:body-muscle_expressed
WBPaper00050990:GABAergic-neuron_expressed
WBPaper00050990:hypodermis_expressed
WBPaper00050990:intestine_expressed
WBPaper00050990:NMDA-neuron_expressed
WBPaper00050990:pharynx_expressed
WBPaper00050990:seam_expressed
WBPaper00051039:germline_enriched
WBPaper00051265:F4_morc-1(tm6048)_upregulated
WBPaper00051404:alg-1(gk214)_upregulated
WBPaper00053302:zidovudine_72h_regulated
WBPaper00053321:embryo-to-L1_downregulated_WT_SMARTseq
WBPaper00053321:lin-15B(RNAi)_downregulated_starved-L1_Truseq
WBPaper00053321:nos-1(gv5)nos-2(RNAi)_upregulated_L1_SMARTseq
WBPaper00053321:PGCs_depleted_NuGen
WBPaper00053599:female_vs_male_upregulated
WBPaper00053599:oocyte_vs_mitosis_downregulated
WBPaper00055482:Tunicamycin_upregulated
WBPaper00055648:male-vas-deferens_expressed
WBPaper00056139:soil-microbiota_upregulated
WBPaper00056161:hermaphrodite_enriched_siRNA
WBPaper00056218:daf-16(mu86)_upregulated_Day7
WBPaper00056443:sek-1(km4)_upregulated
WBPaper00056471:aak-1(tm1944);aak-2(ok524)_upregulated
WBPaper00056471:S.aureus-4h_downregulated_N2
WBPaper00056826:hmc_biased
WBPaper00057288:Cold_downregulated_transcript
WBPaper00057288:iff-1(RNAi)_downregulated_transcript
WBPaper00058598:sin-3(tm1276)_downregulated
WBPaper00059471:EGL-43_interacting
WBPaper00059763:neuron_expressed
WBPaper00060014:set-2(tm1630)_downregulated
WBPaper00060661:sensory-neuron_enriched
WBPaper00060811:L1_vs_adult_upregulated_neural
WBPaper00060909:atfs-1(cmh15)_downregulated
WBPaper00061203:sin-3(tm1276)_upregulated
WBPaper00061340:AIM
WBPaper00061340:DA
WBPaper00061340:DB
WBPaper00061340:DD
WBPaper00061340:F_U
WBPaper00061340:Parents_of_U_F_B_DVA
WBPaper00061340:RMED
WBPaper00061340:SIA
WBPaper00061340:SMB
WBPaper00061341:28C_24h_upregulated
WBPaper00061527:hlh-30_18579-unc-43_21739
WBPaper00061527:ldb-1_2877-scd-1_3086
WBPaper00061651:VC_4_5_enriched
WBPaper00061902:camt-1(ok515)_regulated_AFD
WBPaper00062325:muscle_enriched_coding-RNA
WBPaper00062520:qui-1(db104)_upregulated
WBPaper00064088:Day-3-adult_vs_L4_downregulated_fem-3(q20)
WBPaper00064315:mes-4(bn73)_upregulated_EGCs
WBPaper00064315:mrg-1(qa6200)_upregulated_PGCs
WBPaper00064716:paraquat_upregulated
WBPaper00065120:body-muscle-transcriptome
WBPaper00065373:sek-1(km4)_upregulated_cisplatin
WBPaper00065835:Day11_vs_Day1_upregulated
WBPaper00065975:P-body_vs_oocyte_enriched
WBPaper00065975:P-body_vs_WholeAnimal_enriched
WBPaper00066093:E.coli-purE_downregulated
cgc4386_cluster_6_5
cgc4489_group_8
WBPaper00025032:cluster_68
WBPaper00025141:N2_Expressed_Genes
WBPaper00025141:unc-4::GFP_Expressed_Genes
WBPaper00026929:Resveratrol_regulated_daf-16
WBPaper00030839:Larval_Pan_Neuronal
WBPaper00031252:AIN-2_IP_enriched
WBPaper00031832:slr-2_regulated
WBPaper00033101:spr-5_regulated
WBPaper00034661:AgNPs_downregulated
WBPaper00034739:N2moreDR1350
WBPaper00035084:L1_enriched_AIN-2_IP
WBPaper00035588:alg-1(-)_upregulated
WBPaper00035905:FBF-1_Associated
WBPaper00037611:RNP-8-associated
WBPaper00040210:Chlorpyrifos_24C_regulated
WBPaper00040210:Diazinon_24C_regulated
WBPaper00040603:tdp-1(lf)_down_vs_N2_FC_1.2
WBPaper00040985:AIN-2_asynchronous_intestine
WBPaper00040985:AIN-2_L4_intestine
WBPaper00041174:genotypic
WBPaper00041174:genotypic_prime
WBPaper00041606:CE_X.nematophila_regulated
WBPaper00041939:control_vs_EtBr-exposed_48h
WBPaper00041939:EtBr-exposed_vs_UVC-exposed_48h
WBPaper00041939:EtBr-exposed_vs_UVC-exposed_51h
WBPaper00041939:UVC-EtBr-exposed_vs_UVC-exposed_51h
WBPaper00041960:N2_fasting_upregulated_9hto12h
WBPaper00041960:N2_fasting_upregulated_anytime
WBPaper00042331:a-SWCNTs_downregulated
WBPaper00045263:0.1mM-paraquat_upregulated
WBPaper00045673:colistin_upregulated
WBPaper00057098:SiO2-nanoparticles_upregulated
Interaction (34)
Anatomy_functionWBbtf0790
WBbtf0791
WBbtf0792
Map_infoMapXPosition2.31221Error0.009839
PositivePositive_cloneF57C7Inferred_automaticallyFrom CDS info
From sequence, transcript, pseudogene data
Mapping_dataMulti_point4532
4652
4134
Pseudo_map_position
Reference (47)
RemarkSequence connection from [Turnbull J, Kinnunen T]. krb 13/11/01
Map position created from combination of previous interpolated map position (based on known location of sequence) and allele information. Therefore this is not a genetic map position based on recombination frequencies or genetic experiments. This was done on advice of the CGC.CGC_data_submission
MethodGene