Gene Details | GeDiPNet - Complete Gene Info, Disease Associations & Pathways

Gene Gene SNPs miRNA Gene ontology Other IDs Protein Associated diseases
Entrez ID Entrez Gene ID - the GENE ID in NCBI Gene database.	8518
Gene name Gene Name - the full gene name approved by the HGNC.	Elongator acetyltransferase complex subunit 1
Gene symbol Gene Symbol - the official gene symbol approved by the HGNC.	ELP1
Synonyms (NCBI Gene) Gene synonyms aliases	DYS, FD, IKAP, IKBKAP, IKI3, TOT1
Chromosome Chromosome number	9
Chromosome location Chromosomal Location - indicates the cytogenetic location of the gene or region on the chromosome.	9q31.3
Summary Summary of gene provided in NCBI Entrez Gene.	The protein encoded by this gene is a scaffold protein and a regulator for three different kinases involved in proinflammatory signaling. The encoded protein can bind NF-kappa-B-inducing kinase and I-kappa-B kinases through separate domains and assemble t

Show/Hide all(72)

SNP ID	Visualize variation	Clinical significance	Consequence
rs1140064	C>T	Conflicting-interpretations-of-pathogenicity, benign	Missense variant, 5 prime UTR variant, coding sequence variant, non coding transcript variant
rs2230786	G>A,C	Conflicting-interpretations-of-pathogenicity, benign	5 prime UTR variant, coding sequence variant, non coding transcript variant, synonymous variant
rs3737311	G>A	Conflicting-interpretations-of-pathogenicity, uncertain-significance	Missense variant, 5 prime UTR variant, coding sequence variant, non coding transcript variant
rs10979599	G>T	Conflicting-interpretations-of-pathogenicity, likely-benign	Missense variant, non coding transcript variant, coding sequence variant
rs17853166	T>C	Benign, conflicting-interpretations-of-pathogenicity	Missense variant, non coding transcript variant, coding sequence variant, 5 prime UTR variant
rs28939712	G>A	Pathogenic, uncertain-significance	Missense variant, non coding transcript variant, coding sequence variant
rs35054425	A>C	Conflicting-interpretations-of-pathogenicity, benign	Synonymous variant, non coding transcript variant, coding sequence variant
rs61749202	A>C,G,T	Conflicting-interpretations-of-pathogenicity, benign	Synonymous variant, non coding transcript variant, coding sequence variant
rs111033171	A>G	Pathogenic, uncertain-significance	Intron variant
rs112114410	G>A	Conflicting-interpretations-of-pathogenicity, benign	Intron variant
rs137853022	C>G,T	Pathogenic-likely-pathogenic, uncertain-significance	Coding sequence variant, non coding transcript variant, missense variant
rs138192941	T>C	Conflicting-interpretations-of-pathogenicity, likely-benign	Coding sequence variant, non coding transcript variant, synonymous variant
rs139583037	T>C	Conflicting-interpretations-of-pathogenicity	Coding sequence variant, non coding transcript variant, synonymous variant
rs141670242	G>A	Conflicting-interpretations-of-pathogenicity, benign	Non coding transcript variant, intron variant
rs143674809	C>A,T	Likely-pathogenic, uncertain-significance	Splice donor variant
rs145319352	T>C	Conflicting-interpretations-of-pathogenicity, uncertain-significance	Missense variant, non coding transcript variant, coding sequence variant
rs146440397	T>C	Conflicting-interpretations-of-pathogenicity	Missense variant, non coding transcript variant, coding sequence variant
rs148378319	C>T	Conflicting-interpretations-of-pathogenicity, uncertain-significance	Missense variant, non coding transcript variant, coding sequence variant
rs149685738	T>C	Conflicting-interpretations-of-pathogenicity	Missense variant, non coding transcript variant, coding sequence variant
rs149845612	C>G,T	Conflicting-interpretations-of-pathogenicity	Missense variant, non coding transcript variant, coding sequence variant
rs376078668	G>A	Likely-pathogenic	Stop gained, non coding transcript variant, coding sequence variant
rs539544212	C>A,T	Likely-pathogenic	Splice acceptor variant
rs555520875	G>C	Conflicting-interpretations-of-pathogenicity	Intron variant
rs571348995	C>T	Likely-pathogenic	Splice donor variant
rs749052963	G>T	Likely-pathogenic	Stop gained, non coding transcript variant, coding sequence variant
rs749704610	G>A,C	Pathogenic	Stop gained, missense variant, non coding transcript variant, coding sequence variant
rs754348901	A>G	Likely-pathogenic	Splice donor variant
rs757972943	T>C,G	Likely-pathogenic	Splice acceptor variant
rs759412460	G>-,GG	Pathogenic, likely-pathogenic	Coding sequence variant, non coding transcript variant, frameshift variant, intron variant
rs760774999	C>T	Likely-pathogenic	Coding sequence variant, missense variant, splice donor variant
rs763445509	->C	Likely-pathogenic	Coding sequence variant, non coding transcript variant, frameshift variant
rs765572951	C>A	Likely-pathogenic	Splice donor variant
rs767527819	->A	Pathogenic, likely-pathogenic	Coding sequence variant, non coding transcript variant, stop gained
rs770668926	C>A,T	Likely-pathogenic	Splice donor variant
rs772114554	T>C,G	Conflicting-interpretations-of-pathogenicity	Synonymous variant, coding sequence variant, non coding transcript variant, missense variant
rs773218149	G>A	Conflicting-interpretations-of-pathogenicity	Synonymous variant, coding sequence variant, non coding transcript variant
rs774890086	G>-	Likely-pathogenic	Coding sequence variant, non coding transcript variant, stop gained
rs781333644	->C	Likely-pathogenic	Coding sequence variant, non coding transcript variant, frameshift variant
rs866046915	T>C	Uncertain-significance, likely-pathogenic	Splice acceptor variant
rs868073099	G>A,C,T	Uncertain-significance, likely-pathogenic	Synonymous variant, coding sequence variant, missense variant, non coding transcript variant, 5 prime UTR variant, stop gained, intron variant
rs886063349	A>G	Conflicting-interpretations-of-pathogenicity	Synonymous variant, coding sequence variant, 5 prime UTR variant, non coding transcript variant
rs926177767	G>A,T	Likely-pathogenic	Synonymous variant, stop gained, 5 prime UTR variant, intron variant, coding sequence variant, non coding transcript variant
rs1057516865	G>-	Likely-pathogenic	Coding sequence variant, non coding transcript variant, frameshift variant
rs1057517169	C>T	Likely-pathogenic	Splice donor variant
rs1201626345	C>A,G	Likely-pathogenic	Splice donor variant
rs1239081703	C>G,T	Likely-pathogenic	Splice donor variant
rs1319053366	->CTCTT	Likely-pathogenic	Coding sequence variant, splice donor variant, 5 prime UTR variant, non coding transcript variant
rs1449016398	GGTTC>-	Pathogenic	Coding sequence variant, intron variant, non coding transcript variant, frameshift variant
rs1554691572	C>T	Likely-pathogenic	Splice acceptor variant
rs1554692181	A>C,G	Likely-pathogenic	Splice donor variant
rs1554695299	A>C	Likely-pathogenic	Non coding transcript variant, splice donor variant
rs1554695846	C>G	Likely-pathogenic	Splice acceptor variant
rs1554696574	C>T	Likely-pathogenic	Splice donor variant
rs1554696648	A>T	Likely-pathogenic	Splice donor variant
rs1554696650	GT>-	Likely-pathogenic	Non coding transcript variant, coding sequence variant, frameshift variant
rs1554696934	C>T	Likely-pathogenic	Splice donor variant
rs1554697001	T>A	Likely-pathogenic	Splice acceptor variant
rs1554698037	AA>-	Likely-pathogenic	Non coding transcript variant, coding sequence variant, stop gained
rs1554699327	C>T	Likely-pathogenic	Splice donor variant
rs1554702142	A>T	Likely-pathogenic	Splice donor variant
rs1554702880	T>G	Likely-pathogenic	Splice acceptor variant
rs1554703061	C>T	Likely-pathogenic	Splice donor variant
rs1554703613	C>A,T	Likely-pathogenic	Splice acceptor variant
rs1554703831	C>T	Likely-pathogenic	Splice donor variant
rs1554703851	C>-	Likely-pathogenic	5 prime UTR variant, non coding transcript variant, coding sequence variant, frameshift variant
rs1554703874	T>-	Likely-pathogenic	5 prime UTR variant, non coding transcript variant, coding sequence variant, frameshift variant, intron variant
rs1554703907	T>A	Likely-pathogenic	5 prime UTR variant, non coding transcript variant, missense variant, intron variant, initiator codon variant
rs1564084140	G>T	Pathogenic	Non coding transcript variant, coding sequence variant, stop gained
rs1587895234	T>-	Pathogenic	Non coding transcript variant, coding sequence variant, frameshift variant
rs1587896788	G>T	Pathogenic	Stop gained, non coding transcript variant, coding sequence variant
rs1587924452	->CAAC	Pathogenic	Non coding transcript variant, coding sequence variant, 5 prime UTR variant, frameshift variant
rs1587924458	A>-	Pathogenic	Non coding transcript variant, coding sequence variant, 5 prime UTR variant, frameshift variant

Show/Hide all(2)

miRTarBase ID	miRNA	Experiments	Reference
MIRT440460	hsa-miR-323a-5p	HITS-CLIP	24374217
MIRT440460	hsa-miR-323a-5p	HITS-CLIP	24374217

Show/Hide all(16)

GO ID	Ontology	Definition	Evidence	Reference
GO:0000049	Function	TRNA binding	IBA
GO:0002098	Process	TRNA wobble uridine modification	IEA
GO:0002098	Process	TRNA wobble uridine modification	NAS	27847465
GO:0002926	Process	TRNA wobble base 5-methoxycarbonylmethyl-2-thiouridinylation	IBA
GO:0005515	Function	Protein binding	IPI	11714725, 15383276, 19185337, 21903422, 22854966, 33961781
GO:0005634	Component	Nucleus	IEA
GO:0005737	Component	Cytoplasm	IDA	11714725, 22854966
GO:0005737	Component	Cytoplasm	IEA
GO:0005829	Component	Cytosol	IBA
GO:0005829	Component	Cytosol	IDA
GO:0006417	Process	Regulation of translation	NAS	22854966
GO:0008033	Process	TRNA processing	IEA
GO:0033588	Component	Elongator holoenzyme complex	IBA
GO:0033588	Component	Elongator holoenzyme complex	IDA	22854966, 26261306
GO:0033588	Component	Elongator holoenzyme complex	IEA
GO:0033588	Component	Elongator holoenzyme complex	IPI	22854966

MIM	HGNC	e!Ensembl
603722	5959	ENSG00000070061

Protein

UniProt ID

O95163

Protein name

Elongator complex protein 1 (ELP1) (IkappaB kinase complex-associated protein) (IKK complex-associated protein) (p150)

Protein function

Component of the elongator complex which is required for multiple tRNA modifications, including mcm5U (5-methoxycarbonylmethyl uridine), mcm5s2U (5-methoxycarbonylmethyl-2-thiouridine), and ncm5U (5-carbamoylmethyl uridine) (PubMed:29332244). Th

PDB

5CQR , 8PTX , 8PTY , 8PTZ , 8PU0

Family and domains

Pfam

Accession	ID	Position in sequence	Description	Type
PF04762	IKI3	1 → 954	IKI3 family	Family

Sequence

MRNLKLFRTLEFRDIQGPGNPQCFSLRTEQGTVLIGSEHGLIEVDPVSREVKNEVSLVAE
GFLPEDGSGRIVGVQDLLDQESVCVATASGDVILCSLSTQQLECVGSVASGISVMSWSPD
QELVLLATGQQTLIMMTKDFEPILEQQIHQDDFGESKFITVGWGRKETQFHGSEGRQAAF
QMQMHESALPWDDHRPQVTWRGDGQFFAVSVVCPETGARKVRVWNREFALQSTSEPVAGL
GPALAWKPSGSLIASTQDKPNQQDIVFFEKNGLLHGHFTLPFLKDEVKVNDLLWNADSSV
LAVWLEDLQREESSIPKTCVQLWTVGNYHWYLKQSLSFSTCGKSKIVSLMWDPVTPYRLH
VLCQGWHYLAYDWHWTTDRSVGDNSSDLSNVAVIDGNRVLVTVFRQTVVPPPMCTYQLLF
PHPVNQVTFLAHPQKSNDLAVLDASNQISVYKCGDCPSADPTVKLGAVGGSGFKVCLRTP
HLEKRYKIQFENNEDQDVNPLKLGLLTWIEEDVFLAVSHSEFSPRSVIHHLTAASSEMDE
EHGQLNVSSSAAVDGVIISLCCNSKTKSVVLQLADGQIFKYLWESPSLAIKPWKNSGGFP
VRFPYPCTQTELAMIGEEECVLGLTDRCRFFINDIEVASNITSFAVYDEFLLLTTHSHTC
QCFCLRDASFKTLQAGLSSNHVSHGEVLRKVERGSRIVTVVPQDTKLVLQMPRGNLEVVH
HRALVLAQIRKWLDKLMFKEAFECMRKLRINLNLIYDHNPKVFLGNVETFIKQIDSVNHI
NLFFTELKEEDVTKTMYPAPVTSSVYLSRDPDGNKIDLVCDAMRAVMESINPHKYCLSIL
TSHVKKTTPELEIVLQKVHELQGNAPSDPDAVSAEEALKYLLHLVDVNELYDHSLGTYDF
DLVLMVAEKSQKDPKEYLPFLNTLKKMETNYQRFTIDKYLKRYEKAIGHLSKCGPEYFPE
CLNLIKDKNLYNEALKLYSPSSQQYQDISIAYGEHLMQEHMYEPAGLMFARCGAHEKALS
AFLTCGNWKQALCVAAQLNFTKDQLVGLGRTLAGKLVEQRKHIDAAMVLEECAQDYEEAV
LLLLEGAAWEEALRLVYKYNRLDIIETNVKPSILEAQKNYMAFLDSQTATFSRHKKRLLV
VRELKEQAQQAGLDDEVPHGQESDLFSETSSVVSGSEMSGKYSHSNSRISARSSKNRRKA
ERKKHSLKEGSPLEDLALLEALSEVVQNTENLKDEVYHILKVLFLFEFDEQGRELQKAFE
DTLQLMERSLPEIWTLTYQQNSATPVLGPNSTANSIMASYQQQKTSVPVLDAELFIPPKI
NRRTQWKLSLLD

Sequence length

1332

Interactions

View interactions

Show/Hide Causal Diseases (3)

Disease merge term	Disease name	dbSNP ID	References
Causal Diseases caused by PATHOGENIC or LIKELY PATHOGENIC variants from ClinVar only
Dysautonomia	familial dysautonomia	rs757972943, rs767527819, rs868073099, rs770668926, rs1554703874, rs781333644, rs926177767, rs1554698037, rs137853022, rs1554703907, rs1239081703, rs759412460, rs571348995, rs1554696574, rs376078668 View all (27 more)	N/A
Medulloblastoma	medulloblastoma	rs111033171, rs926177767, rs759412460, rs761911009	N/A
Charcot-Marie-Tooth Disease	Charcot-Marie-Tooth Disease	rs137853022, rs28939712, rs111033171	N/A

Show/Hide Unknown Diseases (1)

Disease merge term	Disease name	Evidence	References	Source
Unknown Includes: (1) ClinVar NON-pathogenic variants (Uncertain, Benign, Conflicting, VUS), (2) GenCC associations, (3) GWAS associations, (4) CBGDA evidence-based associations. NOTE: Diseases with pathogenic evidence are excluded to avoid conflicts.
hereditary sensory and autonomic neuropathy	Hereditary sensory and autonomic neuropathy	N/A	N/A	ClinVar

Show/Hide Text Mining Associations (24)

Disease Name	Relationship Type	References
Associations from Text Mining Disease associations identified through Pubtator
Asthma	Associate	22325360
Autism Spectrum Disorder	Associate	34590699
Carcinoma Non Small Cell Lung	Associate	30989732
Central Nervous System Neoplasms	Associate	38139220
Colorectal Neoplasms	Associate	18430410
Developmental Disabilities	Associate	36864284
Dysautonomia Familial	Associate	10090896, 11179008, 11179021, 12058026, 12577200, 15780940, 16713582, 20671422, 21098405, 21209961, 21559466, 21775922, 23159879, 23711097, 24825044 View all (14 more)
Dysautonomia Familial	Inhibit	21187979
Epileptic Syndromes	Associate	24825044
Hereditary Sensory and Autonomic Neuropathies	Associate	12577200, 19651702
Hirschsprung Disease	Associate	20361209
Hypertensive Retinopathy	Associate	28395083
Intellectual Disability	Associate	36864284
Lung Neoplasms	Associate	30989732
Medulloblastoma	Associate	32296180, 36864284, 36961676
Melanoma	Associate	22854966
Mitochondrial Diseases	Associate	28395083
Neuroblastoma	Associate	20671422, 21559466
Neurodegenerative Diseases	Associate	27841875
Neurofibromatosis Noonan syndrome	Associate	36864284
Optic Nerve Diseases	Associate	28395083
Pathological Conditions Anatomical	Associate	36864284
Peripheral Nervous System Diseases	Associate	26437462, 32281945
Prostatic Neoplasms	Associate	21875279

ELP1 (elongator acetyltransferase complex subunit 1)