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Gene: Nelfe (negative elongation factor complex member E) Chinchilla lanigera

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Symbol:

Nelfe

Name:

negative elongation factor complex member E

RGD ID:

8797486

Description:

ENCODES a protein that exhibits chromatin binding (ortholog); mRNA binding (ortholog); RNA binding (ortholog); INVOLVED IN negative regulation of transcription by RNA polymerase II (ortholog); negative regulation of transcription elongation by RNA polymerase II (ortholog); positive regulation of ERK1 and ERK2 cascade (ortholog); PARTICIPATES IN RNA polymerase II transcription elongation pathway; ASSOCIATED WITH proteasome-associated autoinflammatory syndrome 1 (ortholog); trichohepatoenteric syndrome (ortholog); FOUND IN chromatin (ortholog); NELF complex (ortholog); nuclear body (ortholog)

Type:

protein-coding

RefSeq Status:

MODEL

Previously known as:

negative elongation factor E

RGD Orthologs

Alliance Orthologs

More Info

more info ...

Latest Assembly:

ChiLan1.0 - Chinchilla ChiLan1.0 Assembly

Position:

Chinchilla Assembly	Chr	Position (strand)	Source	Genome Browsers
Chinchilla Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChiLan1.0 Ensembl	NW_004955437	466,690 - 473,084 (-)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955437	467,018 - 473,084 (-)	NCBI	ChiLan1.0	ChiLan1.0

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

proteasome-associated autoinflammatory syndrome 1 (ISO)

trichohepatoenteric syndrome (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

negative regulation of transcription by RNA polymerase II (ISO)

negative regulation of transcription elongation by RNA polymerase II (ISO)

positive regulation of ERK1 and ERK2 cascade (ISO)

positive regulation of protein modification process (ISO)

positive regulation of transcription by RNA polymerase II (ISO)

Cellular Component

chromatin (ISO)

NELF complex (ISO)

nuclear body (ISO)

nucleoplasm (ISO)

nucleus (ISO)

plasma membrane (ISO)

Molecular Function

chromatin binding (ISO)

mRNA binding (ISO)

protein binding (ISO)

RNA binding (ISO)

Molecular Pathway Annotations Click to see Annotation Detail View

RNA polymerase II transcription elongation pathway (ISO)

References

References - curated

#	Reference Title	Reference Citation
1.	Transitive Annotation Pipeline	Automated assignment of GO, PW and RDO ISO annotations across species

Additional References at PubMed

PMID:22301074	PMID:30032202

Genomics

Comparative Map Data

Nelfe
(Chinchilla lanigera - long-tailed chinchilla)

Chinchilla Assembly	Chr	Position (strand)	Source	Genome Browsers
Chinchilla Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChiLan1.0 Ensembl	NW_004955437	466,690 - 473,084 (-)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955437	467,018 - 473,084 (-)	NCBI	ChiLan1.0	ChiLan1.0

NELFE
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	6	31,952,087 - 31,958,971 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	6	31,952,087 - 31,959,038 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	6	31,919,864 - 31,926,748 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	6	32,027,843 - 32,034,843 (-)	NCBI	NCBI36	Build 36	hg18	NCBI36
Build 34	6	32,027,843 - 32,034,747	NCBI
Celera	6	33,519,627 - 33,526,530 (-)	NCBI		Celera
Cytogenetic Map	6	p21.33	NCBI
HuRef	6	31,706,833 - 31,713,834 (-)	NCBI		HuRef
CHM1_1	6	31,921,945 - 31,928,945 (-)	NCBI		CHM1_1
T2T-CHM13v2.0	6	31,805,292 - 31,812,176 (-)	NCBI		T2T-CHM13v2.0

Nelfe
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	17	35,069,367 - 35,075,348 (+)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	17	35,069,367 - 35,075,348 (+)	Ensembl		GRCm39 Ensembl
GRCm38	17	34,850,391 - 34,856,372 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	17	34,850,391 - 34,856,372 (+)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	17	34,987,336 - 34,993,317 (+)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	17	34,458,975 - 34,464,214 (+)	NCBI		MGSCv36	mm8
Celera	17	37,945,699 - 37,951,680 (+)	NCBI		Celera
Cytogenetic Map	17	B1	NCBI
cM Map	17	18.4	NCBI

Nelfe
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	20	3,981,259 - 3,987,016 (-)	NCBI		GRCr8
mRatBN7.2	20	3,976,512 - 3,982,389 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	20	3,976,518 - 3,982,355 (-)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	20	4,676,633 - 4,682,383 (-)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	20	4,038,381 - 4,044,131 (-)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	20	4,575,547 - 4,581,290 (-)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	20	4,530,328 - 4,536,085 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	20	4,530,342 - 4,536,209 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	20	6,610,127 - 6,615,884 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	20	4,077,925 - 4,081,561 (-)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	20	4,078,021 - 4,081,787 (-)	NCBI
Celera	20	4,048,306 - 4,054,061 (+)	NCBI		Celera
Cytogenetic Map	20	p12	NCBI

NELFE
(Pan paniscus - bonobo/pygmy chimpanzee)

Bonobo Assembly	Chr	Position (strand)	Source	Genome Browsers
Bonobo Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
NHGRI_mPanPan1-v2	5	46,428,781 - 46,435,590 (-)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	6	42,390,268 - 42,397,077 (-)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	6	31,612,924 - 31,619,732 (-)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	6	32,499,538 - 32,506,382 (-)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	6	32,499,540 - 32,506,382 (-)	Ensembl	panpan1.1		panPan2

NELFE
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	12	1,406,411 - 1,412,387 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	12	1,406,271 - 1,412,324 (-)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	12	1,541,468 - 1,547,598 (-)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	12	1,548,568 - 1,554,700 (-)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	12	1,548,568 - 1,554,605 (-)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	12	1,405,843 - 1,411,974 (-)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	12	1,474,213 - 1,480,345 (-)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	12	1,539,542 - 1,546,943 (-)	NCBI		UU_Cfam_GSD_1.0

Nelfe
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)

Squirrel Assembly	Chr	Position (strand)	Source	Genome Browsers
Squirrel Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HiC_Itri_2	NW_024404946	35,965,333 - 35,971,346 (-)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936727	1,589,942 - 1,598,182 (+)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936727	1,589,942 - 1,596,009 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

NELFE
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	7	24,040,525 - 24,047,025 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	7	24,040,525 - 24,046,932 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	7	27,765,281 - 27,771,676 (+)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

NELFE
(Chlorocebus sabaeus - green monkey)

Green Monkey Assembly	Chr	Position (strand)	Source	Genome Browsers
Green Monkey Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChlSab1.1	17	40,063,298 - 40,069,714 (+)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	17	40,063,755 - 40,198,451 (+)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666044	31,868,805 - 31,875,524 (-)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Nelfe
(Heterocephalus glaber - naked mole-rat)

Naked Mole-Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Naked Mole-Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HetGla_female_1.0 Ensembl	NW_004624754	24,300,602 - 24,310,671 (+)	Ensembl	HetGla_female_1.0	HetGla_female_1.0 Ensembl	hetGla2
HetGla 1.0	NW_004624754	24,300,012 - 24,310,777 (+)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Expression

RNA-SEQ Expression

Click on a value in the shaded box below the category label to view a detailed expression data table for that system.

Sequence

Nucleotide Sequences


RefSeq Transcripts	XM_005389401	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AGCD01034137	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	GBDF01128156	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Ensembl Acc Id:

ENSCLAT00000014172 ⟹ ENSCLAP00000014015

Type:

CODING

Position:

Chinchilla Assembly	Chr	Position (strand)	Source
ChiLan1.0 Ensembl	NW_004955437	466,690 - 473,084 (-)	Ensembl

RefSeq Acc Id:

XM_005389401 ⟹ XP_005389458

Type:

CODING

Position:

Chinchilla Assembly	Chr	Position (strand)	Source
ChiLan1.0	NW_004955437	467,018 - 473,084 (-)	NCBI

Sequence:

show sequence

CTTGGTTACCGCGTTCCCCGCCCCTCGCGCGTCATCGCTCTGAGCCCGCTCTCAGCTGCCAGCG
CGGGCCCCACCCGAGACCGTGGGGCCCCGGTTGCCGCCCCCTCAGGAGCCACCATGTTGGTGAT
CCCCCCCGGACTGAGCGAGGAGGAGGAGGCCCTGCAGAAGAAATTCAGCAAACTGAAGAAGAAG
AAAAAGGCATTGCTGGCTCTGAAGAAGCAAAGTAGCAGCAGCACAGCCAGCCAAGGTGGCGTCA
AGCGCTCGCTGTCGGAGCAGCCTGCGGTGGACACAGCCACGGCCACAGAGCAGGCAAAGCAGCT
GGTGAAGTCAGGAGCCATCAGTGCCATCAAGGCTGAGACCAAGAACTCAGGCTTCAAACGCTCG
CGAACCCTAGAGGGCAAGTTAAAGGACCCTGAGAAGGGGCCGGCGCCCACCTTCCAGCCGTTCC
AGAGGAGCATATCCGCGGACGACAACCTGCAGGAGTCCTCCAGACGCCCCCAGAGGAAGTCTCT
GTATGAGAGCTTTGTGTCTTCTAGCGATCGCCTCCGAGAGCTGGGGCCGGATGGAGAAGAAGCC
GAGGGCCCGGGGGGTGGCGACGGCCCCCCTCGGAGCTTTGACTGGGGCTACGAAGAGCGCGGCG
GTGCCCGCTCCTCCGCCTCCCCTCCCCGAAGCCGCAGCCGGGACCGCAGCCATGAGAGGACCCG
GGACAGAGAGCGGGAGCGGGAGCGGGAGCGGGACAGAGACCGGGAGCGGGACAGAGACCGGGAG
CGGGACAGAGAGCGGGAGCGTGACCGCGAGCGGGACCGGGACAGAGAGCGCGAGCGGGACCGAG
ACCGGGAAGGGCCTTTCCGCCGGTCAGACTCATTCCCCGAGCGCCGGGCCCCTCGGAAGGGGAA
CACGCTCTACGTCTACGGGGAGGACATGACGCCCACGCTGCTCCGCGGGGCCTTCTCTCCCTTC
GGGAACATCATCGACCTCTCCATGGACCCGCCTAGAAACTGTGCCTTCGTCACCTATGAGAAGA
TGGAGTCGGCAGACCAGGCTGTTGCCGAGCTCAACGGGACCCAGGTGGAGTCCGTGCAGCTCAA
AGTCAACATCGCCCGCAAACAGCCCATGCTGGACGCGGCTACCGGCAAGTCTGTCTGGGGCTCC
CTCGCTGTCCAGAACAGCCCTAAGGGCTGCCACCGGGACAAGAGGACTCAGATTGTCTACAGTG
ATGATGTCTACAAGGAGAACCTTGTGGATGGCTTTTAGGGTGTGAAGCCGGATTCCCCCAATGC
TGGTCTCCGTCTCGGTCTCAGTAAAATGCCGAGGCGGGAGCTCACACCTCCTCAGCCTCCGGTC
TCTCAGCA

hide sequence

Protein Sequences


Protein RefSeqs	XP_005389458	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSCLAP00000014015
	ENSCLAP00000014015.1

RefSeq Acc Id:

XP_005389458 ⟸ XM_005389401

- UniProtKB:

A0A8C2VDM2 (UniProtKB/TrEMBL)

- Sequence:

show sequence

MLVIPPGLSEEEEALQKKFSKLKKKKKALLALKKQSSSSTASQGGVKRSLSEQPAVDTATATEQ
AKQLVKSGAISAIKAETKNSGFKRSRTLEGKLKDPEKGPAPTFQPFQRSISADDNLQESSRRPQ
RKSLYESFVSSSDRLRELGPDGEEAEGPGGGDGPPRSFDWGYEERGGARSSASPPRSRSRDRSH
ERTRDRERERERERDRDRERDRDRERDRERERDRERDRDRERERDRDREGPFRRSDSFPERRAP
RKGNTLYVYGEDMTPTLLRGAFSPFGNIIDLSMDPPRNCAFVTYEKMESADQAVAELNGTQVES
VQLKVNIARKQPMLDAATGKSVWGSLAVQNSPKGCHRDKRTQIVYSDDVYKENLVDGF

hide sequence

Ensembl Acc Id:

ENSCLAP00000014015 ⟸ ENSCLAT00000014172

Protein Domains

RRM

Additional Information

External Database Links

Database	Acc Id	Source(s)
Ensembl Genes	ENSCLAG00000009684	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript	ENSCLAT00000014172	ENTREZGENE
	ENSCLAT00000014172.1	UniProtKB/TrEMBL
Gene3D-CATH	3.30.70.330	UniProtKB/TrEMBL
InterPro	NELFE	UniProtKB/TrEMBL
	NELFE_RRM	UniProtKB/TrEMBL
	Nucleotide-bd_a/b_plait_sf	UniProtKB/TrEMBL
	RBD_domain_sf	UniProtKB/TrEMBL
	RRM_dom	UniProtKB/TrEMBL
NCBI Gene	Nelfe	ENTREZGENE
PANTHER	NEGATIVE ELONGATION FACTOR E	UniProtKB/TrEMBL
	PTHR17250	UniProtKB/TrEMBL
Pfam	RRM_1	UniProtKB/TrEMBL
PROSITE	RRM	UniProtKB/TrEMBL
SMART	RRM	UniProtKB/TrEMBL
Superfamily-SCOP	SSF54928	UniProtKB/TrEMBL
UniProt	A0A8C2VDM2	ENTREZGENE, UniProtKB/TrEMBL

Gene Annotator (Functional Annotation) unavailable	Gene Annotator (Annotation Distribution) unavailable	Variant Visualizer (Genomic Variants) unavailble Variant Visualizer (Genomic Variants) unavailable
Gene Annotator (Functional Annotation)	Gene Annotator (Annotation Distribution)	Variant Visualizer (Genomic Variants)

InterViewer (Protein-Protein Interactions) unavailable	Gviewer (Genome Viewer) unavailable	Variant Visualizer (Damaging Variants) unavailble Variant Visualizer (Damaging Variants) unavailable
InterViewer (Protein-Protein Interactions)	GViewer (Genome Viewer)	Variant Visualizer (Damaging Variants)

Gene Annotator (Annotation Comparison) unavailable	OLGA (Gene List Generator) unavailable
Gene Annotator (Annotation Comparison)	OLGA (Gene List Generator)	Excel (Download)

MOET (Multi-Ontology Enrichement) unavailable	GOLF (Gene-Ortholog Location Finder) unavailable
MOET (Multi-Ontology Enrichement)	GOLF (Gene-Ortholog Location Finder)

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Imported Disease Annotations - ClinVar

RGD Manual Annotations