NICN1 (nicolin 1) - Rat Genome Database

Name: NICN1
Creator: Rat Genome Database
License: Creative Commons CC BY 4.0
Keywords: Rat Gene RGD Genome

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Gene: NICN1 (nicolin 1) Pan paniscus

Analyze

Symbol:

NICN1

Name:

nicolin 1

RGD ID:

11710202

Description:

ASSOCIATED WITH autosomal recessive limb-girdle muscular dystrophy type 2P (ortholog); glycine encephalopathy (ortholog); FOUND IN nucleoplasm (ortholog)

Type:

protein-coding

RefSeq Status:

MODEL

Also known as:

nicolin-1

RGD Orthologs

Human

Mouse

Rat

Chinchilla

Dog

Squirrel

Pig

Green Monkey

Naked Mole-Rat

Alliance Genes

More Info

more info ...

More Info

Species	Gene symbol and name	Data Source	Assertion derived from	less info ...
Orthologs ¹				less info ...
Homo sapiens (human):	NICN1 (nicolin 1)	NCBI	Ortholog
Mus musculus (house mouse):	Nicn1 (nicolin 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Rattus norvegicus (Norway rat):	Nicn1 (nicolin 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chinchilla lanigera (long-tailed chinchilla):	Nicn1 (nicolin 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	NICN1 (nicolin 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Nicn1 (nicolin 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	NICN1 (nicolin 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (African green monkey):	NICN1 (nicolin 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Nicn1 (nicolin 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline

Latest Assembly:

Mhudiblu_PPA_v0 - Bonobo Mhudiblu_PPA_v0 Assembly

Position:

Bonobo Assembly	Chr	Position (strand)	Source	Genome Browsers
Bonobo Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
PanPan1.1	3	50,595,232 - 50,601,612 (-)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	3	50,595,232 - 50,601,612 (-)	Ensembl	panpan1.1		panPan2
Mhudiblu_PPA_v0	3	49,350,753 - 49,357,161 (-)	NCBI	Mhudiblu_PPA_v0		panPan3

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

autosomal recessive limb-girdle muscular dystrophy type 2P (ISO)

glycine encephalopathy (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Cellular Component

nucleoplasm (ISO)

Molecular Function

protein binding (ISO)

References

Genomics

Comparative Map Data

NICN1
(Pan paniscus - bonobo/pygmy chimpanzee)

Bonobo Assembly	Chr	Position (strand)	Source	Genome Browsers
Bonobo Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
PanPan1.1	3	50,595,232 - 50,601,612 (-)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	3	50,595,232 - 50,601,612 (-)	Ensembl	panpan1.1		panPan2
Mhudiblu_PPA_v0	3	49,350,753 - 49,357,161 (-)	NCBI	Mhudiblu_PPA_v0		panPan3

NICN1
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38.p13 Ensembl	3	49,422,333 - 49,429,326 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh38.p13 Ensembl	3	49,422,946 - 49,429,326 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh38	3	49,422,333 - 49,429,324 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh37	3	49,459,766 - 49,466,757 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	3	49,434,770 - 49,441,761 (-)	NCBI	NCBI36		hg18	NCBI36
Build 34	3	49,435,383 - 49,441,725	NCBI
Celera	3	49,424,553 - 49,431,543 (-)	NCBI
Cytogenetic Map	3	p21.31	NCBI
HuRef	3	49,519,494 - 49,526,483 (-)	NCBI		HuRef
CHM1_1	3	49,412,534 - 49,419,525 (-)	NCBI		CHM1_1

Nicn1
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	9	108,167,642 - 108,173,697 (+)	NCBI	GRCm39		mm39
GRCm39 Ensembl	9	108,167,628 - 108,173,697 (+)	Ensembl
GRCm38	9	108,290,443 - 108,296,498 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	9	108,290,429 - 108,296,498 (+)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	9	108,192,788 - 108,198,827 (+)	NCBI	GRCm37		mm9	NCBIm37
MGSCv36	9	108,148,550 - 108,154,589 (+)	NCBI			mm8
Celera	9	107,899,500 - 107,905,538 (+)	NCBI		Celera
Cytogenetic Map	9	F2	NCBI

Nicn1
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	8	108,976,393 - 108,981,620 (+)	NCBI
Rnor_6.0 Ensembl	8	117,062,884 - 117,068,130 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_6.0	8	117,062,989 - 117,068,134 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_5.0	8	116,415,763 - 116,420,985 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
Celera	8	108,279,495 - 108,284,640 (+)	NCBI		Celera
Cytogenetic Map	8	q32	NCBI

Nicn1
(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_004955532	1,358,251 - 1,363,470 (-)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955532	1,358,251 - 1,363,481 (-)	NCBI	ChiLan1.0	ChiLan1.0

NICN1
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1 Ensembl	20	39,810,692 - 39,814,354 (+)	Ensembl	CanFam3.1		canFam3	CanFam3.1
CanFam3.1	20	39,810,692 - 39,814,354 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1

Nicn1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)

Squirrel Assembly	Chr	Position (strand)	Source	Genome Browsers
Squirrel Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
SpeTri2.0	NW_004936529	1,054,568 - 1,059,575 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

NICN1
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	13	32,002,658 - 32,007,217 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	13	32,002,658 - 32,007,266 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1

NICN1
(Chlorocebus sabaeus - African green monkey)

Vervet Assembly	Chr	Position (strand)	Source	Genome Browsers
Vervet Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChlSab1.1	22	10,821,663 - 10,825,405 (-)	NCBI
ChlSab1.1 Ensembl	22	10,820,757 - 10,825,462 (-)	Ensembl

Nicn1
(Heterocephalus glaber - naked mole-rat)

Molerat Assembly	Chr	Position (strand)	Source	Genome Browsers
Molerat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HetGla 1.0	NW_004624730	3,372,456 - 3,377,308 (-)	NCBI

Expression

Sequence

Nucleotide Sequences


RefSeq Transcripts	XM_008972270	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_008972272	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	SSBP01000021	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Reference Sequences

RefSeq Acc Id:

ENSPPAT00000035024 ⟹ ENSPPAP00000012359

RefSeq Status:

Type:

CODING

Position:

Bonobo Assembly	Chr	Position (strand)	Source
PanPan1.1 Ensembl	3	50,595,232 - 50,601,612 (-)	Ensembl

RefSeq Acc Id:

ENSPPAT00000035030 ⟹ ENSPPAP00000012365

RefSeq Status:

Type:

CODING

Position:

Bonobo Assembly	Chr	Position (strand)	Source
PanPan1.1 Ensembl	3	50,596,670 - 50,601,603 (-)	Ensembl

RefSeq Acc Id:

XM_008972270 ⟹ XP_008970518

RefSeq Status:

Type:

CODING

Position:

Bonobo Assembly	Chr	Position (strand)	Source
PanPan1.1	3	50,595,232 - 50,601,612 (-)	NCBI
Mhudiblu_PPA_v0	3	49,350,753 - 49,357,147 (-)	NCBI

Sequence:

show sequence

GTAGTTCTTGAGGCTCGGCTGAGGATGCCGGGAAGGGCTGGTGGTCGGGGGCCTAGAGCGGCGG
TTGCACTTAGTTGCGGCTGCTGTCACAATGTCCCGCGTTTTGGTGCCTTGCCATGTGAAAGGCT
CCGTAGCCCTCCAGGTGGGCGACGTGCGGACCTCCCAAGGCCGGCCTGGCGTGCTGGTCATCGA
TGTCACCTTCCCCAGCGTCGCTCCCTTCGAGTTGCAGGAAATCACGTTTAAGAATTACTACACA
GCTTTTTTGAGCATCCGTGTCCGTCAGTACACCTCAGCACACACACCTGCCAAGTGGGTGACCT
GCCTGCGGGACTACTGCCTAATGCCTGACCCACACAGTGAGGAGGGAGCCCAGGAGTATGTATC
GCTGTTCAAGCATCAGATGCTGTGTGACATGGCTAGAGTATCGGAGCTACGCCTGATTCTGCGG
CAGCCATCACCACTGTGGCTGTCTTTCACAGTGGAGGAGCTGCAGATCTATCAGCAGGGACCAA
AGAGCCCCTCCGTGACCTTTCCCAAGTGGCTCTCCCACCCAGTGCCCTGTGAGCAACCTGCACT
CCTCCGTGAGGGTCTCCCAGACCCCAGCAGGGTATCCTCCGAGGTGCAGCAGATGTGGGCACTG
ACAGAGATGATCCGGGCCAGTCACACCTCTGCAAGGATCGGCCGCTTTGATGTGGATGGCTGTT
ATGACCTGAACTTGCTCTCCTACACTTGAATGGTTGCTCCTAGCCAAGATGTTGGCCTTTCTGT
GCCCACCCAGACTTGGTTTGGGCCACCAGAGGCTGAAGTGTGTTTCCTGTGCATTCCAAGTGTT
GCCTGCATGCCTGTTCTGTCTGGGCCACGTTCACAGATTCAGGATTCTCAGGGGCTTACCGTGT
TACTTCAGCATGAGCTCCTGGCATGGGGGTGCTCTGTCTTCGCCTGGCTGCAACTCAATTCTTC
CTTCTACCCAAAAACACTCCAGTCAGTTGTACTTACTGAGAATCCCTGAGTGCCCTCTGCCCCT
TCTGGCAACATGCACATTCCTGTCTTCTGCCTGCTCCCTCATGTCAGTGCAGTTGGGCTGGGCT
GACCTACTAAAACCTGCTCCATGTATGGACCTGGAAGGCCATTGCTGCCATGGCACTTGGGACA
CTTGAGGAAGAAACAGAAACCTTATTTCTTCCTGTGTGTCCCCTAGTGGTTTTCTTTCCATTTG
TGTTATGCCACAGAGAGAAATTTCCTGTCTGAACTCTTCTGCTGCCTGCCTAGGAAGGAAACCT
GAAGATTTGGGCAGCCTGAGTCTCTCGGTTTCTGAGCTGCTCCTGAATATATGTTCAAGTGGGT
GTGCCCATAGGGCCTGGGCACGTGTCTCTAGCAAAACCAGGGCCTGAGAATAAGAACTGGGACC
CTTCTAGGCAGGGTGCGGTAGCTCACGCCTGTAATCCCAGCACTTTGGGAGGCCCAGGCAGGCG
GATCACCTGAGGTCAGGAGTTCAAGACCAGCCTGACCAACCTGGAGAAACCCCGTCTCTACTAA
AAATACAAAAAATTAGCTGGGCGTGGTGGTAGGCACCTGTAATCCCAGCTACTTGGGAGGCTGA
GGCAGGAGAATCTCTTGAACCCGGGAAGTGGAGGTTGCGGACCTGAGATCATGCCATTGCACTC
CAGCCTGGGCAAGAAGAGCGAAACTCCATCTTAAACAAAACAAACAAAAAAAGAACTGGGACCC
TTCTGCCATCTGACATAGCCCAAAGCACATCTCTATCCTTTCTCCCAGTTGCCCCTCTCCTTTT
TGTTGTTTTTTTTGAGGTTGAGTTTTGCTCTTGTTACCCAGGCTGGAGTGCAATAGTGCAATCT
TGGCTAACTGCAACCTCCGCCTCCCAGGTTCAAGCGATTCTCCTGCCTCAGTCTCCCGAGTAGC
TGGGATTACAGTCATGCGTCACCATGCCTGGCTAATTTTGTATTTGTAGTAGAGATGGGGTTTC
TCCATGTTGGTCAGGCTGGTCTCAAACTCCTGACCTCAGGTGATCTGCCTGCCTTGGCCTCCCA
AAGTGCTGGGATTACAGGCATGAGCCACCGCGCCCAGCCTGCCCCTTTCCAAGAGATATGCTCA
GCATAATGAGAGATCAACCGTGGTGGGGAGTGGGTCCAAGTAACGGTTCTCATTGTTGCCTTTT
AAGAGGCCTAGGTCCTGCATTAACTCAGTCCAACCATTAAGTGATGCAGGCTGCTCTTCCCTCA
TGTGAGAAAAACCTGTTTCCCTCTGGTTCTTCCTGGCTTTGCACCTGGTGGCTATTACAAAGCA
GTACTGCAGTATGTCTTGGACCTGGAAAGTTGGACATGTGTGCGGCTCAACAGTTTTCTCGGGG
GAGTTCAGTGACTTTTTGGTGGCCACCCTCTGTTCTCACCTGTGAGTTCTTGCAGGTGGCGACT
TCATCTGCAAGGTCACTTACATAGCCCCACTCAGCTGCTTCAGAAAGCGTGATGGAGCAGTAGT
CCTCAGTGTGTGTGTAAGTGAAGAGGACCTTGTGGTAGCAGGGACCATGCTTCATTTGTGGCTG
TGTCTCCATCTGAGGGCCTGGTATGCAGTAAGATCAATAAATACTTGTGGAATGCATGAC

hide sequence

RefSeq Acc Id:

XM_008972272 ⟹ XP_008970520

RefSeq Status:

Type:

CODING

Position:

Bonobo Assembly	Chr	Position (strand)	Source
PanPan1.1	3	50,596,670 - 50,601,603 (-)	NCBI
Mhudiblu_PPA_v0	3	49,351,837 - 49,357,161 (-)	NCBI

Sequence:

show sequence

GAGGCTCGGCTGAGGATGCCGGGAAGGGCTGGTGGTCGGGGGCCTAGAGCGGCGGTTGCACTTA
GTTGCGGCTGCTGTCACAATGTCCCGCGTTTTGGTGCCTTGCCATGTGAAAGGCTCCGTAGCCC
TCCAGGTGGGCGACGTGCGGACCTCCCAAGGCCGGCCTGGCGTGCTGGTCATCGATGTCACCTT
CCCCAGCGTCGCTCCCTTCGAGTTGCAGGAAATCACGTTTAAGAATTACTACACAGCTTTTTTG
AGCATCCGTGTCCGTCAGTACACCTCAGCACACACACCTGCCAAGTGGGTGACCTGCCTGCGGG
ACTACTGCCTAATGCCTGACCCACACAGTGAGGAGGGAGCCCAGGAGTATGTATCGCTGTTCAA
GCATCAGAGCCCCTCCGTGACCTTTCCCAAGTGGCTCTCCCACCCAGTGCCCTGTGAGCAACCT
GCACTCCTCCGTGAGGGTCTCCCAGACCCCAGCAGGGTATCCTCCGAGGTGCAGCAGATGTGGG
CACTGACAGAGATGATCCGGGCCAGTCACACCTCTGCAAGGATCGGCCGCTTTGATGTGGATGG
CTGTTATGACCTGAACTTGCTCTCCTACACTTGAATGGTTGCTCCTAGCCAAGATGTTGGCCTT
TCTGTGCCCACCCAGACTTGGTTTGGGCCACCAGAGGCTGAAGTGTGTTTCCTGTGCATTCCAA
GTGTTGCCTGCATGCCTGTTCTGTCTGGGCCACGTTCACAGATTCAGGATTCTCAGGGGCTTAC
CGTGTTACTTCAGCATGAGCTCCTGGCATGGGGGTGCTCTGTCTTCGCCTGGCTGCAACTCAAT
TCTTCCTTCTACCCAAAAACACTCCAGTCAGTTGTACTTACTGAGAATCCCTGAGTGCCCTCTG
CCCCTTCTGGCAACATGCACATTCCTGTCTTCTGCCTGCTCCCTCATGTCAGTGCAGTTGGGCT
GGGCTGACCTACTAAAACCTGCTCCATGTATGGACCTGGAAGGCCATTGCTGCCATGGCACTTG
GGACACTTGAGGAAGAAACAGAAACCTTATTTCTT

hide sequence

Protein Sequences


Protein RefSeqs	XP_008970518	(Get FASTA)	NCBI Sequence Viewer
	XP_008970520	(Get FASTA)	NCBI Sequence Viewer

Reference Sequences

RefSeq Acc Id:

XP_008970518 ⟸ XM_008972270

- Peptide Label:

isoform X1

- Sequence:

show sequence

MSRVLVPCHVKGSVALQVGDVRTSQGRPGVLVIDVTFPSVAPFELQEITFKNYYTAFLSIRVRQ
YTSAHTPAKWVTCLRDYCLMPDPHSEEGAQEYVSLFKHQMLCDMARVSELRLILRQPSPLWLSF
TVEELQIYQQGPKSPSVTFPKWLSHPVPCEQPALLREGLPDPSRVSSEVQQMWALTEMIRASHT
SARIGRFDVDGCYDLNLLSYT

hide sequence

RefSeq Acc Id:	XP_008970520 ⟸ XM_008972272
- Peptide Label:	isoform X2
- Sequence:	show sequence MSRVLVPCHVKGSVALQVGDVRTSQGRPGVLVIDVTFPSVAPFELQEITFKNYYTAFLSIRVRQ YTSAHTPAKWVTCLRDYCLMPDPHSEEGAQEYVSLFKHQSPSVTFPKWLSHPVPCEQPALLREG LPDPSRVSSEVQQMWALTEMIRASHTSARIGRFDVDGCYDLNLLSYT hide sequence

RefSeq Acc Id:

ENSPPAP00000012365 ⟸ ENSPPAT00000035030

RefSeq Acc Id:

ENSPPAP00000012359 ⟸ ENSPPAT00000035024

Additional Information

External Database Links

Database	Acc Id	Source(s)
Ensembl Genes	ENSPPAG00000029365	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein	ENSPPAP00000012359	ENTREZGENE, UniProtKB/TrEMBL
	ENSPPAP00000012365	ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript	ENSPPAT00000035024	UniProtKB/TrEMBL
	ENSPPAT00000035030	UniProtKB/TrEMBL
InterPro	Nicolin-1	UniProtKB/TrEMBL
KEGG Report	pps:100989251	UniProtKB/TrEMBL
NCBI Gene	NICN1	ENTREZGENE
PANTHER	PTHR31239	UniProtKB/TrEMBL
UniProt	A0A2R9A4Y5_PANPA	UniProtKB/TrEMBL
	A0A2R9A651_PANPA	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)

Imported Disease Annotations - ClinVar