Nlgn1 (neuroligin 1) - Rat Genome Database

Send us a Message



Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Gene: Nlgn1 (neuroligin 1) Heterocephalus glaber
Analyze
Symbol: Nlgn1
Name: neuroligin 1
RGD ID: 18934897
Description: ENCODES a protein that exhibits cell adhesion molecule binding (ortholog); identical protein binding (ortholog); neurexin family protein binding (ortholog); INVOLVED IN AMPA glutamate receptor clustering (ortholog); calcium-dependent cell-cell adhesion via plasma membrane cell adhesion molecules (ortholog); cellular response to calcium ion (ortholog); ASSOCIATED WITH autism spectrum disorder (ortholog); autistic disorder (ortholog); genetic disease (ortholog); FOUND IN cell surface (ortholog); dendrite (ortholog); dendritic shaft (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: Neuroligin-1
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Alliance Orthologs
More Info more info ...
Latest Assembly: HetGla 1.0 - Naked Mole-Rat female 1.0 Assembly
Position:
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462473051,650,815 - 52,295,023 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462473051,451,546 - 52,300,413 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
AMPA glutamate receptor clustering  (ISO)
calcium-dependent cell-cell adhesion via plasma membrane cell adhesion molecules  (ISO)
cell adhesion  (IEA)
cellular response to calcium ion  (ISO)
cytoskeletal matrix organization at active zone  (ISO)
establishment of protein localization  (ISO)
excitatory synapse assembly  (ISO)
heterophilic cell-cell adhesion via plasma membrane cell adhesion molecules  (ISO)
inhibitory postsynaptic potential  (ISO)
long-term synaptic potentiation  (ISO)
membrane assembly  (IEA)
modulation of chemical synaptic transmission  (ISO)
negative regulation of dendritic spine morphogenesis  (ISO)
nervous system development  (ISO)
neurexin clustering involved in presynaptic membrane assembly  (ISO)
neuron cell-cell adhesion  (ISO)
neuron projection arborization  (ISO)
neuron projection development  (ISO)
NMDA glutamate receptor clustering  (ISO)
positive regulation of circadian sleep/wake cycle, wakefulness  (ISO)
positive regulation of dendritic spine development  (ISO)
positive regulation of excitatory postsynaptic potential  (ISO)
positive regulation of filopodium assembly  (ISO)
positive regulation of intracellular signal transduction  (ISO)
positive regulation of multicellular organismal process  (IEA)
positive regulation of presynaptic active zone assembly  (ISO)
positive regulation of protein localization to synapse  (ISO)
positive regulation of ruffle assembly  (ISO)
positive regulation of synapse assembly  (ISO)
positive regulation of synaptic transmission, GABAergic  (ISO)
positive regulation of synaptic transmission, glutamatergic  (ISO)
positive regulation of synaptic vesicle clustering  (ISO)
positive regulation of synaptic vesicle endocytosis  (ISO)
positive regulation of synaptic vesicle exocytosis  (ISO)
postsynaptic density protein 95 clustering  (ISO)
postsynaptic membrane assembly  (ISO)
postsynaptic specialization assembly  (ISO)
presynaptic membrane assembly  (ISO)
protein localization to synapse  (ISO)
protein targeting  (ISO)
receptor localization to synapse  (ISO)
regulation of AMPA receptor activity  (ISO)
regulation of membrane potential  (IEA)
regulation of nervous system process  (IEA)
regulation of neuron differentiation  (ISO)
regulation of NMDA receptor activity  (ISO)
regulation of postsynaptic density assembly  (ISO)
regulation of presynapse organization  (ISO)
regulation of respiratory gaseous exchange by nervous system process  (ISO)
regulation of signal transduction  (IEA)
synapse assembly  (IEA,ISO)
synapse organization  (ISO)
synaptic membrane adhesion  (ISO)
synaptic vesicle clustering  (ISO)
synaptic vesicle targeting  (ISO)
synaptic vesicle transport  (ISO)
terminal button organization  (ISO)

References
Additional References at PubMed
PMID:21993625   PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
Nlgn1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462473051,650,815 - 52,295,023 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462473051,451,546 - 52,300,413 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2
NLGN1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh383173,395,952 - 174,294,372 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl3173,396,284 - 174,294,372 (+)EnsemblGRCh38hg38GRCh38
GRCh373173,113,742 - 174,012,162 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 363174,598,938 - 175,483,810 (+)NCBINCBI36Build 36hg18NCBI36
Build 343174,598,945 - 175,483,818NCBI
Celera3171,515,223 - 172,400,529 (+)NCBICelera
Cytogenetic Map3q26.31NCBI
HuRef3170,489,300 - 171,374,847 (+)NCBIHuRef
CHM1_13173,079,120 - 173,964,074 (+)NCBICHM1_1
T2T-CHM13v2.03176,181,719 - 177,081,314 (+)NCBIT2T-CHM13v2.0
Nlgn1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39325,475,972 - 26,387,504 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl325,480,379 - 26,386,609 (-)EnsemblGRCm39 Ensembl
GRCm38325,421,808 - 26,332,866 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl325,426,215 - 26,332,460 (-)EnsemblGRCm38mm10GRCm38
MGSCv37325,330,763 - 26,230,831 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36325,622,914 - 26,522,982 (-)NCBIMGSCv36mm8
Celera325,414,194 - 26,317,921 (-)NCBICelera
Cytogenetic Map3A3NCBI
cM Map310.38NCBI
Nlgn1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr82110,184,987 - 111,110,316 (-)NCBIGRCr8
mRatBN7.22108,256,236 - 109,181,530 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl2108,257,824 - 109,002,464 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx2114,911,902 - 115,636,061 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.02113,024,456 - 113,748,622 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.02107,789,905 - 108,510,927 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.02111,057,291 - 111,973,681 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2111,057,291 - 111,793,326 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.02130,770,580 - 131,688,440 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42111,189,470 - 111,948,145 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.12111,133,661 - 111,893,471 (-)NCBI
Celera2103,515,760 - 104,229,754 (-)NCBICelera
Cytogenetic Map2q24NCBI
Nlgn1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554203,549,021 - 4,167,493 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554203,360,745 - 4,171,587 (+)NCBIChiLan1.0ChiLan1.0
NLGN1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22171,247,516 - 172,162,746 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan13171,252,234 - 172,164,121 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v03170,416,885 - 171,333,094 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.13178,595,014 - 179,505,810 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl3178,810,253 - 179,503,756 (+)Ensemblpanpan1.1panPan2
NLGN1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13437,397,772 - 38,203,634 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3437,572,629 - 38,203,177 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3446,409,660 - 47,225,945 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.03437,484,369 - 38,313,800 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl3437,659,077 - 38,308,775 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.13437,576,956 - 38,230,342 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.03437,390,518 - 38,201,245 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.03437,647,698 - 38,463,980 (+)NCBIUU_Cfam_GSD_1.0
Nlgn1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405602104,390,734 - 105,051,988 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936703758,647 - 1,414,185 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936703951,935 - 1,415,991 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
NLGN1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl13112,035,854 - 112,725,618 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.113111,851,007 - 112,727,202 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.213120,802,484 - 121,025,494 (+)NCBISscrofa10.2Sscrofa10.2susScr3
NLGN1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11515,129,976 - 16,017,107 (-)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366606323,867,631 - 24,767,924 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0


Expression

RNA-SEQ Expression


Sequence

Nucleotide Sequences
RefSeq Transcripts XM_004834611 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_013071633 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_021254268 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_021254281 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_021254284 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AHKG01002477 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AHKG01002478 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AHKG01002479 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AHKG01002480 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AHKG01002481 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AHKG01002482 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AHKG01002483 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AHKG01002484 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AHKG01002485 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AHKG01002486 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AHKG01002487 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AHKG01002488 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AHKG01002489 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AHKG01002490 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AHKG01002491 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AHKG01002492 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AHKG01002493 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AHKG01002494 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AHKG01002495 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  GEBF01005519 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JH171303 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Ensembl Acc Id: ENSHGLT00000018945   ⟹   ENSHGLP00000018758
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla_female_1.0 EnsemblNW_00462473051,650,815 - 52,295,023 (+)Ensembl
Ensembl Acc Id: ENSHGLT00000018946   ⟹   ENSHGLP00000018759
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla_female_1.0 EnsemblNW_00462473051,650,815 - 52,295,023 (+)Ensembl
RefSeq Acc Id: XM_004834611   ⟹   XP_004834668
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_00462473051,625,805 - 52,300,413 (+)NCBI
RefSeq Acc Id: XM_013071633   ⟹   XP_012927087
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_00462473051,451,547 - 52,300,413 (+)NCBI
RefSeq Acc Id: XM_021254268   ⟹   XP_021109927
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_00462473051,451,547 - 52,300,413 (+)NCBI
RefSeq Acc Id: XM_021254281   ⟹   XP_021109940
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_00462473051,495,946 - 52,300,413 (+)NCBI
RefSeq Acc Id: XM_021254284   ⟹   XP_021109943
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_00462473051,451,546 - 52,300,413 (+)NCBI
RefSeq Acc Id: XP_021109943   ⟸   XM_021254284
- Peptide Label: isoform X2
- UniProtKB: A0A0P6J1E6 (UniProtKB/TrEMBL),   A0AAX6SN61 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_021109927   ⟸   XM_021254268
- Peptide Label: isoform X1
- UniProtKB: A0A0P6J1E6 (UniProtKB/TrEMBL),   A0AAX6SNB5 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_012927087   ⟸   XM_013071633
- Peptide Label: isoform X1
- UniProtKB: A0A0P6J1E6 (UniProtKB/TrEMBL),   A0AAX6SNB5 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_021109940   ⟸   XM_021254281
- Peptide Label: isoform X1
- UniProtKB: A0A0P6J1E6 (UniProtKB/TrEMBL),   A0AAX6SNB5 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_004834668   ⟸   XM_004834611
- Peptide Label: isoform X1
- UniProtKB: A0A0P6J1E6 (UniProtKB/TrEMBL),   A0AAX6SNB5 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSHGLP00000018759   ⟸   ENSHGLT00000018946
Ensembl Acc Id: ENSHGLP00000018758   ⟸   ENSHGLT00000018945


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSHGLG00000013440 Ensembl, ENTREZGENE
Ensembl Transcript ENSHGLT00000018945 ENTREZGENE
  ENSHGLT00000018946 ENTREZGENE
Gene3D-CATH 3.40.50.1820 UniProtKB/TrEMBL
InterPro AB_hydrolase UniProtKB/TrEMBL
  CarbesteraseB UniProtKB/TrEMBL
  Carboxylesterase_B_CS UniProtKB/TrEMBL
  Neuroligin/BSAL UniProtKB/TrEMBL
  Nlgn UniProtKB/TrEMBL
NCBI Gene Nlgn1 ENTREZGENE
PANTHER NEUROLIGIN UniProtKB/TrEMBL
Pfam COesterase UniProtKB/TrEMBL
PRINTS NEUROLIGIN UniProtKB/TrEMBL
PROSITE CARBOXYLESTERASE_B_2 UniProtKB/TrEMBL
Superfamily-SCOP SSF53474 UniProtKB/TrEMBL
UniProt A0A0P6J1E6 ENTREZGENE, UniProtKB/TrEMBL
  A0AAX6SN61 ENTREZGENE, UniProtKB/TrEMBL
  A0AAX6SNB5 ENTREZGENE, UniProtKB/TrEMBL