LFNG (LFNG O-fucosylpeptide 3-beta-N-acetylglucosaminyltransferase) - Rat Genome Database

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Gene: LFNG (LFNG O-fucosylpeptide 3-beta-N-acetylglucosaminyltransferase) Canis lupus familiaris
Analyze
Symbol: LFNG
Name: LFNG O-fucosylpeptide 3-beta-N-acetylglucosaminyltransferase
RGD ID: 12141029
Description: ENCODES a protein that exhibits glycosyltransferase activity (inferred); metal ion binding (inferred); O-fucosylpeptide 3-beta-N-acetylglucosaminyltransferase activity (inferred); INVOLVED IN compartment pattern specification (ortholog); ovarian follicle development (ortholog); positive regulation of meiotic cell cycle (ortholog); PARTICIPATES IN Notch signaling pathway; ASSOCIATED WITH genetic disease (ortholog); Rigidity and Multifocal Seizure Syndrome, Lethal Neonatal (ortholog); spondylocostal dysostosis 2 (ortholog); FOUND IN Golgi apparatus (inferred); Golgi membrane (inferred); membrane (inferred)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: beta-1,3-N-acetylglucosaminyltransferase lunatic fringe
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: CanFam3.1 - Dog CanFam3.1 Assembly
Position:
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1614,631,638 - 14,640,147 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl614,632,691 - 14,635,485 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha616,094,444 - 16,103,246 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0614,757,824 - 14,766,634 (-)NCBIROS_Cfam_1.0
UMICH_Zoey_3.1614,561,780 - 14,570,581 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0614,490,186 - 14,498,963 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0614,776,050 - 14,784,860 (-)NCBIUU_Cfam_GSD_1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
LFNG
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1614,631,638 - 14,640,147 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl614,632,691 - 14,635,485 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha616,094,444 - 16,103,246 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0614,757,824 - 14,766,634 (-)NCBIROS_Cfam_1.0
UMICH_Zoey_3.1614,561,780 - 14,570,581 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0614,490,186 - 14,498,963 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0614,776,050 - 14,784,860 (-)NCBIUU_Cfam_GSD_1.0
LFNG
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh3872,512,529 - 2,529,177 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl72,512,529 - 2,529,177 (+)EnsemblGRCh38hg38GRCh38
GRCh3772,552,163 - 2,568,811 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 3672,526,005 - 2,535,337 (+)NCBINCBI36Build 36hg18NCBI36
Build 3472,330,737 - 2,341,302NCBI
Celera72,521,470 - 2,538,114 (+)NCBICelera
Cytogenetic Map7p22.3NCBI
HuRef72,469,979 - 2,486,577 (+)NCBIHuRef
CHM1_172,551,728 - 2,568,392 (+)NCBICHM1_1
T2T-CHM13v2.072,625,971 - 2,642,596 (+)NCBIT2T-CHM13v2.0
CRA_TCAGchr7v272,600,032 - 2,616,654 (+)NCBI
Lfng
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm395140,593,096 - 140,601,300 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl5140,593,075 - 140,601,300 (+)EnsemblGRCm39 Ensembl
GRCm385140,607,341 - 140,615,545 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl5140,607,320 - 140,615,545 (+)EnsemblGRCm38mm10GRCm38
MGSCv375141,083,295 - 141,091,499 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv365140,859,841 - 140,866,960 (+)NCBIMGSCv36mm8
Celera5137,667,846 - 137,675,959 (+)NCBICelera
Cytogenetic Map5G2NCBI
cM Map579.15NCBI
Lfng
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81219,144,474 - 19,152,951 (-)NCBIGRCr8
mRatBN7.21214,030,551 - 14,038,996 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1214,018,333 - 14,039,008 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1214,839,113 - 14,847,134 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01215,462,384 - 15,470,633 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01214,489,324 - 14,497,345 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01216,117,767 - 16,126,211 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1216,118,634 - 16,126,953 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01218,113,805 - 18,123,172 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41214,497,704 - 14,505,723 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11214,527,632 - 14,535,651 (-)NCBI
Celera1215,790,243 - 15,798,262 (-)NCBICelera
Cytogenetic Map12q11NCBI
Lfng
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495546012,773,975 - 12,784,512 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495546012,773,975 - 12,784,512 (-)NCBIChiLan1.0ChiLan1.0
LFNG
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v267,477,996 - 7,487,441 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1755,802,701 - 55,812,142 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v072,781,493 - 2,790,936 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.172,876,721 - 2,884,926 (+)NCBIpanpan1.1PanPan1.1panPan2
Lfng
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024409344142,760,468 - 142,768,231 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936823283,205 - 290,986 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936823283,207 - 290,970 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
LFNG
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl31,810,892 - 1,820,048 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.131,721,044 - 1,819,426 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.232,208,304 - 2,267,857 (-)NCBISscrofa10.2Sscrofa10.2susScr3
LFNG
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12819,084,527 - 19,092,305 (-)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_0236660902,679,194 - 2,686,982 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Lfng
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462474030,392,079 - 30,404,068 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462474030,392,342 - 30,404,003 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in LFNG
133 total Variants

Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system reproductive system respiratory system adipose tissue
High
Medium 3 12 6 6 12 10 6
Low 2 5 10 6 6 6 8
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSCAFT00000025998   ⟹   ENSCAFP00000024136
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl614,632,691 - 14,635,485 (-)Ensembl
RefSeq Acc Id: XM_038478364   ⟹   XP_038334292
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UMICH_Zoey_3.1614,561,780 - 14,570,581 (-)NCBI
RefSeq Acc Id: XM_038539620   ⟹   XP_038395548
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UU_Cfam_GSD_1.0614,776,050 - 14,784,860 (-)NCBI
RefSeq Acc Id: XM_038603703   ⟹   XP_038459631
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UNSW_CanFamBas_1.0614,490,186 - 14,498,963 (-)NCBI
RefSeq Acc Id: XM_038668420   ⟹   XP_038524348
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0614,757,824 - 14,766,634 (-)NCBI
RefSeq Acc Id: XM_547009   ⟹   XP_547009
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1614,631,638 - 14,640,147 (-)NCBI
Dog10K_Boxer_Tasha616,094,444 - 16,103,246 (-)NCBI
Sequence:
Reference Protein Sequences
RefSeq Acc Id: XP_547009   ⟸   XM_547009
- UniProtKB: A0A8C0R4Y6 (UniProtKB/TrEMBL),   A0A8C0TAK3 (UniProtKB/TrEMBL),   A0A8I3N2B1 (UniProtKB/TrEMBL),   A0A8C0REE9 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSCAFP00000024136   ⟸   ENSCAFT00000025998
RefSeq Acc Id: XP_038334292   ⟸   XM_038478364
RefSeq Acc Id: XP_038459631   ⟸   XM_038603703
RefSeq Acc Id: XP_038524348   ⟸   XM_038668420
- UniProtKB: A0A8C0R4Y6 (UniProtKB/TrEMBL),   A0A8C0TAK3 (UniProtKB/TrEMBL),   A0A8I3N2B1 (UniProtKB/TrEMBL),   A0A8C0REE9 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038395548   ⟸   XM_038539620
- UniProtKB: A0A8C0R4Y6 (UniProtKB/TrEMBL),   A0A8C0REE9 (UniProtKB/TrEMBL),   A0A8C0TAK3 (UniProtKB/TrEMBL),   A0A8I3N2B1 (UniProtKB/TrEMBL)
Protein Domains
Fringe-like glycosyltransferase

Promoters
RGD ID:13683580
Promoter ID:EPDNEW_C1648
Type:single initiation site
Name:LFNG_1
Description:LFNG O-fucosylpeptide 3-beta-N-acetylglucosaminyltransferase
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_C1649  
Experiment Methods:Single-end sequencing.
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1614,634,963 - 14,635,023EPDNEW
RGD ID:13683583
Promoter ID:EPDNEW_C1649
Type:single initiation site
Name:LFNG_2
Description:LFNG O-fucosylpeptide 3-beta-N-acetylglucosaminyltransferase
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_C1648  
Experiment Methods:Single-end sequencing.
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1614,640,118 - 14,640,178EPDNEW

Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCAFG00000016399 Ensembl, UniProtKB/TrEMBL
  ENSCAFG00030006857 UniProtKB/TrEMBL
  ENSCAFG00040020618 UniProtKB/TrEMBL
  ENSCAFG00845006270 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCAFT00000025998.5 UniProtKB/TrEMBL
  ENSCAFT00030012865.1 UniProtKB/TrEMBL
  ENSCAFT00040038223.1 UniProtKB/TrEMBL
  ENSCAFT00845011155 ENTREZGENE
  ENSCAFT00845011155.1 UniProtKB/TrEMBL
Gene3D-CATH 3.90.550.50 UniProtKB/TrEMBL
InterPro Fringe UniProtKB/TrEMBL
  Fringe-like UniProtKB/TrEMBL
NCBI Gene LFNG ENTREZGENE
PANTHER BETA-1,3-N-ACETYLGLUCOSAMINYLTRANSFERASE LUNATIC FRINGE UniProtKB/TrEMBL
  FRINGE-RELATED UniProtKB/TrEMBL
Pfam Fringe UniProtKB/TrEMBL
PIRSF B-acetylgalactosaminyltfrase UniProtKB/TrEMBL
PROSITE PROKAR_LIPOPROTEIN UniProtKB/TrEMBL
UniProt A0A8C0R4Y6 ENTREZGENE
  A0A8C0REE9 ENTREZGENE, UniProtKB/TrEMBL
  A0A8C0TAK3 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I3N2B1 ENTREZGENE, UniProtKB/TrEMBL
VGNC ID VGNC:42645 ENTREZGENE