HDGFL3 (HDGF like 3) - Rat Genome Database

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Gene: HDGFL3 (HDGF like 3) Chlorocebus sabaeus
Analyze
Symbol: HDGFL3
Name: HDGF like 3
RGD ID: 18541232
Description: ENCODES a protein that exhibits microtubule binding (ortholog); tubulin binding (ortholog); INVOLVED IN microtubule polymerization (ortholog); negative regulation of microtubule depolymerization (ortholog); neuron projection development (ortholog); FOUND IN cytoplasm (ortholog); cytosol (ortholog); nucleoplasm (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: HDGFRP3; hepatoma-derived growth factor, related protein 3; hepatoma-derived growth factor-related protein 3
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: ChlSab1.1 - Green Monkey 1.1 Assembly
Position:
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1292,430,392 - 2,531,422 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl292,430,388 - 2,507,036 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605944,561,466 - 44,666,052 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
cytoplasm  (ISO)
cytosol  (ISO)
nucleoplasm  (ISO)
nucleus  (ISO)

Molecular Function

References
Additional References at PubMed
PMID:30032202  


Genomics

Comparative Map Data
HDGFL3
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1292,430,392 - 2,531,422 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl292,430,388 - 2,507,036 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605944,561,466 - 44,666,052 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
HDGFL3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381583,112,738 - 83,207,823 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1583,112,738 - 83,207,823 (-)EnsemblGRCh38hg38GRCh38
GRCh371583,796,505 - 83,876,575 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361581,597,820 - 81,667,325 (-)NCBINCBI36Build 36hg18NCBI36
Celera1560,710,975 - 60,780,401 (+)NCBICelera
Cytogenetic Map15q25.2NCBI
HuRef1560,070,285 - 60,140,380 (-)NCBIHuRef
CHM1_11583,548,335 - 83,618,388 (-)NCBICHM1_1
T2T-CHM13v2.01580,976,764 - 81,071,906 (-)NCBIT2T-CHM13v2.0
Hdgfl3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39781,531,004 - 81,587,227 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl781,530,999 - 81,584,221 (-)EnsemblGRCm39 Ensembl
GRCm38781,881,256 - 81,934,459 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl781,881,251 - 81,934,473 (-)EnsemblGRCm38mm10GRCm38
MGSCv37789,026,142 - 89,079,345 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36781,754,769 - 81,807,972 (-)NCBIMGSCv36mm8
MGSCv36771,393,873 - 71,447,093 (-)NCBIMGSCv36mm8
Celera779,293,414 - 79,347,974 (-)NCBICelera
Cytogenetic Map7D3NCBI
cM Map745.71NCBI
Hdgfl3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81145,233,996 - 145,287,115 (-)NCBIGRCr8
mRatBN7.21135,822,600 - 135,876,719 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1135,827,549 - 135,876,719 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1143,751,379 - 143,800,770 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01150,920,606 - 150,969,992 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01143,827,876 - 143,877,258 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01143,702,864 - 143,752,060 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1143,702,853 - 143,751,789 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01144,646,634 - 144,694,902 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41138,098,818 - 138,130,696 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11138,177,224 - 138,198,102 (-)NCBI
Celera1127,878,558 - 127,910,474 (-)NCBICelera
Cytogenetic Map1q31NCBI
Hdgfl3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541613,538,387 - 13,561,095 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495541613,501,132 - 13,561,095 (+)NCBIChiLan1.0ChiLan1.0
HDGFL3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21672,685,035 - 72,779,122 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11576,845,764 - 76,940,609 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01562,396,723 - 62,489,251 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11581,025,446 - 81,080,734 (-)NCBIpanpan1.1PanPan1.1panPan2
HDGFL3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1354,903,955 - 54,978,853 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl354,904,742 - 54,978,838 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha357,539,234 - 57,620,262 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0355,318,332 - 55,399,369 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl355,318,335 - 55,399,313 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1354,837,622 - 54,918,607 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0355,047,541 - 55,128,285 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0355,390,316 - 55,471,102 (-)NCBIUU_Cfam_GSD_1.0
LOC101955940
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024408640128,538,205 - 128,568,261 (+)NCBIHiC_Itri_2
SpeTri2.0NW_00493648317,769,831 - 17,830,541 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
HDGFL3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl751,731,077 - 51,822,351 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1751,730,898 - 51,818,666 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Hdgfl3
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462476818,896,125 - 18,957,778 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462476818,892,395 - 18,957,849 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2


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

endocrine system hemolymphoid system nervous system
High
Medium 35 60
Low 1 16
Below cutoff 4

Sequence


Reference Sequences
RefSeq Acc Id: ENSCSAT00000015395   ⟹   ENSCSAP00000013336
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.1 Ensembl292,430,388 - 2,507,036 (+)Ensembl
RefSeq Acc Id: XM_007990225   ⟹   XP_007988416
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.1292,430,742 - 2,531,422 (+)NCBI
Vero_WHO_p1.0NW_02366605944,561,466 - 44,665,953 (-)NCBI
Sequence:
RefSeq Acc Id: XM_007990226   ⟹   XP_007988417
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.1292,430,392 - 2,508,126 (+)NCBI
Vero_WHO_p1.0NW_02366605944,580,724 - 44,666,052 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_007988416 (Get FASTA)   NCBI Sequence Viewer  
  XP_007988417 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSCSAP00000013336
  ENSCSAP00000013336.1
Reference Protein Sequences
RefSeq Acc Id: XP_007988417   ⟸   XM_007990226
- Peptide Label: isoform X2
- UniProtKB: A0A0D9RXJ7 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_007988416   ⟸   XM_007990225
- Peptide Label: isoform X1
RefSeq Acc Id: ENSCSAP00000013336   ⟸   ENSCSAT00000015395


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCSAG00000017301 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCSAT00000015395.1 UniProtKB/TrEMBL
Gene3D-CATH 2.30.30.140 UniProtKB/TrEMBL
InterPro PWWP_dom UniProtKB/TrEMBL
NCBI Gene HDGFL3 ENTREZGENE
PANTHER HEPATOMA-DERIVED GROWTH FACTOR-RELATED UniProtKB/TrEMBL
  HEPATOMA-DERIVED GROWTH FACTOR-RELATED PROTEIN 3 UniProtKB/TrEMBL
Pfam PWWP UniProtKB/TrEMBL
PROSITE PWWP UniProtKB/TrEMBL
SMART PWWP UniProtKB/TrEMBL
Superfamily-SCOP Tudor/PWWP/MBT UniProtKB/TrEMBL
UniProt A0A0D9RXJ7 ENTREZGENE, UniProtKB/TrEMBL