Hdgfl1 (HDGF like 1) - Rat Genome Database

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Gene: Hdgfl1 (HDGF like 1) Rattus norvegicus
Analyze
Symbol: Hdgfl1
Name: HDGF like 1
RGD ID: 621012
Description: Orthologous to human HDGFL1 (HDGF like 1); INTERACTS WITH 2,5-hexanedione; ammonium chloride; bisphenol A.
Type: protein-coding (Ensembl: pseudogene)
RefSeq Status: PROVISIONAL
Previously known as: Hdgfrp1; hepatoma derived growth factor-like 1; hepatoma-derived growth factor, related protein 1; hepatoma-derived growth factor-like protein 1; Pwwp1
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Pig
Green Monkey
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81738,636,053 - 38,638,049 (+)NCBIGRCr8
mRatBN7.21738,207,906 - 38,209,902 (+)NCBImRatBN7.2mRatBN7.2
UTH_Rnor_SHR_Utx1738,282,163 - 38,284,184 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01739,886,167 - 39,888,188 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01738,169,843 - 38,171,827 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01740,170,522 - 40,172,518 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1740,170,541 - 40,172,426 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01742,058,386 - 42,060,382 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41745,146,483 - 45,148,479 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11745,149,342 - 45,151,228 (+)NCBI
Celera1737,888,905 - 37,890,901 (+)NCBICelera
Cytogenetic Map17p11NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
2. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
3. Information Derived from GenBank Report RGD, Sept. 2003
Additional References at PubMed
PMID:12477932  


Genomics

Comparative Map Data
Hdgfl1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81738,636,053 - 38,638,049 (+)NCBIGRCr8
mRatBN7.21738,207,906 - 38,209,902 (+)NCBImRatBN7.2mRatBN7.2
UTH_Rnor_SHR_Utx1738,282,163 - 38,284,184 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01739,886,167 - 39,888,188 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01738,169,843 - 38,171,827 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01740,170,522 - 40,172,518 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1740,170,541 - 40,172,426 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01742,058,386 - 42,060,382 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41745,146,483 - 45,148,479 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11745,149,342 - 45,151,228 (+)NCBI
Celera1737,888,905 - 37,890,901 (+)NCBICelera
Cytogenetic Map17p11NCBI
HDGFL1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38622,569,566 - 22,571,666 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl622,569,566 - 22,571,666 (+)EnsemblGRCh38hg38GRCh38
GRCh37622,569,795 - 22,571,895 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36622,677,657 - 22,678,729 (+)NCBINCBI36Build 36hg18NCBI36
Build 34622,677,773 - 22,679,871NCBI
Celera623,803,036 - 23,804,108 (+)NCBICelera
Cytogenetic Map6p22.3NCBI
HuRef622,512,779 - 22,513,851 (+)NCBIHuRef
CHM1_1622,571,673 - 22,572,745 (+)NCBICHM1_1
T2T-CHM13v2.0622,442,013 - 22,444,113 (+)NCBIT2T-CHM13v2.0
Hdgfl1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391326,952,155 - 26,954,148 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1326,952,156 - 26,954,148 (-)EnsemblGRCm39 Ensembl
GRCm381326,768,172 - 26,770,165 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1326,768,173 - 26,770,165 (-)EnsemblGRCm38mm10GRCm38
MGSCv371326,860,041 - 26,862,034 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361326,776,255 - 26,777,584 (-)NCBIMGSCv36mm8
Celera1326,996,877 - 26,998,870 (-)NCBICelera
Cytogenetic Map13A3.1NCBI
Hdgfl1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_0049554834,215,060 - 4,217,150 (-)NCBIChiLan1.0ChiLan1.0
HDGFL1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2536,982,735 - 37,250,583 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1632,982,776 - 33,250,721 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0622,171,445 - 22,437,860 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1622,734,678 - 22,736,887 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl622,734,809 - 22,735,558 (+)Ensemblpanpan1.1panPan2
HDGFL1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13520,914,875 - 20,915,677 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3520,871,267 - 20,872,051 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.03521,024,208 - 21,026,228 (+)NCBIROS_Cfam_1.0
UU_Cfam_GSD_1.03522,311,979 - 22,313,997 (+)NCBIUU_Cfam_GSD_1.0
HDGFL1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1717,690,873 - 17,697,764 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2718,656,664 - 18,658,638 (+)NCBISscrofa10.2Sscrofa10.2susScr3
HDGFL1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11749,654,556 - 49,828,227 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1749,655,854 - 49,656,624 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604422,509,310 - 22,512,082 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0

Variants

.
Variants in Hdgfl1
6 total Variants

QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1354658Spl8Serum phospholipid level QTL 83.8blood VLDL phospholipid amount (VT:0010507)blood very low density lipoprotein phospholipid level (CMO:0001571)17160781592Rat
1354581Bp247Blood pressure QTL 2474.5arterial blood pressure trait (VT:2000000)pulse pressure (CMO:0000292)17169599340Rat
1354662Rf49Renal function QTL 492.9blood creatinine amount (VT:0005328)plasma creatinine level (CMO:0000537)17169599340Rat
1354596Bw32Body weight QTL 324.5body mass (VT:0001259)body weight (CMO:0000012)17429913060781592Rat
1354630Cm34Cardiac mass QTL 348.7heart left ventricle mass (VT:0007031)heart left ventricle wet weight (CMO:0000071)17429913069599340Rat
1354638Insul1Insulin level QTL 14.8blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)17429913069599340Rat
1354651Lmblg2Limb length QTL 26tibia length (VT:0004357)tibia length (CMO:0000450)17429913069599340Rat
2303627Vencon8Ventilatory control QTL 80.001respiration trait (VT:0001943)tidal volume (CMO:0000222)17452803849528038Rat
10054088Scort28Serum corticosterone level QTL 282.040.0102blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)17452803849528038Rat
2303561Bw91Body weight QTL 912body mass (VT:0001259)body weight (CMO:0000012)17886846253868462Rat
2300002Iddm36Insulin dependent diabetes mellitus QTL 361.98blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)17999128640540197Rat
1331765Hrtrt15Heart rate QTL 154.094heart pumping trait (VT:2000009)heart rate (CMO:0000002)171533061355836425Rat
1354640Scl32Serum cholesterol level QTL 325.4blood HDL cholesterol amount (VT:0000184)blood high density lipoprotein cholesterol level (CMO:0000052)171578159260781592Rat
1354659Scl68Serum cholesterol level QTL 683.9blood VLDL cholesterol amount (VT:0005144)blood very low density lipoprotein cholesterol level (CMO:0000648)171578159260781592Rat
7394837Memor18Memory QTL 18exploratory behavior trait (VT:0010471)measurement of voluntary locomotion into, out of or within a discrete space in an experimental apparatus (CMO:0000957)171864018263640182Rat
1354628Stl13Serum triglyceride level QTL 133.8blood triglyceride amount (VT:0002644)blood triglyceride level (CMO:0000118)172129303960781592Rat
70157Niddm32Non-insulin dependent diabetes mellitus QTL 324.34blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)172245492450909196Rat
61394Bp8Blood pressure QTL 82.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)172308056759555013Rat
7488966Bp370Blood pressure QTL 3700.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)172365318457246843Rat
12903978Cm118Cardiac mass QTL 1180.001heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)172365318468653184Rat
12903979Cm119Cardiac mass QTL 1190.001heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)172365318468653184Rat
12903980Cm120Cardiac mass QTL 1200.002heart right ventricle mass (VT:0007033)heart right ventricle weight to body weight ratio (CMO:0000914)172365318468653184Rat
12903981Am17Aortic mass QTL 170.001aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)172365318468653184Rat
1559055Bp278Blood pressure QTL 2780.04arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)172365318468653184Rat
12903982Kidm70Kidney mass QTL 700.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)172365318470974005Rat
1354619Bp242Blood pressure QTL 2426.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)172459934069599340Rat
1581512Cm55Cardiac mass QTL 552.80.05heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)172702794956836890Rat
4889955Bss93Bone structure and strength QTL 934.4tibia size trait (VT:0100001)tibia cortical bone volume to tibia total bone volume ratio (CMO:0001727)172702794960463643Rat
2302377Scl61Serum cholesterol level QTL 614.36blood HDL cholesterol amount (VT:0000184)serum high density lipoprotein cholesterol level (CMO:0000361)172738994653481766Rat
8552928Pigfal9Plasma insulin-like growth factor 1 level QTL 99blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)172840914773409147Rat
9590107Sffal7Serum free fatty acids level QTL 74.810.001blood free fatty acid amount (VT:0001553)plasma free fatty acids level (CMO:0000546)172840914773409147Rat
10450503Bp386Blood pressure QTL 3860.28arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)173136839162109574Rat
2324621Coatc5Coat color QTL 5coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)173136839173951021Rat
2313854Bp343Blood pressure QTL 3433.9life span trait (VT:0005372)age at time of death (CMO:0001193)173199078450909196Rat
724549Niddm56Non-insulin dependent diabetes mellitus QTL 560.03blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)173199078476990784Rat
1354663Bvd5Brain ventricular dilatation QTL 53.510.001brain ventricle morphology trait (VT:0000822)hydrocephalus severity score (CMO:0001881)173199078481292925Rat
1300148Bp192Blood pressure QTL 1923.47arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)173455084373951021Rat
724528Uae4Urinary albumin excretion QTL 44.90.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)173583708569599340Rat
2301412Kidm40Kidney mass QTL 400.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)173747984782479847Rat


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 endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system reproductive system respiratory system appendage
High
Medium 7
Low 1 19
Below cutoff 1 3 1 1 1 2 2 3 10 1 2

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000085069
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1740,170,541 - 40,172,426 (+)Ensembl
RefSeq Acc Id: NM_133549   ⟹   NP_598233
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81738,636,053 - 38,638,049 (+)NCBI
mRatBN7.21738,207,906 - 38,209,902 (+)NCBI
Rnor_6.01740,170,522 - 40,172,518 (+)NCBI
Rnor_5.01742,058,386 - 42,060,382 (+)NCBI
RGSC_v3.41745,146,483 - 45,148,479 (+)RGD
Celera1737,888,905 - 37,890,901 (+)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_598233 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAH85707 (Get FASTA)   NCBI Sequence Viewer  
  AAL29938 (Get FASTA)   NCBI Sequence Viewer  
  AAP97706 (Get FASTA)   NCBI Sequence Viewer  
  EDL86479 (Get FASTA)   NCBI Sequence Viewer  
Reference Protein Sequences
RefSeq Acc Id: NP_598233   ⟸   NM_133549
- UniProtKB: Q5RKK8 (UniProtKB/TrEMBL),   Q7TNX5 (UniProtKB/TrEMBL)
- Sequence:
Protein Domains
PWWP

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:621012 AgrOrtholog
BioCyc Gene G2FUF-9442 BioCyc
Ensembl Genes ENSRNOG00000059482 Ensembl
Gene3D-CATH 2.30.30.140 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7132556 IMAGE-MGC_LOAD
InterPro PWWP UniProtKB/TrEMBL
KEGG Report rno:171074 UniProtKB/TrEMBL
MGC_CLONE MGC:93218 IMAGE-MGC_LOAD
NCBI Gene 171074 ENTREZGENE
PANTHER HEPATOMA-DERIVED GROWTH FACTOR-LIKE PROTEIN 1 UniProtKB/TrEMBL
  HEPATOMA-DERIVED GROWTH FACTOR-RELATED UniProtKB/TrEMBL
Pfam PWWP UniProtKB/TrEMBL
PhenoGen Hdgfl1 PhenoGen
PROSITE PWWP UniProtKB/TrEMBL
RatGTEx ENSRNOG00000059482 RatGTEx
SMART PWWP UniProtKB/TrEMBL
Superfamily-SCOP Tudor/PWWP/MBT UniProtKB/TrEMBL
UniProt Q5RKK8 ENTREZGENE, UniProtKB/TrEMBL
  Q7TNX5 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2018-04-17 Hdgfl1  HDGF like 1  Hdgfl1  hepatoma derived growth factor-like 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2018-03-16 Hdgfl1  hepatoma derived growth factor-like 1  Hdgfl1  HDGF like 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2017-03-10 Hdgfl1  HDGF like 1  Hdgfl1  hepatoma derived growth factor-like 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-02-22 Hdgfl1  hepatoma derived growth factor-like 1  Pwwp1  hepatoma-derived growth factor, related protein 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2004-09-10 Pwwp1  hepatoma-derived growth factor, related protein 1  Hdgfrp1    Symbol and Name updated 1299863 APPROVED
2002-08-07 Hdgfrp1  hepatoma-derived growth factor, related protein 1      Symbol and Name status set to provisional 70820 PROVISIONAL