Hmcn1 (hemicentin 1) - Rat Genome Database

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Gene: Hmcn1 (hemicentin 1) Rattus norvegicus
Analyze
Symbol: Hmcn1
Name: hemicentin 1
RGD ID: 1564772
Description: Predicted to enable axon guidance receptor activity. Predicted to be involved in several processes, including actin cytoskeleton organization; basement membrane organization; and homophilic cell adhesion via plasma membrane adhesion molecules. Predicted to act upstream of or within response to bacterium. Predicted to be located in several cellular components, including basement membrane; cell cortex; and muscle tendon junction. Predicted to be active in axon; neuronal cell body; and plasma membrane. Human ortholog(s) of this gene implicated in age related macular degeneration 1. Orthologous to human HMCN1 (hemicentin 1); INTERACTS WITH (+)-schisandrin B; 1,3-dinitrobenzene; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: hemicentin-1; LOC289094; RGD1564772; similar to OTTHUMP00000065631
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81365,165,532 - 65,634,681 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1365,165,532 - 65,634,519 (-)EnsemblGRCr8
mRatBN7.21362,615,461 - 63,084,524 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1362,615,461 - 63,084,524 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1365,251,755 - 65,716,143 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01366,522,976 - 66,980,354 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01363,789,725 - 64,243,174 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01367,799,791 - 68,360,664 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1367,799,791 - 68,360,664 (-)Ensemblrn6Rnor6.0
Rnor_5.01372,762,698 - 72,782,812 (-)NCBIRnor_5.0Rnor_5.0rn5
Rnor_5.01372,887,371 - 73,322,089 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41365,296,682 - 65,779,372 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1362,569,267 - 63,028,084 (-)NCBICelera
Cytogenetic Map13q21NCBI
JBrowse:




Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-schisandrin B  (EXP)
1,2-dichloroethane  (ISO)
1,2-dimethylhydrazine  (ISO)
1,3-dinitrobenzene  (EXP)
17beta-estradiol  (ISO)
2,3',4,4',5-Pentachlorobiphenyl  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
4,4'-sulfonyldiphenol  (ISO)
acetamide  (EXP)
aflatoxin B1  (ISO)
all-trans-retinoic acid  (ISO)
alpha-Zearalanol  (EXP)
aristolochic acid A  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
benzo[a]pyrene  (ISO)
benzo[b]fluoranthene  (ISO)
benzo[e]pyrene  (ISO)
Benzo[k]fluoranthene  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
cadmium dichloride  (EXP)
calcitriol  (ISO)
carbon nanotube  (ISO)
CGP 52608  (ISO)
chloroprene  (ISO)
choline  (ISO)
chrysene  (ISO)
cisplatin  (ISO)
daidzein  (ISO)
daidzein 7-O-beta-D-glucoside  (ISO)
dexamethasone  (ISO)
dioxygen  (ISO)
diquat  (ISO)
dorsomorphin  (ISO)
doxorubicin  (ISO)
ethanol  (ISO)
folic acid  (ISO)
genistein  (ISO)
genistein 7-O-beta-D-glucoside  (ISO)
glycitein  (ISO)
glycitin  (ISO)
L-methionine  (ISO)
Lasiocarpine  (ISO)
methapyrilene  (ISO)
methotrexate  (ISO)
methoxychlor  (EXP)
methylmercury chloride  (ISO)
mono(2-ethylhexyl) phthalate  (ISO)
nickel atom  (ISO)
O-methyleugenol  (ISO)
ochratoxin A  (ISO)
ozone  (ISO)
paclitaxel  (ISO)
paracetamol  (EXP,ISO)
paraquat  (EXP)
perfluorooctanoic acid  (EXP)
progesterone  (ISO)
raloxifene  (ISO)
SB 431542  (ISO)
sodium arsenite  (ISO)
tetrachloromethane  (EXP)
tetraphene  (ISO)
topotecan  (ISO)
trichostatin A  (ISO)
triclosan  (ISO)
trimellitic anhydride  (ISO)
triptonide  (ISO)
valproic acid  (ISO)
vinclozolin  (EXP)
vincristine  (ISO)
xylitol  (ISO)
zoledronic acid  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
3. GOA pipeline RGD automated data pipeline
4. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
5. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:17015624   PMID:23012479   PMID:23376485   PMID:23533145   PMID:29488390   PMID:30361391  


Genomics

Comparative Map Data
Hmcn1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81365,165,532 - 65,634,681 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1365,165,532 - 65,634,519 (-)EnsemblGRCr8
mRatBN7.21362,615,461 - 63,084,524 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1362,615,461 - 63,084,524 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1365,251,755 - 65,716,143 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01366,522,976 - 66,980,354 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01363,789,725 - 64,243,174 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01367,799,791 - 68,360,664 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1367,799,791 - 68,360,664 (-)Ensemblrn6Rnor6.0
Rnor_5.01372,762,698 - 72,782,812 (-)NCBIRnor_5.0Rnor_5.0rn5
Rnor_5.01372,887,371 - 73,322,089 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41365,296,682 - 65,779,372 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1362,569,267 - 63,028,084 (-)NCBICelera
Cytogenetic Map13q21NCBI
HMCN1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381185,734,391 - 186,190,949 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1185,734,391 - 186,190,949 (+)Ensemblhg38GRCh38
GRCh371185,703,523 - 186,160,081 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361183,970,306 - 184,426,708 (+)NCBIBuild 36Build 36hg18NCBI36
Celera1158,814,385 - 159,270,786 (+)NCBICelera
Cytogenetic Map1q25.3-q31.1NCBI
HuRef1156,938,491 - 157,394,637 (+)NCBIHuRef
CHM1_11187,122,845 - 187,579,213 (+)NCBICHM1_1
T2T-CHM13v2.01185,089,079 - 185,545,614 (+)NCBIT2T-CHM13v2.0
Hmcn1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391150,438,251 - 150,869,568 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1150,438,275 - 150,869,186 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm381150,562,500 - 150,993,652 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1150,562,524 - 150,993,435 (-)Ensemblmm10GRCm38
MGSCv371150,488,170 - 150,802,827 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv361152,635,966 - 152,755,653 (-)NCBIMGSCv36mm8
Celera1153,006,498 - 153,437,575 (-)NCBICelera
Cytogenetic Map1G1NCBI
cM Map163.84NCBI
Hmcn1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540624,229,973 - 24,622,314 (+)Ensembl
ChiLan1.0NW_00495540624,229,666 - 24,623,341 (+)NCBIChiLan1.0ChiLan1.0
HMCN1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2163,529,719 - 63,992,614 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1163,211,135 - 63,673,640 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01161,254,948 - 161,717,526 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11165,407,909 - 165,870,219 (+)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1165,522,384 - 165,869,148 (+)EnsemblpanPan2panpan1.1
HMCN1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1718,798,802 - 19,254,847 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl718,798,796 - 19,253,786 (+)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha718,318,234 - 18,776,558 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.0718,532,233 - 18,990,765 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl718,532,242 - 18,990,049 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1718,440,588 - 18,897,706 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0718,548,519 - 19,007,053 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0718,679,642 - 19,137,567 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Hmcn1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934486,365,905 - 86,743,041 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049364814,213,631 - 4,589,464 (-)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049364814,212,713 - 4,494,469 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
HMCN1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl9126,850,313 - 127,342,685 (+)EnsemblsusScr11Sscrofa11.1
Sscrofa11.19126,850,208 - 127,342,696 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.29139,722,309 - 139,770,641 (+)NCBISscrofa10.2Sscrofa10.2susScr3
HMCN1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12543,230,265 - 43,677,315 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2543,231,328 - 43,554,097 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366605544,419,653 - 44,876,647 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Hmcn1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248147,424,937 - 7,730,917 (-)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_0046248147,423,844 - 7,844,890 (-)NCBIHetGla 1.0HetGla 1.0hetGla2
Hmcn1
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v11030,006,467 - 30,448,658 (-)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Hmcn1
4219 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:119
Count of miRNA genes:69
Interacting mature miRNAs:71
Transcripts:ENSRNOT00000030971
Prediction methods:Microtar, Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


QTLs in Region (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1298066Bp159Blood pressure QTL 1590.004arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)134863963493639634Rat
10755495Bp387Blood pressure QTL 3873.78arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)133721624190057603Rat
1354655Bp241Blood pressure QTL 2413.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1338975045103588154Rat
70220Bp55Blood pressure QTL 555.75arterial blood pressure trait (VT:2000000)blood pressure measurement (CMO:0000003)133992469384924693Rat
71119Thym2Thymus enlargement QTL 23.8thymus mass (VT:0004954)thymus weight to body weight ratio (CMO:0000612)134874981487285480Rat
61391Bp5Blood pressure QTL 55.6arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)132485392569853925Rat
4889861Pur29Proteinuria QTL 2913.80.005urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)133996821183286298Rat
619615Bp80Blood pressure QTL 800.0354arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)13742179187286911Rat
61340Bp25Blood pressure QTL 254.20.004arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)133708798382087983Rat
1581573Uae36Urinary albumin excretion QTL 36urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)13600200888706694Rat
1549897Stresp12Stress response QTL 123.35stress-related behavior trait (VT:0010451)number of approaches toward negative stimulus before onset of defensive burying response (CMO:0001960)134098358585983585Rat
724564Uae11Urinary albumin excretion QTL 115.7urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)134735425894285672Rat
7207885Glom27Glomerulus QTL 273.9kidney glomerulus integrity trait (VT:0010546)kidney crescentic glomeruli count to kidney normal glomeruli count ratio (CMO:0002139)1321120177109350286Rat
738027Lnnr6Liver neoplastic nodule remodeling QTL 63.3liver integrity trait (VT:0010547)liver remodeling tumorous lesion number (CMO:0001461)1365613454109350286Rat
738026Lnnr5Liver neoplastic nodule remodeling QTL 53.29liver integrity trait (VT:0010547)liver remodeling tumorous lesion number (CMO:0001461)136242459288113509Rat
1558644Cm45Cardiac mass QTL 453.60.002heart mass (VT:0007028)heart wet weight (CMO:0000069)132624480871244808Rat
70181BpQTLcluster11Blood pressure QTL cluster 116.922arterial blood pressure trait (VT:2000000)absolute change in mean arterial blood pressure (CMO:0000533)133379409678794096Rat
61349Bp31Blood pressure QTL 315.75arterial blood pressure trait (VT:2000000)blood pressure measurement (CMO:0000003)133992469384924693Rat
1576318Schws5Schwannoma susceptibility QTL 50.0351nervous system integrity trait (VT:0010566)post-insult time to trigeminal nerve neurilemmoma formation (CMO:0002019)1364497900109350286Rat
2303563Bw89Body weight QTL 896body mass (VT:0001259)body weight (CMO:0000012)133483494779834947Rat
1354621Rf47Renal function QTL 473.7kidney renin amount (VT:0010559)kidney renin level (CMO:0002166)1311081740103588154Rat
1581554Pur11Proteinuria QTL 11urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)13600200888706694Rat
12879477Bp401Blood pressure QTL 401arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)133981472684814726Rat
1331750Bp220Blood pressure QTL 2202.98arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)133996821184968211Rat
6893338Cm76Cardiac mass QTL 7600.99heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)132624480871244808Rat
12879475Bp400Blood pressure QTL 400arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1364375743109350286Rat
11530006Niddm72Non-insulin dependent diabetes mellitus QTL 720.001blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)133828629883286298Rat
1354666Bp244Blood pressure QTL 2444.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)131103588154Rat

Markers in Region
D13Got234  
Rat AssemblyChrPosition (strand)SourceJBrowse
GRCr81365,213,411 - 65,213,677 (+)Marker Load Pipeline
mRatBN7.21362,663,372 - 62,663,638 (+)MAPPERmRatBN7.2
Rnor_6.01367,948,041 - 67,948,306NCBIRnor6.0
Rnor_5.01372,909,200 - 72,909,465UniSTSRnor5.0
RGSC_v3.41365,346,001 - 65,346,266UniSTSRGSC3.4
Celera1362,617,160 - 62,617,425UniSTS
Cytogenetic Map13q21UniSTS


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
16 12 67 151 91 90 59 26 59 6 274 126 11 130 65 92 31 10 10

Sequence


Ensembl Acc Id: ENSRNOT00000030971   ⟹   ENSRNOP00000033710
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1365,165,532 - 65,634,519 (-)Ensembl
mRatBN7.2 Ensembl1362,616,476 - 63,084,524 (-)Ensembl
Rnor_6.0 Ensembl1367,799,791 - 68,360,664 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000076697   ⟹   ENSRNOP00000068149
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1367,799,791 - 67,926,222 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000076776   ⟹   ENSRNOP00000067981
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1365,165,532 - 65,574,691 (-)Ensembl
mRatBN7.2 Ensembl1362,641,251 - 62,977,282 (-)Ensembl
Rnor_6.0 Ensembl1367,926,219 - 68,253,251 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000093469
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1365,165,532 - 65,634,519 (-)Ensembl
mRatBN7.2 Ensembl1362,615,461 - 63,084,524 (-)Ensembl
Rnor_6.0 Ensembl1367,799,800 - 68,360,552 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000093666   ⟹   ENSRNOP00000076253
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1367,800,968 - 67,819,835 (-)Ensembl
RefSeq Acc Id: NM_001271292   ⟹   NP_001258221
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81365,165,532 - 65,634,519 (-)NCBI
mRatBN7.21362,615,461 - 63,084,524 (-)NCBI
Rnor_6.01367,799,791 - 68,360,664 (-)NCBI
Rnor_5.01372,762,698 - 72,782,812 (-)NCBI
Rnor_5.01372,887,371 - 73,322,089 (-)NCBI
Celera1362,569,267 - 63,028,084 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039090456   ⟹   XP_038946384
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81365,165,532 - 65,575,754 (-)NCBI
mRatBN7.21362,615,461 - 63,026,663 (-)NCBI
RefSeq Acc Id: XM_039090457   ⟹   XP_038946385
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81365,165,532 - 65,634,681 (-)NCBI
mRatBN7.21362,615,461 - 63,084,515 (-)NCBI
RefSeq Acc Id: XM_039090458   ⟹   XP_038946386
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81365,165,532 - 65,634,681 (-)NCBI
mRatBN7.21362,615,461 - 63,084,515 (-)NCBI
RefSeq Acc Id: XM_039090459   ⟹   XP_038946387
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81365,165,532 - 65,575,754 (-)NCBI
mRatBN7.21362,615,461 - 63,026,663 (-)NCBI
RefSeq Acc Id: XM_039090460   ⟹   XP_038946388
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81365,165,532 - 65,414,498 (-)NCBI
mRatBN7.21362,615,461 - 62,891,492 (-)NCBI
RefSeq Acc Id: XM_039090461   ⟹   XP_038946389
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81365,262,279 - 65,634,681 (-)NCBI
mRatBN7.21362,712,246 - 63,084,515 (-)NCBI
RefSeq Acc Id: NP_001258221   ⟸   NM_001271292
- Peptide Label: precursor
- UniProtKB: F1M4Q3 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000076253   ⟸   ENSRNOT00000093666
Ensembl Acc Id: ENSRNOP00000033710   ⟸   ENSRNOT00000030971
Ensembl Acc Id: ENSRNOP00000068149   ⟸   ENSRNOT00000076697
Ensembl Acc Id: ENSRNOP00000067981   ⟸   ENSRNOT00000076776
RefSeq Acc Id: XP_038946385   ⟸   XM_039090457
- Peptide Label: isoform X2
- UniProtKB: F1M4Q3 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038946386   ⟸   XM_039090458
- Peptide Label: isoform X3
- UniProtKB: F1M4Q3 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038946387   ⟸   XM_039090459
- Peptide Label: isoform X4
- UniProtKB: F1M4Q3 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038946384   ⟸   XM_039090456
- Peptide Label: isoform X1
- UniProtKB: F1M4Q3 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038946388   ⟸   XM_039090460
- Peptide Label: isoform X5
- UniProtKB: F1M4Q3 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038946389   ⟸   XM_039090461
- Peptide Label: isoform X6

Transcriptome

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

Promoters
RGD ID:13698883
Promoter ID:EPDNEW_R9406
Type:single initiation site
Name:Hmcn1_1
Description:hemicentin 1
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01368,360,660 - 68,360,720EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1564772 AgrOrtholog
BioCyc Gene G2FUF-17940 BioCyc
Ensembl Genes ENSRNOG00000028627 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000030971 ENTREZGENE
  ENSRNOT00000030971.9 UniProtKB/TrEMBL
  ENSRNOT00000076776 ENTREZGENE
  ENSRNOT00000076776.4 UniProtKB/TrEMBL
  ENSRNOT00000093469 ENTREZGENE
  ENSRNOT00000093469.3 UniProtKB/TrEMBL
Gene3D-CATH 2.20.100.10 UniProtKB/TrEMBL
  2.40.155.10 UniProtKB/TrEMBL
  2.60.40.10 UniProtKB/TrEMBL
  3.40.50.410 UniProtKB/TrEMBL
  Laminin UniProtKB/TrEMBL
InterPro cEGF UniProtKB/TrEMBL
  Cell_Adh-Cytoskel_Orgn UniProtKB/TrEMBL
  EGF-type_Asp/Asn_hydroxyl_site UniProtKB/TrEMBL
  EGF_3 UniProtKB/TrEMBL
  EGF_Ca-bd UniProtKB/TrEMBL
  EGF_Ca-bd_CS UniProtKB/TrEMBL
  G2_nidogen/fibulin_G2F UniProtKB/TrEMBL
  GBD_Hemicentin/VWA7 UniProtKB/TrEMBL
  Green_fluorescent_prot-like UniProtKB/TrEMBL
  Growth_fac_rcpt_N_dom UniProtKB/TrEMBL
  HMCN1-like_VWA UniProtKB/TrEMBL
  Ig-like UniProtKB/TrEMBL
  Ig-like_dom_sf UniProtKB/TrEMBL
  Ig-like_fold UniProtKB/TrEMBL
  Ig_I-set UniProtKB/TrEMBL
  Ig_sub UniProtKB/TrEMBL
  Ig_sub2 UniProtKB/TrEMBL
  Ig_V-set UniProtKB/TrEMBL
  NOTCH1_EGF-like UniProtKB/TrEMBL
  Thrombospondin_1_rpt UniProtKB/TrEMBL
  TSP1_rpt_sf UniProtKB/TrEMBL
  vWFA_dom_sf UniProtKB/TrEMBL
NCBI Gene 289094 ENTREZGENE
PANTHER CONTACTIN 5 UniProtKB/TrEMBL
  HEMICENTIN-2 UniProtKB/TrEMBL
  WRAPPER_REGA-1_KLINGON HOMOLOG UniProtKB/TrEMBL
Pfam cEGF UniProtKB/TrEMBL
  EGF_CA UniProtKB/TrEMBL
  G2F UniProtKB/TrEMBL
  GBD_Hemicentin UniProtKB/TrEMBL
  I-set UniProtKB/TrEMBL
  Ig_3 UniProtKB/TrEMBL
  TSP_1 UniProtKB/TrEMBL
  VWA_4 UniProtKB/TrEMBL
PhenoGen Hmcn1 PhenoGen
PRINTS VEGFRECEPTOR UniProtKB/TrEMBL
PROSITE ASX_HYDROXYL UniProtKB/TrEMBL
  EGF_2 UniProtKB/TrEMBL
  EGF_3 UniProtKB/TrEMBL
  EGF_CA UniProtKB/TrEMBL
  IG_LIKE UniProtKB/TrEMBL
  NIDOGEN_G2 UniProtKB/TrEMBL
  TSP1 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000028627 RatGTEx
SMART EGF UniProtKB/TrEMBL
  EGF_CA UniProtKB/TrEMBL
  G2F UniProtKB/TrEMBL
  IGc2 UniProtKB/TrEMBL
  IGv UniProtKB/TrEMBL
  SM00409 UniProtKB/TrEMBL
  TSP1 UniProtKB/TrEMBL
Superfamily-SCOP EGF/Laminin UniProtKB/TrEMBL
  GFP_like UniProtKB/TrEMBL
  SSF48726 UniProtKB/TrEMBL
  SSF53300 UniProtKB/TrEMBL
  SSF57184 UniProtKB/TrEMBL
  TSP1 UniProtKB/TrEMBL
UniProt A0A096MJ40_RAT UniProtKB/TrEMBL
  A0A8I6AL83_RAT UniProtKB/TrEMBL
  F1M4Q3 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-04-30 Hmcn1  hemicentin 1   Hmcn1_predicted  hemicentin 1 (predicted)  'predicted' is removed 2292626 APPROVED
2006-03-30 Hmcn1_predicted  hemicentin 1 (predicted)  RGD1564772_predicted  similar to OTTHUMP00000065631 (predicted)  Symbol and Name updated 1299863 APPROVED
2006-03-07 RGD1564772_predicted  similar to OTTHUMP00000065631 (predicted)  LOC289094  similar to OTTHUMP00000065631  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC289094  similar to OTTHUMP00000065631      Symbol and Name status set to provisional 70820 PROVISIONAL