Ncapd2 (non-SMC condensin I complex, subunit D2) - Rat Genome Database

Send us a Message



Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Gene: Ncapd2 (non-SMC condensin I complex, subunit D2) Rattus norvegicus
Analyze
Symbol: Ncapd2
Name: non-SMC condensin I complex, subunit D2
RGD ID: 1562596
Description: Predicted to enable histone binding activity. Predicted to be involved in chromosome condensation; positive regulation of chromosome condensation; and regulation of chromosome segregation. Predicted to be located in cytosol and nucleus. Predicted to be part of condensin complex. Predicted to be active in condensed chromosome, centromeric region. Predicted to colocalize with cytoplasm and nuclear chromosome. Human ortholog(s) of this gene implicated in primary autosomal recessive microcephaly. Orthologous to human NCAPD2 (non-SMC condensin I complex subunit D2); INTERACTS WITH 17beta-estradiol; 2,3,7,8-tetrachlorodibenzodioxine; 6-propyl-2-thiouracil.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: condensin complex subunit 1; LOC362438; RGD1562596; similar to mKIAA0159 protein
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr84159,655,051 - 159,677,938 (-)NCBIGRCr8
mRatBN7.24157,968,814 - 157,992,314 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl4157,968,815 - 157,992,020 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx4164,197,880 - 164,220,783 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.04159,980,795 - 160,003,698 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.04158,616,789 - 158,639,664 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.04157,682,855 - 157,705,903 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl4157,683,077 - 157,704,596 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.04224,700,039 - 224,722,952 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.44161,288,671 - 161,310,417 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera4146,705,847 - 146,728,900 (-)NCBICelera
Cytogenetic Map4q42NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
1,1-dichloroethene  (ISO)
1,2-dimethylhydrazine  (ISO)
17alpha-ethynylestradiol  (ISO)
17beta-estradiol  (EXP,ISO)
2,2',4,4',5,5'-hexachlorobiphenyl  (ISO)
2,2',5,5'-tetrachlorobiphenyl  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2-hydroxypropanoic acid  (ISO)
6-propyl-2-thiouracil  (EXP)
acrolein  (ISO)
acrylamide  (EXP,ISO)
adefovir pivoxil  (ISO)
all-trans-retinoic acid  (ISO)
alpha-pinene  (ISO)
amitrole  (EXP)
arsenite(3-)  (ISO)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
benzo[b]fluoranthene  (ISO)
bis(2-chloroethyl) sulfide  (ISO)
bisphenol A  (EXP,ISO)
cadmium atom  (ISO)
cadmium dichloride  (EXP,ISO)
caffeine  (ISO)
calcitriol  (ISO)
carbon nanotube  (ISO)
chloroacetaldehyde  (ISO)
cidofovir anhydrous  (ISO)
cisplatin  (ISO)
cobalt dichloride  (ISO)
copper atom  (ISO)
copper(0)  (ISO)
copper(II) sulfate  (ISO)
corticosterone  (EXP)
coumarin  (ISO)
coumestrol  (ISO)
CU-O LINKAGE  (ISO)
Cuprizon  (EXP)
cyclosporin A  (ISO)
diallyl trisulfide  (ISO)
dibenz[a,h]anthracene  (ISO)
dibutyl phthalate  (EXP,ISO)
dicrotophos  (ISO)
dioxygen  (ISO)
dorsomorphin  (ISO)
doxorubicin  (ISO)
enzyme inhibitor  (ISO)
folic acid  (ISO)
FR900359  (ISO)
genistein  (ISO)
hexadecanoic acid  (ISO)
ifosfamide  (ISO)
isobutanol  (ISO)
ivermectin  (ISO)
leflunomide  (ISO)
lipopolysaccharide  (ISO)
metformin  (EXP)
methapyrilene  (EXP)
methimazole  (EXP)
miconazole  (ISO)
N(4)-hydroxycytidine  (ISO)
naphthalene  (ISO)
nickel atom  (ISO)
oxaliplatin  (EXP)
ozone  (ISO)
palbociclib  (ISO)
paracetamol  (ISO)
PCB138  (ISO)
perfluorononanoic acid  (ISO)
perfluorooctanoic acid  (EXP,ISO)
phenobarbital  (ISO)
phenylmercury acetate  (ISO)
pirinixic acid  (ISO)
pregnenolone 16alpha-carbonitrile  (EXP,ISO)
propanal  (ISO)
rac-lactic acid  (ISO)
resveratrol  (ISO)
SB 431542  (ISO)
silicon dioxide  (ISO)
sodium arsenite  (ISO)
Soman  (EXP)
sulfadimethoxine  (EXP)
sunitinib  (ISO)
tert-butyl hydroperoxide  (ISO)
testosterone  (ISO)
tetrachloromethane  (ISO)
titanium dioxide  (ISO)
topotecan  (EXP)
trichostatin A  (ISO)
trimellitic anhydride  (ISO)
trovafloxacin  (ISO)
valproic acid  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

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. GOA pipeline RGD automated data pipeline
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:11136719   PMID:12082153   PMID:12138188   PMID:19946888   PMID:21795393   PMID:27737959  


Genomics

Comparative Map Data
Ncapd2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr84159,655,051 - 159,677,938 (-)NCBIGRCr8
mRatBN7.24157,968,814 - 157,992,314 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl4157,968,815 - 157,992,020 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx4164,197,880 - 164,220,783 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.04159,980,795 - 160,003,698 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.04158,616,789 - 158,639,664 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.04157,682,855 - 157,705,903 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl4157,683,077 - 157,704,596 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.04224,700,039 - 224,722,952 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.44161,288,671 - 161,310,417 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera4146,705,847 - 146,728,900 (-)NCBICelera
Cytogenetic Map4q42NCBI
NCAPD2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38126,494,102 - 6,531,955 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl126,493,356 - 6,531,955 (+)EnsemblGRCh38hg38GRCh38
GRCh37126,603,268 - 6,641,121 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36126,473,561 - 6,511,075 (+)NCBINCBI36Build 36hg18NCBI36
Celera128,220,214 - 8,257,993 (+)NCBICelera
Cytogenetic Map12p13.31NCBI
HuRef126,457,493 - 6,495,376 (+)NCBIHuRef
CHM1_1126,602,311 - 6,640,139 (+)NCBICHM1_1
T2T-CHM13v2.0126,504,453 - 6,542,311 (+)NCBIT2T-CHM13v2.0
Ncapd2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm396125,144,970 - 125,169,062 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl6125,144,970 - 125,168,664 (-)EnsemblGRCm39 Ensembl
GRCm386125,168,007 - 125,192,100 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl6125,168,007 - 125,191,701 (-)EnsemblGRCm38mm10GRCm38
MGSCv376125,118,025 - 125,141,604 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv366125,133,626 - 125,157,205 (-)NCBIMGSCv36mm8
Celera6126,837,862 - 126,861,472 (-)NCBICelera
Cytogenetic Map6F2- F3NCBI
cM Map659.32NCBI
Ncapd2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554134,137,216 - 4,160,550 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554134,136,492 - 4,160,550 (+)NCBIChiLan1.0ChiLan1.0
NCAPD2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21012,055,004 - 12,093,709 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11212,051,859 - 12,090,466 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0126,623,568 - 6,662,741 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1126,540,750 - 6,580,206 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl126,540,750 - 6,580,206 (+)Ensemblpanpan1.1panPan2
NCAPD2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12738,475,145 - 38,497,818 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2738,475,155 - 38,496,312 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha278,118,830 - 8,141,521 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02738,829,714 - 38,852,404 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2738,829,725 - 38,852,387 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12738,701,720 - 38,724,405 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02738,743,262 - 38,765,950 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0277,597,525 - 7,620,214 (+)NCBIUU_Cfam_GSD_1.0
Ncapd2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404945102,582,878 - 102,608,249 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049367091,250,495 - 1,275,769 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049367091,250,442 - 1,275,823 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
NCAPD2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl564,136,505 - 64,167,410 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1564,136,505 - 64,167,410 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2566,432,917 - 66,443,817 (+)NCBISscrofa10.2Sscrofa10.2susScr3
NCAPD2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1116,534,243 - 6,566,515 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl116,535,282 - 6,566,546 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660631,659,905 - 1,692,279 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Ncapd2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248603,230,577 - 3,256,407 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248603,229,091 - 3,256,631 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Ncapd2
44 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:44
Count of miRNA genes:33
Interacting mature miRNAs:41
Transcripts:ENSRNOT00000025889
Prediction methods: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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2316958Gluco58Glucose level QTL 5810blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)411320076180699135Rat
1576316Ept5Estrogen-induced pituitary tumorigenesis QTL 53.8pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)483428419177635233Rat
1358202Gluco11Glucose level QTL 112.40.02adipocyte glucose uptake trait (VT:0004185)absolute change in adipocyte glucose uptake (CMO:0000873)485379421167139601Rat
634335Anxrr16Anxiety related response QTL 167.22locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)493308457167139447Rat
737821Hcar9Hepatocarcinoma resistance QTL 93.7liver integrity trait (VT:0010547)volume of individual liver tumorous lesion (CMO:0001078)4109866907167139601Rat
1331759Hrtrt13Heart rate QTL 133.54628heart pumping trait (VT:2000009)heart rate (CMO:0000002)4110275411168266883Rat
12798519Anxrr54Anxiety related response QTL 542.540.05locomotor behavior trait (VT:0001392)distance moved per unit of time into, out of or within a discrete space in an experimental apparatus (CMO:0001493)4114627026159627026Rat
724535Cm18Cardiac mass QTL 182.6heart mass (VT:0007028)calculated heart weight (CMO:0000073)4118856416163856416Rat
634347Hcar8Hepatocarcinoma resistance QTL 85.8liver integrity trait (VT:0010547)liver tumorous lesion area to total liver area ratio (CMO:0001075)4123143783168143783Rat
631683Bp116Blood pressure QTL 1160.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)4124303370169303370Rat
6478778Anxrr51Anxiety related response QTL 510.25384locomotor behavior trait (VT:0001392)measurement of voluntary locomotion into, out of or within a discrete space in an experimental apparatus (CMO:0000957)4124778595169778595Rat
7411558Bw133Body weight QTL 13313.840.001body mass (VT:0001259)body weight gain (CMO:0000420)4125590636170590636Rat
61451Ciaa4CIA Autoantibody QTL 43.1blood autoantibody amount (VT:0003725)calculated serum anti-rat type 2 collagen autoantibody titer (CMO:0001281)4126395976167139601Rat
737978Pia23Pristane induced arthritis QTL 235.3joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4131730738167139601Rat
631511Pia7Pristane induced arthritis QTL 74.3joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4131730738167139601Rat
1549827Scl46Serum cholesterol level QTL 463.5blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)4132396220177396220Rat
724558Plsm2Polydactyly-luxate syndrome (PLS) morphotypes QTL 20.0003hindlimb integrity trait (VT:0010563)hind foot phalanges count (CMO:0001949)4132422778177422778Rat
61422Cia13Collagen induced arthritis QTL 134.5joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4132642577167139601Rat
2303623Vencon2Ventilatory control QTL 23.8respiration trait (VT:0001943)minute ventilation (CMO:0000132)4135204660180204660Rat
1578674Bmd12Bone mineral density QTL 123.8femur mineral mass (VT:0010011)compact volumetric bone mineral density (CMO:0001730)4135699135180699135Rat
2293659Bmd35Bone mineral density QTL 354.50.0001femur strength trait (VT:0010010)femoral neck ultimate force (CMO:0001703)4137755016181392681Rat
61362Oia2Oil induced arthritis QTL 20.001joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4138503169173369699Rat
1298524Oia8Oil induced arthritis QTL 8joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4138503169173369699Rat
1331738Bp209Blood pressure QTL 2092.979arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)4138503169179293946Rat
6478718Anxrr34Anxiety related response QTL 340.00896locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4144639524182687754Rat
6478748Anxrr42Anxiety related response QTL 420.28008locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4144639524182687754Rat
6478754Anxrr43Anxiety related response QTL 430.14035locomotor behavior trait (VT:0001392)distance moved per unit of time into, out of or within a discrete space in an experimental apparatus (CMO:0001493)4144639524182687754Rat
6478693Anxrr32Anxiety related response QTL 320.00092locomotor behavior trait (VT:0001392)measurement of voluntary locomotion into, out of or within a discrete space in an experimental apparatus (CMO:0000957)4144639524182687754Rat
6478700Anxrr33Anxiety related response QTL 330.00896locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4144639524182687754Rat
10401796Kidm48Kidney mass QTL 48kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)4145568712182687754Rat
634342Cia24Collagen induced arthritis QTL 244.5joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4146565735175236377Rat
12798525Anxrr57Anxiety related response QTL 573.210.05locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4147278504167139601Rat
1582237Kidm34Kidney mass QTL 3440.0001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)4148090542168069246Rat
1581574Eae20Experimental allergic encephalomyelitis QTL 207.8nervous system integrity trait (VT:0010566)percentage of study population developing experimental autoimmune encephalomyelitis during a period of time (CMO:0001047)4153031106158841762Rat
10053718Scort25Serum corticosterone level QTL 252.150.0097blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)4155561574182687754Rat
1581566Eae21Experimental allergic encephalomyelitis QTL 216.2body mass (VT:0001259)maximum body weight loss to initial body weight ratio (CMO:0001400)4157680158158841762Rat
1300109Rf13Renal function QTL 133.91renal blood flow trait (VT:2000006)absolute change in renal blood flow rate (CMO:0001168)4157710145182687754Rat

Markers in Region
RH129677  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.24157,968,931 - 157,969,114 (+)MAPPERmRatBN7.2
Rnor_6.04157,682,970 - 157,683,151NCBIRnor6.0
Rnor_5.04224,700,154 - 224,700,335UniSTSRnor5.0
RGSC_v3.44161,288,789 - 161,288,970UniSTSRGSC3.4
Celera4146,705,962 - 146,706,143UniSTS
RH 3.4 Map41004.1UniSTS
Cytogenetic Map4q42UniSTS
BE107832  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.24157,977,269 - 157,977,465 (+)MAPPERmRatBN7.2
Rnor_6.04157,691,305 - 157,691,500NCBIRnor6.0
Rnor_5.04224,708,490 - 224,708,685UniSTSRnor5.0
RGSC_v3.44161,297,125 - 161,297,320UniSTSRGSC3.4
Celera4146,714,302 - 146,714,497UniSTS
RH 3.4 Map41003.1UniSTS
Cytogenetic Map4q42UniSTS
RH139810  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.24157,992,767 - 157,993,468 (+)MAPPERmRatBN7.2
Rnor_6.04157,706,802 - 157,707,502NCBIRnor6.0
Rnor_5.04224,723,987 - 224,724,687UniSTSRnor5.0
RGSC_v3.44161,312,623 - 161,313,323UniSTSRGSC3.4
Celera4146,729,799 - 146,730,499UniSTS
RH 3.4 Map41003.1UniSTS
Cytogenetic Map4q42UniSTS
UniSTS:235556  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.24157,970,683 - 157,970,787 (+)MAPPERmRatBN7.2
Rnor_6.04157,684,720 - 157,684,823NCBIRnor6.0
Rnor_5.04224,701,904 - 224,702,007UniSTSRnor5.0
RGSC_v3.44161,290,539 - 161,290,642UniSTSRGSC3.4
Celera4146,707,712 - 146,707,815UniSTS
Cytogenetic Map4q42UniSTS


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 renal system reproductive system respiratory system appendage
High
Medium 3 26 37 27 19 27 1 1 58 21 39 4 1
Low 17 20 14 14 7 10 16 14 2 7 7
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001399442 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_001065923 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006225047 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008775839 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039108815 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039108816 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039108817 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063286359 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063286360 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_575668 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC115415 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473964 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ226121 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ227797 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ231221 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAXUCZ010000004 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

RefSeq Acc Id: ENSRNOT00000083016   ⟹   ENSRNOP00000069882
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl4157,968,815 - 157,992,020 (-)Ensembl
Rnor_6.0 Ensembl4157,683,077 - 157,704,596 (-)Ensembl
RefSeq Acc Id: NM_001399442   ⟹   NP_001386371
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr84159,655,051 - 159,677,938 (-)NCBI
mRatBN7.24157,968,817 - 157,991,706 (-)NCBI
RefSeq Acc Id: XM_039108815   ⟹   XP_038964743
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr84159,655,051 - 159,676,224 (-)NCBI
mRatBN7.24157,968,814 - 157,990,369 (-)NCBI
RefSeq Acc Id: XM_039108816   ⟹   XP_038964744
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr84159,655,051 - 159,673,579 (-)NCBI
mRatBN7.24157,968,814 - 157,987,359 (-)NCBI
RefSeq Acc Id: XM_039108817   ⟹   XP_038964745
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr84159,655,051 - 159,664,716 (-)NCBI
mRatBN7.24157,968,814 - 157,978,494 (-)NCBI
RefSeq Acc Id: XM_063286359   ⟹   XP_063142429
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr84159,655,051 - 159,676,224 (-)NCBI
RefSeq Acc Id: XM_063286360   ⟹   XP_063142430
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr84159,655,569 - 159,676,802 (-)NCBI
RefSeq Acc Id: XM_575668   ⟹   XP_575668
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr84159,655,051 - 159,676,802 (-)NCBI
mRatBN7.24157,968,814 - 157,991,733 (-)NCBI
Rnor_6.04157,682,855 - 157,705,903 (-)NCBI
Rnor_5.04224,700,039 - 224,722,952 (-)NCBI
RGSC_v3.44161,288,671 - 161,310,417 (-)RGD
Sequence:
RefSeq Acc Id: XP_575668   ⟸   XM_575668
- Peptide Label: isoform X1
- UniProtKB: A0A0G2JWH3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000069882   ⟸   ENSRNOT00000083016
RefSeq Acc Id: XP_038964743   ⟸   XM_039108815
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038964744   ⟸   XM_039108816
- Peptide Label: isoform X5
RefSeq Acc Id: XP_038964745   ⟸   XM_039108817
- Peptide Label: isoform X6
RefSeq Acc Id: NP_001386371   ⟸   NM_001399442
- UniProtKB: A6ILS7 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063142429   ⟸   XM_063286359
- Peptide Label: isoform X3
RefSeq Acc Id: XP_063142430   ⟸   XM_063286360
- Peptide Label: isoform X4
Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-A0A0G2JWH3-F1-model_v2 AlphaFold A0A0G2JWH3 1-1389 view protein structure

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:1562596 AgrOrtholog
BioCyc Gene G2FUF-43008 BioCyc
Ensembl Genes ENSRNOG00000055300 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000083016.2 UniProtKB/TrEMBL
Gene3D-CATH 1.25.10.10 UniProtKB/TrEMBL
InterPro ARM-like UniProtKB/TrEMBL
  ARM-type_fold UniProtKB/TrEMBL
  CND1/NCAPD3 UniProtKB/TrEMBL
  Cnd1_C UniProtKB/TrEMBL
  Condensin_cplx_su1_N UniProtKB/TrEMBL
  Condensin_D2_su UniProtKB/TrEMBL
NCBI Gene 362438 ENTREZGENE
PANTHER PTHR14222 UniProtKB/TrEMBL
  PTHR14222:SF2 UniProtKB/TrEMBL
Pfam Cnd1 UniProtKB/TrEMBL
  Cnd1_N UniProtKB/TrEMBL
PhenoGen Ncapd2 PhenoGen
PIRSF Condensin_D2 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000055300 RatGTEx
Superfamily-SCOP ARM-type_fold UniProtKB/TrEMBL
UniProt A0A0G2JWH3 ENTREZGENE, UniProtKB/TrEMBL
  A6ILS7 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-02-29 Ncapd2  non-SMC condensin I complex, subunit D2  RGD1562596_predicted  similar to mKIAA0159 protein (predicted)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-03-07 RGD1562596_predicted  similar to mKIAA0159 protein (predicted)  LOC362438  similar to mKIAA0159 protein  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC362438  similar to mKIAA0159 protein      Symbol and Name status set to provisional 70820 PROVISIONAL