Sycp2 (synaptonemal complex protein 2) - Rat Genome Database

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Gene: Sycp2 (synaptonemal complex protein 2) Rattus norvegicus
Analyze
Symbol: Sycp2
Name: synaptonemal complex protein 2
RGD ID: 69429
Description: Predicted to enable DNA binding activity. Predicted to be involved in meiotic recombination checkpoint signaling and synaptonemal complex assembly. Predicted to act upstream of or within several processes, including male genitalia morphogenesis; meiotic nuclear division; and negative regulation of apoptotic process. Located in lateral element. Human ortholog(s) of this gene implicated in spermatogenic failure 1. Orthologous to human SYCP2 (synaptonemal complex protein 2); INTERACTS WITH 2-ethoxyethanol; 2-methoxyethanol; 6-propyl-2-thiouracil.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: rnSCP2; SCP-2; synaptonemal complex lateral element protein
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr83185,814,033 - 185,876,516 (-)NCBIGRCr8
mRatBN7.23165,431,715 - 165,502,134 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl3165,436,331 - 165,498,789 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx3169,810,503 - 169,872,892 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.03178,769,591 - 178,831,980 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.03175,435,895 - 175,498,352 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.03173,884,559 - 173,948,304 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl3173,884,287 - 173,947,018 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.03183,144,181 - 183,206,650 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.43167,437,522 - 167,502,083 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.13167,343,557 - 167,408,119 (-)NCBI
Celera3167,063,122 - 167,125,089 (+)NCBICelera
Cytogenetic Map3q43NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

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. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
3. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
4. SCP2: a major protein component of the axial elements of synaptonemal complexes of the rat. Offenberg HH, etal., Nucleic Acids Res 1998 Jun 1;26(11):2572-9.
5. GOA pipeline RGD automated data pipeline
6. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
7. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
8. Localization of SCP2 and SCP3 protein molecules within synaptonemal complexes of the rat. Schalk JA, etal., Chromosoma. 1998 Dec;107(8):540-8.
9. Proteomics profiling of nuclear proteins for kidney fibroblasts suggests hypoxia, meiosis, and cancer may meet in the nucleus. Shakib K, etal., Proteomics. 2005 Jul;5(11):2819-38.
10. Tentative Sequence Identification Numbers Tentative Sequence Data IDs. TIGR Gene Index, Rat Data
Additional References at PubMed
PMID:10341103   PMID:10652260   PMID:16717126   PMID:18283110   PMID:18316482   PMID:19034475   PMID:22011390   PMID:22164254   PMID:22711701   PMID:23133398   PMID:26362258  


Genomics

Comparative Map Data
Sycp2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr83185,814,033 - 185,876,516 (-)NCBIGRCr8
mRatBN7.23165,431,715 - 165,502,134 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl3165,436,331 - 165,498,789 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx3169,810,503 - 169,872,892 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.03178,769,591 - 178,831,980 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.03175,435,895 - 175,498,352 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.03173,884,559 - 173,948,304 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl3173,884,287 - 173,947,018 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.03183,144,181 - 183,206,650 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.43167,437,522 - 167,502,083 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.13167,343,557 - 167,408,119 (-)NCBI
Celera3167,063,122 - 167,125,089 (+)NCBICelera
Cytogenetic Map3q43NCBI
SYCP2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382059,863,571 - 59,933,637 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl2059,863,564 - 59,933,655 (-)EnsemblGRCh38hg38GRCh38
GRCh372058,438,626 - 58,508,692 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 362057,872,013 - 57,940,604 (-)NCBINCBI36Build 36hg18NCBI36
Build 342057,872,013 - 57,940,604NCBI
Celera2055,179,316 - 55,247,887 (-)NCBICelera
Cytogenetic Map20q13.33NCBI
HuRef2055,225,354 - 55,294,509 (-)NCBIHuRef
CHM1_12058,339,676 - 58,408,271 (-)NCBICHM1_1
T2T-CHM13v2.02061,647,855 - 61,717,909 (-)NCBIT2T-CHM13v2.0
Sycp2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm392177,987,088 - 178,051,580 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl2177,987,086 - 178,049,478 (-)EnsemblGRCm39 Ensembl
GRCm382178,345,295 - 178,407,776 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl2178,345,293 - 178,407,685 (-)EnsemblGRCm38mm10GRCm38
MGSCv372178,080,000 - 178,142,363 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv362178,274,701 - 178,333,233 (-)NCBIMGSCv36mm8
Celera2182,431,695 - 182,494,066 (-)NCBICelera
Cytogenetic Map2H4NCBI
cM Map299.81NCBI
Sycp2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555283,809,438 - 3,886,312 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049555283,809,438 - 3,887,055 (+)NCBIChiLan1.0ChiLan1.0
SYCP2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22165,629,849 - 65,702,033 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12065,622,971 - 65,695,156 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02056,219,579 - 56,289,382 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12057,571,625 - 57,639,701 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2057,571,935 - 57,629,016 (-)Ensemblpanpan1.1panPan2
SYCP2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12444,471,516 - 44,546,501 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2444,471,828 - 44,546,495 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2443,715,727 - 43,795,976 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02445,337,831 - 45,418,204 (-)NCBIROS_Cfam_1.0
UMICH_Zoey_3.12444,438,620 - 44,514,644 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02444,557,526 - 44,639,319 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02445,219,139 - 45,299,307 (-)NCBIUU_Cfam_GSD_1.0
Sycp2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024408640192,810,574 - 192,894,218 (-)NCBIHiC_Itri_2
SpeTri2.0NW_0049365148,264,628 - 8,331,577 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SYCP2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1759,875,993 - 59,955,209 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11759,875,992 - 59,962,314 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21767,296,749 - 67,373,790 (-)NCBISscrofa10.2Sscrofa10.2susScr3
SYCP2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.124,214,713 - 4,283,451 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl24,226,063 - 4,282,751 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605052,270,245 - 52,325,619 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Sycp2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462474126,122,385 - 26,203,154 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462474126,108,446 - 26,208,184 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Sycp2
133 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:98
Count of miRNA genes:80
Interacting mature miRNAs:85
Transcripts:ENSRNOT00000006038
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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
12879876Bw182Body weight QTL 1820.003body mass (VT:0001259)body weight (CMO:0000012)3145925360166177555Rat
2301411Bp320Blood pressure QTL 3200.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)3145925360166177555Rat
2312673Scl63Serum cholesterol level QTL 630.001blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)398535255168026850Rat
12879872Cm97Cardiac mass QTL 970.001heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)3145925360166177555Rat
1598877Bp285Blood pressure QTL 2851.50.03arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3120538241165538241Rat
1578653Vnigr3Vascular neointimal growth QTL 33.1artery morphology trait (VT:0002191)artery neointimal hyperplastic lesion area (CMO:0001414)3130656562169034231Rat
12879873Cm96Cardiac mass QTL 960.001heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)3145925360166177555Rat
12879874Cm98Cardiac mass QTL 980.005heart right ventricle mass (VT:0007033)heart right ventricle weight to body weight ratio (CMO:0000914)3145925360166177555Rat
1298068Bp167Blood pressure QTL 1670.004arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3141074471169034231Rat
12879875Kidm64Kidney mass QTL 640.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)3145925360166177555Rat
2298477Eau4Experimental allergic uveoretinitis QTL 40.0011uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)3137398739169034231Rat
1300161Rf10Renal function QTL 103.57renal blood flow trait (VT:2000006)absolute change in renal vascular resistance (CMO:0001900)3161192952169034231Rat
8552791Vie2Viral induced encephalitis QTL 24.1brain integrity trait (VT:0010579)encephalitis incidence/prevalence measurement (CMO:0002361)3145956084169034231Rat
2317883Alcrsp26Alcohol response QTL 261.80.63response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)3145526770169034231Rat
9589106Insul23Insulin level QTL 2313.860.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)3131635904169034231Rat
10755461Coatc16Coat color QTL 16coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)3122438700167438700Rat
1559282Emca5Estrogen-induced mammary cancer QTL 53.9mammary gland integrity trait (VT:0010552)percentage of study population developing mammary tumors during a period of time (CMO:0000948)343827364169034231Rat
2303620Vencon4Ventilatory control QTL 43.9respiration trait (VT:0001943)tidal volume (CMO:0000222)3127162703168026850Rat
2312659Slep7Serum leptin concentration QTL 70.001blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)398535255168026850Rat
1578666Vnigr1Vascular neointimal growth QTL 14.6artery morphology trait (VT:0002191)artery lumen area (CMO:0001409)3149040888168026850Rat
1578656Vnigr2Vascular neointimal growth QTL 24.2artery morphology trait (VT:0002191)lesioned artery residual lumen area (CMO:0001417)3130656562169034231Rat
8552952Pigfal13Plasma insulin-like growth factor 1 level QTL 13blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)3138799500169034231Rat
12879871Am7Aortic mass QTL 70.001aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)3145925360166177555Rat
631541Bp81Blood pressure QTL 814arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3124122556169034231Rat
2312670Bw94Body weight QTL 940.01inguinal fat pad mass (VT:0010424)inguinal fat pad weight to body weight ratio (CMO:0001253)398535255168026850Rat

Markers in Region
D3Got171  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.23165,443,122 - 165,443,343 (+)MAPPERmRatBN7.2
Rnor_6.03173,891,353 - 173,891,573NCBIRnor6.0
Rnor_5.03183,199,638 - 183,199,858UniSTSRnor5.0
RGSC_v3.43167,444,314 - 167,444,534UniSTSRGSC3.4
RGSC_v3.43167,444,313 - 167,444,534RGDRGSC3.4
RGSC_v3.13167,350,350 - 167,350,570RGD
Celera3167,118,093 - 167,118,313UniSTS
RH 3.4 Map31501.1UniSTS
RH 3.4 Map31501.1RGD
RH 2.0 Map31020.4RGD
Cytogenetic Map3q43UniSTS
G65197  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.23165,464,853 - 165,465,426 (+)MAPPERmRatBN7.2
Rnor_6.03173,913,084 - 173,913,656NCBIRnor6.0
Rnor_5.03183,177,702 - 183,178,274UniSTSRnor5.0
RGSC_v3.43167,467,481 - 167,468,053UniSTSRGSC3.4
Celera3167,096,464 - 167,097,036UniSTS
Cytogenetic Map3q43UniSTS


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
nervous system
renal system
reproductive system
respiratory system
9 8 49 113 77 76 45 25 45 6 201 94 93 45 60 31

Sequence


Ensembl Acc Id: ENSRNOT00000078047   ⟹   ENSRNOP00000070540
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl3165,436,331 - 165,498,789 (-)Ensembl
Rnor_6.0 Ensembl3173,884,561 - 173,947,018 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000079019   ⟹   ENSRNOP00000075596
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl3165,436,331 - 165,498,783 (-)Ensembl
Rnor_6.0 Ensembl3173,884,287 - 173,944,396 (-)Ensembl
RefSeq Acc Id: NM_130735   ⟹   NP_570091
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr83185,814,035 - 185,876,492 (-)NCBI
mRatBN7.23165,436,331 - 165,498,789 (-)NCBI
Rnor_6.03173,884,561 - 173,947,018 (-)NCBI
Rnor_5.03183,144,181 - 183,206,650 (+)NCBI
RGSC_v3.43167,437,522 - 167,502,083 (-)RGD
Celera3167,063,122 - 167,125,089 (+)RGD
Sequence:
RefSeq Acc Id: XM_039105970   ⟹   XP_038961898
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr83185,814,033 - 185,864,448 (-)NCBI
mRatBN7.23165,431,715 - 165,486,745 (-)NCBI
RefSeq Acc Id: XM_063284678   ⟹   XP_063140748
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr83185,814,033 - 185,876,516 (-)NCBI
RefSeq Acc Id: XM_063284679   ⟹   XP_063140749
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr83185,814,033 - 185,876,455 (-)NCBI
RefSeq Acc Id: XM_063284680   ⟹   XP_063140750
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr83185,814,033 - 185,876,288 (-)NCBI
RefSeq Acc Id: XM_063284681   ⟹   XP_063140751
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr83185,814,033 - 185,876,516 (-)NCBI
RefSeq Acc Id: XM_063284682   ⟹   XP_063140752
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr83185,814,033 - 185,876,433 (-)NCBI
RefSeq Acc Id: XM_063284683   ⟹   XP_063140753
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr83185,814,033 - 185,876,286 (-)NCBI
RefSeq Acc Id: XM_063284684   ⟹   XP_063140754
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr83185,814,033 - 185,876,516 (-)NCBI
RefSeq Acc Id: NP_570091   ⟸   NM_130735
- UniProtKB: O70608 (UniProtKB/Swiss-Prot),   A0A8L2R2I5 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000075596   ⟸   ENSRNOT00000079019
Ensembl Acc Id: ENSRNOP00000070540   ⟸   ENSRNOT00000078047
RefSeq Acc Id: XP_038961898   ⟸   XM_039105970
- Peptide Label: isoform X4
- UniProtKB: A0A8L2RBT5 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063140751   ⟸   XM_063284681
- Peptide Label: isoform X2
RefSeq Acc Id: XP_063140754   ⟸   XM_063284684
- Peptide Label: isoform X3
RefSeq Acc Id: XP_063140748   ⟸   XM_063284678
- Peptide Label: isoform X1
- UniProtKB: O70608 (UniProtKB/Swiss-Prot)
RefSeq Acc Id: XP_063140749   ⟸   XM_063284679
- Peptide Label: isoform X1
- UniProtKB: O70608 (UniProtKB/Swiss-Prot)
RefSeq Acc Id: XP_063140752   ⟸   XM_063284682
- Peptide Label: isoform X2
RefSeq Acc Id: XP_063140750   ⟸   XM_063284680
- Peptide Label: isoform X1
- UniProtKB: O70608 (UniProtKB/Swiss-Prot)
RefSeq Acc Id: XP_063140753   ⟸   XM_063284683
- Peptide Label: isoform X2
Protein Domains
Synaptonemal complex protein 2 armadillo-repeat-   Synaptonemal complex protein 2 Spt16M-like

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-O70608-F1-model_v2 AlphaFold O70608 1-1505 view protein structure

Transcriptome

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

Promoters
RGD ID:13692727
Promoter ID:EPDNEW_R3251
Type:multiple initiation site
Name:Sycp2_1
Description:synaptonemal complex protein 2
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_6.03173,946,986 - 173,947,046EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:69429 AgrOrtholog
BioCyc Gene G2FUF-46401 BioCyc
Ensembl Genes ENSRNOG00000061690 Ensembl, UniProtKB/TrEMBL
  ENSRNOG00055000804 UniProtKB/Swiss-Prot
  ENSRNOG00060001141 UniProtKB/Swiss-Prot
  ENSRNOG00065014245 UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000078047.2 UniProtKB/TrEMBL
  ENSRNOT00000079019.2 UniProtKB/TrEMBL
  ENSRNOT00055001381 UniProtKB/Swiss-Prot
  ENSRNOT00060001609 UniProtKB/Swiss-Prot
  ENSRNOT00065023517 UniProtKB/Swiss-Prot
InterPro ARM-type_fold UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SYCP1/2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SYCP2_ARLD UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SYCP2_SLD UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:83820 UniProtKB/Swiss-Prot
NCBI Gene 83820 ENTREZGENE
PANTHER PTHR15607 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PTHR15607:SF12 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam SYCP2_ARLD UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SYCP2_SLD UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Sycp2 PhenoGen
RatGTEx ENSRNOG00000061690 RatGTEx
  ENSRNOG00055000804 RatGTEx
  ENSRNOG00060001141 RatGTEx
  ENSRNOG00065014245 RatGTEx
Superfamily-SCOP ARM repeat UniProtKB/TrEMBL, UniProtKB/Swiss-Prot
TIGR TC210568
UniProt A0A8L2R2I5 ENTREZGENE, UniProtKB/TrEMBL
  A0A8L2RBT5 ENTREZGENE, UniProtKB/TrEMBL
  A6KME8_RAT UniProtKB/TrEMBL
  A6KME9_RAT UniProtKB/TrEMBL
  O70608 ENTREZGENE, UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2002-06-10 Sycp2  synaptonemal complex protein 2      Name updated 70584 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_expression expressed specifically in the testis, in meiotic prophase cells 69387
gene_function may be a DNA-binding protein 69387
gene_protein molecular mass of 173 kDa 69387