Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4D

Orthogroup ID

OG0002634

Physical Location & Seq

Genomic Coordinates Reverse (-)

5445960 .. 5464743

Gene Structure 18784 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4DG032400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 924 bp

ATGCTGCATGCCTGTACTTCTGAGTCTCTGTCGGTAATTAGGAATCTATCATATAAACTCATATTAAACTTAATTTATTTCCAGGCACCAACTATTGCAGCAGCAGCTTATTTGAGATTGGCAGGAAGACCCCCAGTTCTCCCATCTAACAACCTTTCTTATTCCGAGAACTTCTTATACATGCTAGACTCCTTGGGCAATAGAGCTTATAAACCAAATCCCCGCCTCGCCCGAGTATTGGACATTCTCTTCATACTCCATGCTGAACATGAGATGAATTGCTCAACGGCTGCTGCTCGGCATCTGGCGTCAAGTGGTGTGGATGTTTACACTGTCCTTTCTGGAGCTGTTGGAGCTCTATATGGTCCCCTTCATGGTGGAGCAAATGAGGCTGTGCTTAAGATGCTAAGTGAAATTGGATCTGTTGAGAACATTCCAGAGTTCATTGAGGGTGTGAAGAGCAGGAAGCGAAAGATGTCAGGTTTTGGGCATCGCGTGTACAAGAGCTATGATCCTAGAGCAAAGGTCATAAGAAAGCTGGCAGATGAAGTATTCTCCATTGTTGGAAGGGATCCACTGATTGAGTATCTAGGCAACTCATCCTCTCAAACCGACTATATATCTGCCACATCAGTCTCCATATTTGTTTTTGCAGCTGGTGTGTCATTTCCTGTTAAAGGTTGCTTGACACCAGCAATGGCTCGGACATCTCTTCTTCCATCATCCAAAGATTGGACCATCAAGCTTGCAATTCATGCTTTGGTGGAAGATCATGATGCTGTGGTTGGTGTGGGTGCAGATCGACGGCGGCGACGGGCTTGGTCAAGCACTGAGTCTGGATGCCGTGTTCTTGAGGGTCCAGATCAGTGTGATGGGGTACTCACGAGATCTATGGAAGATCTGGGTTTGGGACCCAGGAATTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003824 GO:0004108 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005777 GO:0005911 GO:0006082 GO:0006629 GO:0006631 GO:0006635 GO:0008150 GO:0008152 GO:0009056 GO:0009062 GO:0009506 GO:0009514 GO:0009987 GO:0016042 GO:0016054 GO:0016740 GO:0016746 GO:0019395 GO:0019752 GO:0030054 GO:0030258 GO:0032787 GO:0034440 GO:0036440 GO:0042579 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043436 GO:0044237 GO:0044238 GO:0044242 GO:0044248 GO:0044255 GO:0044281 GO:0044282 GO:0044424 GO:0044444 GO:0044464 GO:0046395 GO:0046912 GO:0055044 GO:0055114 GO:0071704 GO:0072329 GO:1901575

KEGG Pathways

Metabolic & Signaling

ko00020 ko00630 ko01100 ko01110 ko01120 ko01130 ko01200 ko01210 ko01230 map00020 map00630 map01100 map01110 map01120 map01130 map01200 map01210 map01230

Pfam Domains

Protein Families

Citrate_synt

Protein Analysis

307

Amino Acids

33.43

Weight (kDa)

8.9

Isoelectric Point (pI)

46.19

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Citrate_synt	PF00285	25 - 197	3.8e-62	Citrate synthase, C-terminal domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Align Labels (Cladogram)

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Tree File

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Publication-ready

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Orthologous Genes (Group: OG0002634)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G42790 AT3G58740 AT3G58750
fragaria_vesca	FvH4_5g27540 FvH4_6g37750
malus_domestica	MD09G1156400.v1.1 MD17G1142900.v1.1
prunus_persica	Prupe.3G169400_v2.0.a1
pyrus_communis	pycom09g07510 pycom17g13590 pycom17g13600
rosa_chinensis	RchiOBHm_Chr2g0143111 RchiOBHm_Chr2g0150811 RchiOBHm_Chr7g0233461
rosa_laevigata	RLG00000020508
rosa_multiflora	Rmu_co8164368.1_g000001 Rmu_co8192116.1_g000001 Rmu_co8272387.1_g000001 Rmu_sc0003819.1_g000005 Rmu_sc0004794.1_g000003 Rmu_sc0020410.1_g000001
rosa_roxburghii	Rroxscaffold_2G00096940 Rroxscaffold_3G00251810
rosa_rugosa	Rorug02G0103600 Rorug02G0179700 Rorug02G0422600
rosa_samantha	Rh2AG024100 Rh2AG482700 Rh2BG495300 Rh2CG469000 Rh2DG450300 Rh2DG506100 Rh4CG229100 Rh4DG032400 Rh4DG200800 Rh5AG029300 Rh5CG031600 Rh5DG497900 Rh6CG201800
rosa_wichuraiana	Rw2G039560

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	210
AccB1I	GGYRCC	1 cut(s)	85
AccB7I	CCANNNNNTGG	1 cut(s)	732
AccII	CGCG	1 cut(s)	495
AciI	CCGC	2 cut(s)	223, 808
AclWI	GGATC	4 cut(s)	427, 506, 566, 579
AcyI	GRCGYC	1 cut(s)	308
AfaI	GTAC	3 cut(s)	16, 500, 879
AfiI	CCNNNNNNNGG	4 cut(s)	238, 374, 677, 732
AflII	CTTAAG	1 cut(s)	398
AjnI	CCWGG	2 cut(s)	81, 914
AloI	GAACNNNNNNTCC	2 cut(s)	831, 863
AluBI	AGCT	8 cut(s)	107, 206, 347, 356, 507, 538, 656, 745
AluI	AGCT	8 cut(s)	107, 206, 347, 356, 507, 538, 656, 745
Alw21I	GWGCWC	1 cut(s)	358
Alw26I	GTCTC	2 cut(s)	30, 640
AlwI	GGATC	4 cut(s)	427, 506, 566, 579
Ama87I	CYCGRG	1 cut(s)	231
ApeKI	GCWGC	7 cut(s)	4, 98, 101, 104, 290, 293, 653
AspS9I	GGNCC	4 cut(s)	365, 735, 857, 911
AvaI	CYCGRG	1 cut(s)	231
AvaII	GGWCC	4 cut(s)	365, 735, 857, 911
BamHI	GGATCC	1 cut(s)	571
BanI	GGYRCC	1 cut(s)	85
BanII	GRGCYC	1 cut(s)	358
BauI	CACGAG	1 cut(s)	883
BbsI	GAAGAC	1 cut(s)	133
Bbv12I	GWGCWC	1 cut(s)	358
BbvI	GCAGC	6 cut(s)	110, 113, 116, 277, 280, 665
BccI	CCATC	4 cut(s)	151, 727, 746, 866
BceAI	ACGGC	3 cut(s)	303, 821, 828
BciT130I	CCWGG	2 cut(s)	83, 916
BcoDI	GTCTC	2 cut(s)	30, 640
BfaI	CTAG	3 cut(s)	185, 516, 590
BfrI	CTTAAG	1 cut(s)	398
BglII	AGATCT	2 cut(s)	887, 898
BisI	GCNGC	8 cut(s)	5, 99, 102, 105, 291, 294, 654, 809
BlsI	GCNGC	8 cut(s)	6, 100, 103, 106, 292, 295, 655, 810
Bme1390I	CCNGG	2 cut(s)	83, 916
Bme18I	GGWCC	4 cut(s)	365, 735, 857, 911
BmeT110I	CYCGRG	1 cut(s)	231
BmgT120I	GGNCC	4 cut(s)	365, 735, 857, 911
BmiI	GGNNCC	6 cut(s)	87, 367, 573, 858, 912, 913
BmrFI	CCNGG	2 cut(s)	83, 916
BmrI	ACTGGG	1 cut(s)	128
BmsI	GCATC	5 cut(s)	310, 393, 499, 766, 830
BmuI	ACTGGG	1 cut(s)	128
BpiI	GAAGAC	1 cut(s)	133
BpmI	CTGGAG	1 cut(s)	363
BpuEI	CTTGAG	1 cut(s)	872
BsaHI	GRCGYC	1 cut(s)	308
BsaJI	CCNNGG	2 cut(s)	192, 914
Bsc4I	CCNNNNNNNGG	4 cut(s)	238, 374, 677, 732
Bse1I	ACTGG	1 cut(s)	134
Bse3DI	GCAATG	1 cut(s)	702
BseBI	CCWGG	2 cut(s)	83, 916
BseDI	CCNNGG	2 cut(s)	192, 914
BseGI	GGATG	4 cut(s)	328, 599, 722, 845
BseLI	CCNNNNNNNGG	4 cut(s)	238, 374, 677, 732
BseMI	GCAATG	1 cut(s)	702
BseMII	CTCAG	2 cut(s)	12, 822
BseNI	ACTGG	1 cut(s)	134
BseXI	GCAGC	6 cut(s)	110, 113, 116, 277, 280, 665
BsgI	GTGCAG	1 cut(s)	816
Bsh1236I	CGCG	1 cut(s)	495
BshNI	GGYRCC	1 cut(s)	85
BsiHKAI	GWGCWC	1 cut(s)	358
BsiHKCI	CYCGRG	1 cut(s)	231
BslFI	GGGAC	1 cut(s)	351
BslI	CCNNNNNNNGG	4 cut(s)	238, 374, 677, 732
BsmAI	GTCTC	2 cut(s)	30, 640
BsmFI	GGGAC	1 cut(s)	351
BsoBI	CYCGRG	1 cut(s)	231
Bsp1286I	GDGCHC	1 cut(s)	358
Bsp1407I	TGTACA	1 cut(s)	498
Bsp143I	GATC	8 cut(s)	419, 511, 571, 769, 799, 862, 887, 898
BspACI	CCGC	2 cut(s)	223, 808
BspCNI	CTCAG	2 cut(s)	13, 823
BspFNI	CGCG	1 cut(s)	495
BspHI	TCATGA	1 cut(s)	772
BspLI	GGNNCC	6 cut(s)	87, 367, 573, 858, 912, 913
BspPI	GGATC	4 cut(s)	427, 506, 566, 579
BspQI	GCTCTTC	1 cut(s)	452
BspT107I	GGYRCC	1 cut(s)	85
BspTI	CTTAAG	1 cut(s)	398
BsrDI	GCAATG	1 cut(s)	702
BsrGI	TGTACA	1 cut(s)	498
BsrI	ACTGG	1 cut(s)	134
BssECI	CCNNGG	2 cut(s)	192, 914
BssMI	GATC	8 cut(s)	419, 511, 571, 769, 799, 862, 887, 898
BssNI	GRCGYC	1 cut(s)	308
BssSI	CACGAG	1 cut(s)	883
BssT1I	CCWWGG	1 cut(s)	192
Bst2BI	CACGAG	1 cut(s)	883
Bst2UI	CCWGG	2 cut(s)	83, 916
Bst4CI	ACNGT	1 cut(s)	334
Bst6I	CTCTTC	3 cut(s)	254, 452, 717
BstACI	GRCGYC	1 cut(s)	308
BstAFI	CTTAAG	1 cut(s)	398
BstAPI	GCANNNNNTGC	1 cut(s)	755
BstAUI	TGTACA	1 cut(s)	498
BstC8I	GCNNGC	3 cut(s)	9, 540, 747
BstDEI	CTNAG	3 cut(s)	21, 407, 831
BstENI	CCTNNNNNAGG	1 cut(s)	675
BstF5I	GGATG	4 cut(s)	328, 599, 722, 845
BstFNI	CGCG	1 cut(s)	495
BstKTI	GATC	8 cut(s)	422, 514, 574, 772, 802, 865, 890, 901
BstMAI	GTCTC	2 cut(s)	30, 640
BstMBI	GATC	8 cut(s)	419, 511, 571, 769, 799, 862, 887, 898
BstMWI	GCNNNNNNNGC	5 cut(s)	104, 353, 389, 403, 755
BstNI	CCWGG	2 cut(s)	83, 916
BstNSI	RCATGY	2 cut(s)	11, 184
BstSCI	CCNGG	2 cut(s)	81, 914
BstUI	CGCG	1 cut(s)	495
BstV1I	GCAGC	6 cut(s)	110, 113, 116, 277, 280, 665
BstV2I	GAAGAC	1 cut(s)	133
BstX2I	RGATCY	4 cut(s)	419, 571, 887, 898
BstYI	RGATCY	4 cut(s)	419, 571, 887, 898
BtgZI	GCGATG	1 cut(s)	476
BtsCI	GGATG	4 cut(s)	328, 599, 722, 845
BtsIMutI	CAGTG	4 cut(s)	330, 575, 828, 872
Cac8I	GCNNGC	3 cut(s)	9, 540, 747
CciI	TCATGA	1 cut(s)	772
Cfr13I	GGNCC	4 cut(s)	365, 735, 857, 911
CseI	GACGC	1 cut(s)	297
Csp6I	GTAC	3 cut(s)	15, 499, 878
CspCI	CAANNNNNGTGG	2 cut(s)	300, 335
CviAII	CATG	7 cut(s)	8, 181, 260, 269, 374, 755, 773
CviQI	GTAC	3 cut(s)	15, 499, 878
DdeI	CTNAG	3 cut(s)	21, 407, 831
DpnI	GATC	8 cut(s)	421, 513, 573, 771, 801, 864, 889, 900
DpnII	GATC	8 cut(s)	419, 511, 571, 769, 799, 862, 887, 898
Eam1104I	CTCTTC	3 cut(s)	254, 452, 717
EarI	CTCTTC	3 cut(s)	254, 452, 717
Ecl136II	GAGCTC	1 cut(s)	356
Eco130I	CCWWGG	1 cut(s)	192
Eco24I	GRGCYC	1 cut(s)	358
Eco47I	GGWCC	4 cut(s)	365, 735, 857, 911
Eco53kI	GAGCTC	1 cut(s)	356
Eco88I	CYCGRG	1 cut(s)	231
EcoICRI	GAGCTC	1 cut(s)	356
EcoNI	CCTNNNNNAGG	1 cut(s)	675
EcoO109I	RGGNCCY	1 cut(s)	911
EcoRII	CCWGG	2 cut(s)	81, 914
EcoT14I	CCWWGG	1 cut(s)	192
EcoT38I	GRGCYC	1 cut(s)	358
ErhI	CCWWGG	1 cut(s)	192
FaeI	CATG	7 cut(s)	11, 184, 263, 272, 377, 758, 776
FaqI	GGGAC	1 cut(s)	351
FatI	CATG	7 cut(s)	7, 180, 259, 268, 373, 754, 772
FauI	CCCGC	1 cut(s)	230
Fnu4HI	GCNGC	8 cut(s)	5, 99, 102, 105, 291, 294, 654, 809
FokI	GGATG	4 cut(s)	335, 586, 709, 852
FriOI	GRGCYC	1 cut(s)	358
Fsp4HI	GCNGC	8 cut(s)	5, 99, 102, 105, 291, 294, 654, 809
FspBI	CTAG	3 cut(s)	185, 516, 590
GluI	GCNGC	8 cut(s)	5, 99, 102, 105, 291, 294, 654, 809
GsuI	CTGGAG	1 cut(s)	363
HgaI	GACGC	1 cut(s)	297
Hin1I	GRCGYC	1 cut(s)	308
Hin1II	CATG	7 cut(s)	11, 184, 263, 272, 377, 758, 776
HindIII	AAGCTT	1 cut(s)	743
HinfI	GANTC	4 cut(s)	23, 43, 188, 833
Hpy166II	GTNNAC	2 cut(s)	328, 499
Hpy188I	TCNGA	3 cut(s)	22, 166, 705
Hpy188III	TCNNGA	7 cut(s)	342, 437, 773, 837, 851, 860, 883
Hpy8I	GTNNAC	2 cut(s)	328, 499
Hpy99I	CGWCG	2 cut(s)	807, 816
HpyAV	CCTTC	2 cut(s)	380, 561
HpyCH4III	ACNGT	1 cut(s)	334
HpyCH4V	TGCA	5 cut(s)	7, 98, 653, 749, 797
HpyF10VI	GCNNNNNNNGC	5 cut(s)	104, 353, 389, 403, 755
HpyF3I	CTNAG	3 cut(s)	21, 407, 831
Hsp92I	GRCGYC	1 cut(s)	308
Hsp92II	CATG	7 cut(s)	11, 184, 263, 272, 377, 758, 776
KflI	GGGWCCC	1 cut(s)	911
Kzo9I	GATC	8 cut(s)	419, 511, 571, 769, 799, 862, 887, 898
LguI	GCTCTTC	1 cut(s)	452
LmnI	GCTCC	3 cut(s)	344, 353, 380
Lsp1109I	GCAGC	6 cut(s)	110, 113, 116, 277, 280, 665
LweI	GCATC	5 cut(s)	310, 393, 499, 766, 830
MaeI	CTAG	3 cut(s)	185, 516, 590
MalI	GATC	8 cut(s)	421, 513, 573, 771, 801, 864, 889, 900
MboI	GATC	8 cut(s)	419, 511, 571, 769, 799, 862, 887, 898
MboII	GAAGA	7 cut(s)	138, 241, 469, 704, 707, 779, 908
MflI	RGATCY	4 cut(s)	419, 571, 887, 898
MhlI	GDGCHC	1 cut(s)	358
MluCI	AATT	6 cut(s)	36, 72, 277, 414, 750, 919
MlyI	GAGTC	3 cut(s)	32, 182, 842
MmeI	TCCRAC	2 cut(s)	331, 544
MnlI	CCTC	5 cut(s)	236, 382, 442, 613, 847
MseI	TTAA	5 cut(s)	65, 71, 399, 675, 922
MspA1I	CMGCKG	1 cut(s)	656
MspCI	CTTAAG	1 cut(s)	398
MspR9I	CCNGG	2 cut(s)	83, 916
MvaI	CCWGG	2 cut(s)	83, 916
MvnI	CGCG	1 cut(s)	495
MwoI	GCNNNNNNNGC	5 cut(s)	104, 353, 389, 403, 755
NdeII	GATC	8 cut(s)	419, 511, 571, 769, 799, 862, 887, 898
NlaIII	CATG	7 cut(s)	11, 184, 263, 272, 377, 758, 776
NlaIV	GGNNCC	6 cut(s)	87, 367, 573, 858, 912, 913
NmeAIII	GCCGAG	1 cut(s)	277
NspI	RCATGY	2 cut(s)	11, 184
PaeI	GCATGC	1 cut(s)	11
PagI	TCATGA	1 cut(s)	772
PciSI	GCTCTTC	1 cut(s)	452
PcsI	WCGNNNNNNNCGW	1 cut(s)	808
PfeI	GAWTC	1 cut(s)	43
PflMI	CCANNNNNTGG	1 cut(s)	732
PkrI	GCNGC	8 cut(s)	6, 100, 103, 106, 292, 295, 655, 810
PleI	GAGTC	3 cut(s)	31, 182, 841
PpsI	GAGTC	3 cut(s)	31, 182, 841
PpuMI	RGGWCCY	1 cut(s)	911
PsiI	TTATAA	1 cut(s)	210
Psp124BI	GAGCTC	1 cut(s)	358
Psp5II	RGGWCCY	1 cut(s)	911
Psp6I	CCWGG	2 cut(s)	81, 914
PspGI	CCWGG	2 cut(s)	81, 914
PspN4I	GGNNCC	6 cut(s)	87, 367, 573, 858, 912, 913
PspPI	GGNCC	4 cut(s)	365, 735, 857, 911
PspPPI	RGGWCCY	1 cut(s)	911
PsrI	GAACNNNNNNTAC	2 cut(s)	161, 193
PsuI	RGATCY	4 cut(s)	419, 571, 887, 898
PvuII	CAGCTG	1 cut(s)	656
RsaI	GTAC	3 cut(s)	16, 500, 879
RsaNI	GTAC	3 cut(s)	15, 499, 878
SacI	GAGCTC	1 cut(s)	358
SapI	GCTCTTC	1 cut(s)	452
SaqAI	TTAA	5 cut(s)	65, 71, 399, 675, 922
SatI	GCNGC	8 cut(s)	5, 99, 102, 105, 291, 294, 654, 809
Sau3AI	GATC	8 cut(s)	419, 511, 571, 769, 799, 862, 887, 898
Sau96I	GGNCC	4 cut(s)	365, 735, 857, 911
SchI	GAGTC	3 cut(s)	32, 182, 842
ScrFI	CCNGG	2 cut(s)	83, 916
SduI	GDGCHC	1 cut(s)	358
SfaNI	GCATC	5 cut(s)	310, 393, 499, 766, 830
SinI	GGWCC	4 cut(s)	365, 735, 857, 911
SmlI	CTYRAG	2 cut(s)	398, 851
SmoI	CTYRAG	2 cut(s)	398, 851
SphI	GCATGC	1 cut(s)	11
Sse9I	AATT	6 cut(s)	36, 72, 277, 414, 750, 919
SsiI	CCGC	2 cut(s)	223, 808
SspMI	CTAG	3 cut(s)	185, 516, 590
SstI	GAGCTC	1 cut(s)	358
StyD4I	CCNGG	2 cut(s)	81, 914
StyI	CCWWGG	1 cut(s)	192
TaaI	ACNGT	1 cut(s)	334
TaqI	TCGA	1 cut(s)	802
TasI	AATT	6 cut(s)	36, 72, 277, 414, 750, 919
TatI	WGTACW	2 cut(s)	14, 498
TauI	GCSGC	1 cut(s)	811
TfiI	GAWTC	1 cut(s)	43
Tru1I	TTAA	5 cut(s)	65, 71, 399, 675, 922
Tru9I	TTAA	5 cut(s)	65, 71, 399, 675, 922
TscAI	CASTG	4 cut(s)	337, 582, 835, 872
TseI	GCWGC	7 cut(s)	4, 98, 101, 104, 290, 293, 653
TspDTI	ATGAA	6 cut(s)	241, 290, 362, 433, 561, 743
TspRI	CASTG	4 cut(s)	337, 582, 835, 872
Van91I	CCANNNNNTGG	1 cut(s)	732
Vha464I	CTTAAG	1 cut(s)	398
VpaK11BI	GGWCC	4 cut(s)	365, 735, 857, 911
XagI	CCTNNNNNAGG	1 cut(s)	675
XceI	RCATGY	2 cut(s)	11, 184
XspI	CTAG	3 cut(s)	185, 516, 590

Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.