Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000003

Orthogroup ID

OG0002634

Physical Location & Seq

Genomic Coordinates Reverse (-)

45774997 .. 45787112

Gene Structure 12116 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_3G00251810.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1245 bp

ATGGTCGACGGAATTGACTATAATGCCCAAGAAGCACCGCGCCATCGCCGCATCGGCATCATCATCACCGCCGCCGTCACTCTTTCTCCGGATCTGAAATCTAAGCCTCCGAGTAGTACCGAATCACCGAATCGGTGCTCTGCAAGCAATTCCGAATTTCAAAGGTATGAAGTTGACACCGATGCCTTTCTATCAGTTCTGGCTATTCAACCTATTCTTAAGATGGAATCCGTCCCCTCTATTGTTGAGGCTATGCTTAAGATGCTAAGTGAAATTGGACCTGTTGAGAACATTCCGGAGTTCATTGAGGGTGAAGCGAAAGATGTCGGTTTTGGGCATCGTGTGTACAAGAACTATGATCCTAGAGCAAAGGTCATAAGAAAGCTAGCAGATGAAGTATTCTCCATTGTTGGAAGGGATCCACCGATTGAGGTTGCTGTTGCTTTGGAGAAAACTGCACTATCCGATGAGCATTTTGTTAAGAGAAAGCTGTATCCTAATGTTGATTTCTACTCCGGGTTGATATATAGTACGGTACTAGCTTTGGTAAAGAAGCAAAGAACTGAAACAAAACCAGTGACGCAGTTGAAGGATGGCGGCCAGTGCCGCAAGATTTTCATCTGCGGGGGGCAATTGATCGAGGAGTTGAATGAGGAACAGGGGTCAACTGAAGAACAGAAGAAGCAATATCAAAATTTATTAGAGAGAAGTTCTACGAAGACTCGGAAGGGTTGGGGAAAAAGAAACTCAGCTAAAGGAAATGAACATAAAACATTAGCAGAAGAACAAGTTGAAGTGACTGAGAAACAGAGAAAGCAGAGGAAGCAAAGTCAAAAACCACAGTATTGTAAGGCAGTTGACAACCAAACTGGATCTCCAGAGCAAGTCAATGGACAACAATGTCAAAAACAAATGGAAGAAATTGCTGCAATTGCTGAAAAGAAAAGTCAAGAACAAATTGAAGAAGATCAGCAGAGTAAGGTGATTGATGATAAAAAAGAATCTCCTGATGCACAGCAAGGAGAAGTAATTAAACAACAAATTCAAGGAATTGCAGTCATTGTTGTTCCCCGAAATTCCGCTGAACAGATATATAAAGTCCCCGAAGAACAAGAAGTTAAAGTGACTGAACAACAGCAGCAGCACGGGCAGCAAAGTCAAGAACTGATTCGAGAGGAACAGCATAGTATGGTAATTGACCGTCAAAATGGATCTCCAGATGAAGAAAATGAACAGCAAGATTAA

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

414

Amino Acids

46.86

Weight (kDa)

5.37

Isoelectric Point (pI)

57.1

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Citrate_synt	PF00285	83 - 178	2.5e-27	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)

Image

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)
AasI	GACNNNNNNGTC	1 cut(s)	900
AccI	GTMKAC	1 cut(s)	6
AccII	CGCG	1 cut(s)	40
AccIII	TCCGGA	2 cut(s)	88, 295
AciI	CCGC	8 cut(s)	38, 49, 69, 72, 597, 607, 624, 1080
AclWI	GGATC	6 cut(s)	99, 353, 413, 426, 880, 1219
AcoI	YGGCCR	1 cut(s)	598
AcsI	RAATTY	4 cut(s)	155, 694, 1041, 1075
AcuI	CTGAAG	1 cut(s)	690
AfaI	GTAC	4 cut(s)	118, 347, 532, 537
AflII	CTTAAG	2 cut(s)	218, 257
AgsI	TTSAA	7 cut(s)	161, 209, 589, 649, 794, 962, 1046
AluBI	AGCT	4 cut(s)	385, 490, 542, 752
AluI	AGCT	4 cut(s)	385, 490, 542, 752
Alw21I	GWGCWC	1 cut(s)	140
AlwI	GGATC	6 cut(s)	99, 353, 413, 426, 880, 1219
Aor13HI	TCCGGA	2 cut(s)	88, 295
AoxI	GGCC	1 cut(s)	598
ApeKI	GCWGC	4 cut(s)	926, 1138, 1141, 1150
ApoI	RAATTY	4 cut(s)	155, 694, 1041, 1075
Asp700I	GAANNNNTTC	1 cut(s)	1167
AspLEI	GCGC	1 cut(s)	42
AspS9I	GGNCC	1 cut(s)	278
AsuC2I	CCSGG	1 cut(s)	517
AsuHPI	GGTGA	4 cut(s)	58, 117, 323, 994
AsuNHI	GCTAGC	1 cut(s)	385
AvaII	GGWCC	1 cut(s)	278
BamHI	GGATCC	1 cut(s)	418
BbsI	GAAGAC	1 cut(s)	725
Bbv12I	GWGCWC	1 cut(s)	140
BbvI	GCAGC	4 cut(s)	913, 1150, 1153, 1162
BccI	CCATC	3 cut(s)	51, 217, 587
BceAI	ACGGC	1 cut(s)	59
BciVI	GTATCC	1 cut(s)	504
BcnI	CCSGG	1 cut(s)	517
BfaI	CTAG	3 cut(s)	363, 386, 539
BfrI	CTTAAG	2 cut(s)	218, 257
BfuI	GTATCC	1 cut(s)	504
BglI	GCCNNNNNGGC	1 cut(s)	54
BisI	GCNGC	8 cut(s)	49, 72, 598, 607, 927, 1139, 1142, 1151
BlsI	GCNGC	8 cut(s)	50, 73, 599, 608, 928, 1140, 1143, 1152
Bme1390I	CCNGG	1 cut(s)	517
Bme18I	GGWCC	1 cut(s)	278
BmgT120I	GGNCC	1 cut(s)	278
BmiI	GGNNCC	1 cut(s)	420
BmrFI	CCNGG	1 cut(s)	517
BmsI	GCATC	6 cut(s)	60, 66, 172, 252, 346, 1000
BmtI	GCTAGC	1 cut(s)	389
BpiI	GAAGAC	1 cut(s)	725
BpmI	CTGGAG	2 cut(s)	861, 1200
BpuMI	CCSGG	1 cut(s)	517
BsaBI	GATNNNNATC	1 cut(s)	617
BsaWI	WCCGGW	2 cut(s)	88, 295
BsaXI	ACNNNNNCTCC	4 cut(s)	70, 100, 859, 889
Bse1I	ACTGG	3 cut(s)	575, 601, 874
Bse8I	GATNNNNATC	1 cut(s)	617
BseAI	TCCGGA	2 cut(s)	88, 295
BseGI	GGATG	1 cut(s)	598
BseJI	GATNNNNATC	1 cut(s)	617
BseMII	CTCAG	2 cut(s)	762, 792
BseNI	ACTGG	3 cut(s)	575, 601, 874
BseRI	GAGGAG	1 cut(s)	656
BseXI	GCAGC	4 cut(s)	913, 1150, 1153, 1162
BsgI	GTGCAG	1 cut(s)	441
Bsh1236I	CGCG	1 cut(s)	40
BshFI	GGCC	1 cut(s)	600
BsiHKAI	GWGCWC	1 cut(s)	140
BsiSI	CCGG	3 cut(s)	89, 296, 516
BslFI	GGGAC	2 cut(s)	218, 1085
BsmFI	GGGAC	2 cut(s)	218, 1085
BsnI	GGCC	1 cut(s)	600
Bsp1286I	GDGCHC	1 cut(s)	140
Bsp13I	TCCGGA	2 cut(s)	88, 295
Bsp1407I	TGTACA	1 cut(s)	345
Bsp143I	GATC	7 cut(s)	91, 358, 418, 636, 872, 967, 1211
BspACI	CCGC	8 cut(s)	38, 49, 69, 72, 597, 607, 624, 1080
BspANI	GGCC	1 cut(s)	600
BspCNI	CTCAG	2 cut(s)	761, 793
BspEI	TCCGGA	2 cut(s)	88, 295
BspFNI	CGCG	1 cut(s)	40
BspLI	GGNNCC	1 cut(s)	420
BspOI	GCTAGC	1 cut(s)	389
BspPI	GGATC	6 cut(s)	99, 353, 413, 426, 880, 1219
BspTI	CTTAAG	2 cut(s)	218, 257
BsrGI	TGTACA	1 cut(s)	345
BsrI	ACTGG	3 cut(s)	575, 601, 874
BssMI	GATC	7 cut(s)	91, 358, 418, 636, 872, 967, 1211
Bst4CI	ACNGT	3 cut(s)	535, 843, 1202
BstAFI	CTTAAG	2 cut(s)	218, 257
BstAUI	TGTACA	1 cut(s)	345
BstC8I	GCNNGC	2 cut(s)	145, 387
BstDEI	CTNAG	4 cut(s)	102, 266, 748, 801
BstF5I	GGATG	1 cut(s)	598
BstFNI	CGCG	1 cut(s)	40
BstHHI	GCGC	1 cut(s)	42
BstKTI	GATC	7 cut(s)	94, 361, 421, 639, 875, 970, 1214
BstMBI	GATC	7 cut(s)	91, 358, 418, 636, 872, 967, 1211
BstSCI	CCNGG	1 cut(s)	515
BstUI	CGCG	1 cut(s)	40
BstV1I	GCAGC	4 cut(s)	913, 1150, 1153, 1162
BstV2I	GAAGAC	1 cut(s)	725
BstX2I	RGATCY	4 cut(s)	91, 418, 872, 1211
BstYI	RGATCY	4 cut(s)	91, 418, 872, 1211
BsuI	GTATCC	1 cut(s)	504
BsuRI	GGCC	1 cut(s)	600
BtgZI	GCGATG	1 cut(s)	29
BtsCI	GGATG	1 cut(s)	598
BtsIMutI	CAGTG	2 cut(s)	582, 608
Cac8I	GCNNGC	2 cut(s)	145, 387
CfoI	GCGC	1 cut(s)	42
Cfr13I	GGNCC	1 cut(s)	278
CseI	GACGC	1 cut(s)	589
Csp6I	GTAC	4 cut(s)	117, 346, 531, 536
CviJI	RGCY	8 cut(s)	106, 203, 251, 385, 490, 542, 600, 752
CviKI_1	RGCY	8 cut(s)	106, 203, 251, 385, 490, 542, 600, 752
CviQI	GTAC	4 cut(s)	117, 346, 531, 536
DdeI	CTNAG	4 cut(s)	102, 266, 748, 801
DpnI	GATC	7 cut(s)	93, 360, 420, 638, 874, 969, 1213
DpnII	GATC	7 cut(s)	91, 358, 418, 636, 872, 967, 1211
DrdI	GACNNNNNNGTC	1 cut(s)	900
DseDI	GACNNNNNNGTC	1 cut(s)	900
EaeI	YGGCCR	1 cut(s)	598
Eco47I	GGWCC	1 cut(s)	278
Eco57I	CTGAAG	1 cut(s)	690
FaqI	GGGAC	2 cut(s)	218, 1085
FauI	CCCGC	1 cut(s)	617
FblI	GTMKAC	1 cut(s)	6
Fnu4HI	GCNGC	8 cut(s)	49, 72, 598, 607, 927, 1139, 1142, 1151
FokI	GGATG	1 cut(s)	605
Fsp4HI	GCNGC	8 cut(s)	49, 72, 598, 607, 927, 1139, 1142, 1151
FspBI	CTAG	3 cut(s)	363, 386, 539
GlaI	GCGC	1 cut(s)	41
GluI	GCNGC	8 cut(s)	49, 72, 598, 607, 927, 1139, 1142, 1151
GsuI	CTGGAG	2 cut(s)	861, 1200
HaeIII	GGCC	1 cut(s)	600
HapII	CCGG	3 cut(s)	89, 296, 516
HgaI	GACGC	1 cut(s)	589
HhaI	GCGC	1 cut(s)	42
Hin6I	GCGC	1 cut(s)	40
HinP1I	GCGC	1 cut(s)	40
HincII	GTYRAC	4 cut(s)	7, 175, 666, 859
HindII	GTYRAC	4 cut(s)	7, 175, 666, 859
HinfI	GANTC	6 cut(s)	122, 130, 227, 721, 1001, 1168
HpaII	CCGG	3 cut(s)	89, 296, 516
HphI	GGTGA	4 cut(s)	58, 117, 323, 994
Hpy166II	GTNNAC	5 cut(s)	7, 175, 346, 666, 859
Hpy188I	TCNGA	5 cut(s)	96, 111, 154, 466, 726
Hpy188III	TCNNGA	8 cut(s)	89, 296, 878, 950, 1007, 1160, 1172, 1217
Hpy8I	GTNNAC	5 cut(s)	7, 175, 346, 666, 859
Hpy99I	CGWCG	1 cut(s)	11
HpyAV	CCTTC	3 cut(s)	408, 583, 721
HpyCH4III	ACNGT	3 cut(s)	535, 843, 1202
HpyCH4V	TGCA	5 cut(s)	143, 458, 929, 1013, 1055
HpyF3I	CTNAG	4 cut(s)	102, 266, 748, 801
HspAI	GCGC	1 cut(s)	40
Kpn2I	TCCGGA	2 cut(s)	88, 295
Kzo9I	GATC	7 cut(s)	91, 358, 418, 636, 872, 967, 1211
Lsp1109I	GCAGC	4 cut(s)	913, 1150, 1153, 1162
LweI	GCATC	6 cut(s)	60, 66, 172, 252, 346, 1000
MaeI	CTAG	3 cut(s)	363, 386, 539
MaeIII	GTNAC	4 cut(s)	76, 577, 796, 1123
MalI	GATC	7 cut(s)	93, 360, 420, 638, 874, 969, 1213
MboI	GATC	7 cut(s)	91, 358, 418, 636, 872, 967, 1211
MboII	GAAGA	9 cut(s)	683, 691, 730, 794, 929, 974, 977, 1118, 1235
MfeI	CAATTG	2 cut(s)	632, 930
MflI	RGATCY	4 cut(s)	91, 418, 872, 1211
MhlI	GDGCHC	1 cut(s)	140
MlyI	GAGTC	1 cut(s)	715
MmeI	TCCRAC	1 cut(s)	391
MnlI	CCTC	9 cut(s)	117, 241, 247, 301, 424, 634, 646, 813, 1168
MroI	TCCGGA	2 cut(s)	88, 295
MroXI	GAANNNNTTC	1 cut(s)	1167
MseI	TTAA	6 cut(s)	219, 258, 480, 1032, 1119, 1243
MspA1I	CMGCKG	1 cut(s)	1082
MspCI	CTTAAG	2 cut(s)	218, 257
MspI	CCGG	3 cut(s)	89, 296, 516
MspR9I	CCNGG	1 cut(s)	517
MunI	CAATTG	2 cut(s)	632, 930
MvnI	CGCG	1 cut(s)	40
NciI	CCSGG	1 cut(s)	517
NdeII	GATC	7 cut(s)	91, 358, 418, 636, 872, 967, 1211
NheI	GCTAGC	1 cut(s)	385
NlaIV	GGNNCC	1 cut(s)	420
NmuCI	GTSAC	4 cut(s)	76, 577, 796, 1123
PdmI	GAANNNNTTC	1 cut(s)	1167
PfeI	GAWTC	5 cut(s)	122, 130, 227, 1001, 1168
PkrI	GCNGC	8 cut(s)	50, 73, 599, 608, 928, 1140, 1143, 1152
PleI	GAGTC	1 cut(s)	715
PpsI	GAGTC	1 cut(s)	715
PspN4I	GGNNCC	1 cut(s)	420
PspPI	GGNCC	1 cut(s)	278
PsuI	RGATCY	4 cut(s)	91, 418, 872, 1211
RsaI	GTAC	4 cut(s)	118, 347, 532, 537
RsaNI	GTAC	4 cut(s)	117, 346, 531, 536
SalI	GTCGAC	1 cut(s)	5
SaqAI	TTAA	6 cut(s)	219, 258, 480, 1032, 1119, 1243
SatI	GCNGC	8 cut(s)	49, 72, 598, 607, 927, 1139, 1142, 1151
Sau3AI	GATC	7 cut(s)	91, 358, 418, 636, 872, 967, 1211
Sau96I	GGNCC	1 cut(s)	278
SchI	GAGTC	1 cut(s)	715
ScrFI	CCNGG	1 cut(s)	517
SduI	GDGCHC	1 cut(s)	140
SfaNI	GCATC	6 cut(s)	60, 66, 172, 252, 346, 1000
SinI	GGWCC	1 cut(s)	278
SmlI	CTYRAG	2 cut(s)	218, 257
SmoI	CTYRAG	2 cut(s)	218, 257
SsiI	CCGC	8 cut(s)	38, 49, 69, 72, 597, 607, 624, 1080
SspMI	CTAG	3 cut(s)	363, 386, 539
StyD4I	CCNGG	1 cut(s)	515
TaaI	ACNGT	3 cut(s)	535, 843, 1202
TaqI	TCGA	3 cut(s)	6, 639, 1171
TatI	WGTACW	1 cut(s)	345
TauI	GCSGC	4 cut(s)	51, 74, 600, 609
TfiI	GAWTC	5 cut(s)	122, 130, 227, 1001, 1168
Tru1I	TTAA	6 cut(s)	219, 258, 480, 1032, 1119, 1243
Tru9I	TTAA	6 cut(s)	219, 258, 480, 1032, 1119, 1243
TscAI	CASTG	2 cut(s)	582, 608
TseFI	GTSAC	4 cut(s)	76, 577, 796, 1123
TseI	GCWGC	4 cut(s)	926, 1138, 1141, 1150
Tsp45I	GTSAC	4 cut(s)	76, 577, 796, 1123
TspDTI	ATGAA	7 cut(s)	183, 292, 408, 607, 777, 1236, 1245
TspGWI	ACGGA	2 cut(s)	24, 220
TspRI	CASTG	2 cut(s)	582, 608
Vha464I	CTTAAG	2 cut(s)	218, 257
VpaK11BI	GGWCC	1 cut(s)	278
XapI	RAATTY	4 cut(s)	155, 694, 1041, 1075
XmiI	GTMKAC	1 cut(s)	6
XmnI	GAANNNNTTC	1 cut(s)	1167
XspI	CTAG	3 cut(s)	363, 386, 539

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