Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4A

Orthogroup ID

OG0013844

Physical Location & Seq

Genomic Coordinates Forward (+)

58666131 .. 58669518

Gene Structure 3388 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4AG270200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 894 bp

ATGGCGCGGAAGAAGATCAGAGAGTACGATTCGAAGAGACTGCTGAAGCAGCACTTGAAGCGAGTAGCCGGAATCGACCTCCAGATCAACTCGGCTCAGGTGACGGAGGCGACCGACTTCACCGAATTGGCCAACAACGAGACATGGCTTTCGTCGACCAGACTCGTCGTCAAGCCGGACATGCTGTTCGGGAAGCGCGGGAAGAGTGGCCTCGTCGCGCTCAATTTGGACATGGCTCAGGTCGCCGACTTCGTCAAGCAGCGTCTCGGTAAGGAGGTTGAGATGGGAGGGTGTAAGGCGCCTATAACGACGTTTATAGTGGAGCCGTTTATGCCTCATGATCAAGAGTTTTACCTCTCGATTGTATCCGAAAGGCTCGGGAGCACGATAAGCTTTTCGGAGTGTGGAGGTATTGAGATTGAAGAGAATTGGGACAAGGTCAAGACTATTTTTCTTCCAACTGAGAAGTCTATGACGAATGAGGCTTGTGCTCCGCTGATTGCTACTCTTCCACTGGAGGTCAAGGAGAAAATTGGAGATTTCATAAAAGCCGTATTTGCTGTATTTCAGGATTTGGATTTTAGCTTCCTGGAAATGAACCCGTTTACCTTGGTTAATGGTGAACCTTTTCCATTAGATATGAGGGGGGAGCTAGATGACACTGCGGCTTTCAAGAACTTCAACAAATGGGGTAATGTGGAGTTTCCACTGCCTTTTGGCAGAGTTTTAAGTCCAACAGAAACATTTATTCATACTTTGGATGAAAAGACAAGTGCGTCCTTAAAATTCACAGTGCTGAATCCAAAAGGACGCATCTGGACCATGGTAGCTGGAGGTGGTGCAAGCGTTATTTATGCTGATACTGTGAGTAGCTTGTTATACTTTAGAGTGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003824 GO:0003878 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005829 GO:0006082 GO:0006084 GO:0006085 GO:0006139 GO:0006163 GO:0006164 GO:0006629 GO:0006631 GO:0006633 GO:0006637 GO:0006725 GO:0006732 GO:0006753 GO:0006790 GO:0006793 GO:0006796 GO:0006807 GO:0008150 GO:0008152 GO:0008610 GO:0009058 GO:0009108 GO:0009117 GO:0009150 GO:0009152 GO:0009165 GO:0009259 GO:0009260 GO:0009346 GO:0009987 GO:0016053 GO:0016740 GO:0016746 GO:0018130 GO:0019438 GO:0019637 GO:0019693 GO:0019752 GO:0032787 GO:0032991 GO:0033865 GO:0033866 GO:0033875 GO:0034030 GO:0034032 GO:0034033 GO:0034641 GO:0034654 GO:0035383 GO:0035384 GO:0043436 GO:0043603 GO:0043604 GO:0044237 GO:0044238 GO:0044249 GO:0044255 GO:0044271 GO:0044272 GO:0044281 GO:0044283 GO:0044424 GO:0044444 GO:0044464 GO:0046390 GO:0046394 GO:0046483 GO:0046912 GO:0051186 GO:0051188 GO:0055086 GO:0071616 GO:0071704 GO:0072330 GO:0072521 GO:0072522 GO:0090407 GO:1901135 GO:1901137 GO:1901293 GO:1901360 GO:1901362 GO:1901564 GO:1901566 GO:1901576

KEGG Pathways

Metabolic & Signaling

ko00020 ko00720 ko01100 ko01110 ko01120 ko01130 map00020 map00720 map01100 map01110 map01120 map01130

Pfam Domains

Protein Families

ATP-grasp_2 Citrate_bind

Protein Analysis

297

Amino Acids

33.27

Weight (kDa)

5.45

Isoelectric Point (pI)

34.73

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Citrate_synth_N	PF24948	2 - 230	1.4e-74	ATP-citrate synthase ATP-grasp domain
ATP-grasp_2	PF08442	6 - 203	2.2e-18	ATP-grasp domain
Citrate_bind	PF16114	241 - 292	5.7e-22	ATP citrate lyase citrate-binding

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: OG0013844)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G09430
fragaria_vesca	FvH4_4g21220
malus_domestica	MD13G1143800.v1.1
prunus_persica	Prupe.1G108300_v2.0.a1 Prupe.6G110400_v2.0.a1
pyrus_communis	pycom13g12470
rosa_chinensis	RchiOBHm_Chr4g0426831
rosa_laevigata	RLG00000007274
rosa_multiflora	Rmu_sc0000953.1_g000013 Rmu_sc0004341.1_g000006
rosa_roxburghii	Rroxscaffold_5G00368800
rosa_rugosa	Rorug04G0215200
rosa_samantha	Rh4AG270200 Rh4BG276500 Rh4CG291300 Rh4DG273800
rosa_wichuraiana	Rw4G023450

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	775
AccB1I	GGYRCC	1 cut(s)	298
AccI	GTMKAC	1 cut(s)	155
AccII	CGCG	3 cut(s)	7, 198, 218
AciI	CCGC	4 cut(s)	7, 198, 494, 665
AcoI	YGGCCR	1 cut(s)	129
AcsI	RAATTY	1 cut(s)	785
AcuI	CTGAAG	1 cut(s)	65
AcyI	GRCGYC	1 cut(s)	299
AfaI	GTAC	1 cut(s)	26
AgsI	TTSAA	4 cut(s)	58, 422, 673, 682
AhdI	GACNNNNNGTC	1 cut(s)	167
AjnI	CCWGG	1 cut(s)	588
AloI	GAACNNNNNNTCC	2 cut(s)	170, 202
AluBI	AGCT	5 cut(s)	393, 585, 652, 830, 873
AluI	AGCT	5 cut(s)	393, 585, 652, 830, 873
Alw21I	GWGCWC	2 cut(s)	386, 493
Alw26I	GTCTC	3 cut(s)	31, 134, 269
Ama87I	CYCGRG	1 cut(s)	377
AoxI	GGCC	2 cut(s)	129, 208
ApeKI	GCWGC	2 cut(s)	49, 259
ApoI	RAATTY	1 cut(s)	785
ArsI	GACNNNNNNTTYG	4 cut(s)	133, 165, 170, 202
Asp700I	GAANNNNTTC	1 cut(s)	627
AspLEI	GCGC	4 cut(s)	7, 198, 220, 301
AspS9I	GGNCC	1 cut(s)	819
AsuHPI	GGTGA	3 cut(s)	112, 112, 632
AsuII	TTCGAA	1 cut(s)	32
AvaI	CYCGRG	1 cut(s)	377
AvaII	GGWCC	1 cut(s)	819
BalI	TGGCCA	1 cut(s)	131
BanI	GGYRCC	1 cut(s)	298
Bbv12I	GWGCWC	2 cut(s)	386, 493
BbvI	GCAGC	2 cut(s)	61, 271
BccI	CCATC	1 cut(s)	277
BceAI	ACGGC	2 cut(s)	310, 536
BcgI	CGANNNNNNTGC	2 cut(s)	22, 56
BciT130I	CCWGG	1 cut(s)	590
BciVI	GTATCC	1 cut(s)	376
BclI	TGATCA	1 cut(s)	340
BcoDI	GTCTC	3 cut(s)	31, 134, 269
BfaI	CTAG	1 cut(s)	653
BfoI	RGCGCY	1 cut(s)	302
BfuI	GTATCC	1 cut(s)	376
BisI	GCNGC	3 cut(s)	50, 260, 666
BlsI	GCNGC	3 cut(s)	51, 261, 667
Bme1390I	CCNGG	1 cut(s)	590
Bme18I	GGWCC	1 cut(s)	819
BmeRI	GACNNNNNGTC	1 cut(s)	167
BmeT110I	CYCGRG	1 cut(s)	377
BmgT120I	GGNCC	1 cut(s)	819
BmiI	GGNNCC	2 cut(s)	300, 324
BmrFI	CCNGG	1 cut(s)	590
BmsI	GCATC	1 cut(s)	822
BpmI	CTGGAG	3 cut(s)	65, 536, 852
Bpu10I	CCTNAGC	2 cut(s)	96, 237
Bpu14I	TTCGAA	1 cut(s)	32
BsaHI	GRCGYC	1 cut(s)	299
BsaJI	CCNNGG	2 cut(s)	609, 822
Bse1I	ACTGG	1 cut(s)	519
BseBI	CCWGG	1 cut(s)	590
BseDI	CCNNGG	2 cut(s)	609, 822
BseGI	GGATG	1 cut(s)	766
BseMII	CTCAG	3 cut(s)	110, 251, 453
BseNI	ACTGG	1 cut(s)	519
BseXI	GCAGC	2 cut(s)	61, 271
Bsh1236I	CGCG	3 cut(s)	7, 198, 218
Bsh1285I	CGRYCG	1 cut(s)	114
BshFI	GGCC	2 cut(s)	131, 210
BshNI	GGYRCC	1 cut(s)	298
BsiEI	CGRYCG	1 cut(s)	114
BsiHKAI	GWGCWC	2 cut(s)	386, 493
BsiHKCI	CYCGRG	1 cut(s)	377
BsiSI	CCGG	2 cut(s)	69, 176
BslFI	GGGAC	1 cut(s)	446
BsmAI	GTCTC	3 cut(s)	31, 134, 269
BsmBI	CGTCTC	1 cut(s)	269
BsmFI	GGGAC	1 cut(s)	446
BsnI	GGCC	2 cut(s)	131, 210
BsoBI	CYCGRG	1 cut(s)	377
Bsp119I	TTCGAA	1 cut(s)	32
Bsp1286I	GDGCHC	2 cut(s)	386, 493
Bsp143I	GATC	3 cut(s)	15, 84, 340
Bsp19I	CCATGG	1 cut(s)	822
BspACI	CCGC	4 cut(s)	7, 198, 494, 665
BspANI	GGCC	2 cut(s)	131, 210
BspCNI	CTCAG	3 cut(s)	109, 250, 454
BspFNI	CGCG	3 cut(s)	7, 198, 218
BspHI	TCATGA	1 cut(s)	337
BspLI	GGNNCC	2 cut(s)	300, 324
BspT104I	TTCGAA	1 cut(s)	32
BspT107I	GGYRCC	1 cut(s)	298
BsrI	ACTGG	1 cut(s)	519
BssECI	CCNNGG	2 cut(s)	609, 822
BssMI	GATC	3 cut(s)	15, 84, 340
BssNI	GRCGYC	1 cut(s)	299
BssT1I	CCWWGG	2 cut(s)	609, 822
Bst2UI	CCWGG	1 cut(s)	590
Bst4CI	ACNGT	2 cut(s)	793, 865
Bst6I	CTCTTC	4 cut(s)	29, 197, 417, 513
BstACI	GRCGYC	1 cut(s)	299
BstBI	TTCGAA	1 cut(s)	32
BstC8I	GCNNGC	1 cut(s)	844
BstDEI	CTNAG	3 cut(s)	96, 237, 462
BstDSI	CCRYGG	1 cut(s)	822
BstF5I	GGATG	1 cut(s)	766
BstFNI	CGCG	3 cut(s)	7, 198, 218
BstH2I	RGCGCY	1 cut(s)	302
BstHHI	GCGC	4 cut(s)	7, 198, 220, 301
BstKTI	GATC	3 cut(s)	18, 87, 343
BstMAI	GTCTC	3 cut(s)	31, 134, 269
BstMBI	GATC	3 cut(s)	15, 84, 340
BstMCI	CGRYCG	1 cut(s)	114
BstMWI	GCNNNNNNNGC	7 cut(s)	49, 58, 181, 242, 331, 390, 557
BstNI	CCWGG	1 cut(s)	590
BstNSI	RCATGY	1 cut(s)	184
BstSCI	CCNGG	1 cut(s)	588
BstUI	CGCG	3 cut(s)	7, 198, 218
BstV1I	GCAGC	2 cut(s)	61, 271
BsuI	GTATCC	1 cut(s)	376
BsuRI	GGCC	2 cut(s)	131, 210
BtgI	CCRYGG	1 cut(s)	822
BtsCI	GGATG	1 cut(s)	766
BtsI	GCAGTG	2 cut(s)	660, 707
BtsIMutI	CAGTG	4 cut(s)	512, 660, 707, 798
Cac8I	GCNNGC	1 cut(s)	844
CciI	TCATGA	1 cut(s)	337
CfoI	GCGC	4 cut(s)	7, 198, 220, 301
Cfr13I	GGNCC	1 cut(s)	819
CseI	GACGC	3 cut(s)	251, 765, 819
Csp6I	GTAC	1 cut(s)	25
CviAII	CATG	5 cut(s)	144, 181, 232, 338, 823
CviQI	GTAC	1 cut(s)	25
DdeI	CTNAG	3 cut(s)	96, 237, 462
DinI	GGCGCC	1 cut(s)	300
DpnI	GATC	3 cut(s)	17, 86, 342
DpnII	GATC	3 cut(s)	15, 84, 340
DrdI	GACNNNNNNGTC	1 cut(s)	775
DriI	GACNNNNNGTC	1 cut(s)	167
DseDI	GACNNNNNNGTC	1 cut(s)	775
EaeI	YGGCCR	1 cut(s)	129
Eam1104I	CTCTTC	4 cut(s)	29, 197, 417, 513
Eam1105I	GACNNNNNGTC	1 cut(s)	167
EarI	CTCTTC	4 cut(s)	29, 197, 417, 513
Eco130I	CCWWGG	2 cut(s)	609, 822
Eco47I	GGWCC	1 cut(s)	819
Eco57I	CTGAAG	1 cut(s)	65
Eco88I	CYCGRG	1 cut(s)	377
EcoRII	CCWGG	1 cut(s)	588
EcoT14I	CCWWGG	2 cut(s)	609, 822
EgeI	GGCGCC	1 cut(s)	300
EheI	GGCGCC	1 cut(s)	300
ErhI	CCWWGG	2 cut(s)	609, 822
Esp3I	CGTCTC	1 cut(s)	269
FaeI	CATG	5 cut(s)	147, 184, 235, 341, 826
FalI	AAGNNNNNCTT	2 cut(s)	38, 70
FaqI	GGGAC	1 cut(s)	446
FatI	CATG	5 cut(s)	143, 180, 231, 337, 822
FauI	CCCGC	1 cut(s)	191
FbaI	TGATCA	1 cut(s)	340
FblI	GTMKAC	1 cut(s)	155
Fnu4HI	GCNGC	3 cut(s)	50, 260, 666
FokI	GGATG	1 cut(s)	773
Fsp4HI	GCNGC	3 cut(s)	50, 260, 666
FspBI	CTAG	1 cut(s)	653
GlaI	GCGC	4 cut(s)	6, 197, 219, 300
GluI	GCNGC	3 cut(s)	50, 260, 666
GsuI	CTGGAG	3 cut(s)	65, 536, 852
HaeII	RGCGCY	1 cut(s)	302
HaeIII	GGCC	2 cut(s)	131, 210
HapII	CCGG	2 cut(s)	69, 176
HgaI	GACGC	3 cut(s)	251, 765, 819
HhaI	GCGC	4 cut(s)	7, 198, 220, 301
Hin1I	GRCGYC	1 cut(s)	299
Hin1II	CATG	5 cut(s)	147, 184, 235, 341, 826
Hin6I	GCGC	4 cut(s)	5, 196, 218, 299
HinP1I	GCGC	4 cut(s)	5, 196, 218, 299
HincII	GTYRAC	1 cut(s)	156
HindII	GTYRAC	1 cut(s)	156
HindIII	AAGCTT	1 cut(s)	391
HinfI	GANTC	4 cut(s)	29, 72, 162, 799
HpaII	CCGG	2 cut(s)	69, 176
HphI	GGTGA	3 cut(s)	112, 112, 632
Hpy166II	GTNNAC	3 cut(s)	156, 606, 623
Hpy188I	TCNGA	3 cut(s)	20, 370, 400
Hpy8I	GTNNAC	3 cut(s)	156, 606, 623
Hpy99I	CGWCG	4 cut(s)	157, 170, 218, 313
HpyCH4III	ACNGT	2 cut(s)	793, 865
HpyCH4IV	ACGT	1 cut(s)	311
HpyCH4V	TGCA	1 cut(s)	842
HpyF10VI	GCNNNNNNNGC	7 cut(s)	49, 58, 181, 242, 331, 390, 557
HpyF3I	CTNAG	3 cut(s)	96, 237, 462
HpySE526I	ACGT	1 cut(s)	311
Hsp92I	GRCGYC	1 cut(s)	299
Hsp92II	CATG	5 cut(s)	147, 184, 235, 341, 826
HspAI	GCGC	4 cut(s)	5, 196, 218, 299
KasI	GGCGCC	1 cut(s)	298
Ksp22I	TGATCA	1 cut(s)	340
Kzo9I	GATC	3 cut(s)	15, 84, 340
LmnI	GCTCC	4 cut(s)	322, 381, 496, 649
Lsp1109I	GCAGC	2 cut(s)	61, 271
LweI	GCATC	1 cut(s)	822
MaeI	CTAG	1 cut(s)	653
MaeII	ACGT	1 cut(s)	311
MaeIII	GTNAC	1 cut(s)	100
MalI	GATC	3 cut(s)	17, 86, 342
MboI	GATC	3 cut(s)	15, 84, 340
MboII	GAAGA	7 cut(s)	22, 25, 46, 214, 434, 446, 500
MhlI	GDGCHC	2 cut(s)	386, 493
MlsI	TGGCCA	1 cut(s)	131
MluCI	AATT	5 cut(s)	125, 223, 427, 531, 785
MluNI	TGGCCA	1 cut(s)	131
Mly113I	GGCGCC	1 cut(s)	299
MlyI	GAGTC	1 cut(s)	156
MmeI	TCCRAC	2 cut(s)	482, 758
Mox20I	TGGCCA	1 cut(s)	131
MroXI	GAANNNNTTC	1 cut(s)	627
MscI	TGGCCA	1 cut(s)	131
MseI	TTAA	3 cut(s)	615, 728, 782
Msp20I	TGGCCA	1 cut(s)	131
MspA1I	CMGCKG	1 cut(s)	496
MspI	CCGG	2 cut(s)	69, 176
MspR9I	CCNGG	1 cut(s)	590
MvaI	CCWGG	1 cut(s)	590
MvnI	CGCG	3 cut(s)	7, 198, 218
MwoI	GCNNNNNNNGC	7 cut(s)	49, 58, 181, 242, 331, 390, 557
NarI	GGCGCC	1 cut(s)	299
NcoI	CCATGG	1 cut(s)	822
NdeII	GATC	3 cut(s)	15, 84, 340
NlaIII	CATG	5 cut(s)	147, 184, 235, 341, 826
NlaIV	GGNNCC	2 cut(s)	300, 324
NmeAIII	GCCGAG	1 cut(s)	71
NmuCI	GTSAC	1 cut(s)	100
NspI	RCATGY	1 cut(s)	184
NspV	TTCGAA	1 cut(s)	32
PagI	TCATGA	1 cut(s)	337
PcsI	WCGNNNNNNNCGW	1 cut(s)	249
PdmI	GAANNNNTTC	1 cut(s)	627
PfeI	GAWTC	3 cut(s)	29, 72, 799
PflFI	GACNNNGTC	2 cut(s)	251, 437
PfoI	TCCNGGA	1 cut(s)	588
PkrI	GCNGC	3 cut(s)	51, 261, 667
PleI	GAGTC	1 cut(s)	156
PluTI	GGCGCC	1 cut(s)	302
PpsI	GAGTC	1 cut(s)	156
Psp6I	CCWGG	1 cut(s)	588
PspGI	CCWGG	1 cut(s)	588
PspN4I	GGNNCC	2 cut(s)	300, 324
PspPI	GGNCC	1 cut(s)	819
PsyI	GACNNNGTC	2 cut(s)	251, 437
RsaI	GTAC	1 cut(s)	26
RsaNI	GTAC	1 cut(s)	25
SalI	GTCGAC	1 cut(s)	154
SaqAI	TTAA	3 cut(s)	615, 728, 782
SatI	GCNGC	3 cut(s)	50, 260, 666
Sau3AI	GATC	3 cut(s)	15, 84, 340
Sau96I	GGNCC	1 cut(s)	819
SchI	GAGTC	1 cut(s)	156
ScrFI	CCNGG	1 cut(s)	590
SduI	GDGCHC	2 cut(s)	386, 493
SfaNI	GCATC	1 cut(s)	822
SfoI	GGCGCC	1 cut(s)	300
SfuI	TTCGAA	1 cut(s)	32
SinI	GGWCC	1 cut(s)	819
Sse9I	AATT	5 cut(s)	125, 223, 427, 531, 785
SsiI	CCGC	4 cut(s)	7, 198, 494, 665
SspDI	GGCGCC	1 cut(s)	298
SspMI	CTAG	1 cut(s)	653
StyD4I	CCNGG	1 cut(s)	588
StyI	CCWWGG	2 cut(s)	609, 822
TaaI	ACNGT	2 cut(s)	793, 865
TaiI	ACGT	1 cut(s)	314
TaqI	TCGA	4 cut(s)	32, 75, 155, 359
TaqII	GACCGA	1 cut(s)	128
TasI	AATT	5 cut(s)	125, 223, 427, 531, 785
TauI	GCSGC	1 cut(s)	668
TfiI	GAWTC	3 cut(s)	29, 72, 799
Tru1I	TTAA	3 cut(s)	615, 728, 782
Tru9I	TTAA	3 cut(s)	615, 728, 782
TscAI	CASTG	4 cut(s)	519, 667, 714, 798
TseFI	GTSAC	1 cut(s)	100
TseI	GCWGC	2 cut(s)	49, 259
Tsp45I	GTSAC	1 cut(s)	100
TspDTI	ATGAA	4 cut(s)	532, 611, 740, 777
TspGWI	ACGGA	1 cut(s)	119
TspRI	CASTG	4 cut(s)	519, 667, 714, 798
Tth111I	GACNNNGTC	2 cut(s)	251, 437
VpaK11BI	GGWCC	1 cut(s)	819
XapI	RAATTY	1 cut(s)	785
XceI	RCATGY	1 cut(s)	184
XmiI	GTMKAC	1 cut(s)	155
XmnI	GAANNNNTTC	1 cut(s)	627
XspI	CTAG	1 cut(s)	653

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