Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4C

Orthogroup ID

OG0002735

Physical Location & Seq

Genomic Coordinates Forward (+)

66261168 .. 66265945

Gene Structure 4778 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4CG418100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1092 bp

ATGGCACGCAAGAAGATCCGAGAGTACGACTCCAAGAGGTTGTTGAAGGAACACTTCAAGAGGATCGCTGGCCGTGAATTGCCTCTCAAATCTGCCCAGATTACCGAATCAACTGATTTCAATGAGCTACTTGAGAAGGAGACTTGGCTCTCTACTTCCAAGTTGGTTGTCAAGCCTGACATGTTGTTTGGAAAGCGTGGGAAGAGTGGTTTGGTTGCCTTGAACCTGGATTTCGCTCAAGTCGCCACCTTTGTGAAGGAGCGCCTAGGCAAAGAGGTTGAGATGGGTGGCTGCAAAGGACCCATCACAACATTCATTGTCGAGCCCTTCATTCCCCACAATGAAGAGTTTTACATTAACATCGTCTCAGATAGACTTGGGAATAGCATAAGCTTCTCAGAGTGTGGAGGAATTGACATTGAGGAGAACTGGGATAAGGTCAAGACCATATTTGTCCCAACAGGAGCTTCCCTTACACCAGATGTATCTGCTCCACTTGTTGCAACCCTTCCCTTGGAGATTAAGAGCGAAATTGAGGAGTTTATCAAGTCCGTATTTGCTCTATTTCAAGATCTCGACTTCACTTTTCTGGAGATGAATCCTTTTGCATTGGTTGATGGAAAGCCATATCCTTTGGATATGAGAGGCGAGCTGGATGACACTGCTGCTTTCAAGAACTTCAAAAAGTGGGGCAATATTGAATTTCCAATGCCATTTGGAAGAGTTATGAGTTCGACAGAAAAGTTTATTCACGGGCTAGATGAAAAGACAAGTGCATCTTTGAAATTTACAGTTCTGAACCCTAAGGGACGAATTTGGACTATGGTTGCTGGAGGAGGTGCAAGTGTTATTTACGCAGACACGGTTGGTGATCTTGGCTTTGCTAATGAGCTCGGAAACTATGCTGAATATAGTGGAGCACCAAATGAAGAGGAGGTATTGCAGTATGCCAGAGTTGTGATTGATTGTGCAACTTCTGATCCTGATGGCCGTAAGAGAGCCCTTGTAATTGGAGGGGGAATTGCTAACTTCACTGATGTAGCTGCAACATTCAATGGCATCATTAGAGCCTTGAAGGAGAAGGTGAGCTAA

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

363

Amino Acids

40.19

Weight (kDa)

5.25

Isoelectric Point (pI)

31.16

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Citrate_synth_N	PF24948	2 - 230	3.4e-75	ATP-citrate synthase ATP-grasp domain
ATP-grasp_2	PF08442	6 - 203	3.1e-17	ATP-grasp domain
Citrate_bind	PF16114	241 - 361	3.2e-58	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)

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Publication-ready

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Orthologous Genes (Group: OG0002735)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G10670 AT1G10670 AT1G10670 AT1G10670 AT1G60810 AT1G60810
fragaria_vesca	FvH4_4g32950 FvH4_4g32950 FvH4_4g32950
malus_domestica	MD13G1095200.v1.1 MD16G1096300.v1.1
prunus_persica	Prupe.1G250100_v2.0.a1 Prupe.1G250100_v2.0.a1
pyrus_communis	pycom05g10590 pycom13g08300 pycom16g08220
rosa_chinensis	RchiOBHm_Chr4g0441981 RchiOBHm_Chr7g0181761
rosa_laevigata	RLG00000006053 RLG00000018726
rosa_multiflora	Rmu_co8081680.1_g000001 Rmu_sc0000905.1_g000020
rosa_roxburghii	Rroxscaffold_1G00051200 Rroxscaffold_5G00359300 Rroxscaffold_5G00382850
rosa_rugosa	Rorug04G0337500 Rorug04G0337500 Rorug04G0337500
rosa_samantha	Rh2BG270200 Rh4AG389500 Rh4BG402900 Rh4CG418100 Rh4DG118600 Rh4DG396000 Rh7AG279300 Rh7CG298400 Rh7DG045400
rosa_wichuraiana	Rw4G033630 Rw6G021030

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AclWI	GGATC	3 cut(s)	10, 71, 974
AcoI	YGGCCR	2 cut(s)	70, 988
AcsI	RAATTY	3 cut(s)	701, 785, 813
AfaI	GTAC	1 cut(s)	26
AfiI	CCNNNNNNNGG	1 cut(s)	514
AflIII	ACRYGT	1 cut(s)	180
AjnI	CCWGG	1 cut(s)	225
AjuI	GAANNNNNNNTTGG	4 cut(s)	194, 226, 451, 483
AleI	CACNNNNGTG	1 cut(s)	251
AluBI	AGCT	7 cut(s)	127, 393, 467, 652, 892, 1043, 1089
AluI	AGCT	7 cut(s)	127, 393, 467, 652, 892, 1043, 1089
Alw21I	GWGCWC	2 cut(s)	894, 922
Alw26I	GTCTC	2 cut(s)	134, 370
AlwI	GGATC	3 cut(s)	10, 71, 974
AoxI	GGCC	2 cut(s)	70, 988
ApeKI	GCWGC	3 cut(s)	291, 665, 1043
ApoI	RAATTY	3 cut(s)	701, 785, 813
ArsI	GACNNNNNNTTYG	2 cut(s)	170, 202
AspA2I	CCTAGG	1 cut(s)	265
AspLEI	GCGC	1 cut(s)	264
AspS9I	GGNCC	1 cut(s)	299
AsuHPI	GGTGA	1 cut(s)	881
AvaII	GGWCC	1 cut(s)	299
AvrII	CCTAGG	1 cut(s)	265
AxyI	CCTNAGG	1 cut(s)	804
BanII	GRGCYC	3 cut(s)	327, 894, 1003
Bbv12I	GWGCWC	2 cut(s)	894, 922
BbvI	GCAGC	3 cut(s)	278, 652, 1030
BccI	CCATC	4 cut(s)	277, 311, 611, 980
BceAI	ACGGC	2 cut(s)	57, 975
BciT130I	CCWGG	1 cut(s)	227
BcoDI	GTCTC	2 cut(s)	134, 370
BfaI	CTAG	2 cut(s)	266, 758
BfoI	RGCGCY	1 cut(s)	265
BglII	AGATCT	1 cut(s)	571
BisI	GCNGC	3 cut(s)	292, 666, 1044
BlnI	CCTAGG	1 cut(s)	265
BlsI	GCNGC	3 cut(s)	293, 667, 1045
Bme1390I	CCNGG	1 cut(s)	227
Bme18I	GGWCC	1 cut(s)	299
BmgT120I	GGNCC	1 cut(s)	299
BmiI	GGNNCC	1 cut(s)	301
BmrFI	CCNGG	1 cut(s)	227
BmrI	ACTGGG	1 cut(s)	439
BmsI	GCATC	2 cut(s)	785, 1068
BmuI	ACTGGG	1 cut(s)	439
BplI	GAGNNNNNCTC	2 cut(s)	14, 46
BpmI	CTGGAG	2 cut(s)	611, 852
BpuEI	CTTGAG	2 cut(s)	152, 222
BsaJI	CCNNGG	2 cut(s)	265, 513
Bsc4I	CCNNNNNNNGG	1 cut(s)	514
Bse1I	ACTGG	1 cut(s)	434
Bse21I	CCTNAGG	1 cut(s)	804
BseBI	CCWGG	1 cut(s)	227
BseDI	CCNNGG	2 cut(s)	265, 513
BseGI	GGATG	1 cut(s)	661
BseLI	CCNNNNNNNGG	1 cut(s)	514
BseMII	CTCAG	2 cut(s)	381, 411
BseNI	ACTGG	1 cut(s)	434
BseRI	GAGGAG	4 cut(s)	437, 551, 849, 947
BseXI	GCAGC	3 cut(s)	278, 652, 1030
BshFI	GGCC	2 cut(s)	72, 990
BsiHKAI	GWGCWC	2 cut(s)	894, 922
BslFI	GGGAC	2 cut(s)	440, 822
BslI	CCNNNNNNNGG	1 cut(s)	514
BsmAI	GTCTC	2 cut(s)	134, 370
BsmBI	CGTCTC	1 cut(s)	370
BsmFI	GGGAC	2 cut(s)	440, 822
BsnI	GGCC	2 cut(s)	72, 990
Bsp1286I	GDGCHC	4 cut(s)	327, 894, 922, 1003
Bsp143I	GATC	5 cut(s)	15, 63, 571, 871, 979
BspANI	GGCC	2 cut(s)	72, 990
BspCNI	CTCAG	2 cut(s)	380, 410
BspLI	GGNNCC	1 cut(s)	301
BspPI	GGATC	3 cut(s)	10, 71, 974
BsrI	ACTGG	1 cut(s)	434
BssECI	CCNNGG	2 cut(s)	265, 513
BssMI	GATC	5 cut(s)	15, 63, 571, 871, 979
BssT1I	CCWWGG	2 cut(s)	265, 513
Bst2UI	CCWGG	1 cut(s)	227
Bst4CI	ACNGT	2 cut(s)	793, 865
Bst6I	CTCTTC	4 cut(s)	197, 339, 715, 924
BstC8I	GCNNGC	3 cut(s)	7, 70, 650
BstDEI	CTNAG	3 cut(s)	367, 397, 804
BstF5I	GGATG	1 cut(s)	661
BstH2I	RGCGCY	1 cut(s)	265
BstHHI	GCGC	1 cut(s)	264
BstKTI	GATC	5 cut(s)	18, 66, 574, 874, 982
BstMAI	GTCTC	2 cut(s)	134, 370
BstMBI	GATC	5 cut(s)	15, 63, 571, 871, 979
BstMWI	GCNNNNNNNGC	1 cut(s)	242
BstNI	CCWGG	1 cut(s)	227
BstNSI	RCATGY	1 cut(s)	184
BstSCI	CCNGG	1 cut(s)	225
BstV1I	GCAGC	3 cut(s)	278, 652, 1030
BstX2I	RGATCY	2 cut(s)	15, 571
BstYI	RGATCY	2 cut(s)	15, 571
Bsu36I	CCTNAGG	1 cut(s)	804
BsuRI	GGCC	2 cut(s)	72, 990
BtsCI	GGATG	1 cut(s)	661
BtsI	GCAGTG	1 cut(s)	660
BtsIMutI	CAGTG	2 cut(s)	660, 1032
Cac8I	GCNNGC	3 cut(s)	7, 70, 650
CfoI	GCGC	1 cut(s)	264
Cfr13I	GGNCC	1 cut(s)	299
Csp6I	GTAC	1 cut(s)	25
CviAII	CATG	1 cut(s)	181
CviQI	GTAC	1 cut(s)	25
DdeI	CTNAG	3 cut(s)	367, 397, 804
DpnI	GATC	5 cut(s)	17, 65, 573, 873, 981
DpnII	GATC	5 cut(s)	15, 63, 571, 871, 979
EaeI	YGGCCR	2 cut(s)	70, 988
Eam1104I	CTCTTC	4 cut(s)	197, 339, 715, 924
EarI	CTCTTC	4 cut(s)	197, 339, 715, 924
Ecl136II	GAGCTC	1 cut(s)	892
Eco130I	CCWWGG	2 cut(s)	265, 513
Eco24I	GRGCYC	3 cut(s)	327, 894, 1003
Eco47I	GGWCC	1 cut(s)	299
Eco53kI	GAGCTC	1 cut(s)	892
Eco81I	CCTNAGG	1 cut(s)	804
EcoICRI	GAGCTC	1 cut(s)	892
EcoO109I	RGGNCCY	1 cut(s)	299
EcoRII	CCWGG	1 cut(s)	225
EcoT14I	CCWWGG	2 cut(s)	265, 513
EcoT38I	GRGCYC	3 cut(s)	327, 894, 1003
ErhI	CCWWGG	2 cut(s)	265, 513
Esp3I	CGTCTC	1 cut(s)	370
FaeI	CATG	1 cut(s)	184
FalI	AAGNNNNNCTT	4 cut(s)	38, 70, 763, 795
FaqI	GGGAC	2 cut(s)	440, 822
FatI	CATG	1 cut(s)	180
Fnu4HI	GCNGC	3 cut(s)	292, 666, 1044
FokI	GGATG	1 cut(s)	668
FriOI	GRGCYC	3 cut(s)	327, 894, 1003
Fsp4HI	GCNGC	3 cut(s)	292, 666, 1044
FspBI	CTAG	2 cut(s)	266, 758
GlaI	GCGC	1 cut(s)	263
GluI	GCNGC	3 cut(s)	292, 666, 1044
GsuI	CTGGAG	2 cut(s)	611, 852
HaeII	RGCGCY	1 cut(s)	265
HaeIII	GGCC	2 cut(s)	72, 990
HhaI	GCGC	1 cut(s)	264
Hin1II	CATG	1 cut(s)	184
Hin6I	GCGC	1 cut(s)	262
HinP1I	GCGC	1 cut(s)	262
HindIII	AAGCTT	1 cut(s)	391
HinfI	GANTC	3 cut(s)	29, 107, 598
HphI	GGTGA	1 cut(s)	881
Hpy188I	TCNGA	6 cut(s)	20, 370, 400, 798, 896, 979
Hpy188III	TCNNGA	7 cut(s)	58, 442, 569, 575, 590, 673, 983
HpyAV	CCTTC	7 cut(s)	40, 130, 250, 337, 518, 1069, 1075
HpyCH4III	ACNGT	2 cut(s)	793, 865
HpyCH4V	TGCA	8 cut(s)	294, 503, 608, 776, 842, 943, 971, 1046
HpyF10VI	GCNNNNNNNGC	1 cut(s)	242
HpyF3I	CTNAG	3 cut(s)	367, 397, 804
Hsp92II	CATG	1 cut(s)	184
HspAI	GCGC	1 cut(s)	262
Kzo9I	GATC	5 cut(s)	15, 63, 571, 871, 979
LmnI	GCTCC	4 cut(s)	259, 464, 496, 917
Lsp1109I	GCAGC	3 cut(s)	278, 652, 1030
LweI	GCATC	2 cut(s)	785, 1068
MaeI	CTAG	2 cut(s)	266, 758
MalI	GATC	5 cut(s)	17, 65, 573, 873, 981
MboI	GATC	5 cut(s)	15, 63, 571, 871, 979
MboII	GAAGA	5 cut(s)	25, 214, 356, 732, 941
MflI	RGATCY	2 cut(s)	15, 571
MhlI	GDGCHC	4 cut(s)	327, 894, 922, 1003
MluCI	AATT	8 cut(s)	77, 411, 531, 701, 785, 813, 1008, 1020
MlyI	GAGTC	1 cut(s)	23
MseI	TTAA	2 cut(s)	357, 522
MslI	CAYNNNNRTG	1 cut(s)	251
MspR9I	CCNGG	1 cut(s)	227
MvaI	CCWGG	1 cut(s)	227
MwoI	GCNNNNNNNGC	1 cut(s)	242
NdeII	GATC	5 cut(s)	15, 63, 571, 871, 979
NlaIII	CATG	1 cut(s)	184
NlaIV	GGNNCC	1 cut(s)	301
NspI	RCATGY	1 cut(s)	184
OliI	CACNNNNGTG	1 cut(s)	251
PciI	ACATGT	1 cut(s)	180
PfeI	GAWTC	2 cut(s)	107, 598
PkrI	GCNGC	3 cut(s)	293, 667, 1045
PleI	GAGTC	1 cut(s)	23
PpsI	GAGTC	1 cut(s)	23
PpuMI	RGGWCCY	1 cut(s)	299
PscI	ACATGT	1 cut(s)	180
Psp124BI	GAGCTC	1 cut(s)	894
Psp5II	RGGWCCY	1 cut(s)	299
Psp6I	CCWGG	1 cut(s)	225
PspGI	CCWGG	1 cut(s)	225
PspN4I	GGNNCC	1 cut(s)	301
PspPI	GGNCC	1 cut(s)	299
PspPPI	RGGWCCY	1 cut(s)	299
PsuI	RGATCY	2 cut(s)	15, 571
RsaI	GTAC	1 cut(s)	26
RsaNI	GTAC	1 cut(s)	25
RseI	CAYNNNNRTG	1 cut(s)	251
SacI	GAGCTC	1 cut(s)	894
SaqAI	TTAA	2 cut(s)	357, 522
SatI	GCNGC	3 cut(s)	292, 666, 1044
Sau3AI	GATC	5 cut(s)	15, 63, 571, 871, 979
Sau96I	GGNCC	1 cut(s)	299
SchI	GAGTC	1 cut(s)	23
ScrFI	CCNGG	1 cut(s)	227
SduI	GDGCHC	4 cut(s)	327, 894, 922, 1003
SfaNI	GCATC	2 cut(s)	785, 1068
SinI	GGWCC	1 cut(s)	299
SmiMI	CAYNNNNRTG	1 cut(s)	251
SmlI	CTYRAG	2 cut(s)	131, 237
SmoI	CTYRAG	2 cut(s)	131, 237
Sse9I	AATT	8 cut(s)	77, 411, 531, 701, 785, 813, 1008, 1020
SspI	AATATT	1 cut(s)	697
SspMI	CTAG	2 cut(s)	266, 758
SstI	GAGCTC	1 cut(s)	894
StyD4I	CCNGG	1 cut(s)	225
StyI	CCWWGG	2 cut(s)	265, 513
TaaI	ACNGT	2 cut(s)	793, 865
TaqI	TCGA	3 cut(s)	321, 576, 734
TasI	AATT	8 cut(s)	77, 411, 531, 701, 785, 813, 1008, 1020
TfiI	GAWTC	2 cut(s)	107, 598
Tru1I	TTAA	2 cut(s)	357, 522
Tru9I	TTAA	2 cut(s)	357, 522
TscAI	CASTG	2 cut(s)	667, 1039
TseI	GCWGC	3 cut(s)	291, 665, 1043
TspDTI	ATGAA	6 cut(s)	304, 319, 357, 611, 777, 942
TspGWI	ACGGA	1 cut(s)	541
TspRI	CASTG	2 cut(s)	667, 1039
VpaK11BI	GGWCC	1 cut(s)	299
XapI	RAATTY	3 cut(s)	701, 785, 813
XceI	RCATGY	1 cut(s)	184
XmaJI	CCTAGG	1 cut(s)	265
XspI	CTAG	2 cut(s)	266, 758

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