Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6D

Orthogroup ID

OG0011502

Physical Location & Seq

Genomic Coordinates Forward (+)

58830619 .. 58833110

Gene Structure 2492 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6DG397900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1269 bp

ATGGTGTGCTTCAGTGTTACCAAGATCGCTGCCCCCACAGCTAGGTTGGCGAAATTATCAGAAGGCCAACTGATTGATGGGAGACTGGAATGTTTATATCATGGTTGGCAATTTGAAGGTGCAGGAAAATGTGTCAAGATCCCTCAGCTTCCAGCTGATGCCAAAATTCCTAGGTCGGCTTGTGTGAAAACATATGACGTGAGGGACTCGCAAGGTGTTGTGTGGGTTTGGATGTCTCGTAAGACACCACCAAACCCTGCTAAGCTTCCTTGGTTTGAGAACTTTGACAGGCCAGGGTTCCAAGATACTTCAACAACCCATGAGCTTCCTTATGATCACTCCATACTTTTGGAGAACCTCATGGATCCAGCCCATGTTCCGATCTCACATGACAGGACAGACTGGAGTGCTAAAAGGGAAGATGCTCAACCACTGCGTTTTGAGGTCACCGAACGCACCGACCGAGGATTTGCAGGCTGGTGGGGGAAGACAACTGATCAGTCCGCCTCCAGCTTCTTGCGCTTTGAAGCACCGTGTTCTCTTCAAAACAATCGAGAAATTGTTGACGACAAGACTGGGGAAACGCACTACTTCTCAGGTCTCTTTCTTTGCAGACCAACTGGACAAGGGAAGTCCATGCTCATTGTGAGGTTTGGAGGAACAAAAAGGTCTCCTCTGGCAAAATTGTTTCCCAAATGGTACTTCCATCAGAATGCAGGAAAGGTGTTTGAGCAAGACATGGGATTCCTTTCTTCTCAGAATGAGATACTTCTGAAAGAAAAAGTGCCCACCAAGAACCTCTACCTTAACTTGAAATCCTCAGATACATGGGTAGCTGAATACAGAAAATGGATGGACAAAGTTGGGCATGGGATGCCTTACCATTTTGGCCACAGCACAATATCGTTGCCCAAAGAGCCTGCCGTGGTCGAACATGCTCCTGCTGGACTTGTTGCAGGTGTATCGGCATCTTTGCCTGCCAAGGGAGGCATTGGAACCATGCATGCTCCAAATTTGGCCAACCGGTATTTCCGGCATGTGGTTCATTGCAAAGAGTGCAGAAATGTTGTCAAAGCTTTCCAAGCCTGGAAAAATTACCTTTCTGCTGTTGCTGTTGCATTGACCGCTTTGGCAATTCTAATATCCGGAAGGCAATGGAAGGCTCTTCTGTTAGTGTCAGCAGCCGTATGCTCCGGCGGAGTTTATGCATGCTCGGCTGCTGTTGCATTGAACACAACAAATTTCATTAGGACACATAGGAGATTGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0006605 GO:0006810 GO:0006886 GO:0008104 GO:0008150 GO:0009507 GO:0009526 GO:0009536 GO:0009941 GO:0015031 GO:0015833 GO:0031967 GO:0031975 GO:0033036 GO:0033365 GO:0034613 GO:0042886 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044422 GO:0044424 GO:0044434 GO:0044435 GO:0044444 GO:0044446 GO:0044464 GO:0045036 GO:0045184 GO:0046907 GO:0051179 GO:0051234 GO:0051641 GO:0051649 GO:0070727 GO:0071702 GO:0071705 GO:0072594 GO:0072596 GO:0072598

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

PaO Rieske

Protein Analysis

422

Amino Acids

47.13

Weight (kDa)

9.35

Isoelectric Point (pI)

39.81

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Rieske	PF00355	15 - 52	1.8e-08	Rieske [2Fe-2S] domain
PaO	PF08417	175 - 261	3.8e-23	Pheophorbide a oxygenase

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: OG0011502)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G24820
fragaria_vesca	FvH4_2g41330
malus_domestica	MD08G1051400.v1.1
prunus_persica	Prupe.1G397100_v2.0.a1 Prupe.1G397200_v2.0.a1 Prupe.1G397200_v2.0.a1 Prupe.1G397200_v2.0.a1
rosa_chinensis	RchiOBHm_Chr6g0299151
rosa_laevigata	RLG00000011459 RLG00000028023
rosa_multiflora	Rmu_sc0001434.1_g000017
rosa_roxburghii	Rroxscaffold_4G00298790 Rroxscaffold_7G00168970
rosa_rugosa	Rorug06G0285700 Rorug06G0285800
rosa_samantha	Rh6AG396700 Rh6BG405200 Rh6CG411200 Rh6DG397900
rosa_wichuraiana	Rw6G034730

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	947
Acc36I	ACCTGC	1 cut(s)	947
AccIII	TCCGGA	1 cut(s)	1145
AciI	CCGC	3 cut(s)	504, 1125, 1197
AclWI	GGATC	3 cut(s)	133, 359, 372
AcoI	YGGCCR	2 cut(s)	889, 1017
AcsI	RAATTY	3 cut(s)	165, 1012, 1240
AfaI	GTAC	1 cut(s)	701
AfiI	CCNNNNNNNGG	3 cut(s)	42, 983, 1039
AgeI	ACCGGT	1 cut(s)	1023
AgsI	TTSAA	6 cut(s)	116, 312, 527, 545, 814, 1231
AjiI	CACGTC	1 cut(s)	199
AjnI	CCWGG	2 cut(s)	292, 1085
AjuI	GAANNNNNNNTTGG	4 cut(s)	686, 718, 1013, 1045
AluBI	AGCT	8 cut(s)	41, 148, 155, 265, 325, 513, 836, 1076
AluI	AGCT	8 cut(s)	41, 148, 155, 265, 325, 513, 836, 1076
Alw26I	GTCTC	4 cut(s)	76, 240, 605, 675
AlwI	GGATC	3 cut(s)	133, 359, 372
Aor13HI	TCCGGA	1 cut(s)	1145
AoxI	GGCC	4 cut(s)	64, 290, 889, 1017
ApeKI	GCWGC	3 cut(s)	29, 1181, 1217
ApoI	RAATTY	3 cut(s)	165, 1012, 1240
ArsI	GACNNNNNNTTYG	2 cut(s)	452, 484
AsiGI	ACCGGT	1 cut(s)	1023
AspA2I	CCTAGG	1 cut(s)	170
AspLEI	GCGC	1 cut(s)	522
AsuHPI	GGTGA	1 cut(s)	439
AvrII	CCTAGG	1 cut(s)	170
BaeGI	GKGCMC	1 cut(s)	789
BaeI	ACNNNNGTAYC	2 cut(s)	816, 849
BalI	TGGCCA	2 cut(s)	891, 1019
BamHI	GGATCC	1 cut(s)	364
BbsI	GAAGAC	1 cut(s)	494
BbvCI	CCTCAGC	1 cut(s)	144
BbvI	GCAGC	3 cut(s)	16, 1193, 1204
BccI	CCATC	3 cut(s)	71, 714, 847
BceAI	ACGGC	2 cut(s)	908, 1169
BcgI	CGANNNNNNTGC	2 cut(s)	945, 979
BciT130I	CCWGG	2 cut(s)	294, 1087
BclI	TGATCA	2 cut(s)	334, 496
BcoDI	GTCTC	4 cut(s)	76, 240, 605, 675
BfaI	CTAG	2 cut(s)	42, 171
BfuAI	ACCTGC	1 cut(s)	947
BisI	GCNGC	3 cut(s)	30, 1182, 1218
BlnI	CCTAGG	1 cut(s)	170
BlpI	GCTNAGC	1 cut(s)	261
BlsI	GCNGC	3 cut(s)	31, 1183, 1219
Bme1390I	CCNGG	2 cut(s)	294, 1087
BmgBI	CACGTC	1 cut(s)	199
BmiI	GGNNCC	3 cut(s)	299, 366, 997
BmrFI	CCNGG	2 cut(s)	294, 1087
BmrI	ACTGGG	1 cut(s)	585
BmsI	GCATC	4 cut(s)	148, 412, 864, 977
BmuI	ACTGGG	1 cut(s)	585
BpiI	GAAGAC	1 cut(s)	494
BpmI	CTGGAG	2 cut(s)	424, 493
Bpu10I	CCTNAGC	1 cut(s)	144
Bpu1102I	GCTNAGC	1 cut(s)	261
BsaI	GGTCTC	2 cut(s)	605, 675
BsaJI	CCNNGG	6 cut(s)	170, 269, 293, 463, 924, 981
BsaWI	WCCGGW	2 cut(s)	1023, 1145
Bsc4I	CCNNNNNNNGG	3 cut(s)	42, 983, 1039
Bse118I	RCCGGY	1 cut(s)	1023
Bse1I	ACTGG	4 cut(s)	90, 407, 580, 625
Bse3DI	GCAATG	2 cut(s)	1045, 1160
BseAI	TCCGGA	1 cut(s)	1145
BseBI	CCWGG	2 cut(s)	294, 1087
BseDI	CCNNGG	6 cut(s)	170, 269, 293, 463, 924, 981
BseGI	GGATG	3 cut(s)	237, 858, 879
BseLI	CCNNNNNNNGG	3 cut(s)	42, 983, 1039
BseMI	GCAATG	2 cut(s)	1045, 1160
BseMII	CTCAG	4 cut(s)	158, 609, 770, 834
BseNI	ACTGG	4 cut(s)	90, 407, 580, 625
BseRI	GAGGAG	1 cut(s)	663
BseSI	GKGCMC	1 cut(s)	789
BseXI	GCAGC	3 cut(s)	16, 1193, 1204
BsgI	GTGCAG	2 cut(s)	141, 1078
Bsh1285I	CGRYCG	1 cut(s)	463
BshFI	GGCC	4 cut(s)	66, 292, 891, 1019
BshTI	ACCGGT	1 cut(s)	1023
BsiEI	CGRYCG	1 cut(s)	463
BsiSI	CCGG	4 cut(s)	1024, 1033, 1146, 1194
BslFI	GGGAC	1 cut(s)	218
BslI	CCNNNNNNNGG	3 cut(s)	42, 983, 1039
BsmAI	GTCTC	4 cut(s)	76, 240, 605, 675
BsmFI	GGGAC	1 cut(s)	218
BsmI	GAATGC	1 cut(s)	718
BsnI	GGCC	4 cut(s)	66, 292, 891, 1019
Bso31I	GGTCTC	2 cut(s)	605, 675
Bsp1286I	GDGCHC	1 cut(s)	789
Bsp13I	TCCGGA	1 cut(s)	1145
Bsp143I	GATC	6 cut(s)	24, 138, 334, 364, 381, 496
Bsp1720I	GCTNAGC	1 cut(s)	261
BspACI	CCGC	3 cut(s)	504, 1125, 1197
BspANI	GGCC	4 cut(s)	66, 292, 891, 1019
BspCNI	CTCAG	4 cut(s)	157, 608, 769, 833
BspEI	TCCGGA	1 cut(s)	1145
BspLI	GGNNCC	3 cut(s)	299, 366, 997
BspMI	ACCTGC	1 cut(s)	947
BspPI	GGATC	3 cut(s)	133, 359, 372
BspQI	GCTCTTC	1 cut(s)	1170
BspTNI	GGTCTC	2 cut(s)	605, 675
BsrDI	GCAATG	2 cut(s)	1045, 1160
BsrFI	RCCGGY	1 cut(s)	1023
BsrI	ACTGG	4 cut(s)	90, 407, 580, 625
BssAI	RCCGGY	1 cut(s)	1023
BssECI	CCNNGG	6 cut(s)	170, 269, 293, 463, 924, 981
BssMI	GATC	6 cut(s)	24, 138, 334, 364, 381, 496
BssT1I	CCWWGG	3 cut(s)	170, 269, 981
Bst2UI	CCWGG	2 cut(s)	294, 1087
Bst4CI	ACNGT	1 cut(s)	534
Bst6I	CTCTTC	2 cut(s)	546, 1170
BstAPI	GCANNNNNTGC	2 cut(s)	874, 1056
BstC8I	GCNNGC	5 cut(s)	475, 921, 978, 1005, 1210
BstDEI	CTNAG	5 cut(s)	144, 261, 595, 756, 820
BstDSI	CCRYGG	1 cut(s)	924
BstEII	GGTNACC	1 cut(s)	445
BstF5I	GGATG	3 cut(s)	237, 858, 879
BstHHI	GCGC	1 cut(s)	522
BstKTI	GATC	6 cut(s)	27, 141, 337, 367, 384, 499
BstMAI	GTCTC	4 cut(s)	76, 240, 605, 675
BstMBI	GATC	6 cut(s)	24, 138, 334, 364, 381, 496
BstMCI	CGRYCG	1 cut(s)	463
BstNI	CCWGG	2 cut(s)	294, 1087
BstNSI	RCATGY	4 cut(s)	938, 1007, 1040, 1212
BstPI	GGTNACC	1 cut(s)	445
BstSCI	CCNGG	2 cut(s)	292, 1085
BstSLI	GKGCMC	1 cut(s)	789
BstV1I	GCAGC	3 cut(s)	16, 1193, 1204
BstV2I	GAAGAC	1 cut(s)	494
BstX2I	RGATCY	2 cut(s)	138, 364
BstXI	CCANNNNNNTGG	1 cut(s)	349
BstYI	RGATCY	2 cut(s)	138, 364
BsuRI	GGCC	4 cut(s)	66, 292, 891, 1019
BtgI	CCRYGG	1 cut(s)	924
BtrI	CACGTC	1 cut(s)	199
BtsCI	GGATG	3 cut(s)	237, 858, 879
BtsI	GCAGTG	1 cut(s)	431
BtsIMutI	CAGTG	2 cut(s)	19, 431
BveI	ACCTGC	1 cut(s)	947
Cac8I	GCNNGC	5 cut(s)	475, 921, 978, 1005, 1210
CfoI	GCGC	1 cut(s)	522
Cfr10I	RCCGGY	1 cut(s)	1023
Csp6I	GTAC	1 cut(s)	700
CspAI	ACCGGT	1 cut(s)	1023
CviQI	GTAC	1 cut(s)	700
DdeI	CTNAG	5 cut(s)	144, 261, 595, 756, 820
DpnI	GATC	6 cut(s)	26, 140, 336, 366, 383, 498
DpnII	GATC	6 cut(s)	24, 138, 334, 364, 381, 496
EaeI	YGGCCR	2 cut(s)	889, 1017
Eam1104I	CTCTTC	2 cut(s)	546, 1170
EarI	CTCTTC	2 cut(s)	546, 1170
EciI	GGCGGA	2 cut(s)	493, 1212
Eco130I	CCWWGG	3 cut(s)	170, 269, 981
Eco31I	GGTCTC	2 cut(s)	605, 675
Eco91I	GGTNACC	1 cut(s)	445
EcoO65I	GGTNACC	1 cut(s)	445
EcoRII	CCWGG	2 cut(s)	292, 1085
EcoT14I	CCWWGG	3 cut(s)	170, 269, 981
EcoT22I	ATGCAT	2 cut(s)	1005, 1210
ErhI	CCWWGG	3 cut(s)	170, 269, 981
FaqI	GGGAC	1 cut(s)	218
FauNDI	CATATG	1 cut(s)	193
FbaI	TGATCA	2 cut(s)	334, 496
Fnu4HI	GCNGC	3 cut(s)	30, 1182, 1218
FokI	GGATG	3 cut(s)	244, 865, 886
Fsp4HI	GCNGC	3 cut(s)	30, 1182, 1218
FspBI	CTAG	2 cut(s)	42, 171
GlaI	GCGC	1 cut(s)	521
GluI	GCNGC	3 cut(s)	30, 1182, 1218
GsuI	CTGGAG	2 cut(s)	424, 493
HaeIII	GGCC	4 cut(s)	66, 292, 891, 1019
HapII	CCGG	4 cut(s)	1024, 1033, 1146, 1194
HhaI	GCGC	1 cut(s)	522
Hin6I	GCGC	1 cut(s)	520
HinP1I	GCGC	1 cut(s)	520
HincII	GTYRAC	1 cut(s)	565
HindII	GTYRAC	1 cut(s)	565
HindIII	AAGCTT	2 cut(s)	263, 1074
HinfI	GANTC	2 cut(s)	206, 744
HpaII	CCGG	4 cut(s)	1024, 1033, 1146, 1194
HphI	GGTGA	1 cut(s)	439
Hpy166II	GTNNAC	1 cut(s)	565
Hpy188I	TCNGA	6 cut(s)	61, 381, 711, 759, 774, 823
Hpy188III	TCNNGA	3 cut(s)	136, 554, 1146
Hpy8I	GTNNAC	1 cut(s)	565
HpyAV	CCTTC	4 cut(s)	56, 110, 1143, 1153
HpyCH4III	ACNGT	1 cut(s)	534
HpyCH4IV	ACGT	1 cut(s)	198
HpyF3I	CTNAG	5 cut(s)	144, 261, 595, 756, 820
HpySE526I	ACGT	1 cut(s)	198
HspAI	GCGC	1 cut(s)	520
Kpn2I	TCCGGA	1 cut(s)	1145
Ksp22I	TGATCA	2 cut(s)	334, 496
Kzo9I	GATC	6 cut(s)	24, 138, 334, 364, 381, 496
LguI	GCTCTTC	1 cut(s)	1170
LmnI	GCTCC	3 cut(s)	943, 1012, 1196
Lsp1109I	GCAGC	3 cut(s)	16, 1193, 1204
LweI	GCATC	4 cut(s)	148, 412, 864, 977
MaeI	CTAG	2 cut(s)	42, 171
MaeII	ACGT	1 cut(s)	198
MaeIII	GTNAC	2 cut(s)	16, 445
MalI	GATC	6 cut(s)	26, 140, 336, 366, 383, 498
MboI	GATC	6 cut(s)	24, 138, 334, 364, 381, 496
MboII	GAAGA	5 cut(s)	431, 499, 533, 744, 1157
MflI	RGATCY	2 cut(s)	138, 364
MhlI	GDGCHC	1 cut(s)	789
MlsI	TGGCCA	2 cut(s)	891, 1019
MluCI	AATT	9 cut(s)	53, 110, 165, 558, 683, 1012, 1093, 1134, 1240
MluNI	TGGCCA	2 cut(s)	891, 1019
MlyI	GAGTC	1 cut(s)	200
Mox20I	TGGCCA	2 cut(s)	891, 1019
Mph1103I	ATGCAT	2 cut(s)	1005, 1210
MroI	TCCGGA	1 cut(s)	1145
MscI	TGGCCA	2 cut(s)	891, 1019
MseI	TTAA	1 cut(s)	807
MslI	CAYNNNNRTG	1 cut(s)	711
Msp20I	TGGCCA	2 cut(s)	891, 1019
MspA1I	CMGCKG	1 cut(s)	155
MspI	CCGG	4 cut(s)	1024, 1033, 1146, 1194
MspR9I	CCNGG	2 cut(s)	294, 1087
Mva1269I	GAATGC	1 cut(s)	718
MvaI	CCWGG	2 cut(s)	294, 1087
NdeI	CATATG	1 cut(s)	193
NdeII	GATC	6 cut(s)	24, 138, 334, 364, 381, 496
NlaIV	GGNNCC	3 cut(s)	299, 366, 997
NmeAIII	GCCGAG	1 cut(s)	1193
NmuCI	GTSAC	1 cut(s)	445
NsiI	ATGCAT	2 cut(s)	1005, 1210
NspI	RCATGY	4 cut(s)	938, 1007, 1040, 1212
PaeI	GCATGC	2 cut(s)	1007, 1212
PaqCI	CACCTGC	1 cut(s)	947
PciSI	GCTCTTC	1 cut(s)	1170
PcsI	WCGNNNNNNNCGW	1 cut(s)	460
PctI	GAATGC	1 cut(s)	718
PfeI	GAWTC	1 cut(s)	744
PinAI	ACCGGT	1 cut(s)	1023
PkrI	GCNGC	3 cut(s)	31, 1183, 1219
PleI	GAGTC	1 cut(s)	200
PpsI	GAGTC	1 cut(s)	200
Psp6I	CCWGG	2 cut(s)	292, 1085
PspEI	GGTNACC	1 cut(s)	445
PspGI	CCWGG	2 cut(s)	292, 1085
PspN4I	GGNNCC	3 cut(s)	299, 366, 997
PsuI	RGATCY	2 cut(s)	138, 364
PvuII	CAGCTG	1 cut(s)	155
RsaI	GTAC	1 cut(s)	701
RsaNI	GTAC	1 cut(s)	700
RseI	CAYNNNNRTG	1 cut(s)	711
SapI	GCTCTTC	1 cut(s)	1170
SaqAI	TTAA	1 cut(s)	807
SatI	GCNGC	3 cut(s)	30, 1182, 1218
Sau3AI	GATC	6 cut(s)	24, 138, 334, 364, 381, 496
SchI	GAGTC	1 cut(s)	200
ScrFI	CCNGG	2 cut(s)	294, 1087
SduI	GDGCHC	1 cut(s)	789
SfaNI	GCATC	4 cut(s)	148, 412, 864, 977
SmiMI	CAYNNNNRTG	1 cut(s)	711
SphI	GCATGC	2 cut(s)	1007, 1212
Sse9I	AATT	9 cut(s)	53, 110, 165, 558, 683, 1012, 1093, 1134, 1240
SsiI	CCGC	3 cut(s)	504, 1125, 1197
SspMI	CTAG	2 cut(s)	42, 171
StyD4I	CCNGG	2 cut(s)	292, 1085
StyI	CCWWGG	3 cut(s)	170, 269, 981
TaaI	ACNGT	1 cut(s)	534
TaiI	ACGT	1 cut(s)	201
TaqI	TCGA	2 cut(s)	553, 930
TaqII	GACCGA	1 cut(s)	477
TasI	AATT	9 cut(s)	53, 110, 165, 558, 683, 1012, 1093, 1134, 1240
TfiI	GAWTC	1 cut(s)	744
Tru1I	TTAA	1 cut(s)	807
Tru9I	TTAA	1 cut(s)	807
TscAI	CASTG	2 cut(s)	19, 438
TseFI	GTSAC	1 cut(s)	445
TseI	GCWGC	3 cut(s)	29, 1181, 1217
Tsp45I	GTSAC	1 cut(s)	445
TspDTI	ATGAA	2 cut(s)	1034, 1234
TspRI	CASTG	2 cut(s)	19, 438
XapI	RAATTY	3 cut(s)	165, 1012, 1240
XceI	RCATGY	4 cut(s)	938, 1007, 1040, 1212
XcmI	CCANNNNNNNNNTGG	2 cut(s)	43, 74
XmaJI	CCTAGG	1 cut(s)	170
XspI	CTAG	2 cut(s)	42, 171
Zsp2I	ATGCAT	2 cut(s)	1005, 1210

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