Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1D

Orthogroup ID

OG0001402

Physical Location & Seq

Genomic Coordinates Reverse (-)

9069699 .. 9100228

Gene Structure 30530 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1DG056300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1284 bp

ATGGAAACACTGAGAATTTCCTGTATTCCAACATTACAAATTCCAGCTGACTTTGGTAAAACCCAATCCAAAAAATTCACTTTCTTGGGGTCTAAGCAAACACTCACTTCATCATTCTCGTTAGTTGAAAGACACAAACCCTCATTTAAGACATTCACCACTAAATCATCTTCTATTACAACTGCGACTGCAAGCCCATCTGCACCACAAGTTGAAACTCAGACCCAAGATGAAAAATTTGACTGGTATGCCCATTGGTACCCGTTGATGCCAGTTTGTGACCTTGACAGAAGGGTACCACATGCAAAGAAAGTTCTGGGTATTGATGTGGTGGTGTGGTGGGACAGAAATGAGAGTACATGGAAGGTGTTTGACGATGCATGTCCTCACAGACTGGCTCCATTATCTGAAGGAAGGATTGATCAGTGGGGAAGGTTGCAGTGTGTTTATCATGGCTGGTGCTTTAATGGCTCCGGTGACTGCAAGTTCATCCCTCAGGCACCTACGGATGGTCCTCCGATTCACACATCCAAAAAAGCATGTGTAAGTGCTTATCCAAGTACTGTGCAGAATGGAATGGTGTGGTTCTGGCCAAGTTCCGATCCCCAATACAAAGATATTCTTACAGAGAAAAAACCTCCCTACATACCAGAAATGGATGATCCATCATATACTTGCTTGATGGCAAATAGAGAGATCCCTTACGGATATGAGGTCTTGATTGAAAATTTAATGGATCCTGCTCATGTTCCATACGCACATTATGGAATAATACAAACTCAACAACCGGAAGAGAAGGCTGACAGAGAAGGGGGCAGACCAGTGGACTTGTCTGTTCCTAAGATAGACATAAATGGTTTCACCATAGAGGAGCAGAATTCGGGTCAGAGTAAATTTATGTCACCATGTTTGTTTTATACATCTCTCTTTGGTCCAATTGACAATAGTAATGGGGCCGCGTCCTCGGGAAAACCGTATGGTTTTCTGAAACCACTTGGATCTGAAAAGGTCTCATCAGCCCAAAGGGGCCAAAAGAGAGCTCTTTTAGTTTTCTTCTGCGTTCCAGTTAGTCCAGGTAATAGCAGAATTATATCGACCATGCCAATAAACTTTGGCATTTCGGTTAAGATTATTCCGCGATGGATAGTTCACATTCATCACAACCTGGTTTTGGACTCAGATTTATATCTGCTTCATCTTGAGCTTCCAAGTGTGATTCTTTGGAATTTGCTTGAAATCGAGCACACACTCCCACACTGTAGGAAATATCAGGTCGACTGGTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0009507 GO:0009526 GO:0009536 GO:0009941 GO:0031967 GO:0031975 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044422 GO:0044424 GO:0044434 GO:0044435 GO:0044444 GO:0044446 GO:0044464

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

PaO Rieske

Protein Analysis

427

Amino Acids

48.32

Weight (kDa)

6.7

Isoelectric Point (pI)

51.13

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Rieske	PF00355	85 - 168	1.1e-23	Rieske [2Fe-2S] domain
PaO	PF08417	299 - 400	1.7e-17	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: OG0001402)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G25650 AT4G25650
fragaria_vesca	FvH4_3g45360 FvH4_3g45360 FvH4_3g45360 FvH4_3g45400 FvH4_3g45401 FvH4_7g02720 FvH4_7g02720 FvH4_7g02720 FvH4_7g02720 FvH4_7g02720 FvH4_7g02720 FvH4_7g02720 FvH4_7g02730 FvH4_7g02730 FvH4_7g02731
malus_domestica	MD03G1005500.v1.1 MD11G1008100.v1.1 MD11G1008200.v1.1
prunus_persica	Prupe.6G005300_v2.0.a1 Prupe.6G005300_v2.0.a1
pyrus_communis	pycom03g00570 pycom11g00550
rosa_chinensis	RchiOBHm_Chr1g0321981 RchiOBHm_Chr5g0083181 RchiOBHm_Chr5g0083211
rosa_laevigata	RLG00000030397 RLG00000030398 RLG00000037017
rosa_multiflora	Rmu_sc0007027.1_g000001 Rmu_sc0028710.1_g000001 Rmu_sc0041156.1_g000001 Rmu_sc0042838.1_g000001 Rmu_ssc0000026.1_g000007
rosa_roxburghii	Rroxscaffold_1G00001290 Rroxscaffold_4G00327380
rosa_rugosa	Rorug01G0034800 Rorug05G0482900 Rorug05G0483300
rosa_samantha	Rh1AG047700 Rh1CG051800 Rh1CG052000 Rh1CG052100 Rh1DG056000 Rh1DG056200 Rh1DG056300 Rh5AG532500 Rh5AG532700 Rh5BG559700 Rh5DG568400
rosa_wichuraiana	Rw1G004350 Rw5G050050

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc65I	GGTACC	2 cut(s)	258, 295
AccB1I	GGYRCC	3 cut(s)	258, 295, 499
AccI	GTMKAC	1 cut(s)	1275
AccII	CGCG	2 cut(s)	959, 1138
AciI	CCGC	2 cut(s)	957, 1136
AclWI	GGATC	6 cut(s)	596, 656, 691, 731, 744, 1006
AcoI	YGGCCR	1 cut(s)	590
AcsI	RAATTY	8 cut(s)	15, 39, 74, 236, 727, 877, 893, 1225
AcuI	CTGAAG	1 cut(s)	429
AfaI	GTAC	4 cut(s)	260, 297, 358, 562
AfiI	CCNNNNNNNGG	2 cut(s)	509, 1171
AgsI	TTSAA	4 cut(s)	128, 215, 725, 1235
AjnI	CCWGG	2 cut(s)	1072, 1164
AluBI	AGCT	3 cut(s)	47, 1040, 1204
AluI	AGCT	3 cut(s)	47, 1040, 1204
Alw21I	GWGCWC	2 cut(s)	1042, 1245
Alw26I	GTCTC	1 cut(s)	1015
AlwI	GGATC	6 cut(s)	596, 656, 691, 731, 744, 1006
Ama87I	CYCGRG	1 cut(s)	964
AoxI	GGCC	3 cut(s)	590, 954, 1027
ApoI	RAATTY	8 cut(s)	15, 39, 74, 236, 727, 877, 893, 1225
Asp718I	GGTACC	2 cut(s)	258, 295
AspS9I	GGNCC	4 cut(s)	512, 932, 954, 1027
AsuHPI	GGTGA	4 cut(s)	148, 488, 853, 894
AvaI	CYCGRG	1 cut(s)	964
AvaII	GGWCC	2 cut(s)	512, 932
AxyI	CCTNAGG	1 cut(s)	495
BalI	TGGCCA	1 cut(s)	592
BamHI	GGATCC	1 cut(s)	736
BanI	GGYRCC	3 cut(s)	258, 295, 499
BanII	GRGCYC	1 cut(s)	1042
Bbv12I	GWGCWC	2 cut(s)	1042, 1245
BccI	CCATC	5 cut(s)	205, 503, 673, 676, 1134
BciT130I	CCWGG	2 cut(s)	1074, 1166
BclI	TGATCA	1 cut(s)	421
BcoDI	GTCTC	1 cut(s)	1015
BfmI	CTRYAG	1 cut(s)	1258
BisI	GCNGC	1 cut(s)	957
BlsI	GCNGC	1 cut(s)	958
BmcAI	AGTACT	1 cut(s)	562
Bme1390I	CCNGG	2 cut(s)	1074, 1166
Bme18I	GGWCC	2 cut(s)	512, 932
BmeT110I	CYCGRG	1 cut(s)	964
BmgT120I	GGNCC	4 cut(s)	512, 932, 954, 1027
BmiI	GGNNCC	8 cut(s)	260, 297, 399, 472, 501, 738, 955, 1028
BmrFI	CCNGG	2 cut(s)	1074, 1166
BmsI	GCATC	2 cut(s)	258, 367
BpuEI	CTTGAG	1 cut(s)	1220
BsaBI	GATNNNNATC	1 cut(s)	1185
BsaI	GGTCTC	1 cut(s)	1015
BsaJI	CCNNGG	1 cut(s)	963
BsaWI	WCCGGW	2 cut(s)	473, 787
Bsc4I	CCNNNNNNNGG	2 cut(s)	509, 1171
Bse1I	ACTGG	6 cut(s)	248, 272, 399, 821, 1064, 1283
Bse21I	CCTNAGG	1 cut(s)	495
Bse8I	GATNNNNATC	1 cut(s)	1185
BseBI	CCWGG	2 cut(s)	1074, 1166
BseDI	CCNNGG	1 cut(s)	963
BseGI	GGATG	4 cut(s)	489, 514, 527, 664
BseJI	GATNNNNATC	1 cut(s)	1185
BseLI	CCNNNNNNNGG	2 cut(s)	509, 1171
BseMII	CTCAG	3 cut(s)	233, 509, 1191
BseNI	ACTGG	6 cut(s)	248, 272, 399, 821, 1064, 1283
BseRI	GAGGAG	1 cut(s)	884
BsgI	GTGCAG	2 cut(s)	186, 587
Bsh1236I	CGCG	2 cut(s)	959, 1138
BshFI	GGCC	3 cut(s)	592, 956, 1029
BshNI	GGYRCC	3 cut(s)	258, 295, 499
BsiHKAI	GWGCWC	2 cut(s)	1042, 1245
BsiHKCI	CYCGRG	1 cut(s)	964
BsiSI	CCGG	2 cut(s)	474, 788
BslFI	GGGAC	1 cut(s)	356
BslI	CCNNNNNNNGG	2 cut(s)	509, 1171
BsmAI	GTCTC	1 cut(s)	1015
BsmFI	GGGAC	1 cut(s)	356
BsnI	GGCC	3 cut(s)	592, 956, 1029
Bso31I	GGTCTC	1 cut(s)	1015
BsoBI	CYCGRG	1 cut(s)	964
Bsp1286I	GDGCHC	2 cut(s)	1042, 1245
Bsp143I	GATC	6 cut(s)	421, 601, 661, 696, 736, 998
BspACI	CCGC	2 cut(s)	957, 1136
BspANI	GGCC	3 cut(s)	592, 956, 1029
BspCNI	CTCAG	3 cut(s)	232, 508, 1190
BspFNI	CGCG	2 cut(s)	959, 1138
BspLI	GGNNCC	8 cut(s)	260, 297, 399, 472, 501, 738, 955, 1028
BspPI	GGATC	6 cut(s)	596, 656, 691, 731, 744, 1006
BspT107I	GGYRCC	3 cut(s)	258, 295, 499
BspTNI	GGTCTC	1 cut(s)	1015
BsrI	ACTGG	6 cut(s)	248, 272, 399, 821, 1064, 1283
BssECI	CCNNGG	1 cut(s)	963
BssMI	GATC	6 cut(s)	421, 601, 661, 696, 736, 998
Bst2UI	CCWGG	2 cut(s)	1074, 1166
Bst4CI	ACNGT	3 cut(s)	565, 975, 1259
Bst6I	CTCTTC	1 cut(s)	786
BstC8I	GCNNGC	1 cut(s)	193
BstDEI	CTNAG	6 cut(s)	11, 93, 219, 495, 840, 1177
BstF5I	GGATG	4 cut(s)	489, 514, 527, 664
BstFNI	CGCG	2 cut(s)	959, 1138
BstKTI	GATC	6 cut(s)	424, 604, 664, 699, 739, 1001
BstMAI	GTCTC	1 cut(s)	1015
BstMBI	GATC	6 cut(s)	421, 601, 661, 696, 736, 998
BstMWI	GCNNNNNNNGC	1 cut(s)	468
BstNI	CCWGG	2 cut(s)	1074, 1166
BstNSI	RCATGY	3 cut(s)	305, 384, 543
BstSCI	CCNGG	2 cut(s)	1072, 1164
BstSFI	CTRYAG	1 cut(s)	1258
BstUI	CGCG	2 cut(s)	959, 1138
BstX2I	RGATCY	3 cut(s)	696, 736, 998
BstYI	RGATCY	3 cut(s)	696, 736, 998
Bsu36I	CCTNAGG	1 cut(s)	495
BsuRI	GGCC	3 cut(s)	592, 956, 1029
BtgZI	GCGATG	1 cut(s)	1153
BtsCI	GGATG	4 cut(s)	489, 514, 527, 664
BtsI	GCAGTG	1 cut(s)	446
BtsIMutI	CAGTG	5 cut(s)	8, 431, 446, 828, 1255
Cac8I	GCNNGC	1 cut(s)	193
Cfr13I	GGNCC	4 cut(s)	512, 932, 954, 1027
CseI	GACGC	1 cut(s)	948
CsiI	ACCWGGT	1 cut(s)	1164
Csp6I	GTAC	4 cut(s)	259, 296, 357, 561
CviAII	CATG	8 cut(s)	302, 360, 381, 452, 540, 746, 906, 1099
CviQI	GTAC	4 cut(s)	259, 296, 357, 561
DdeI	CTNAG	6 cut(s)	11, 93, 219, 495, 840, 1177
DpnI	GATC	6 cut(s)	423, 603, 663, 698, 738, 1000
DpnII	GATC	6 cut(s)	421, 601, 661, 696, 736, 998
EaeI	YGGCCR	1 cut(s)	590
Eam1104I	CTCTTC	1 cut(s)	786
EarI	CTCTTC	1 cut(s)	786
Ecl136II	GAGCTC	1 cut(s)	1040
Eco24I	GRGCYC	1 cut(s)	1042
Eco31I	GGTCTC	1 cut(s)	1015
Eco47I	GGWCC	2 cut(s)	512, 932
Eco53kI	GAGCTC	1 cut(s)	1040
Eco57I	CTGAAG	1 cut(s)	429
Eco81I	CCTNAGG	1 cut(s)	495
Eco88I	CYCGRG	1 cut(s)	964
EcoICRI	GAGCTC	1 cut(s)	1040
EcoRI	GAATTC	1 cut(s)	877
EcoRII	CCWGG	2 cut(s)	1072, 1164
EcoT22I	ATGCAT	1 cut(s)	382
EcoT38I	GRGCYC	1 cut(s)	1042
FaeI	CATG	8 cut(s)	305, 363, 384, 455, 543, 749, 909, 1102
FalI	AAGNNNNNCTT	2 cut(s)	606, 638
FaqI	GGGAC	1 cut(s)	356
FatI	CATG	8 cut(s)	301, 359, 380, 451, 539, 745, 905, 1098
FbaI	TGATCA	1 cut(s)	421
FblI	GTMKAC	1 cut(s)	1275
Fnu4HI	GCNGC	1 cut(s)	957
FokI	GGATG	4 cut(s)	476, 514, 521, 671
FriOI	GRGCYC	1 cut(s)	1042
Fsp4HI	GCNGC	1 cut(s)	957
GluI	GCNGC	1 cut(s)	957
HaeIII	GGCC	3 cut(s)	592, 956, 1029
HapII	CCGG	2 cut(s)	474, 788
HgaI	GACGC	1 cut(s)	948
Hin1II	CATG	8 cut(s)	305, 363, 384, 455, 543, 749, 909, 1102
HincII	GTYRAC	1 cut(s)	1276
HindII	GTYRAC	1 cut(s)	1276
HinfI	GANTC	3 cut(s)	520, 1175, 1216
HpaII	CCGG	2 cut(s)	474, 788
HphI	GGTGA	4 cut(s)	148, 488, 853, 894
Hpy166II	GTNNAC	3 cut(s)	826, 1150, 1276
Hpy188I	TCNGA	8 cut(s)	222, 409, 519, 601, 888, 987, 1003, 1180
Hpy188III	TCNNGA	3 cut(s)	718, 966, 1199
Hpy8I	GTNNAC	3 cut(s)	826, 1150, 1276
HpyAV	CCTTC	7 cut(s)	285, 358, 404, 408, 426, 790, 803
HpyCH4III	ACNGT	3 cut(s)	565, 975, 1259
HpyCH4V	TGCA	7 cut(s)	191, 203, 305, 380, 439, 483, 568
HpyF10VI	GCNNNNNNNGC	1 cut(s)	468
HpyF3I	CTNAG	6 cut(s)	11, 93, 219, 495, 840, 1177
Hsp92II	CATG	8 cut(s)	305, 363, 384, 455, 543, 749, 909, 1102
KpnI	GGTACC	2 cut(s)	262, 299
Ksp22I	TGATCA	1 cut(s)	421
Kzo9I	GATC	6 cut(s)	421, 601, 661, 696, 736, 998
LmnI	GCTCC	3 cut(s)	403, 476, 871
LweI	GCATC	2 cut(s)	258, 367
MabI	ACCWGGT	1 cut(s)	1164
MaeIII	GTNAC	3 cut(s)	278, 476, 900
MalI	GATC	6 cut(s)	423, 603, 663, 698, 738, 1000
MboI	GATC	6 cut(s)	421, 601, 661, 696, 736, 998
MboII	GAAGA	3 cut(s)	162, 803, 1045
MfeI	CAATTG	1 cut(s)	936
MflI	RGATCY	3 cut(s)	696, 736, 998
MhlI	GDGCHC	2 cut(s)	1042, 1245
MlsI	TGGCCA	1 cut(s)	592
MluNI	TGGCCA	1 cut(s)	592
MlyI	GAGTC	1 cut(s)	1169
MmeI	TCCRAC	1 cut(s)	53
MnlI	CCTC	8 cut(s)	151, 396, 504, 525, 648, 706, 862, 973
Mox20I	TGGCCA	1 cut(s)	592
Mph1103I	ATGCAT	1 cut(s)	382
MscI	TGGCCA	1 cut(s)	592
MseI	TTAA	4 cut(s)	147, 465, 731, 1125
Msp20I	TGGCCA	1 cut(s)	592
MspA1I	CMGCKG	1 cut(s)	47
MspI	CCGG	2 cut(s)	474, 788
MspR9I	CCNGG	2 cut(s)	1074, 1166
MunI	CAATTG	1 cut(s)	936
MvaI	CCWGG	2 cut(s)	1074, 1166
MvnI	CGCG	2 cut(s)	959, 1138
MwoI	GCNNNNNNNGC	1 cut(s)	468
NdeII	GATC	6 cut(s)	421, 601, 661, 696, 736, 998
NlaIII	CATG	8 cut(s)	305, 363, 384, 455, 543, 749, 909, 1102
NlaIV	GGNNCC	8 cut(s)	260, 297, 399, 472, 501, 738, 955, 1028
NmuCI	GTSAC	3 cut(s)	278, 476, 900
NsiI	ATGCAT	1 cut(s)	382
NspI	RCATGY	3 cut(s)	305, 384, 543
PcsI	WCGNNNNNNNCGW	1 cut(s)	971
PfeI	GAWTC	2 cut(s)	520, 1216
PkrI	GCNGC	1 cut(s)	958
PleI	GAGTC	1 cut(s)	1169
PpsI	GAGTC	1 cut(s)	1169
Psp124BI	GAGCTC	1 cut(s)	1042
Psp6I	CCWGG	2 cut(s)	1072, 1164
PspGI	CCWGG	2 cut(s)	1072, 1164
PspN4I	GGNNCC	8 cut(s)	260, 297, 399, 472, 501, 738, 955, 1028
PspPI	GGNCC	4 cut(s)	512, 932, 954, 1027
PsuI	RGATCY	3 cut(s)	696, 736, 998
PvuII	CAGCTG	1 cut(s)	47
RsaI	GTAC	4 cut(s)	260, 297, 358, 562
RsaNI	GTAC	4 cut(s)	259, 296, 357, 561
SacI	GAGCTC	1 cut(s)	1042
SalI	GTCGAC	1 cut(s)	1274
SaqAI	TTAA	4 cut(s)	147, 465, 731, 1125
SatI	GCNGC	1 cut(s)	957
Sau3AI	GATC	6 cut(s)	421, 601, 661, 696, 736, 998
Sau96I	GGNCC	4 cut(s)	512, 932, 954, 1027
ScaI	AGTACT	1 cut(s)	562
SchI	GAGTC	1 cut(s)	1169
ScrFI	CCNGG	2 cut(s)	1074, 1166
SduI	GDGCHC	2 cut(s)	1042, 1245
SexAI	ACCWGGT	1 cut(s)	1164
SfaNI	GCATC	2 cut(s)	258, 367
SfcI	CTRYAG	1 cut(s)	1258
SinI	GGWCC	2 cut(s)	512, 932
SmlI	CTYRAG	1 cut(s)	1199
SmoI	CTYRAG	1 cut(s)	1199
SsiI	CCGC	2 cut(s)	957, 1136
SstI	GAGCTC	1 cut(s)	1042
StyD4I	CCNGG	2 cut(s)	1072, 1164
TaaI	ACNGT	3 cut(s)	565, 975, 1259
TaqI	TCGA	3 cut(s)	1094, 1239, 1275
TatI	WGTACW	2 cut(s)	356, 560
TauI	GCSGC	1 cut(s)	959
TfiI	GAWTC	2 cut(s)	520, 1216
Tru1I	TTAA	4 cut(s)	147, 465, 731, 1125
Tru9I	TTAA	4 cut(s)	147, 465, 731, 1125
TscAI	CASTG	5 cut(s)	15, 431, 446, 828, 1262
TseFI	GTSAC	3 cut(s)	278, 476, 900
Tsp45I	GTSAC	3 cut(s)	278, 476, 900
TspDTI	ATGAA	5 cut(s)	99, 246, 478, 1145, 1184
TspGWI	ACGGA	2 cut(s)	521, 720
TspRI	CASTG	5 cut(s)	15, 431, 446, 828, 1262
VpaK11BI	GGWCC	2 cut(s)	512, 932
XapI	RAATTY	8 cut(s)	15, 39, 74, 236, 727, 877, 893, 1225
XceI	RCATGY	3 cut(s)	305, 384, 543
XmiI	GTMKAC	1 cut(s)	1275
ZrmI	AGTACT	1 cut(s)	562
Zsp2I	ATGCAT	1 cut(s)	382

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