Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3C

Orthogroup ID

OG0005510

Physical Location & Seq

Genomic Coordinates Forward (+)

263554 .. 267211

Gene Structure 3658 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3CG003000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1383 bp

ATGGAGGTTCATCTAAAACCTCTATGCAGCTCAACAGCTATCTTATCCCCCAAAACTTCCAATACTAGACCACCACAGTTACCACGCAAATCCACTTCCTCTTCTGCTTCTCGTATATCCTACAACTTACCTTTCTCCACTACGCTTTCCACACCTTCTAGATTCTCTCCTTCTGTTTTATTTGCGACACCGGAGAGTAGTCAAGTAAGCGCGGAAGTCAACACCAACGAAAGAGAATGGGCGATGCAAGATTTCTATACATTGAGAAGGGAGGTAGAAATTGCGGCAGGACGTGTTGAAGAGATAAGAGCTTCCGCTTGTCTGGAACAGTTGGAAAAAGAAGTTGCCGAGTTGGAATCCGAAGCAGCTGATAGCTCCTTTTGGGATGATCGAGCTAAGGCTCAAGAGAACCTTTTGGCCCTCACTGATGTCAAAGACAGAATAAAATCGCTTACTCACTTCAAGACACAGGTTGAAGATGCAGAAACAATAGTCAAGCTAACTGAAGAGATGGACTCCACAGATAATGCACTTCTTGAAGAGGCTGCCAGTATCATCAAGGAATTGAACAAGGGAATGGATCGGTTTGAGTTAACTCAACTTCTTTCAGGGCCTTATGACAAAGAAGGTGCTGTTATTTCTGTTACAGCCGGTGCTGGAGGCACTGACGCACAGGATTGGGCTGAAATGTTACTCAGGATGTATATGAGGTGGGGAGAAAAGCAGAGATACAAAACTCGAGTGGTTGAGAGATCCCCAGGAGAGGAAGCTGGAATTAAGTCGGCGACACTCGAAGTTGAAGGTCGTTATGCTTATGGTTATTTGTCTGGGGAGAAAGGCACACACCGCATTGTACGACAGTCTCCTTTTAATGCCAAAGGACTTCGCCAGACAAGCTTCTCTGGTGTGGAAGTGATGCCTCTCCTACCTGAGGAATCACTGAAAGTTGAAATACCTGAAGAAGACCTGGAGATAACCACTTCAAGGGCAGGTGGGAAAGGAGGTCAGAATGTGAATAAAATTGAAAGTGCTGTCCGGATTACTCATATCCCCACTGGTGTTACCGTTCGCTGCACAGAAGAGAGATCCCAGCTTGCAAACAGAATAAAGGCTCTAAGCAGGTTGAAAGCGAAGCTGTTGGTGATAGCTGAGGAGCAACGAGCATCGGAAATTAAGCAAATACGAGGAGATGCAGTGAAGGCAGAGTGGGGGCAACAAATAAGGAACTATGTGTTCCATCCGTACAAACTCGTCAAGGATGTAAGGACAGGATATGAGACATCTGATATCACTTCTGTGATGGACGGTGATTTGGAGCCTTACATCAAAGCCTACCTCAAACATAAATACAGTATGAAAATCAGTGCATCAAGTAAAGCCTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0006139 GO:0006396 GO:0006412 GO:0006415 GO:0006518 GO:0006725 GO:0006807 GO:0006996 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009507 GO:0009532 GO:0009536 GO:0009570 GO:0009657 GO:0009987 GO:0010467 GO:0016043 GO:0016070 GO:0019538 GO:0022411 GO:0032984 GO:0034641 GO:0034645 GO:0043043 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043603 GO:0043604 GO:0043624 GO:0043933 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044267 GO:0044271 GO:0044422 GO:0044424 GO:0044434 GO:0044435 GO:0044444 GO:0044446 GO:0044464 GO:0046483 GO:0071704 GO:0071840 GO:0090304 GO:1901360 GO:1901564 GO:1901566 GO:1901576

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

PCRF RF-1

Protein Analysis

460

Amino Acids

51.33

Weight (kDa)

5.92

Isoelectric Point (pI)

45.94

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PCRF	PF03462	111 - 303	2.3e-51	PCRF domain
RF-1	PF00472	314 - 422	2.8e-36	RF-1 domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

Font Size (px)

Line Width

Align Labels (Cladogram)

Image

Tree File

Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0005510)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G36170 AT5G36170 AT5G36170 AT5G36170
fragaria_vesca	FvH4_6g00190 FvH4_6g00190 FvH4_6g00190 FvH4_6g00190 FvH4_6g00190 FvH4_6g00190 FvH4_6g00190
malus_domestica	MD04G1247400.v1.1 MD12G1263000.v1.1
prunus_persica	Prupe.6G363800_v2.0.a1 Prupe.6G363800_v2.0.a1
pyrus_communis	pycom04g21810
rosa_chinensis	RchiOBHm_Chr3g0447561
rosa_laevigata	RLG00000025989
rosa_multiflora	Rmu_co8330713.1_g000001 Rmu_co8444065.1_g000001 Rmu_sc0031754.1_g000001 Rmu_sc0037294.1_g000002
rosa_roxburghii	Rroxscaffold_6G00425770
rosa_rugosa	Rorug02G0602900
rosa_samantha	Rh3AG003200 Rh3BG002700 Rh3CG003000 Rh3DG003000
rosa_wichuraiana	Rw3G000210

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	980
Acc36I	ACCTGC	2 cut(s)	980, 1110
AccII	CGCG	1 cut(s)	212
AccIII	TCCGGA	1 cut(s)	1035
AciI	CCGC	4 cut(s)	212, 284, 315, 847
AclWI	GGATC	3 cut(s)	588, 747, 1080
AcuI	CTGAAG	2 cut(s)	525, 978
AfaI	GTAC	2 cut(s)	855, 1244
AfiI	CCNNNNNNNGG	3 cut(s)	763, 931, 984
AflIII	ACRYGT	1 cut(s)	292
AjiI	CACGTC	1 cut(s)	293
AjnI	CCWGG	2 cut(s)	757, 966
AleI	CACNNNNGTG	1 cut(s)	1295
Alw26I	GTCTC	2 cut(s)	867, 1271
AlwI	GGATC	3 cut(s)	588, 747, 1080
Ama87I	CYCGRG	1 cut(s)	738
Aor13HI	TCCGGA	1 cut(s)	1035
AoxI	GGCC	2 cut(s)	417, 611
ApeKI	GCWGC	4 cut(s)	27, 365, 545, 1071
AspLEI	GCGC	1 cut(s)	212
AspS9I	GGNCC	2 cut(s)	418, 611
AsuHPI	GGTGA	2 cut(s)	1153, 1319
AvaI	CYCGRG	1 cut(s)	738
AxyI	CCTNAGG	1 cut(s)	930
BbsI	GAAGAC	1 cut(s)	969
BbvCI	CCTCAGC	1 cut(s)	1149
BbvI	GCAGC	4 cut(s)	39, 377, 532, 1058
BccI	CCATC	3 cut(s)	505, 1245, 1294
BciT130I	CCWGG	2 cut(s)	759, 968
BcoDI	GTCTC	2 cut(s)	867, 1271
BfaI	CTAG	3 cut(s)	66, 159, 1381
BfuAI	ACCTGC	2 cut(s)	980, 1110
BisI	GCNGC	5 cut(s)	28, 285, 366, 546, 1072
BlsI	GCNGC	5 cut(s)	29, 286, 367, 547, 1073
Bme1390I	CCNGG	2 cut(s)	759, 968
BmeT110I	CYCGRG	1 cut(s)	738
BmgBI	CACGTC	1 cut(s)	293
BmgT120I	GGNCC	2 cut(s)	418, 611
BmiI	GGNNCC	1 cut(s)	1317
BmrFI	CCNGG	2 cut(s)	759, 968
BmsI	GCATC	6 cut(s)	234, 469, 906, 1172, 1180, 1376
BpiI	GAAGAC	1 cut(s)	969
BplI	GAGNNNNNCTC	2 cut(s)	500, 532
BpmI	CTGGAG	2 cut(s)	678, 989
Bpu10I	CCTNAGC	2 cut(s)	396, 1149
BpuEI	CTTGAG	1 cut(s)	387
BsaJI	CCNNGG	1 cut(s)	757
BsaWI	WCCGGW	2 cut(s)	190, 1035
BsaXI	ACNNNNNCTCC	2 cut(s)	1179, 1209
Bsc4I	CCNNNNNNNGG	3 cut(s)	763, 931, 984
Bse118I	RCCGGY	1 cut(s)	650
Bse1I	ACTGG	2 cut(s)	549, 1060
Bse21I	CCTNAGG	1 cut(s)	930
BseAI	TCCGGA	1 cut(s)	1035
BseBI	CCWGG	2 cut(s)	759, 968
BseDI	CCNNGG	1 cut(s)	757
BseGI	GGATG	4 cut(s)	391, 705, 1237, 1264
BseLI	CCNNNNNNNGG	3 cut(s)	763, 931, 984
BseMII	CTCAG	3 cut(s)	709, 921, 1140
BseNI	ACTGG	2 cut(s)	549, 1060
BseRI	GAGGAG	2 cut(s)	1166, 1200
BseXI	GCAGC	4 cut(s)	39, 377, 532, 1058
BseYI	CCCAGC	1 cut(s)	1089
BsgI	GTGCAG	1 cut(s)	1057
Bsh1236I	CGCG	1 cut(s)	212
BshFI	GGCC	2 cut(s)	419, 613
BsiHKCI	CYCGRG	1 cut(s)	738
BsiSI	CCGG	3 cut(s)	191, 651, 1036
BslI	CCNNNNNNNGG	3 cut(s)	763, 931, 984
BsmAI	GTCTC	2 cut(s)	867, 1271
BsnI	GGCC	2 cut(s)	419, 613
BsoBI	CYCGRG	1 cut(s)	738
Bsp13I	TCCGGA	1 cut(s)	1035
Bsp143I	GATC	4 cut(s)	388, 580, 752, 1085
BspACI	CCGC	4 cut(s)	212, 284, 315, 847
BspANI	GGCC	2 cut(s)	419, 613
BspCNI	CTCAG	3 cut(s)	708, 922, 1141
BspEI	TCCGGA	1 cut(s)	1035
BspFNI	CGCG	1 cut(s)	212
BspLI	GGNNCC	1 cut(s)	1317
BspMI	ACCTGC	2 cut(s)	980, 1110
BspPI	GGATC	3 cut(s)	588, 747, 1080
BsrFI	RCCGGY	1 cut(s)	650
BsrI	ACTGG	2 cut(s)	549, 1060
BssAI	RCCGGY	1 cut(s)	650
BssECI	CCNNGG	1 cut(s)	757
BssMI	GATC	4 cut(s)	388, 580, 752, 1085
Bst2UI	CCWGG	2 cut(s)	759, 968
Bst4CI	ACNGT	6 cut(s)	78, 330, 861, 1066, 1307, 1352
Bst6I	CTCTTC	5 cut(s)	106, 294, 501, 534, 1074
BstC8I	GCNNGC	1 cut(s)	1095
BstDEI	CTNAG	5 cut(s)	396, 695, 930, 1115, 1149
BstENI	CCTNNNNNAGG	1 cut(s)	929
BstF5I	GGATG	4 cut(s)	391, 705, 1237, 1264
BstFNI	CGCG	1 cut(s)	212
BstHHI	GCGC	1 cut(s)	212
BstKTI	GATC	4 cut(s)	391, 583, 755, 1088
BstMAI	GTCTC	2 cut(s)	867, 1271
BstMBI	GATC	4 cut(s)	388, 580, 752, 1085
BstMWI	GCNNNNNNNGC	3 cut(s)	846, 894, 1199
BstNI	CCWGG	2 cut(s)	759, 968
BstSCI	CCNGG	2 cut(s)	757, 966
BstUI	CGCG	1 cut(s)	212
BstV1I	GCAGC	4 cut(s)	39, 377, 532, 1058
BstV2I	GAAGAC	1 cut(s)	969
BstX2I	RGATCY	2 cut(s)	752, 1085
BstYI	RGATCY	2 cut(s)	752, 1085
Bsu36I	CCTNAGG	1 cut(s)	930
BsuRI	GGCC	2 cut(s)	419, 613
BtgZI	GCGATG	1 cut(s)	257
BtrI	CACGTC	1 cut(s)	293
BtsCI	GGATG	4 cut(s)	391, 705, 1237, 1264
BtsI	GCAGTG	1 cut(s)	1200
BtsIMutI	CAGTG	6 cut(s)	423, 663, 938, 1053, 1200, 1369
BveI	ACCTGC	2 cut(s)	980, 1110
Cac8I	GCNNGC	1 cut(s)	1095
CfoI	GCGC	1 cut(s)	212
Cfr10I	RCCGGY	1 cut(s)	650
Cfr13I	GGNCC	2 cut(s)	418, 611
CseI	GACGC	1 cut(s)	677
Csp6I	GTAC	2 cut(s)	854, 1243
CviQI	GTAC	2 cut(s)	854, 1243
DdeI	CTNAG	5 cut(s)	396, 695, 930, 1115, 1149
DpnI	GATC	4 cut(s)	390, 582, 754, 1087
DpnII	GATC	4 cut(s)	388, 580, 752, 1085
Eam1104I	CTCTTC	5 cut(s)	106, 294, 501, 534, 1074
EarI	CTCTTC	5 cut(s)	106, 294, 501, 534, 1074
Eco32I	GATATC	1 cut(s)	1288
Eco57I	CTGAAG	2 cut(s)	525, 978
Eco81I	CCTNAGG	1 cut(s)	930
Eco88I	CYCGRG	1 cut(s)	738
EcoNI	CCTNNNNNAGG	1 cut(s)	929
EcoO109I	RGGNCCY	1 cut(s)	611
EcoRII	CCWGG	2 cut(s)	757, 966
EcoRV	GATATC	1 cut(s)	1288
FalI	AAGNNNNNCTT	2 cut(s)	396, 428
Fnu4HI	GCNGC	5 cut(s)	28, 285, 366, 546, 1072
FokI	GGATG	4 cut(s)	398, 712, 1224, 1271
Fsp4HI	GCNGC	5 cut(s)	28, 285, 366, 546, 1072
FspBI	CTAG	3 cut(s)	66, 159, 1381
GlaI	GCGC	1 cut(s)	211
GluI	GCNGC	5 cut(s)	28, 285, 366, 546, 1072
GsaI	CCCAGC	1 cut(s)	1093
GsuI	CTGGAG	2 cut(s)	678, 989
HaeIII	GGCC	2 cut(s)	419, 613
HapII	CCGG	3 cut(s)	191, 651, 1036
HgaI	GACGC	1 cut(s)	677
HhaI	GCGC	1 cut(s)	212
Hin6I	GCGC	1 cut(s)	210
HinP1I	GCGC	1 cut(s)	210
HincII	GTYRAC	2 cut(s)	220, 594
HindII	GTYRAC	2 cut(s)	220, 594
HindIII	AAGCTT	1 cut(s)	895
HinfI	GANTC	4 cut(s)	162, 356, 515, 935
HpaI	GTTAAC	1 cut(s)	594
HpaII	CCGG	3 cut(s)	191, 651, 1036
HphI	GGTGA	2 cut(s)	1153, 1319
Hpy166II	GTNNAC	2 cut(s)	220, 594
Hpy188I	TCNGA	4 cut(s)	361, 1008, 1168, 1285
Hpy188III	TCNNGA	7 cut(s)	159, 323, 404, 463, 536, 697, 1036
Hpy8I	GTNNAC	2 cut(s)	220, 594
HpyAV	CCTTC	6 cut(s)	165, 180, 261, 620, 794, 1192
HpyCH4III	ACNGT	6 cut(s)	78, 330, 861, 1066, 1307, 1352
HpyCH4IV	ACGT	1 cut(s)	292
HpyCH4V	TGCA	8 cut(s)	27, 247, 482, 530, 1074, 1097, 1193, 1367
HpyF10VI	GCNNNNNNNGC	3 cut(s)	846, 894, 1199
HpyF3I	CTNAG	5 cut(s)	396, 695, 930, 1115, 1149
HpySE526I	ACGT	1 cut(s)	292
HspAI	GCGC	1 cut(s)	210
Kpn2I	TCCGGA	1 cut(s)	1035
KspAI	GTTAAC	1 cut(s)	594
Kzo9I	GATC	4 cut(s)	388, 580, 752, 1085
LmnI	GCTCC	3 cut(s)	380, 1153, 1315
Lsp1109I	GCAGC	4 cut(s)	39, 377, 532, 1058
LweI	GCATC	6 cut(s)	234, 469, 906, 1172, 1180, 1376
MaeI	CTAG	3 cut(s)	66, 159, 1381
MaeII	ACGT	1 cut(s)	292
MaeIII	GTNAC	4 cut(s)	78, 643, 690, 1060
MalI	GATC	4 cut(s)	390, 582, 754, 1087
MboI	GATC	4 cut(s)	388, 580, 752, 1085
MboII	GAAGA	8 cut(s)	93, 311, 488, 518, 551, 971, 974, 1091
MflI	RGATCY	2 cut(s)	752, 1085
MluCI	AATT	5 cut(s)	279, 563, 774, 1020, 1170
MlyI	GAGTC	1 cut(s)	509
MmeI	TCCRAC	2 cut(s)	312, 333
MroI	TCCGGA	1 cut(s)	1035
MseI	TTAA	4 cut(s)	593, 777, 870, 1173
MslI	CAYNNNNRTG	1 cut(s)	1295
MspA1I	CMGCKG	1 cut(s)	368
MspI	CCGG	3 cut(s)	191, 651, 1036
MspR9I	CCNGG	2 cut(s)	759, 968
MvaI	CCWGG	2 cut(s)	759, 968
MvnI	CGCG	1 cut(s)	212
MwoI	GCNNNNNNNGC	3 cut(s)	846, 894, 1199
NdeII	GATC	4 cut(s)	388, 580, 752, 1085
NlaIV	GGNNCC	1 cut(s)	1317
NmeAIII	GCCGAG	1 cut(s)	373
OliI	CACNNNNGTG	1 cut(s)	1295
PaeR7I	CTCGAG	1 cut(s)	738
PaqCI	CACCTGC	1 cut(s)	980
PfeI	GAWTC	3 cut(s)	162, 356, 935
PkrI	GCNGC	5 cut(s)	29, 286, 367, 547, 1073
PleI	GAGTC	1 cut(s)	509
PpsI	GAGTC	1 cut(s)	509
Psp6I	CCWGG	2 cut(s)	757, 966
PspFI	CCCAGC	1 cut(s)	1089
PspGI	CCWGG	2 cut(s)	757, 966
PspN4I	GGNNCC	1 cut(s)	1317
PspPI	GGNCC	2 cut(s)	418, 611
PspXI	VCTCGAGB	1 cut(s)	738
PsuI	RGATCY	2 cut(s)	752, 1085
PvuII	CAGCTG	1 cut(s)	368
RsaI	GTAC	2 cut(s)	855, 1244
RsaNI	GTAC	2 cut(s)	854, 1243
RseI	CAYNNNNRTG	1 cut(s)	1295
SaqAI	TTAA	4 cut(s)	593, 777, 870, 1173
SatI	GCNGC	5 cut(s)	28, 285, 366, 546, 1072
Sau3AI	GATC	4 cut(s)	388, 580, 752, 1085
Sau96I	GGNCC	2 cut(s)	418, 611
SchI	GAGTC	1 cut(s)	509
ScrFI	CCNGG	2 cut(s)	759, 968
SfaNI	GCATC	6 cut(s)	234, 469, 906, 1172, 1180, 1376
Sfr274I	CTCGAG	1 cut(s)	738
SlaI	CTCGAG	1 cut(s)	738
SmiMI	CAYNNNNRTG	1 cut(s)	1295
SmlI	CTYRAG	2 cut(s)	402, 738
SmoI	CTYRAG	2 cut(s)	402, 738
Sse9I	AATT	5 cut(s)	279, 563, 774, 1020, 1170
SsiI	CCGC	4 cut(s)	212, 284, 315, 847
SspMI	CTAG	3 cut(s)	66, 159, 1381
StyD4I	CCNGG	2 cut(s)	757, 966
TaaI	ACNGT	6 cut(s)	78, 330, 861, 1066, 1307, 1352
TaiI	ACGT	1 cut(s)	295
TaqI	TCGA	3 cut(s)	391, 739, 792
TasI	AATT	5 cut(s)	279, 563, 774, 1020, 1170
TauI	GCSGC	1 cut(s)	287
TfiI	GAWTC	3 cut(s)	162, 356, 935
Tru1I	TTAA	4 cut(s)	593, 777, 870, 1173
Tru9I	TTAA	4 cut(s)	593, 777, 870, 1173
TscAI	CASTG	6 cut(s)	430, 670, 945, 1060, 1200, 1369
TseI	GCWGC	4 cut(s)	27, 365, 545, 1071
TspDTI	ATGAA	1 cut(s)	1370
TspGWI	ACGGA	1 cut(s)	1230
TspRI	CASTG	6 cut(s)	430, 670, 945, 1060, 1200, 1369
XagI	CCTNNNNNAGG	1 cut(s)	929
XbaI	TCTAGA	1 cut(s)	158
XhoI	CTCGAG	1 cut(s)	738
XspI	CTAG	3 cut(s)	66, 159, 1381

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