Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000003

Orthogroup ID

OG0002015

Physical Location & Seq

Genomic Coordinates Reverse (-)

23256224 .. 23259738

Gene Structure 3515 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_3G00236050.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1335 bp

ATGCTCCTCTTTTCTTTTATCAACAGTAAACCCACTAAACATGCTGCCAAAACAGGTTATTACAATGGGTTTCGGCTAACGTACCTCGGTTATGATTTCCTTGCAATTAAGACTTTGGTCAACCGTGGAGTCTTTTCAGCTGTTGGTCGCCAACTTGGTGTTGGAAAAGAGTCTGATATTTTTGAGGTGGCCACCGAAGATGGTACAGTGATGGCAATGAAATTGCACAGGCTTGGTAGAACTTCTTTCAGGGCTGTCAAGTCTAAGCGTGATTACTTAAAACATCGTAGCAGTTTCAATTGGCTATACTTGTCCCGTCTTGCTGCACTCAGAGAATTTTCTTTTATGAAGGCTTTAGAAGAGCATGGTTTTCCTGTTCCAAATGCAGTGGATTGTAACAGGCATTGTGTGATTATGTCACTAGTACCAGGCTACCCACTCTTGCTCAAGAAAAAGGAAACAAAGAAATATTGGTCATGCTCCTTCGTGGATCTATGGAGCTTACCTTCTGTTCAATATAGTGTGCAGGTGAAGCAATTGGAAAATCTTGAGATAGTTTTCAATACTATCATTGGGCTCGTTGTTCGTCTAACAGAACATGGTTTGATTCACTGTGACTTCAATGAATTTAACATTATGATTGATGATGACGAGAAGATCACCACGATTGATTTTCCCCAAATGGTCTCTGTATCACATCGTAATGCACTAATGTACTTTGACAGTGATGTGGAATGTGTCTTTAAGTTTTTCAGCAAGAGATTCAACATGTCTTTCCATGAATGCACAGCTGATATTGATGGAACAGCGGTGGACACAGATGATAGTGGCAGGCCTTCTTTTACTTCAATAACGAAAGATACTGGTTTTCTAGACAAGGAACTTTCTGCTAGTGGGTTTACTAGGAAGGATCAGGAAGAAATTGCTAAGTTTATTGAAGGAGGGATCAAGAAGGATGCTAGTTCTGATGATGAAGATACTGAAGATGACGAGCACATCTCTGTGTTAAAGGAAGCAAACACAATGGGTGTTGATTCACTGCATGTGGCAGATCAGACGTTACAGCATGATGAGCAGGTTGAACCAGAGAGCAATGTAAGAACATGTGCAGCAGGTCCCAGCAGTGAACCCGAAAATGAAGATGGGAGTAACGAGGAGGGAGATAATGAGACAGTTACTAATGACAATGATGCTGAGCTGGAAAAACGCTTGAACAAGGTGAGGCGACGTGCTGTAACAGCTGCCCGTGGAGGAAGAAAAACTTTTGCATCCAGAAATACCTACAAAGACAAGGGTGGTAAATCCTCTAACAGTTCCAAATCCAGAGACAATTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003824 GO:0004672 GO:0006464 GO:0006468 GO:0006793 GO:0006796 GO:0006807 GO:0008150 GO:0008152 GO:0009987 GO:0016301 GO:0016310 GO:0016740 GO:0016772 GO:0016773 GO:0019538 GO:0036211 GO:0043170 GO:0043412 GO:0044237 GO:0044238 GO:0044260 GO:0044267 GO:0071704 GO:0140096 GO:1901564

KEGG Pathways

Metabolic & Signaling

ko03008 map03008

Pfam Domains

Protein Families

RIO1 Rio2_N

Protein Analysis

444

Amino Acids

50.07

Weight (kDa)

5.65

Isoelectric Point (pI)

39.29

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Rio2_N	PF09202	17 - 42	1.3e-06	Rio2, N-terminal
RIO1	PF01163	59 - 260	2.5e-45	RIO domain

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: OG0002015)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G51270 AT3G51270 AT3G51270 AT3G51270
fragaria_vesca	FvH4_4g10760 FvH4_4g10760 FvH4_4g10760 FvH4_4g10760 FvH4_7g06440 FvH4_7g06440
malus_domestica	MD01G1035500.v1.1 MD02G1001000.v1.1 MD15G1320300.v1.1
prunus_persica	Prupe.5G084300_v2.0.a1 Prupe.5G084300_v2.0.a1 Prupe.5G084300_v2.0.a1 Prupe.5G084300_v2.0.a1
pyrus_communis	pycom01g06260 pycom15g28140
rosa_chinensis	RchiOBHm_Chr1g0334711 RchiOBHm_Chr7g0210541
rosa_laevigata	RLG00000026279 RLG00000029431
rosa_multiflora	Rmu_sc0002295.1_g000002 Rmu_sc0006031.1_g000024
rosa_roxburghii	Rroxscaffold_3G00236050 Rroxscaffold_4G00279110 Rroxscaffold_4G00316660
rosa_rugosa	Rorug01G0115100 Rorug01G0115200 Rorug07G0122000 Rorug07G0122100 Rorug07G0122100 Rorug07G0122200 Rorug07G0122200
rosa_samantha	Rh1AG140300 Rh1BG107400 Rh1CG132200 Rh1DG144300 Rh7AG254300 Rh7BG249600 Rh7CG271200 Rh7DG262000
rosa_wichuraiana	Rw1G011570 Rw7G021730

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	517
Acc36I	ACCTGC	3 cut(s)	517, 1066, 1103
AciI	CCGC	1 cut(s)	809
AclWI	GGATC	3 cut(s)	498, 918, 953
AcoI	YGGCCR	1 cut(s)	189
AcsI	RAATTY	2 cut(s)	335, 626
AcuI	CTGAAG	1 cut(s)	1002
AfaI	GTAC	4 cut(s)	83, 205, 426, 716
AflIII	ACRYGT	2 cut(s)	768, 1103
AgsI	TTSAA	9 cut(s)	298, 515, 562, 622, 766, 849, 938, 1082, 1213
AhlI	ACTAGT	1 cut(s)	421
AjiI	CACGTC	1 cut(s)	1229
AjnI	CCWGG	1 cut(s)	427
AluBI	AGCT	5 cut(s)	140, 501, 791, 1198, 1241
AluI	AGCT	5 cut(s)	140, 501, 791, 1198, 1241
Alw21I	GWGCWC	1 cut(s)	996
Alw26I	GTCTC	3 cut(s)	691, 1163, 1320
AlwI	GGATC	3 cut(s)	498, 918, 953
AoxI	GGCC	2 cut(s)	189, 833
ApeKI	GCWGC	4 cut(s)	44, 323, 1109, 1241
ApoI	RAATTY	2 cut(s)	335, 626
AspS9I	GGNCC	1 cut(s)	1115
AsuHPI	GGTGA	3 cut(s)	541, 652, 1231
AvaII	GGWCC	1 cut(s)	1115
BalI	TGGCCA	1 cut(s)	191
BanII	GRGCYC	1 cut(s)	579
Bbv12I	GWGCWC	1 cut(s)	996
BbvI	GCAGC	4 cut(s)	31, 310, 1121, 1228
BccI	CCATC	4 cut(s)	194, 205, 794, 1136
BciT130I	CCWGG	1 cut(s)	429
BcoDI	GTCTC	3 cut(s)	691, 1163, 1320
BcuI	ACTAGT	1 cut(s)	421
BfaI	CTAG	5 cut(s)	422, 872, 891, 903, 960
BfuAI	ACCTGC	3 cut(s)	517, 1066, 1103
BisI	GCNGC	4 cut(s)	45, 324, 1110, 1242
BlpI	GCTNAGC	1 cut(s)	1194
BlsI	GCNGC	4 cut(s)	46, 325, 1111, 1243
Bme1390I	CCNGG	1 cut(s)	429
Bme18I	GGWCC	1 cut(s)	1115
BmgBI	CACGTC	1 cut(s)	1229
BmgT120I	GGNCC	1 cut(s)	1115
BmiI	GGNNCC	1 cut(s)	1117
BmrFI	CCNGG	1 cut(s)	429
BmsI	GCATC	3 cut(s)	946, 1180, 1277
BoxI	GACNNNNGTC	1 cut(s)	116
BplI	GAGNNNNNCTC	2 cut(s)	983, 1015
Bpu1102I	GCTNAGC	1 cut(s)	1194
BpuEI	CTTGAG	2 cut(s)	431, 569
BsaI	GGTCTC	1 cut(s)	691
BsaJI	CCNNGG	3 cut(s)	85, 124, 1246
Bse1I	ACTGG	1 cut(s)	868
Bse3DI	GCAATG	2 cut(s)	222, 1099
BseBI	CCWGG	1 cut(s)	429
BseDI	CCNNGG	3 cut(s)	85, 124, 1246
BseGI	GGATG	2 cut(s)	961, 1268
BseMI	GCAATG	2 cut(s)	222, 1099
BseMII	CTCAG	2 cut(s)	343, 1185
BseNI	ACTGG	1 cut(s)	868
BseRI	GAGGAG	1 cut(s)	1169
BseXI	GCAGC	4 cut(s)	31, 310, 1121, 1228
BseYI	CCCAGC	1 cut(s)	1118
BsgI	GTGCAG	3 cut(s)	309, 545, 1128
BshFI	GGCC	2 cut(s)	191, 835
BsiHKAI	GWGCWC	1 cut(s)	996
BslFI	GGGAC	2 cut(s)	298, 1101
BsmAI	GTCTC	3 cut(s)	691, 1163, 1320
BsmFI	GGGAC	2 cut(s)	298, 1101
BsmI	GAATGC	1 cut(s)	788
BsnI	GGCC	2 cut(s)	191, 835
Bso31I	GGTCTC	1 cut(s)	691
Bsp1286I	GDGCHC	2 cut(s)	579, 996
Bsp143I	GATC	5 cut(s)	490, 657, 910, 945, 1051
Bsp1720I	GCTNAGC	1 cut(s)	1194
BspACI	CCGC	1 cut(s)	809
BspANI	GGCC	2 cut(s)	191, 835
BspCNI	CTCAG	2 cut(s)	342, 1186
BspLI	GGNNCC	1 cut(s)	1117
BspMI	ACCTGC	3 cut(s)	517, 1066, 1103
BspPI	GGATC	3 cut(s)	498, 918, 953
BspQI	GCTCTTC	1 cut(s)	354
BspTNI	GGTCTC	1 cut(s)	691
BsrDI	GCAATG	2 cut(s)	222, 1099
BsrI	ACTGG	1 cut(s)	868
BssECI	CCNNGG	3 cut(s)	85, 124, 1246
BssMI	GATC	5 cut(s)	490, 657, 910, 945, 1051
Bst2UI	CCWGG	1 cut(s)	429
Bst4CI	ACNGT	7 cut(s)	26, 125, 208, 614, 725, 1174, 1313
Bst6I	CTCTTC	1 cut(s)	354
BstC8I	GCNNGC	1 cut(s)	833
BstDEI	CTNAG	4 cut(s)	264, 329, 927, 1194
BstDSI	CCRYGG	2 cut(s)	124, 1246
BstF5I	GGATG	2 cut(s)	961, 1268
BstKTI	GATC	5 cut(s)	493, 660, 913, 948, 1054
BstMAI	GTCTC	3 cut(s)	691, 1163, 1320
BstMBI	GATC	5 cut(s)	490, 657, 910, 945, 1051
BstMWI	GCNNNNNNNGC	3 cut(s)	532, 1072, 1238
BstNI	CCWGG	1 cut(s)	429
BstNSI	RCATGY	4 cut(s)	44, 772, 1046, 1107
BstPAI	GACNNNNGTC	1 cut(s)	116
BstSCI	CCNGG	1 cut(s)	427
BstV1I	GCAGC	4 cut(s)	31, 310, 1121, 1228
BstX2I	RGATCY	1 cut(s)	490
BstYI	RGATCY	1 cut(s)	490
BsuRI	GGCC	2 cut(s)	191, 835
BtgI	CCRYGG	2 cut(s)	124, 1246
BtrI	CACGTC	1 cut(s)	1229
BtsCI	GGATG	2 cut(s)	961, 1268
BtsI	GCAGTG	3 cut(s)	393, 1037, 1129
BtsIMutI	CAGTG	6 cut(s)	213, 393, 610, 730, 1037, 1129
BveI	ACCTGC	3 cut(s)	517, 1066, 1103
Cac8I	GCNNGC	1 cut(s)	833
Cfr13I	GGNCC	1 cut(s)	1115
Csp6I	GTAC	4 cut(s)	82, 204, 425, 715
CspCI	CAANNNNNGTGG	2 cut(s)	369, 404
CviAII	CATG	9 cut(s)	41, 365, 477, 599, 769, 779, 1043, 1067, 1104
CviQI	GTAC	4 cut(s)	82, 204, 425, 715
DdeI	CTNAG	4 cut(s)	264, 329, 927, 1194
DpnI	GATC	5 cut(s)	492, 659, 912, 947, 1053
DpnII	GATC	5 cut(s)	490, 657, 910, 945, 1051
EaeI	YGGCCR	1 cut(s)	189
Eam1104I	CTCTTC	1 cut(s)	354
EarI	CTCTTC	1 cut(s)	354
Eco147I	AGGCCT	1 cut(s)	835
Eco24I	GRGCYC	1 cut(s)	579
Eco31I	GGTCTC	1 cut(s)	691
Eco47I	GGWCC	1 cut(s)	1115
Eco57I	CTGAAG	1 cut(s)	1002
EcoO109I	RGGNCCY	1 cut(s)	1115
EcoRII	CCWGG	1 cut(s)	427
EcoT38I	GRGCYC	1 cut(s)	579
FaeI	CATG	9 cut(s)	44, 368, 480, 602, 772, 782, 1046, 1070, 1107
FalI	AAGNNNNNCTT	2 cut(s)	1246, 1278
FaqI	GGGAC	2 cut(s)	298, 1101
FatI	CATG	9 cut(s)	40, 364, 476, 598, 768, 778, 1042, 1066, 1103
Fnu4HI	GCNGC	4 cut(s)	45, 324, 1110, 1242
FokI	GGATG	2 cut(s)	968, 1255
FriOI	GRGCYC	1 cut(s)	579
Fsp4HI	GCNGC	4 cut(s)	45, 324, 1110, 1242
FspBI	CTAG	5 cut(s)	422, 872, 891, 903, 960
GluI	GCNGC	4 cut(s)	45, 324, 1110, 1242
GsaI	CCCAGC	1 cut(s)	1122
HaeIII	GGCC	2 cut(s)	191, 835
Hin1II	CATG	9 cut(s)	44, 368, 480, 602, 772, 782, 1046, 1070, 1107
HincII	GTYRAC	1 cut(s)	121
HindII	GTYRAC	1 cut(s)	121
HinfI	GANTC	5 cut(s)	129, 170, 607, 762, 1034
HphI	GGTGA	3 cut(s)	541, 652, 1231
Hpy166II	GTNNAC	5 cut(s)	29, 121, 814, 900, 1127
Hpy188I	TCNGA	4 cut(s)	175, 332, 967, 1056
Hpy188III	TCNNGA	7 cut(s)	448, 548, 872, 914, 949, 1272, 1323
Hpy8I	GTNNAC	5 cut(s)	29, 121, 814, 900, 1127
Hpy99I	CGWCG	1 cut(s)	1230
HpyAV	CCTTC	7 cut(s)	343, 493, 516, 846, 901, 932, 946
HpyCH4III	ACNGT	7 cut(s)	26, 125, 208, 614, 725, 1174, 1313
HpyCH4IV	ACGT	3 cut(s)	80, 1058, 1228
HpyF10VI	GCNNNNNNNGC	3 cut(s)	532, 1072, 1238
HpyF3I	CTNAG	4 cut(s)	264, 329, 927, 1194
HpySE526I	ACGT	3 cut(s)	80, 1058, 1228
Hsp92II	CATG	9 cut(s)	44, 368, 480, 602, 772, 782, 1046, 1070, 1107
Kzo9I	GATC	5 cut(s)	490, 657, 910, 945, 1051
LguI	GCTCTTC	1 cut(s)	354
LmnI	GCTCC	3 cut(s)	9, 485, 498
Lsp1109I	GCAGC	4 cut(s)	31, 310, 1121, 1228
LweI	GCATC	3 cut(s)	946, 1180, 1277
MaeI	CTAG	5 cut(s)	422, 872, 891, 903, 960
MaeII	ACGT	3 cut(s)	80, 1058, 1228
MaeIII	GTNAC	7 cut(s)	395, 417, 614, 1059, 1148, 1174, 1234
MalI	GATC	5 cut(s)	492, 659, 912, 947, 1053
MboI	GATC	5 cut(s)	490, 657, 910, 945, 1051
MboII	GAAGA	8 cut(s)	209, 371, 667, 929, 986, 995, 1151, 1266
MfeI	CAATTG	2 cut(s)	298, 536
MflI	RGATCY	1 cut(s)	490
MhlI	GDGCHC	2 cut(s)	579, 996
MlsI	TGGCCA	1 cut(s)	191
MluCI	AATT	8 cut(s)	105, 221, 298, 335, 536, 626, 921, 1330
MluNI	TGGCCA	1 cut(s)	191
MlyI	GAGTC	2 cut(s)	138, 179
MmeI	TCCRAC	1 cut(s)	142
MnlI	CCTC	9 cut(s)	17, 95, 178, 935, 1147, 1150, 1215, 1244, 1315
Mox20I	TGGCCA	1 cut(s)	191
MscI	TGGCCA	1 cut(s)	191
MseI	TTAA	6 cut(s)	108, 278, 630, 744, 1007, 1333
MslI	CAYNNNNRTG	2 cut(s)	702, 1001
Msp20I	TGGCCA	1 cut(s)	191
MspA1I	CMGCKG	4 cut(s)	140, 791, 809, 1241
MspR9I	CCNGG	1 cut(s)	429
MunI	CAATTG	2 cut(s)	298, 536
Mva1269I	GAATGC	1 cut(s)	788
MvaI	CCWGG	1 cut(s)	429
MwoI	GCNNNNNNNGC	3 cut(s)	532, 1072, 1238
NdeII	GATC	5 cut(s)	490, 657, 910, 945, 1051
NlaIII	CATG	9 cut(s)	44, 368, 480, 602, 772, 782, 1046, 1070, 1107
NlaIV	GGNNCC	1 cut(s)	1117
NmuCI	GTSAC	2 cut(s)	417, 614
NspI	RCATGY	4 cut(s)	44, 772, 1046, 1107
PaqCI	CACCTGC	1 cut(s)	517
PceI	AGGCCT	1 cut(s)	835
PciI	ACATGT	2 cut(s)	768, 1103
PciSI	GCTCTTC	1 cut(s)	354
PctI	GAATGC	1 cut(s)	788
PfeI	GAWTC	3 cut(s)	607, 762, 1034
PkrI	GCNGC	4 cut(s)	46, 325, 1111, 1243
PleI	GAGTC	2 cut(s)	137, 178
PpsI	GAGTC	2 cut(s)	137, 178
PpuMI	RGGWCCY	1 cut(s)	1115
PscI	ACATGT	2 cut(s)	768, 1103
PshAI	GACNNNNGTC	1 cut(s)	116
Psp5II	RGGWCCY	1 cut(s)	1115
Psp6I	CCWGG	1 cut(s)	427
PspFI	CCCAGC	1 cut(s)	1118
PspGI	CCWGG	1 cut(s)	427
PspN4I	GGNNCC	1 cut(s)	1117
PspPI	GGNCC	1 cut(s)	1115
PspPPI	RGGWCCY	1 cut(s)	1115
PsuI	RGATCY	1 cut(s)	490
PvuII	CAGCTG	3 cut(s)	140, 791, 1241
RsaI	GTAC	4 cut(s)	83, 205, 426, 716
RsaNI	GTAC	4 cut(s)	82, 204, 425, 715
RseI	CAYNNNNRTG	2 cut(s)	702, 1001
SapI	GCTCTTC	1 cut(s)	354
SaqAI	TTAA	6 cut(s)	108, 278, 630, 744, 1007, 1333
SatI	GCNGC	4 cut(s)	45, 324, 1110, 1242
Sau3AI	GATC	5 cut(s)	490, 657, 910, 945, 1051
Sau96I	GGNCC	1 cut(s)	1115
SchI	GAGTC	2 cut(s)	138, 179
ScrFI	CCNGG	1 cut(s)	429
SduI	GDGCHC	2 cut(s)	579, 996
SfaNI	GCATC	3 cut(s)	946, 1180, 1277
SinI	GGWCC	1 cut(s)	1115
SmiMI	CAYNNNNRTG	2 cut(s)	702, 1001
SmlI	CTYRAG	2 cut(s)	446, 548
SmoI	CTYRAG	2 cut(s)	446, 548
SpeI	ACTAGT	1 cut(s)	421
Sse9I	AATT	8 cut(s)	105, 221, 298, 335, 536, 626, 921, 1330
SseBI	AGGCCT	1 cut(s)	835
SsiI	CCGC	1 cut(s)	809
SspI	AATATT	1 cut(s)	470
SspMI	CTAG	5 cut(s)	422, 872, 891, 903, 960
StuI	AGGCCT	1 cut(s)	835
StyD4I	CCNGG	1 cut(s)	427
TaaI	ACNGT	7 cut(s)	26, 125, 208, 614, 725, 1174, 1313
TaiI	ACGT	3 cut(s)	83, 1061, 1231
TasI	AATT	8 cut(s)	105, 221, 298, 335, 536, 626, 921, 1330
TatI	WGTACW	1 cut(s)	714
TfiI	GAWTC	3 cut(s)	607, 762, 1034
Tru1I	TTAA	6 cut(s)	108, 278, 630, 744, 1007, 1333
Tru9I	TTAA	6 cut(s)	108, 278, 630, 744, 1007, 1333
TscAI	CASTG	6 cut(s)	213, 393, 617, 730, 1044, 1129
TseFI	GTSAC	2 cut(s)	417, 614
TseI	GCWGC	4 cut(s)	44, 323, 1109, 1241
Tsp45I	GTSAC	2 cut(s)	417, 614
TspDTI	ATGAA	6 cut(s)	233, 362, 639, 795, 987, 1152
TspRI	CASTG	6 cut(s)	213, 393, 617, 730, 1044, 1129
VpaK11BI	GGWCC	1 cut(s)	1115
XapI	RAATTY	2 cut(s)	335, 626
XbaI	TCTAGA	1 cut(s)	871
XceI	RCATGY	4 cut(s)	44, 772, 1046, 1107
XcmI	CCANNNNNNNNNTGG	1 cut(s)	158
XspI	CTAG	5 cut(s)	422, 872, 891, 903, 960

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