Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000003

Orthogroup ID

OG0002914

Physical Location & Seq

Genomic Coordinates Reverse (-)

43478496 .. 43484555

Gene Structure 6060 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_3G00249700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1242 bp

ATGTATGAGGAAGACCGCCCTAAGTTTATACCGAAAAGGTTTACATCTATGAGAAGCATCCCTGCATATGAGAATGCTATTAAGGAGTGCTTCGAAAGATGTTTGGATCTATACTTGTGCCCCAGAGTTCGGAAGAAACGTATCAATATTGATCCTGAATCTCTGAAGCCCAAGCTACCAAGCCGAAAGGATCTCAAGCCTTATCCTGTGAAATGTTATCTAGAGTATAGAGGTCACAAAGACACAGTTACATCAGTTTCCACAGAAGCTTCAGGGCAGTGGATTGCATCAGGTTCATCGGATGGAACTGTGCGTATTTGGGAGGTTGAAACTGGTAGATGTCTCAAACTTTGGGAGATTGGAGAAGCTGTCACATATGTAGCTTGGAATCCCAATCCTGAGTATTCCGTATTGGCTGTCTCTGTGGGACAAGATGTACTTATTCTCAACACTGGTTTTGGGAATGAAGAAGTACAGAAAAAAACTAAAGAACTTCTTTCGGCTGAAAGACCTACCACACCAGATGACACGGCTACCTTCGTGAGCTGGATTCAAGATGAAACACATGAGGGCACCAGGTTAAGACATTTTAAGACTGTGTCTTCAGTGGAATGGCATCGTAGAGGAGACTACTTTTCAACGGTGGTGCCAGCAGCTTTACGCCAATCGAAATCAATTTTTATGCATAGGCTCTCTCAGAAGTCTACCCAGACATTTTCAATCAAGTTGGGTGGGCTTGCAGTTACTTCAGTTTTCCATCCTGTTCGCTCCCACATCTTCATTTCTACAAAGAAAACTATTCGCCAATATGATTTGGTGAAGGGAAAGCAAATCAGAAAGCTTGATACAGGACTAAAAGAAATCTCCTCCATTGCAGTTCATCCTTCTGGTGATCATGTAATTGTGGGGAGCAGAGAAGGAAAATTTTGTTGGTTTGATATGGATCTTTCAACCAAAAAACCTTACCTTATTCGCCAGTGGCATAAGAAGGACATCAACAATGTGTCTATCCATCGTTTATATCCGTTGTTTGCAACATGCTCTGATGATTGCACTGTACAAGTTTCTCATGGCATGGTTTATTCAGATCTTAACCAGAACCCTCTTATAGTTCCACTGGAAATACTCCGAGGTCATGCAAGCACAGATGGGAGAGGTGTAATGGATTGCAAATTCCACCCAAGGCAGCCCTGGTTGTTCACGGCCGGTGCTGACTCGGTGATCAGACTTTACTGCGATTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000463 GO:0000470 GO:0003674 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005730 GO:0006139 GO:0006364 GO:0006396 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009987 GO:0010467 GO:0016070 GO:0016072 GO:0022613 GO:0030684 GO:0030686 GO:0030687 GO:0031974 GO:0031981 GO:0032991 GO:0034470 GO:0034641 GO:0034660 GO:0042254 GO:0042273 GO:0043021 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0044085 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044452 GO:0044464 GO:0044877 GO:0046483 GO:0070013 GO:0070545 GO:0071704 GO:0071840 GO:0090304 GO:1901360 GO:1990904

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

BOP1NT WD40

Protein Analysis

413

Amino Acids

47.2

Weight (kDa)

9.12

Isoelectric Point (pI)

37.69

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
BOP1NT	PF08145	3 - 69	1.7e-28	BOP1NT (NUC169) domain
WD40_CDC20-Fz	PF24807	66 - 143	1.1e-06	CDC20/Fizzy WD40 domain
WD40	PF00400	71 - 107	4.7e-10	WD domain, G-beta repeat
Beta-prop_WDR5	PF25175	72 - 151	5.2e-13	WDR5 beta-propeller domain
Beta-prop_THOC3	PF25174	74 - 207	1.6e-11	THOC3 beta-propeller domain
Beta-prop_WDR3_1st	PF25173	74 - 146	1.9e-08	WDR3 first beta-propeller domain
WD40_WDHD1_1st	PF24817	74 - 156	4.6e-11	WDHD1 first WD40 domain
WD40_Prp19	PF24814	75 - 137	2.3e-06	Prp19 WD40 domain
Beta-prop_WDR36-Utp21_2nd	PF25168	75 - 136	5.3e-07	WDR36/Utp21 second beta-propeller domain
EIF3I	PF24805	76 - 144	2.5e-09	EIF3I
WD40_Prp19	PF24814	185 - 315	8.2e-06	Prp19 WD40 domain
Beta-prop_THOC3	PF25174	196 - 411	1.9e-12	THOC3 beta-propeller domain
WD40_CDC20-Fz	PF24807	225 - 361	2.8e-08	CDC20/Fizzy WD40 domain
Beta-prop_WDR3_1st	PF25173	260 - 411	7.4e-09	WDR3 first beta-propeller domain
Beta-prop_EML_2	PF23414	261 - 355	1.2e-07	Echinoderm microtubule-associated protein second beta-propeller
WD40_Prp19	PF24814	265 - 411	3.2e-09	Prp19 WD40 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)

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Publication-ready

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Orthologous Genes (Group: OG0002914)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G40360 AT2G40360
fragaria_vesca	FvH4_5g21650 FvH4_5g21650 FvH4_5g21650
malus_domestica	MD05G1062400.v1.1 MD10G1070100.v1.1
prunus_persica	Prupe.6G114000_v2.0.a1 Prupe.7G053600_v2.0.a1 Prupe.7G053600_v2.0.a1 Prupe.7G053600_v2.0.a1
pyrus_communis	pycom05g05370 pycom05g05390 pycom10g05570
rosa_chinensis	RchiOBHm_Chr7g0209131 RchiOBHm_Chr7g0241521 RchiOBHm_Chr7g0241531 RchiOBHm_Chr7g0241541
rosa_laevigata	RLG00000000568
rosa_multiflora	Rmu_sc0000821.1_g000025 Rmu_sc0002268.1_g000023
rosa_roxburghii	Rroxscaffold_3G00218950 Rroxscaffold_3G00249700
rosa_rugosa	Rorug07G0109700 Rorug07G0109800 Rorug07G0345000
rosa_samantha	Rh7AG243600 Rh7AG499500 Rh7AG499600 Rh7BG238700 Rh7BG470600 Rh7BG470700 Rh7CG259100 Rh7DG250600 Rh7DG484000 Rh7DG484200
rosa_wichuraiana	Rw7G020660 Rw7G042200

Restriction Enzyme Sites

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Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	2 cut(s)	572, 646
AccI	GTMKAC	1 cut(s)	704
AciI	CCGC	1 cut(s)	16
AclWI	GGATC	4 cut(s)	114, 146, 198, 951
AcoI	YGGCCR	1 cut(s)	1203
AcsI	RAATTY	2 cut(s)	923, 1172
AcuI	CTGAAG	4 cut(s)	185, 255, 588, 732
AfaI	GTAC	3 cut(s)	438, 474, 1059
AfiI	CCNNNNNNNGG	1 cut(s)	129
AgsI	TTSAA	5 cut(s)	329, 554, 639, 720, 951
AjnI	CCWGG	2 cut(s)	575, 1190
AjuI	GAANNNNNNNTTGG	2 cut(s)	913, 945
AluBI	AGCT	7 cut(s)	175, 269, 368, 383, 546, 656, 841
AluI	AGCT	7 cut(s)	175, 269, 368, 383, 546, 656, 841
Alw26I	GTCTC	3 cut(s)	347, 424, 621
AlwI	GGATC	4 cut(s)	114, 146, 198, 951
AoxI	GGCC	1 cut(s)	1203
ApeKI	GCWGC	2 cut(s)	653, 1186
ApoI	RAATTY	2 cut(s)	923, 1172
AsuHPI	GGTGA	3 cut(s)	829, 902, 1231
AsuII	TTCGAA	1 cut(s)	93
BaeGI	GKGCMC	2 cut(s)	122, 575
BanI	GGYRCC	2 cut(s)	572, 646
BbsI	GAAGAC	2 cut(s)	18, 594
BbvI	GCAGC	2 cut(s)	665, 1198
BccI	CCATC	4 cut(s)	296, 765, 1020, 1142
BceAI	ACGGC	2 cut(s)	546, 1218
BciT130I	CCWGG	2 cut(s)	577, 1192
BclI	TGATCA	2 cut(s)	892, 1221
BcoDI	GTCTC	3 cut(s)	347, 424, 621
BfaI	CTAG	1 cut(s)	221
BglII	AGATCT	1 cut(s)	1087
BisI	GCNGC	2 cut(s)	654, 1187
BlsI	GCNGC	2 cut(s)	655, 1188
Bme1390I	CCNGG	2 cut(s)	577, 1192
BmiI	GGNNCC	2 cut(s)	574, 648
BmrFI	CCNGG	2 cut(s)	577, 1192
BmsI	GCATC	3 cut(s)	66, 296, 625
BpiI	GAAGAC	2 cut(s)	18, 594
Bpu14I	TTCGAA	1 cut(s)	93
BpuEI	CTTGAG	1 cut(s)	179
BsaBI	GATNNNNATC	1 cut(s)	942
BsaJI	CCNNGG	3 cut(s)	1129, 1181, 1190
BsaXI	ACNNNNNCTCC	2 cut(s)	354, 384
Bsc4I	CCNNNNNNNGG	1 cut(s)	129
Bse118I	RCCGGY	1 cut(s)	1205
Bse1I	ACTGG	4 cut(s)	337, 457, 976, 1122
Bse3DI	GCAATG	1 cut(s)	870
Bse8I	GATNNNNATC	1 cut(s)	942
BseBI	CCWGG	2 cut(s)	577, 1192
BseDI	CCNNGG	3 cut(s)	1129, 1181, 1190
BseGI	GGATG	4 cut(s)	57, 307, 757, 880
BseJI	GATNNNNATC	1 cut(s)	942
BseLI	CCNNNNNNNGG	1 cut(s)	129
BseMI	GCAATG	1 cut(s)	870
BseMII	CTCAG	2 cut(s)	390, 710
BseNI	ACTGG	4 cut(s)	337, 457, 976, 1122
BseRI	GAGGAG	2 cut(s)	639, 856
BseSI	GKGCMC	2 cut(s)	122, 575
BseX3I	CGGCCG	1 cut(s)	1203
BseXI	GCAGC	2 cut(s)	665, 1198
Bsh1285I	CGRYCG	1 cut(s)	1206
BshFI	GGCC	1 cut(s)	1205
BshNI	GGYRCC	2 cut(s)	572, 646
BsiEI	CGRYCG	1 cut(s)	1206
BsiSI	CCGG	1 cut(s)	1206
BslFI	GGGAC	1 cut(s)	441
BslI	CCNNNNNNNGG	1 cut(s)	129
BsmAI	GTCTC	3 cut(s)	347, 424, 621
BsmFI	GGGAC	1 cut(s)	441
BsmI	GAATGC	1 cut(s)	79
BsnI	GGCC	1 cut(s)	1205
Bsp119I	TTCGAA	1 cut(s)	93
Bsp1286I	GDGCHC	2 cut(s)	122, 575
Bsp1407I	TGTACA	1 cut(s)	1057
Bsp143I	GATC	7 cut(s)	106, 151, 190, 892, 943, 1087, 1221
BspACI	CCGC	1 cut(s)	16
BspANI	GGCC	1 cut(s)	1205
BspCNI	CTCAG	2 cut(s)	391, 709
BspLI	GGNNCC	2 cut(s)	574, 648
BspPI	GGATC	4 cut(s)	114, 146, 198, 951
BspT104I	TTCGAA	1 cut(s)	93
BspT107I	GGYRCC	2 cut(s)	572, 646
BsrDI	GCAATG	1 cut(s)	870
BsrFI	RCCGGY	1 cut(s)	1205
BsrGI	TGTACA	1 cut(s)	1057
BsrI	ACTGG	4 cut(s)	337, 457, 976, 1122
BssAI	RCCGGY	1 cut(s)	1205
BssECI	CCNNGG	3 cut(s)	1129, 1181, 1190
BssMI	GATC	7 cut(s)	106, 151, 190, 892, 943, 1087, 1221
BssT1I	CCWWGG	1 cut(s)	1181
Bst2UI	CCWGG	2 cut(s)	577, 1192
Bst4CI	ACNGT	5 cut(s)	247, 310, 598, 643, 1057
BstAUI	TGTACA	1 cut(s)	1057
BstBI	TTCGAA	1 cut(s)	93
BstC8I	GCNNGC	3 cut(s)	651, 738, 1141
BstDEI	CTNAG	3 cut(s)	21, 399, 696
BstF5I	GGATG	4 cut(s)	57, 307, 757, 880
BstKTI	GATC	7 cut(s)	109, 154, 193, 895, 946, 1090, 1224
BstMAI	GTCTC	3 cut(s)	347, 424, 621
BstMBI	GATC	7 cut(s)	106, 151, 190, 892, 943, 1087, 1221
BstMCI	CGRYCG	1 cut(s)	1206
BstNI	CCWGG	2 cut(s)	577, 1192
BstNSI	RCATGY	1 cut(s)	1041
BstSCI	CCNGG	2 cut(s)	575, 1190
BstSLI	GKGCMC	2 cut(s)	122, 575
BstV1I	GCAGC	2 cut(s)	665, 1198
BstV2I	GAAGAC	2 cut(s)	18, 594
BstX2I	RGATCY	4 cut(s)	106, 190, 943, 1087
BstYI	RGATCY	4 cut(s)	106, 190, 943, 1087
BstZI	CGGCCG	1 cut(s)	1203
BsuRI	GGCC	1 cut(s)	1205
BtsCI	GGATG	4 cut(s)	57, 307, 757, 880
BtsI	GCAGTG	1 cut(s)	284
BtsIMutI	CAGTG	6 cut(s)	284, 450, 612, 983, 1053, 1115
Cac8I	GCNNGC	3 cut(s)	651, 738, 1141
Cfr10I	RCCGGY	1 cut(s)	1205
CsiI	ACCWGGT	1 cut(s)	575
Csp6I	GTAC	3 cut(s)	437, 473, 1058
CspCI	CAANNNNNGTGG	2 cut(s)	712, 747
CviAII	CATG	6 cut(s)	566, 896, 1038, 1070, 1075, 1136
CviQI	GTAC	3 cut(s)	437, 473, 1058
DdeI	CTNAG	3 cut(s)	21, 399, 696
DpnI	GATC	7 cut(s)	108, 153, 192, 894, 945, 1089, 1223
DpnII	GATC	7 cut(s)	106, 151, 190, 892, 943, 1087, 1221
EaeI	YGGCCR	1 cut(s)	1203
EagI	CGGCCG	1 cut(s)	1203
EclXI	CGGCCG	1 cut(s)	1203
Eco130I	CCWWGG	1 cut(s)	1181
Eco52I	CGGCCG	1 cut(s)	1203
Eco57I	CTGAAG	4 cut(s)	185, 255, 588, 732
EcoRII	CCWGG	2 cut(s)	575, 1190
EcoT14I	CCWWGG	1 cut(s)	1181
EcoT22I	ATGCAT	1 cut(s)	687
ErhI	CCWWGG	1 cut(s)	1181
FaeI	CATG	6 cut(s)	569, 899, 1041, 1073, 1078, 1139
FalI	AAGNNNNNCTT	6 cut(s)	74, 106, 423, 455, 480, 512
FaqI	GGGAC	1 cut(s)	441
FatI	CATG	6 cut(s)	565, 895, 1037, 1069, 1074, 1135
FauNDI	CATATG	2 cut(s)	67, 376
FbaI	TGATCA	2 cut(s)	892, 1221
FblI	GTMKAC	1 cut(s)	704
Fnu4HI	GCNGC	2 cut(s)	654, 1187
FokI	GGATG	4 cut(s)	44, 314, 744, 867
Fsp4HI	GCNGC	2 cut(s)	654, 1187
FspBI	CTAG	1 cut(s)	221
GluI	GCNGC	2 cut(s)	654, 1187
HaeIII	GGCC	1 cut(s)	1205
HapII	CCGG	1 cut(s)	1206
Hin1II	CATG	6 cut(s)	569, 899, 1041, 1073, 1078, 1139
HindIII	AAGCTT	2 cut(s)	267, 839
HinfI	GANTC	4 cut(s)	158, 388, 550, 1214
HpaII	CCGG	1 cut(s)	1206
HphI	GGTGA	3 cut(s)	829, 902, 1231
Hpy166II	GTNNAC	3 cut(s)	42, 705, 1200
Hpy188I	TCNGA	9 cut(s)	132, 165, 301, 699, 836, 1045, 1087, 1130, 1226
Hpy188III	TCNNGA	5 cut(s)	155, 221, 398, 541, 554
Hpy8I	GTNNAC	3 cut(s)	42, 705, 1200
HpyAV	CCTTC	5 cut(s)	547, 814, 894, 911, 982
HpyCH4III	ACNGT	5 cut(s)	247, 310, 598, 643, 1057
HpyCH4IV	ACGT	1 cut(s)	139
HpyCH4V	TGCA	9 cut(s)	65, 287, 685, 740, 875, 1034, 1053, 1139, 1170
HpyF3I	CTNAG	3 cut(s)	21, 399, 696
HpySE526I	ACGT	1 cut(s)	139
Hsp92II	CATG	6 cut(s)	569, 899, 1041, 1073, 1078, 1139
Ksp22I	TGATCA	2 cut(s)	892, 1221
Kzo9I	GATC	7 cut(s)	106, 151, 190, 892, 943, 1087, 1221
LmnI	GCTCC	2 cut(s)	773, 909
Lsp1109I	GCAGC	2 cut(s)	665, 1198
LweI	GCATC	3 cut(s)	66, 296, 625
MabI	ACCWGGT	1 cut(s)	575
MaeI	CTAG	1 cut(s)	221
MaeII	ACGT	1 cut(s)	139
MaeIII	GTNAC	4 cut(s)	233, 247, 370, 742
MalI	GATC	7 cut(s)	108, 153, 192, 894, 945, 1089, 1223
MboI	GATC	7 cut(s)	106, 151, 190, 892, 943, 1087, 1221
MboII	GAAGA	5 cut(s)	23, 145, 479, 594, 769
MflI	RGATCY	4 cut(s)	106, 190, 943, 1087
MhlI	GDGCHC	2 cut(s)	122, 575
MluCI	AATT	4 cut(s)	675, 900, 923, 1172
MlyI	GAGTC	1 cut(s)	1208
MnlI	CCTC	8 cut(s)	224, 316, 562, 617, 877, 1113, 1124, 1148
Mph1103I	ATGCAT	1 cut(s)	687
MseI	TTAA	4 cut(s)	81, 581, 591, 1092
MspI	CCGG	1 cut(s)	1206
MspR9I	CCNGG	2 cut(s)	577, 1192
Mva1269I	GAATGC	1 cut(s)	79
MvaI	CCWGG	2 cut(s)	577, 1192
NdeI	CATATG	2 cut(s)	67, 376
NdeII	GATC	7 cut(s)	106, 151, 190, 892, 943, 1087, 1221
NlaIII	CATG	6 cut(s)	569, 899, 1041, 1073, 1078, 1139
NlaIV	GGNNCC	2 cut(s)	574, 648
NmuCI	GTSAC	2 cut(s)	233, 370
NsiI	ATGCAT	1 cut(s)	687
NspI	RCATGY	1 cut(s)	1041
NspV	TTCGAA	1 cut(s)	93
PcsI	WCGNNNNNNNCGW	1 cut(s)	136
PctI	GAATGC	1 cut(s)	79
PfeI	GAWTC	3 cut(s)	158, 388, 550
PflFI	GACNNNGTC	1 cut(s)	598
PkrI	GCNGC	2 cut(s)	655, 1188
PleI	GAGTC	1 cut(s)	1208
PpsI	GAGTC	1 cut(s)	1208
Psp6I	CCWGG	2 cut(s)	575, 1190
PspGI	CCWGG	2 cut(s)	575, 1190
PspN4I	GGNNCC	2 cut(s)	574, 648
PsuI	RGATCY	4 cut(s)	106, 190, 943, 1087
PsyI	GACNNNGTC	1 cut(s)	598
RsaI	GTAC	3 cut(s)	438, 474, 1059
RsaNI	GTAC	3 cut(s)	437, 473, 1058
SaqAI	TTAA	4 cut(s)	81, 581, 591, 1092
SatI	GCNGC	2 cut(s)	654, 1187
Sau3AI	GATC	7 cut(s)	106, 151, 190, 892, 943, 1087, 1221
SchI	GAGTC	1 cut(s)	1208
ScrFI	CCNGG	2 cut(s)	577, 1192
SduI	GDGCHC	2 cut(s)	122, 575
SexAI	ACCWGGT	1 cut(s)	575
SfaNI	GCATC	3 cut(s)	66, 296, 625
SfuI	TTCGAA	1 cut(s)	93
SmlI	CTYRAG	1 cut(s)	194
SmoI	CTYRAG	1 cut(s)	194
Sse9I	AATT	4 cut(s)	675, 900, 923, 1172
SsiI	CCGC	1 cut(s)	16
SspI	AATATT	1 cut(s)	148
SspMI	CTAG	1 cut(s)	221
StyD4I	CCNGG	2 cut(s)	575, 1190
StyI	CCWWGG	1 cut(s)	1181
TaaI	ACNGT	5 cut(s)	247, 310, 598, 643, 1057
TaiI	ACGT	1 cut(s)	142
TaqI	TCGA	2 cut(s)	93, 668
TasI	AATT	4 cut(s)	675, 900, 923, 1172
TatI	WGTACW	3 cut(s)	436, 472, 1057
TfiI	GAWTC	3 cut(s)	158, 388, 550
Tru1I	TTAA	4 cut(s)	81, 581, 591, 1092
Tru9I	TTAA	4 cut(s)	81, 581, 591, 1092
TscAI	CASTG	6 cut(s)	284, 457, 612, 983, 1060, 1122
TseFI	GTSAC	2 cut(s)	233, 370
TseI	GCWGC	2 cut(s)	653, 1186
Tsp45I	GTSAC	2 cut(s)	233, 370
TspDTI	ATGAA	5 cut(s)	285, 480, 573, 769, 869
TspGWI	ACGGA	2 cut(s)	397, 1014
TspRI	CASTG	6 cut(s)	284, 457, 612, 983, 1060, 1122
Tth111I	GACNNNGTC	1 cut(s)	598
XapI	RAATTY	2 cut(s)	923, 1172
XbaI	TCTAGA	1 cut(s)	220
XceI	RCATGY	1 cut(s)	1041
XcmI	CCANNNNNNNNNTGG	1 cut(s)	1188
XmiI	GTMKAC	1 cut(s)	704
XspI	CTAG	1 cut(s)	221
Zsp2I	ATGCAT	1 cut(s)	687

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