Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000005

Orthogroup ID

OG0009973

Physical Location & Seq

Genomic Coordinates Forward (+)

60306075 .. 60307343

Gene Structure 1269 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_5G00380130.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1269 bp

ATGTCAACGTCATATCTCCCAGCAACAACGGATTCAATTGCTCTGGCTTTAGAGGCCAAAGCTCCATCTGAAGCCATAGCTATTCTGTATCGTATTCTTGAAAACCCATCCACTTCTTCCGAAGCTCTACGCATTAAGGAACAGGCCATCACCAATCTGTCAGATCTTCTTAGACAAGAGAATCGGGGAGAAGATCTTCGTAACCTTCTTACCCAGTTGAGGCCTTTCTTTAGCTTGATTCCAAAGGCAAAAACTGCAAAGATTGTTCGTGGCATAATAGATACAGTGGCTAAAATACCCGGCACATCTGAACTTCAGATTTCCCTTTGCAAAGACATGGTGCAGTGGACTCGTGCTGAGAAGCGAACTTTCCTTCGGCAGCGAGTGGAGGCCAGGCTTGCAGCCCTTTTGTTGGAAAGCAAGGAGTACTCAGAAGCACTAACTCTCCTCTCTACCCTGATCAAAGAAGTGAGAAGGCTAGATGACAAGCTTCTCCTTGTGGACATAGATCTGTTGGAGAGTAAGCTTCACTTTTCTTTGAGAAATCTCCCTAAAGCCAAGGCTTCACTGACTGCAGCTAGAACAGCAGCCAATTCTATCTATGTGCCTCCAGCTCAACAGGGAACTATTGATTTGCAGAGTGGCATCCTTCATGCAGAAGAAAAAGACTACAAAACTGCTTACAGTTATTTCTTTGAAGCATTTGAAGCCTTCAATGCTCTTGAGGATCCTCGGGCCGTCTTTAGCCTCAAGTATATGTTGTTGTGCAAAATCATGGTGAGCCAGGCTGATGATGTGGCAGGAATTATATCATCCAAAGCAGGCTTGCAGTATGTTGGGCCTGAGCTTGATGCCATGAAGGCAGTGGCTGATGCTCACTCGAAGCGCTCCTTAAAGCTTTTTGAGACTGCTTTGCGGGATTATAAGGCACAGCTAGAGGAAGACCCTATTGTCCACAGGCACCTGTCTTCCCTGTATGACACTCTGTTAGAACAGAATCTCTGCAGGTTGATTGAGCCTTTCTCAAGGGTGGAAATAGCTCATATTGCAGAACTGATTGAACTCCCTGTTGACCACGTGGAGAAGAAGCTGTCTCAAATGATTCTTGATAAGAAATTTGCAGGAACTTTGGATCAGGGTGCTGGCTGCCTCATCATTTTTGAGGATCTCAAGACCGATGCCATATACCCTGCTACGCTTGAAACCATATCCAACATGGGTAAGGTTGTTGATAGCCTCTATGTGAGGTCTGCCAAGATAATGGCATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000502 GO:0003674 GO:0005198 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005737 GO:0005829 GO:0005838 GO:0005911 GO:0006508 GO:0006511 GO:0006807 GO:0008150 GO:0008152 GO:0008541 GO:0009056 GO:0009057 GO:0009506 GO:0009987 GO:0010035 GO:0010038 GO:0016043 GO:0019538 GO:0019941 GO:0022607 GO:0022624 GO:0030054 GO:0030154 GO:0030163 GO:0032502 GO:0032991 GO:0034622 GO:0042221 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043248 GO:0043632 GO:0043933 GO:0044085 GO:0044237 GO:0044238 GO:0044248 GO:0044257 GO:0044260 GO:0044265 GO:0044267 GO:0044424 GO:0044444 GO:0044464 GO:0046686 GO:0048863 GO:0048869 GO:0050896 GO:0051603 GO:0055044 GO:0065003 GO:0071704 GO:0071840 GO:1901564 GO:1901565 GO:1901575 GO:1902494 GO:1905368 GO:1905369

KEGG Pathways

Metabolic & Signaling

ko03050 ko05169 map03050 map05169

Pfam Domains

Protein Families

PCI

Protein Analysis

422

Amino Acids

47.14

Weight (kDa)

6.07

Isoelectric Point (pI)

41.45

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RPN6_N	PF18055	16 - 128	6.8e-35	26S proteasome regulatory subunit RPN6 N-terminal domain
PCI	PF01399	305 - 387	8e-22	PCI domain
RPN6_C_helix	PF18503	393 - 418	9.3e-13	26S proteasome subunit RPN6 C-terminal helix 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: OG0009973)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G29150 AT1G29150
fragaria_vesca	FvH4_4g30750
malus_domestica	MD13G1068400.v1.1 MD16G1067200.v1.1
prunus_persica	Prupe.1G279500_v2.0.a1
pyrus_communis	pycom13g06020
rosa_chinensis	RchiOBHm_Chr4g0439141 RchiOBHm_Chr6g0255431
rosa_laevigata	RLG00000006294
rosa_multiflora	Rmu_sc0002236.1_g000002 Rmu_sc0027506.1_g000003
rosa_roxburghii	Rroxscaffold_5G00380130
rosa_rugosa	Rorug04G0316000
rosa_samantha	Rh4AG366900 Rh4BG378400 Rh4CG392700 Rh4DG373000
rosa_wichuraiana	Rw0G007510 Rw0G011720 Rw6G006640

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	924
AasI	GACNNNNNNGTC	1 cut(s)	950
Acc36I	ACCTGC	1 cut(s)	996
AccB1I	GGYRCC	1 cut(s)	960
AciI	CCGC	1 cut(s)	916
AclWI	GGATC	4 cut(s)	722, 735, 1140, 1173
AcsI	RAATTY	1 cut(s)	1115
AcuI	CTGAAG	2 cut(s)	90, 299
AcvI	CACGTG	1 cut(s)	1078
AfaI	GTAC	1 cut(s)	428
AfeI	AGCGCT	1 cut(s)	887
AfiI	CCNNNNNNNGG	2 cut(s)	219, 412
AgsI	TTSAA	7 cut(s)	36, 101, 698, 707, 715, 1061, 1202
AjnI	CCWGG	2 cut(s)	392, 783
Alw26I	GTCTC	2 cut(s)	899, 1098
AlwI	GGATC	4 cut(s)	722, 735, 1140, 1173
AlwNI	CAGNNNCTG	1 cut(s)	869
Ama87I	CYCGRG	1 cut(s)	732
Aor51HI	AGCGCT	1 cut(s)	887
AoxI	GGCC	6 cut(s)	54, 144, 221, 390, 735, 839
ApeKI	GCWGC	5 cut(s)	379, 401, 575, 587, 1146
ApoI	RAATTY	1 cut(s)	1115
Asp700I	GAANNNNTTC	1 cut(s)	195
AspLEI	GCGC	1 cut(s)	888
AspS9I	GGNCC	2 cut(s)	735, 839
AsuC2I	CCSGG	1 cut(s)	300
AsuHPI	GGTGA	2 cut(s)	142, 790
AvaI	CYCGRG	1 cut(s)	732
BamHI	GGATCC	1 cut(s)	727
BanI	GGYRCC	1 cut(s)	960
BauI	CACGAG	1 cut(s)	351
BbrPI	CACGTG	1 cut(s)	1078
BbsI	GAAGAC	2 cut(s)	948, 960
BbvI	GCAGC	5 cut(s)	391, 413, 587, 599, 1133
BccI	CCATC	3 cut(s)	73, 115, 155
BceAI	ACGGC	1 cut(s)	722
BcgI	CGANNNNNNTGC	2 cut(s)	332, 366
BciT130I	CCWGG	2 cut(s)	394, 785
BclI	TGATCA	1 cut(s)	459
BcnI	CCSGG	1 cut(s)	300
BcoDI	GTCTC	2 cut(s)	899, 1098
BfaI	CTAG	3 cut(s)	479, 579, 935
BfmI	CTRYAG	2 cut(s)	573, 1003
BfoI	RGCGCY	1 cut(s)	889
BfuAI	ACCTGC	1 cut(s)	996
BglI	GCCNNNNNGGC	1 cut(s)	860
BglII	AGATCT	3 cut(s)	163, 193, 508
BisI	GCNGC	5 cut(s)	380, 402, 576, 588, 1147
BlsI	GCNGC	5 cut(s)	381, 403, 577, 589, 1148
BmcAI	AGTACT	1 cut(s)	428
Bme1390I	CCNGG	3 cut(s)	300, 394, 785
BmeT110I	CYCGRG	1 cut(s)	732
BmgT120I	GGNCC	2 cut(s)	735, 839
BmiI	GGNNCC	2 cut(s)	729, 962
BmrFI	CCNGG	3 cut(s)	300, 394, 785
BmrI	ACTGGG	1 cut(s)	208
BmsI	GCATC	4 cut(s)	654, 841, 862, 1168
BmuI	ACTGGG	1 cut(s)	208
BpiI	GAAGAC	2 cut(s)	948, 960
BplI	GAGNNNNNCTC	2 cut(s)	1007, 1039
BpmI	CTGGAG	1 cut(s)	594
Bpu10I	CCTNAGC	1 cut(s)	843
BpuEI	CTTGAG	4 cut(s)	734, 743, 1009, 1154
BpuMI	CCSGG	1 cut(s)	300
BsaAI	YACGTR	1 cut(s)	1078
BsaJI	CCNNGG	2 cut(s)	558, 731
BsaXI	ACNNNNNCTCC	2 cut(s)	429, 459
Bsc4I	CCNNNNNNNGG	2 cut(s)	219, 412
Bse1I	ACTGG	1 cut(s)	214
BseBI	CCWGG	2 cut(s)	394, 785
BseDI	CCNNGG	2 cut(s)	558, 731
BseGI	GGATG	3 cut(s)	107, 645, 812
BseLI	CCNNNNNNNGG	2 cut(s)	219, 412
BseMII	CTCAG	3 cut(s)	348, 444, 834
BseNI	ACTGG	1 cut(s)	214
BseRI	GAGGAG	1 cut(s)	437
BseXI	GCAGC	5 cut(s)	391, 413, 587, 599, 1133
BseYI	CCCAGC	1 cut(s)	19
BsgI	GTGCAG	1 cut(s)	362
BshFI	GGCC	6 cut(s)	56, 146, 223, 392, 737, 841
BshNI	GGYRCC	1 cut(s)	960
BsiHKCI	CYCGRG	1 cut(s)	732
BsiSI	CCGG	1 cut(s)	300
BslI	CCNNNNNNNGG	2 cut(s)	219, 412
BsmAI	GTCTC	2 cut(s)	899, 1098
BsnI	GGCC	6 cut(s)	56, 146, 223, 392, 737, 841
BsoBI	CYCGRG	1 cut(s)	732
Bsp143I	GATC	7 cut(s)	163, 193, 459, 508, 727, 1132, 1165
BspACI	CCGC	1 cut(s)	916
BspANI	GGCC	6 cut(s)	56, 146, 223, 392, 737, 841
BspCNI	CTCAG	3 cut(s)	349, 443, 835
BspLI	GGNNCC	2 cut(s)	729, 962
BspMAI	CTGCAG	2 cut(s)	577, 1007
BspMI	ACCTGC	1 cut(s)	996
BspPI	GGATC	4 cut(s)	722, 735, 1140, 1173
BspT107I	GGYRCC	1 cut(s)	960
BsrI	ACTGG	1 cut(s)	214
BssECI	CCNNGG	2 cut(s)	558, 731
BssMI	GATC	7 cut(s)	163, 193, 459, 508, 727, 1132, 1165
BssSI	CACGAG	1 cut(s)	351
BssT1I	CCWWGG	1 cut(s)	558
Bst2BI	CACGAG	1 cut(s)	351
Bst2UI	CCWGG	2 cut(s)	394, 785
Bst4CI	ACNGT	2 cut(s)	286, 686
BstAPI	GCANNNNNTGC	1 cut(s)	254
BstBAI	YACGTR	1 cut(s)	1078
BstC8I	GCNNGC	4 cut(s)	399, 823, 827, 1144
BstDEI	CTNAG	4 cut(s)	170, 357, 430, 843
BstF5I	GGATG	3 cut(s)	107, 645, 812
BstH2I	RGCGCY	1 cut(s)	889
BstHHI	GCGC	1 cut(s)	888
BstKTI	GATC	7 cut(s)	166, 196, 462, 511, 730, 1135, 1168
BstMAI	GTCTC	2 cut(s)	899, 1098
BstMBI	GATC	7 cut(s)	163, 193, 459, 508, 727, 1132, 1165
BstMWI	GCNNNNNNNGC	8 cut(s)	53, 254, 398, 584, 707, 716, 860, 1046
BstNI	CCWGG	2 cut(s)	394, 785
BstSCI	CCNGG	3 cut(s)	298, 392, 783
BstSFI	CTRYAG	2 cut(s)	573, 1003
BstV1I	GCAGC	5 cut(s)	391, 413, 587, 599, 1133
BstV2I	GAAGAC	2 cut(s)	948, 960
BstX2I	RGATCY	5 cut(s)	163, 193, 508, 727, 1165
BstXI	CCANNNNNNTGG	1 cut(s)	1261
BstYI	RGATCY	5 cut(s)	163, 193, 508, 727, 1165
BsuRI	GGCC	6 cut(s)	56, 146, 223, 392, 737, 841
BtsCI	GGATG	3 cut(s)	107, 645, 812
BtsI	GCAGTG	2 cut(s)	350, 870
BtsIMutI	CAGTG	4 cut(s)	291, 350, 566, 870
BveI	ACCTGC	1 cut(s)	996
Cac8I	GCNNGC	4 cut(s)	399, 823, 827, 1144
CaiI	CAGNNNCTG	1 cut(s)	869
CfoI	GCGC	1 cut(s)	888
Cfr13I	GGNCC	2 cut(s)	735, 839
Csp6I	GTAC	1 cut(s)	427
CviAII	CATG	6 cut(s)	337, 653, 775, 856, 1216, 1266
CviQI	GTAC	1 cut(s)	427
DdeI	CTNAG	4 cut(s)	170, 357, 430, 843
DpnI	GATC	7 cut(s)	165, 195, 461, 510, 729, 1134, 1167
DpnII	GATC	7 cut(s)	163, 193, 459, 508, 727, 1132, 1165
DrdI	GACNNNNNNGTC	1 cut(s)	950
DseDI	GACNNNNNNGTC	1 cut(s)	950
Eco130I	CCWWGG	1 cut(s)	558
Eco147I	AGGCCT	1 cut(s)	223
Eco47III	AGCGCT	1 cut(s)	887
Eco57I	CTGAAG	2 cut(s)	90, 299
Eco72I	CACGTG	1 cut(s)	1078
Eco88I	CYCGRG	1 cut(s)	732
EcoRII	CCWGG	2 cut(s)	392, 783
EcoT14I	CCWWGG	1 cut(s)	558
ErhI	CCWWGG	1 cut(s)	558
FaeI	CATG	6 cut(s)	340, 656, 778, 859, 1219, 1269
FalI	AAGNNNNNCTT	4 cut(s)	515, 547, 875, 907
FatI	CATG	6 cut(s)	336, 652, 774, 855, 1215, 1265
FauI	CCCGC	1 cut(s)	909
FbaI	TGATCA	1 cut(s)	459
Fnu4HI	GCNGC	5 cut(s)	380, 402, 576, 588, 1147
FokI	GGATG	3 cut(s)	94, 632, 799
Fsp4HI	GCNGC	5 cut(s)	380, 402, 576, 588, 1147
FspBI	CTAG	3 cut(s)	479, 579, 935
GlaI	GCGC	1 cut(s)	887
GluI	GCNGC	5 cut(s)	380, 402, 576, 588, 1147
GsaI	CCCAGC	1 cut(s)	23
GsuI	CTGGAG	1 cut(s)	594
HaeII	RGCGCY	1 cut(s)	889
HaeIII	GGCC	6 cut(s)	56, 146, 223, 392, 737, 841
HapII	CCGG	1 cut(s)	300
HhaI	GCGC	1 cut(s)	888
Hin1II	CATG	6 cut(s)	340, 656, 778, 859, 1219, 1269
Hin6I	GCGC	1 cut(s)	886
HinP1I	GCGC	1 cut(s)	886
HincII	GTYRAC	2 cut(s)	6, 1072
HindII	GTYRAC	2 cut(s)	6, 1072
HindIII	AAGCTT	3 cut(s)	488, 524, 896
HinfI	GANTC	6 cut(s)	32, 181, 238, 349, 997, 1102
HpaII	CCGG	1 cut(s)	300
HphI	GGTGA	2 cut(s)	142, 790
Hpy166II	GTNNAC	5 cut(s)	6, 348, 502, 955, 1072
Hpy188I	TCNGA	6 cut(s)	70, 121, 163, 310, 318, 433
Hpy188III	TCNNGA	4 cut(s)	98, 722, 1106, 1171
Hpy8I	GTNNAC	5 cut(s)	6, 348, 502, 955, 1072
HpyAV	CCTTC	6 cut(s)	215, 383, 468, 659, 721, 853
HpyCH4III	ACNGT	2 cut(s)	286, 686
HpyCH4IV	ACGT	2 cut(s)	8, 1077
HpyF10VI	GCNNNNNNNGC	8 cut(s)	53, 254, 398, 584, 707, 716, 860, 1046
HpyF3I	CTNAG	4 cut(s)	170, 357, 430, 843
HpySE526I	ACGT	2 cut(s)	8, 1077
Hsp92II	CATG	6 cut(s)	340, 656, 778, 859, 1219, 1269
HspAI	GCGC	1 cut(s)	886
Ksp22I	TGATCA	1 cut(s)	459
Kzo9I	GATC	7 cut(s)	163, 193, 459, 508, 727, 1132, 1165
LmnI	GCTCC	2 cut(s)	67, 893
Lsp1109I	GCAGC	5 cut(s)	391, 413, 587, 599, 1133
LweI	GCATC	4 cut(s)	654, 841, 862, 1168
MaeI	CTAG	3 cut(s)	479, 579, 935
MaeII	ACGT	2 cut(s)	8, 1077
MaeIII	GTNAC	1 cut(s)	200
MalI	GATC	7 cut(s)	165, 195, 461, 510, 729, 1134, 1167
MboI	GATC	7 cut(s)	163, 193, 459, 508, 727, 1132, 1165
MboII	GAAGA	8 cut(s)	108, 158, 188, 203, 671, 953, 960, 1096
MfeI	CAATTG	1 cut(s)	36
MflI	RGATCY	5 cut(s)	163, 193, 508, 727, 1165
MluCI	AATT	4 cut(s)	36, 592, 804, 1115
MlyI	GAGTC	1 cut(s)	343
MmeI	TCCRAC	3 cut(s)	393, 495, 1236
MroXI	GAANNNNTTC	1 cut(s)	195
MseI	TTAA	2 cut(s)	135, 893
MspI	CCGG	1 cut(s)	300
MspR9I	CCNGG	3 cut(s)	300, 394, 785
MunI	CAATTG	1 cut(s)	36
MvaI	CCWGG	2 cut(s)	394, 785
MwoI	GCNNNNNNNGC	8 cut(s)	53, 254, 398, 584, 707, 716, 860, 1046
NciI	CCSGG	1 cut(s)	300
NdeII	GATC	7 cut(s)	163, 193, 459, 508, 727, 1132, 1165
NlaIII	CATG	6 cut(s)	340, 656, 778, 859, 1219, 1269
NlaIV	GGNNCC	2 cut(s)	729, 962
PceI	AGGCCT	1 cut(s)	223
PdmI	GAANNNNTTC	1 cut(s)	195
PfeI	GAWTC	5 cut(s)	32, 181, 238, 997, 1102
PkrI	GCNGC	5 cut(s)	381, 403, 577, 589, 1148
PleI	GAGTC	1 cut(s)	343
PmaCI	CACGTG	1 cut(s)	1078
PmlI	CACGTG	1 cut(s)	1078
PpsI	GAGTC	1 cut(s)	343
Ppu21I	YACGTR	1 cut(s)	1078
PsiI	TTATAA	1 cut(s)	924
Psp6I	CCWGG	2 cut(s)	392, 783
PspCI	CACGTG	1 cut(s)	1078
PspFI	CCCAGC	1 cut(s)	19
PspGI	CCWGG	2 cut(s)	392, 783
PspN4I	GGNNCC	2 cut(s)	729, 962
PspPI	GGNCC	2 cut(s)	735, 839
PstI	CTGCAG	2 cut(s)	577, 1007
PstNI	CAGNNNCTG	1 cut(s)	869
PsuI	RGATCY	5 cut(s)	163, 193, 508, 727, 1165
RsaI	GTAC	1 cut(s)	428
RsaNI	GTAC	1 cut(s)	427
SaqAI	TTAA	2 cut(s)	135, 893
SatI	GCNGC	5 cut(s)	380, 402, 576, 588, 1147
Sau3AI	GATC	7 cut(s)	163, 193, 459, 508, 727, 1132, 1165
Sau96I	GGNCC	2 cut(s)	735, 839
ScaI	AGTACT	1 cut(s)	428
SchI	GAGTC	1 cut(s)	343
ScrFI	CCNGG	3 cut(s)	300, 394, 785
SfaNI	GCATC	4 cut(s)	654, 841, 862, 1168
SfcI	CTRYAG	2 cut(s)	573, 1003
SmlI	CTYRAG	4 cut(s)	722, 749, 1024, 1169
SmoI	CTYRAG	4 cut(s)	722, 749, 1024, 1169
Sse9I	AATT	4 cut(s)	36, 592, 804, 1115
SseBI	AGGCCT	1 cut(s)	223
SsiI	CCGC	1 cut(s)	916
SspMI	CTAG	3 cut(s)	479, 579, 935
StuI	AGGCCT	1 cut(s)	223
StyD4I	CCNGG	3 cut(s)	298, 392, 783
StyI	CCWWGG	1 cut(s)	558
TaaI	ACNGT	2 cut(s)	286, 686
TaiI	ACGT	2 cut(s)	11, 1080
TaqI	TCGA	1 cut(s)	881
TaqII	GACCGA	1 cut(s)	1190
TasI	AATT	4 cut(s)	36, 592, 804, 1115
TatI	WGTACW	1 cut(s)	426
TfiI	GAWTC	5 cut(s)	32, 181, 238, 997, 1102
Tru1I	TTAA	2 cut(s)	135, 893
Tru9I	TTAA	2 cut(s)	135, 893
TscAI	CASTG	4 cut(s)	291, 350, 573, 870
TseI	GCWGC	5 cut(s)	379, 401, 575, 587, 1146
TspDTI	ATGAA	2 cut(s)	641, 872
TspGWI	ACGGA	1 cut(s)	44
TspRI	CASTG	4 cut(s)	291, 350, 573, 870
XapI	RAATTY	1 cut(s)	1115
XcmI	CCANNNNNNNNNTGG	2 cut(s)	862, 1213
XmnI	GAANNNNTTC	1 cut(s)	195
XspI	CTAG	3 cut(s)	479, 579, 935
ZrmI	AGTACT	1 cut(s)	428

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