Basic Information

Type: gene

Biological Identity

Species

rosa_wichuraiana

Chromosome

Contig01060

Orthogroup ID

OG0003024

Physical Location & Seq

Genomic Coordinates Reverse (-)

18411 .. 23930

Gene Structure 5520 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rw0G022860.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 966 bp

ATGATGACATACGCAGCCTCAGCTTCAAGGCCTCTCTGTTTCAACACCCAACCGGCCATTGTGAACAGAAACGGTCTTAATAGCAGTAGCGCTTCTAGTATCATCGATTGCAGCAGAACAACAAGGAGGAAGCGCGTCGGTTTAGTTCAAGCCTCGTCGCCTACAAGACCCACCTTGTCCAGCAATTGGGATTTTCAGTTCGCAGCTACTACTACTACTACTTCCTCTCCACGCGTCCCCAGATTCGAAGAGCTCGACACCACCAACATGCTCCTCCGTCAGCGAATCATCTTCTTGGGTTCTCAGGTGGATGATATGACGGCGGATTTGATAATAAGCCAACTGCTATTTCTGGATGCTGAAGACCCCAAAAAGGACATTACATTGTTTATCAATTCGCCTGGTGGCTCGGTTACTGCTGGAATGGGAATATATGATGCAATGAAATTGTGCAAGGCAGATGTTTCAACTGTTTGCTTGGGGCTTGCTGCTTCTATGGGTGCATTTCTCCTTGCTTCCGGTTCAAAAGGAAAGAGGTACTGCATGCCCAATGCAAGAGTGATGATCCATCAACCTCTTGGAACTGCTGGAGGCAAAAGAAATGGCGTACCACAAGAAATGGCGTACCACAAGATTAAATTGAACAAAATATTGTCAAGAATCACAGGGAAGCCTTTAGACCAGGTTGAGGAGGACACAGACCGTGATAATTTCATGAATCCCTGGGAAGCTAGGGATTATGGGTTGATTGATGAGGTTATTGATGATGGAAAGCCAGGGTTAGTTGCACCAATTGGAGATTCCACACCTCCACCCAAAACAAAAGTCTGGGATATGTGGAAAGTTGAAGGTACCAAGAAATCCAGAAAGAATTTACCCTCGGAGCTGAAAATTTCAGATAATGGATCTAAGGGGAGTGAAGGTCGTGAGAATGAGAAAGGTTTAGAAGCACCTACTGCAACATAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0009368 GO:0009507 GO:0009526 GO:0009532 GO:0009534 GO:0009536 GO:0009570 GO:0009579 GO:0009840 GO:0009941 GO:0031967 GO:0031975 GO:0031976 GO:0031984 GO:0032991 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

ko04112 ko04212 map04112 map04212

Pfam Domains

Protein Families

CLP_protease

Protein Analysis

321

Amino Acids

34.97

Weight (kDa)

8.87

Isoelectric Point (pI)

36.06

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
CLP_protease	PF00574	85 - 255	1.4e-70	Clp protease

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: OG0003024)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G66670
fragaria_vesca	FvH4_7g04110
malus_domestica	MD02G1275200.v1.1 MD07G1043100.v1.1
prunus_persica	Prupe.2G045800_v2.0.a1 Prupe.2G045800_v2.0.a1 Prupe.2G045800_v2.0.a1
pyrus_communis	pycom02g23530 pycom07g03020
rosa_chinensis	RchiOBHm_Chr1g0327981 RchiOBHm_Chr1g0372191
rosa_laevigata	RLG00000008647 RLG00000012938 RLG00000021509 RLG00000029950
rosa_multiflora	Rmu_sc0000064.1_g000027 Rmu_sc0000272.1_g000043 Rmu_sc0001755.1_g000019 Rmu_sc0003977.1_g000001 Rmu_sc0007782.1_g000018 Rmu_ssc0000309.1_g000031
rosa_roxburghii	Rroxscaffold_4G00322040
rosa_rugosa	Rorug01G0073100
rosa_samantha	Rh1AG089900 Rh1BG071800 Rh1BG342100 Rh1CG086900 Rh1DG093600 Rh2BG432000 Rh2CG303000 Rh6AG065100 Rh6AG270700 Rh6BG088100 Rh6DG224400 Rh7DG308700
rosa_wichuraiana	Rw0G022860 Rw1G006940 Rw1G006960

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc65I	GGTACC	1 cut(s)	851
AccB1I	GGYRCC	1 cut(s)	851
AccB7I	CCANNNNNTGG	1 cut(s)	186
AccII	CGCG	2 cut(s)	135, 234
AciI	CCGC	1 cut(s)	323
AclWI	GGATC	2 cut(s)	559, 913
AcoI	YGGCCR	1 cut(s)	54
AcsI	RAATTY	2 cut(s)	871, 891
AcuI	CTGAAG	1 cut(s)	381
AfaI	GTAC	4 cut(s)	539, 609, 626, 853
AfeI	AGCGCT	1 cut(s)	91
AfiI	CCNNNNNNNGG	3 cut(s)	186, 373, 688
AflIII	ACRYGT	1 cut(s)	232
AgsI	TTSAA	7 cut(s)	27, 43, 149, 468, 525, 643, 848
AjnI	CCWGG	4 cut(s)	400, 681, 722, 775
AjuI	GAANNNNNNNTTGG	4 cut(s)	333, 365, 784, 816
AloI	GAACNNNNNNTCC	2 cut(s)	182, 214
AluBI	AGCT	5 cut(s)	23, 206, 253, 731, 886
AluI	AGCT	5 cut(s)	23, 206, 253, 731, 886
Alw21I	GWGCWC	1 cut(s)	255
AlwI	GGATC	2 cut(s)	559, 913
Aor51HI	AGCGCT	1 cut(s)	91
AoxI	GGCC	2 cut(s)	29, 54
ApeKI	GCWGC	4 cut(s)	14, 111, 203, 488
ApoI	RAATTY	2 cut(s)	871, 891
ArsI	GACNNNNNNTTYG	4 cut(s)	310, 342, 810, 842
Asp718I	GGTACC	1 cut(s)	851
AspLEI	GCGC	2 cut(s)	92, 135
AsuII	TTCGAA	1 cut(s)	246
BanI	GGYRCC	1 cut(s)	851
BanII	GRGCYC	1 cut(s)	255
BbsI	GAAGAC	1 cut(s)	369
Bbv12I	GWGCWC	1 cut(s)	255
BbvCI	CCTCAGC	1 cut(s)	19
BbvI	GCAGC	4 cut(s)	26, 123, 215, 475
BccI	CCATC	2 cut(s)	576, 761
BceAI	ACGGC	1 cut(s)	336
BciT130I	CCWGG	4 cut(s)	402, 683, 724, 777
BfaI	CTAG	2 cut(s)	96, 732
BfoI	RGCGCY	1 cut(s)	93
BisI	GCNGC	4 cut(s)	15, 112, 204, 489
BlsI	GCNGC	4 cut(s)	16, 113, 205, 490
Bme1390I	CCNGG	4 cut(s)	402, 683, 724, 777
BmiI	GGNNCC	1 cut(s)	853
BmrFI	CCNGG	4 cut(s)	402, 683, 724, 777
BmsI	GCATC	2 cut(s)	346, 427
BpiI	GAAGAC	1 cut(s)	369
BpmI	CTGGAG	1 cut(s)	609
Bpu10I	CCTNAGC	1 cut(s)	19
Bpu14I	TTCGAA	1 cut(s)	246
Bsa29I	ATCGAT	1 cut(s)	105
BsaJI	CCNNGG	4 cut(s)	722, 723, 776, 879
BsaWI	WCCGGW	1 cut(s)	518
BsaXI	ACNNNNNCTCC	4 cut(s)	211, 241, 907, 937
Bsc4I	CCNNNNNNNGG	3 cut(s)	186, 373, 688
Bse118I	RCCGGY	1 cut(s)	52
Bse3DI	GCAATG	1 cut(s)	447
BseBI	CCWGG	4 cut(s)	402, 683, 724, 777
BseCI	ATCGAT	1 cut(s)	105
BseDI	CCNNGG	4 cut(s)	722, 723, 776, 879
BseGI	GGATG	2 cut(s)	316, 361
BseLI	CCNNNNNNNGG	3 cut(s)	186, 373, 688
BseMI	GCAATG	1 cut(s)	447
BseMII	CTCAG	2 cut(s)	33, 317
BseRI	GAGGAG	2 cut(s)	263, 704
BseXI	GCAGC	4 cut(s)	26, 123, 215, 475
Bsh1236I	CGCG	2 cut(s)	135, 234
BshFI	GGCC	2 cut(s)	31, 56
BshNI	GGYRCC	1 cut(s)	851
BshVI	ATCGAT	1 cut(s)	105
BsiHKAI	GWGCWC	1 cut(s)	255
BsiSI	CCGG	2 cut(s)	53, 519
BslFI	GGGAC	1 cut(s)	221
BslI	CCNNNNNNNGG	3 cut(s)	186, 373, 688
BsmFI	GGGAC	1 cut(s)	221
BsnI	GGCC	2 cut(s)	31, 56
Bsp119I	TTCGAA	1 cut(s)	246
Bsp1286I	GDGCHC	1 cut(s)	255
Bsp143I	GATC	2 cut(s)	564, 905
BspACI	CCGC	1 cut(s)	323
BspANI	GGCC	2 cut(s)	31, 56
BspCNI	CTCAG	2 cut(s)	32, 316
BspDI	ATCGAT	1 cut(s)	105
BspFNI	CGCG	2 cut(s)	135, 234
BspHI	TCATGA	1 cut(s)	714
BspLI	GGNNCC	1 cut(s)	853
BspPI	GGATC	2 cut(s)	559, 913
BspQI	GCTCTTC	1 cut(s)	243
BspT104I	TTCGAA	1 cut(s)	246
BspT107I	GGYRCC	1 cut(s)	851
BsrDI	GCAATG	1 cut(s)	447
BsrFI	RCCGGY	1 cut(s)	52
BssAI	RCCGGY	1 cut(s)	52
BssECI	CCNNGG	4 cut(s)	722, 723, 776, 879
BssMI	GATC	2 cut(s)	564, 905
Bst2UI	CCWGG	4 cut(s)	402, 683, 724, 777
Bst4CI	ACNGT	3 cut(s)	74, 472, 704
Bst6I	CTCTTC	1 cut(s)	243
BstAPI	GCANNNNNTGC	1 cut(s)	956
BstBI	TTCGAA	1 cut(s)	246
BstC8I	GCNNGC	2 cut(s)	486, 545
BstDEI	CTNAG	3 cut(s)	19, 303, 909
BstF5I	GGATG	2 cut(s)	316, 361
BstFNI	CGCG	2 cut(s)	135, 234
BstH2I	RGCGCY	1 cut(s)	93
BstHHI	GCGC	2 cut(s)	92, 135
BstKTI	GATC	2 cut(s)	567, 908
BstMBI	GATC	2 cut(s)	564, 905
BstMWI	GCNNNNNNNGC	2 cut(s)	20, 956
BstNI	CCWGG	4 cut(s)	402, 683, 724, 777
BstNSI	RCATGY	2 cut(s)	271, 547
BstSCI	CCNGG	4 cut(s)	400, 681, 722, 775
BstUI	CGCG	2 cut(s)	135, 234
BstV1I	GCAGC	4 cut(s)	26, 123, 215, 475
BstV2I	GAAGAC	1 cut(s)	369
BstX2I	RGATCY	1 cut(s)	905
BstYI	RGATCY	1 cut(s)	905
Bsu15I	ATCGAT	1 cut(s)	105
BsuRI	GGCC	2 cut(s)	31, 56
BsuTUI	ATCGAT	1 cut(s)	105
BtsCI	GGATG	2 cut(s)	316, 361
Cac8I	GCNNGC	2 cut(s)	486, 545
CciI	TCATGA	1 cut(s)	714
CfoI	GCGC	2 cut(s)	92, 135
Cfr10I	RCCGGY	1 cut(s)	52
ClaI	ATCGAT	1 cut(s)	105
CseI	GACGC	2 cut(s)	124, 223
CsiI	ACCWGGT	1 cut(s)	681
Csp6I	GTAC	4 cut(s)	538, 608, 625, 852
CviAII	CATG	3 cut(s)	268, 544, 715
CviQI	GTAC	4 cut(s)	538, 608, 625, 852
DdeI	CTNAG	3 cut(s)	19, 303, 909
DpnI	GATC	2 cut(s)	566, 907
DpnII	GATC	2 cut(s)	564, 905
EaeI	YGGCCR	1 cut(s)	54
Eam1104I	CTCTTC	1 cut(s)	243
EarI	CTCTTC	1 cut(s)	243
EciI	GGCGGA	1 cut(s)	338
Ecl136II	GAGCTC	1 cut(s)	253
Eco147I	AGGCCT	1 cut(s)	31
Eco24I	GRGCYC	1 cut(s)	255
Eco47III	AGCGCT	1 cut(s)	91
Eco53kI	GAGCTC	1 cut(s)	253
Eco57I	CTGAAG	1 cut(s)	381
EcoICRI	GAGCTC	1 cut(s)	253
EcoRII	CCWGG	4 cut(s)	400, 681, 722, 775
EcoT38I	GRGCYC	1 cut(s)	255
FaeI	CATG	3 cut(s)	271, 547, 718
FaqI	GGGAC	1 cut(s)	221
FatI	CATG	3 cut(s)	267, 543, 714
Fnu4HI	GCNGC	4 cut(s)	15, 112, 204, 489
FokI	GGATG	2 cut(s)	323, 368
FriOI	GRGCYC	1 cut(s)	255
Fsp4HI	GCNGC	4 cut(s)	15, 112, 204, 489
FspBI	CTAG	2 cut(s)	96, 732
GlaI	GCGC	2 cut(s)	91, 134
GluI	GCNGC	4 cut(s)	15, 112, 204, 489
GsuI	CTGGAG	1 cut(s)	609
HaeII	RGCGCY	1 cut(s)	93
HaeIII	GGCC	2 cut(s)	31, 56
HapII	CCGG	2 cut(s)	53, 519
HgaI	GACGC	2 cut(s)	124, 223
HhaI	GCGC	2 cut(s)	92, 135
Hin1II	CATG	3 cut(s)	271, 547, 718
Hin6I	GCGC	2 cut(s)	90, 133
HinP1I	GCGC	2 cut(s)	90, 133
HinfI	GANTC	5 cut(s)	243, 285, 660, 718, 800
HpaII	CCGG	2 cut(s)	53, 519
Hpy166II	GTNNAC	1 cut(s)	64
Hpy188I	TCNGA	2 cut(s)	883, 898
Hpy188III	TCNNGA	5 cut(s)	353, 657, 715, 864, 926
Hpy8I	GTNNAC	1 cut(s)	64
Hpy99I	CGWCG	2 cut(s)	140, 160
HpyAV	CCTTC	2 cut(s)	842, 914
HpyCH4III	ACNGT	3 cut(s)	74, 472, 704
HpyCH4V	TGCA	8 cut(s)	111, 440, 453, 503, 543, 554, 788, 959
HpyF10VI	GCNNNNNNNGC	2 cut(s)	20, 956
HpyF3I	CTNAG	3 cut(s)	19, 303, 909
Hsp92II	CATG	3 cut(s)	271, 547, 718
HspAI	GCGC	2 cut(s)	90, 133
KpnI	GGTACC	1 cut(s)	855
Kzo9I	GATC	2 cut(s)	564, 905
LguI	GCTCTTC	1 cut(s)	243
LmnI	GCTCC	2 cut(s)	276, 883
Lsp1109I	GCAGC	4 cut(s)	26, 123, 215, 475
LweI	GCATC	2 cut(s)	346, 427
MabI	ACCWGGT	1 cut(s)	681
MaeI	CTAG	2 cut(s)	96, 732
MaeIII	GTNAC	1 cut(s)	412
MalI	GATC	2 cut(s)	566, 907
MboI	GATC	2 cut(s)	564, 905
MboII	GAAGA	3 cut(s)	260, 283, 374
MfeI	CAATTG	2 cut(s)	184, 792
MflI	RGATCY	1 cut(s)	905
MhlI	GDGCHC	1 cut(s)	255
MluCI	AATT	8 cut(s)	184, 394, 446, 638, 709, 792, 871, 891
MluI	ACGCGT	1 cut(s)	232
MseI	TTAA	2 cut(s)	78, 636
MslI	CAYNNNNRTG	1 cut(s)	266
MspI	CCGG	2 cut(s)	53, 519
MspR9I	CCNGG	4 cut(s)	402, 683, 724, 777
MunI	CAATTG	2 cut(s)	184, 792
MvaI	CCWGG	4 cut(s)	402, 683, 724, 777
MvnI	CGCG	2 cut(s)	135, 234
MwoI	GCNNNNNNNGC	2 cut(s)	20, 956
NdeII	GATC	2 cut(s)	564, 905
NlaIII	CATG	3 cut(s)	271, 547, 718
NlaIV	GGNNCC	1 cut(s)	853
NspI	RCATGY	2 cut(s)	271, 547
NspV	TTCGAA	1 cut(s)	246
PaeI	GCATGC	1 cut(s)	547
PagI	TCATGA	1 cut(s)	714
PasI	CCCWGGG	1 cut(s)	723
PceI	AGGCCT	1 cut(s)	31
PciSI	GCTCTTC	1 cut(s)	243
PcsI	WCGNNNNNNNCGW	1 cut(s)	252
PfeI	GAWTC	5 cut(s)	243, 285, 660, 718, 800
PflMI	CCANNNNNTGG	1 cut(s)	186
PkrI	GCNGC	4 cut(s)	16, 113, 205, 490
Psp124BI	GAGCTC	1 cut(s)	255
Psp6I	CCWGG	4 cut(s)	400, 681, 722, 775
PspGI	CCWGG	4 cut(s)	400, 681, 722, 775
PspN4I	GGNNCC	1 cut(s)	853
PsuI	RGATCY	1 cut(s)	905
RsaI	GTAC	4 cut(s)	539, 609, 626, 853
RsaNI	GTAC	4 cut(s)	538, 608, 625, 852
RseI	CAYNNNNRTG	1 cut(s)	266
SacI	GAGCTC	1 cut(s)	255
SapI	GCTCTTC	1 cut(s)	243
SaqAI	TTAA	2 cut(s)	78, 636
SatI	GCNGC	4 cut(s)	15, 112, 204, 489
Sau3AI	GATC	2 cut(s)	564, 905
ScrFI	CCNGG	4 cut(s)	402, 683, 724, 777
SduI	GDGCHC	1 cut(s)	255
SexAI	ACCWGGT	1 cut(s)	681
SfaNI	GCATC	2 cut(s)	346, 427
SfuI	TTCGAA	1 cut(s)	246
SmiMI	CAYNNNNRTG	1 cut(s)	266
SphI	GCATGC	1 cut(s)	547
Sse9I	AATT	8 cut(s)	184, 394, 446, 638, 709, 792, 871, 891
SseBI	AGGCCT	1 cut(s)	31
SsiI	CCGC	1 cut(s)	323
SspI	AATATT	1 cut(s)	651
SspMI	CTAG	2 cut(s)	96, 732
SstI	GAGCTC	1 cut(s)	255
StuI	AGGCCT	1 cut(s)	31
StyD4I	CCNGG	4 cut(s)	400, 681, 722, 775
TaaI	ACNGT	3 cut(s)	74, 472, 704
TaqI	TCGA	3 cut(s)	105, 246, 255
TasI	AATT	8 cut(s)	184, 394, 446, 638, 709, 792, 871, 891
TfiI	GAWTC	5 cut(s)	243, 285, 660, 718, 800
Tru1I	TTAA	2 cut(s)	78, 636
Tru9I	TTAA	2 cut(s)	78, 636
TseI	GCWGC	4 cut(s)	14, 111, 203, 488
TspDTI	ATGAA	3 cut(s)	458, 703, 731
TspGWI	ACGGA	1 cut(s)	266
Van91I	CCANNNNNTGG	1 cut(s)	186
XapI	RAATTY	2 cut(s)	871, 891
XceI	RCATGY	2 cut(s)	271, 547
XcmI	CCANNNNNNNNNTGG	1 cut(s)	575
XspI	CTAG	2 cut(s)	96, 732

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