Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000004

Orthogroup ID

OG0003024

Physical Location & Seq

Genomic Coordinates Forward (+)

51898574 .. 51904568

Gene Structure 5995 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_4G00322040.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 972 bp

ATGATGACATACGCAGCCTCAGCTTCAAGGCCTCTCTGTTTCAACACCCAACCGGCCATTGTGAACAGAAACGGTCTTAATAGCAGTAGCGCTTCTAGTATCATCGATTGCAGCAGAACAACAAGGAGGAAGCGCGTCGGTCTAGTTAAAGCCTCGTCGCCTACAAGACCCACCTTGTCCAGCAATTGGGATTTTCAGTTCGCAGCTACTACTACTACTTCCTCTCCACGCGTCCCCAGATTCGAAGAGCTCGACACCACCAACATGCTTCTCCGTCAGCGAATCATCTTCTTGGGTTCTCAGGTGGATGATATGACGGCGGATTTGATAATAAGCCAGCTGCTATTTCTGGATGCTGAAGACCCCAAAAAGGACATTACATTGTTCATCAATTCGCCTGGTGGCTCGGTTACTGCTGGAATGGGAATATATGATGCAATGAAATTGTGCAAGGCAGATGTTTCAACTGTTTGCTTGGGGCTTGCTGCTTCTATGGGTGCATTTCTCCTTGCTTCCGGTTCAAAAGGAAAGAGGTACTGCATGCCCAATGCAAGAGTGATGATCCATCAACCTCTTGGAACTGCTGGAGGCAAAGCAACAGAAATGGGTATACGAATTAGAGAAATGGCGTACCACAAGATTAAATTGAACAAAATATTGTCAAGAATCACAGGGAAGCCTTTAGACCAGGTTGAGGAGGACACAGACCGTGATAATTTCATGAATCCCTGGGAAGCTAGGGATTATGGGTTGATTGATGAGGTTATTGATGATGGAAAGCCAGGGTTAGTTGCACCAATTGGAGATTCCACACCTCCACCCAAAACAAAAGTCTGGGATATGTGGAAAGTTGAAGGTACCAAGAAATCCAGAAAGAATTTACCCTCGGAGCTGAAAATTTCAGATAATGGATCTAAGGGGAGTGAAGGTCGTGAGAATGAGAAAGGTTTGGAAGCACCTACTGCAACATAG

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

323

Amino Acids

35.24

Weight (kDa)

8.99

Isoelectric Point (pI)

33.43

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
CLP_protease	PF00574	84 - 257	5.7e-75	Clp protease

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: 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)	857
AccB1I	GGYRCC	1 cut(s)	857
AccB7I	CCANNNNNTGG	1 cut(s)	186
AccI	GTMKAC	1 cut(s)	610
AccII	CGCG	2 cut(s)	135, 231
AciI	CCGC	1 cut(s)	320
AclWI	GGATC	2 cut(s)	556, 919
AcoI	YGGCCR	1 cut(s)	54
AcsI	RAATTY	2 cut(s)	877, 897
AcuI	CTGAAG	1 cut(s)	378
AfaI	GTAC	3 cut(s)	536, 632, 859
AfeI	AGCGCT	1 cut(s)	91
AfiI	CCNNNNNNNGG	3 cut(s)	186, 370, 694
AflIII	ACRYGT	1 cut(s)	229
AgsI	TTSAA	6 cut(s)	27, 43, 465, 522, 649, 854
AjnI	CCWGG	4 cut(s)	397, 687, 728, 781
AjuI	GAANNNNNNNTTGG	2 cut(s)	790, 822
AloI	GAACNNNNNNTCC	2 cut(s)	182, 214
AluBI	AGCT	6 cut(s)	23, 206, 250, 340, 737, 892
AluI	AGCT	6 cut(s)	23, 206, 250, 340, 737, 892
Alw21I	GWGCWC	1 cut(s)	252
AlwI	GGATC	2 cut(s)	556, 919
Aor51HI	AGCGCT	1 cut(s)	91
AoxI	GGCC	2 cut(s)	29, 54
ApeKI	GCWGC	5 cut(s)	14, 111, 203, 340, 485
ApoI	RAATTY	2 cut(s)	877, 897
ArsI	GACNNNNNNTTYG	4 cut(s)	307, 339, 816, 848
Asp718I	GGTACC	1 cut(s)	857
AspLEI	GCGC	2 cut(s)	92, 135
AsuII	TTCGAA	1 cut(s)	243
BanI	GGYRCC	1 cut(s)	857
BanII	GRGCYC	1 cut(s)	252
BbsI	GAAGAC	1 cut(s)	366
Bbv12I	GWGCWC	1 cut(s)	252
BbvCI	CCTCAGC	1 cut(s)	19
BbvI	GCAGC	5 cut(s)	26, 123, 215, 327, 472
BccI	CCATC	2 cut(s)	573, 767
BceAI	ACGGC	1 cut(s)	333
BciT130I	CCWGG	4 cut(s)	399, 689, 730, 783
BfaI	CTAG	3 cut(s)	96, 143, 738
BfoI	RGCGCY	1 cut(s)	93
BisI	GCNGC	5 cut(s)	15, 112, 204, 341, 486
BlsI	GCNGC	5 cut(s)	16, 113, 205, 342, 487
Bme1390I	CCNGG	4 cut(s)	399, 689, 730, 783
BmiI	GGNNCC	1 cut(s)	859
BmrFI	CCNGG	4 cut(s)	399, 689, 730, 783
BmsI	GCATC	2 cut(s)	343, 424
BpiI	GAAGAC	1 cut(s)	366
BpmI	CTGGAG	1 cut(s)	606
Bpu10I	CCTNAGC	1 cut(s)	19
Bpu14I	TTCGAA	1 cut(s)	243
Bsa29I	ATCGAT	1 cut(s)	105
BsaJI	CCNNGG	4 cut(s)	728, 729, 782, 885
BsaWI	WCCGGW	1 cut(s)	515
BsaXI	ACNNNNNCTCC	4 cut(s)	208, 238, 913, 943
Bsc4I	CCNNNNNNNGG	3 cut(s)	186, 370, 694
Bse118I	RCCGGY	1 cut(s)	52
Bse3DI	GCAATG	1 cut(s)	444
BseBI	CCWGG	4 cut(s)	399, 689, 730, 783
BseCI	ATCGAT	1 cut(s)	105
BseDI	CCNNGG	4 cut(s)	728, 729, 782, 885
BseGI	GGATG	2 cut(s)	313, 358
BseLI	CCNNNNNNNGG	3 cut(s)	186, 370, 694
BseMI	GCAATG	1 cut(s)	444
BseMII	CTCAG	2 cut(s)	33, 314
BseRI	GAGGAG	1 cut(s)	710
BseXI	GCAGC	5 cut(s)	26, 123, 215, 327, 472
Bsh1236I	CGCG	2 cut(s)	135, 231
BshFI	GGCC	2 cut(s)	31, 56
BshNI	GGYRCC	1 cut(s)	857
BshVI	ATCGAT	1 cut(s)	105
BsiHKAI	GWGCWC	1 cut(s)	252
BsiSI	CCGG	2 cut(s)	53, 516
BslFI	GGGAC	1 cut(s)	218
BslI	CCNNNNNNNGG	3 cut(s)	186, 370, 694
BsmFI	GGGAC	1 cut(s)	218
BsnI	GGCC	2 cut(s)	31, 56
Bsp119I	TTCGAA	1 cut(s)	243
Bsp1286I	GDGCHC	1 cut(s)	252
Bsp143I	GATC	2 cut(s)	561, 911
BspACI	CCGC	1 cut(s)	320
BspANI	GGCC	2 cut(s)	31, 56
BspCNI	CTCAG	2 cut(s)	32, 313
BspDI	ATCGAT	1 cut(s)	105
BspFNI	CGCG	2 cut(s)	135, 231
BspHI	TCATGA	1 cut(s)	720
BspLI	GGNNCC	1 cut(s)	859
BspPI	GGATC	2 cut(s)	556, 919
BspQI	GCTCTTC	1 cut(s)	240
BspT104I	TTCGAA	1 cut(s)	243
BspT107I	GGYRCC	1 cut(s)	857
BsrDI	GCAATG	1 cut(s)	444
BsrFI	RCCGGY	1 cut(s)	52
BssAI	RCCGGY	1 cut(s)	52
BssECI	CCNNGG	4 cut(s)	728, 729, 782, 885
BssMI	GATC	2 cut(s)	561, 911
BssNAI	GTATAC	1 cut(s)	611
Bst1107I	GTATAC	1 cut(s)	611
Bst2UI	CCWGG	4 cut(s)	399, 689, 730, 783
Bst4CI	ACNGT	3 cut(s)	74, 469, 710
Bst6I	CTCTTC	1 cut(s)	240
BstAPI	GCANNNNNTGC	1 cut(s)	962
BstBI	TTCGAA	1 cut(s)	243
BstC8I	GCNNGC	3 cut(s)	338, 483, 542
BstDEI	CTNAG	3 cut(s)	19, 300, 915
BstF5I	GGATG	2 cut(s)	313, 358
BstFNI	CGCG	2 cut(s)	135, 231
BstH2I	RGCGCY	1 cut(s)	93
BstHHI	GCGC	2 cut(s)	92, 135
BstKTI	GATC	2 cut(s)	564, 914
BstMBI	GATC	2 cut(s)	561, 911
BstMWI	GCNNNNNNNGC	2 cut(s)	20, 962
BstNI	CCWGG	4 cut(s)	399, 689, 730, 783
BstNSI	RCATGY	2 cut(s)	268, 544
BstSCI	CCNGG	4 cut(s)	397, 687, 728, 781
BstUI	CGCG	2 cut(s)	135, 231
BstV1I	GCAGC	5 cut(s)	26, 123, 215, 327, 472
BstV2I	GAAGAC	1 cut(s)	366
BstX2I	RGATCY	1 cut(s)	911
BstYI	RGATCY	1 cut(s)	911
BstZ17I	GTATAC	1 cut(s)	611
Bsu15I	ATCGAT	1 cut(s)	105
BsuRI	GGCC	2 cut(s)	31, 56
BsuTUI	ATCGAT	1 cut(s)	105
BtsCI	GGATG	2 cut(s)	313, 358
Cac8I	GCNNGC	3 cut(s)	338, 483, 542
CciI	TCATGA	1 cut(s)	720
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, 220
CsiI	ACCWGGT	1 cut(s)	687
Csp6I	GTAC	3 cut(s)	535, 631, 858
CviAII	CATG	3 cut(s)	265, 541, 721
CviQI	GTAC	3 cut(s)	535, 631, 858
DdeI	CTNAG	3 cut(s)	19, 300, 915
DpnI	GATC	2 cut(s)	563, 913
DpnII	GATC	2 cut(s)	561, 911
EaeI	YGGCCR	1 cut(s)	54
Eam1104I	CTCTTC	1 cut(s)	240
EarI	CTCTTC	1 cut(s)	240
EciI	GGCGGA	1 cut(s)	335
Ecl136II	GAGCTC	1 cut(s)	250
Eco147I	AGGCCT	1 cut(s)	31
Eco24I	GRGCYC	1 cut(s)	252
Eco47III	AGCGCT	1 cut(s)	91
Eco53kI	GAGCTC	1 cut(s)	250
Eco57I	CTGAAG	1 cut(s)	378
EcoICRI	GAGCTC	1 cut(s)	250
EcoRII	CCWGG	4 cut(s)	397, 687, 728, 781
EcoT38I	GRGCYC	1 cut(s)	252
FaeI	CATG	3 cut(s)	268, 544, 724
FaqI	GGGAC	1 cut(s)	218
FatI	CATG	3 cut(s)	264, 540, 720
FblI	GTMKAC	1 cut(s)	610
Fnu4HI	GCNGC	5 cut(s)	15, 112, 204, 341, 486
FokI	GGATG	2 cut(s)	320, 365
FriOI	GRGCYC	1 cut(s)	252
Fsp4HI	GCNGC	5 cut(s)	15, 112, 204, 341, 486
FspBI	CTAG	3 cut(s)	96, 143, 738
GlaI	GCGC	2 cut(s)	91, 134
GluI	GCNGC	5 cut(s)	15, 112, 204, 341, 486
GsuI	CTGGAG	1 cut(s)	606
HaeII	RGCGCY	1 cut(s)	93
HaeIII	GGCC	2 cut(s)	31, 56
HapII	CCGG	2 cut(s)	53, 516
HgaI	GACGC	2 cut(s)	124, 220
HhaI	GCGC	2 cut(s)	92, 135
Hin1II	CATG	3 cut(s)	268, 544, 724
Hin6I	GCGC	2 cut(s)	90, 133
HinP1I	GCGC	2 cut(s)	90, 133
HinfI	GANTC	5 cut(s)	240, 282, 666, 724, 806
HpaII	CCGG	2 cut(s)	53, 516
Hpy166II	GTNNAC	2 cut(s)	64, 611
Hpy188I	TCNGA	2 cut(s)	889, 904
Hpy188III	TCNNGA	5 cut(s)	350, 663, 721, 870, 932
Hpy8I	GTNNAC	2 cut(s)	64, 611
Hpy99I	CGWCG	2 cut(s)	140, 160
HpyAV	CCTTC	2 cut(s)	848, 920
HpyCH4III	ACNGT	3 cut(s)	74, 469, 710
HpyCH4V	TGCA	8 cut(s)	111, 437, 450, 500, 540, 551, 794, 965
HpyF10VI	GCNNNNNNNGC	2 cut(s)	20, 962
HpyF3I	CTNAG	3 cut(s)	19, 300, 915
Hsp92II	CATG	3 cut(s)	268, 544, 724
HspAI	GCGC	2 cut(s)	90, 133
KpnI	GGTACC	1 cut(s)	861
Kzo9I	GATC	2 cut(s)	561, 911
LguI	GCTCTTC	1 cut(s)	240
LmnI	GCTCC	1 cut(s)	889
Lsp1109I	GCAGC	5 cut(s)	26, 123, 215, 327, 472
LweI	GCATC	2 cut(s)	343, 424
MabI	ACCWGGT	1 cut(s)	687
MaeI	CTAG	3 cut(s)	96, 143, 738
MaeIII	GTNAC	1 cut(s)	409
MalI	GATC	2 cut(s)	563, 913
MboI	GATC	2 cut(s)	561, 911
MboII	GAAGA	3 cut(s)	257, 280, 371
MfeI	CAATTG	2 cut(s)	184, 798
MflI	RGATCY	1 cut(s)	911
MhlI	GDGCHC	1 cut(s)	252
MluCI	AATT	9 cut(s)	184, 391, 443, 615, 644, 715, 798, 877, 897
MluI	ACGCGT	1 cut(s)	229
MseI	TTAA	3 cut(s)	78, 147, 642
MslI	CAYNNNNRTG	1 cut(s)	263
MspA1I	CMGCKG	1 cut(s)	340
MspI	CCGG	2 cut(s)	53, 516
MspR9I	CCNGG	4 cut(s)	399, 689, 730, 783
MunI	CAATTG	2 cut(s)	184, 798
MvaI	CCWGG	4 cut(s)	399, 689, 730, 783
MvnI	CGCG	2 cut(s)	135, 231
MwoI	GCNNNNNNNGC	2 cut(s)	20, 962
NdeII	GATC	2 cut(s)	561, 911
NlaIII	CATG	3 cut(s)	268, 544, 724
NlaIV	GGNNCC	1 cut(s)	859
NspI	RCATGY	2 cut(s)	268, 544
NspV	TTCGAA	1 cut(s)	243
PaeI	GCATGC	1 cut(s)	544
PagI	TCATGA	1 cut(s)	720
PasI	CCCWGGG	1 cut(s)	729
PceI	AGGCCT	1 cut(s)	31
PciSI	GCTCTTC	1 cut(s)	240
PcsI	WCGNNNNNNNCGW	1 cut(s)	249
PfeI	GAWTC	5 cut(s)	240, 282, 666, 724, 806
PflMI	CCANNNNNTGG	1 cut(s)	186
PkrI	GCNGC	5 cut(s)	16, 113, 205, 342, 487
Psp124BI	GAGCTC	1 cut(s)	252
Psp6I	CCWGG	4 cut(s)	397, 687, 728, 781
PspGI	CCWGG	4 cut(s)	397, 687, 728, 781
PspN4I	GGNNCC	1 cut(s)	859
PsuI	RGATCY	1 cut(s)	911
PvuII	CAGCTG	1 cut(s)	340
RsaI	GTAC	3 cut(s)	536, 632, 859
RsaNI	GTAC	3 cut(s)	535, 631, 858
RseI	CAYNNNNRTG	1 cut(s)	263
SacI	GAGCTC	1 cut(s)	252
SapI	GCTCTTC	1 cut(s)	240
SaqAI	TTAA	3 cut(s)	78, 147, 642
SatI	GCNGC	5 cut(s)	15, 112, 204, 341, 486
Sau3AI	GATC	2 cut(s)	561, 911
ScrFI	CCNGG	4 cut(s)	399, 689, 730, 783
SduI	GDGCHC	1 cut(s)	252
SexAI	ACCWGGT	1 cut(s)	687
SfaNI	GCATC	2 cut(s)	343, 424
SfuI	TTCGAA	1 cut(s)	243
SmiMI	CAYNNNNRTG	1 cut(s)	263
SphI	GCATGC	1 cut(s)	544
Sse9I	AATT	9 cut(s)	184, 391, 443, 615, 644, 715, 798, 877, 897
SseBI	AGGCCT	1 cut(s)	31
SsiI	CCGC	1 cut(s)	320
SspI	AATATT	1 cut(s)	657
SspMI	CTAG	3 cut(s)	96, 143, 738
SstI	GAGCTC	1 cut(s)	252
StuI	AGGCCT	1 cut(s)	31
StyD4I	CCNGG	4 cut(s)	397, 687, 728, 781
TaaI	ACNGT	3 cut(s)	74, 469, 710
TaqI	TCGA	3 cut(s)	105, 243, 252
TaqII	GACCGA	1 cut(s)	128
TasI	AATT	9 cut(s)	184, 391, 443, 615, 644, 715, 798, 877, 897
TfiI	GAWTC	5 cut(s)	240, 282, 666, 724, 806
Tru1I	TTAA	3 cut(s)	78, 147, 642
Tru9I	TTAA	3 cut(s)	78, 147, 642
TseI	GCWGC	5 cut(s)	14, 111, 203, 340, 485
TspDTI	ATGAA	4 cut(s)	376, 455, 709, 737
TspGWI	ACGGA	1 cut(s)	263
Van91I	CCANNNNNTGG	1 cut(s)	186
XapI	RAATTY	2 cut(s)	877, 897
XceI	RCATGY	2 cut(s)	268, 544
XcmI	CCANNNNNNNNNTGG	1 cut(s)	572
XmiI	GTMKAC	1 cut(s)	610
XspI	CTAG	3 cut(s)	96, 143, 738

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