Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr6

Orthogroup ID

OG0003024

Physical Location & Seq

Genomic Coordinates Forward (+)

51963116 .. 51968868

Gene Structure 5753 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000029950

Sequence Viewer

CDS Protein Promoter (2k)

Length: 984 bp

ATGATGACATACGCAGCCTCAGCTTCAAGGCCTCTCTGCTTCAACACCCAACCGGCCATTGTGAACAGAAATGGTCTTAATAGCAGTAGCGCTTCTAGTATCATCGATTGCAGCAGAACAACAAGGAGGAAGCGCGTCGGTCTAGTTCAAGCCTCGTCGCCTACAAGACCCACCTTGTCCAGCAATTGGGATTTTCAGTTCGCAGCTACTACTGCTGCTACTACTACTACTTCCTCTCCACGCGTCCCCAGATTCGAAGAGCTCGACACCACCAACATGCTCCTCCGTCAGAGAATCATCTTCTTGGGTTCTCAGGTGGATGATATGACGGCGGATTTGATAATAAGCCAACTGCTATTTCTGGATGCTGAAGACCCCAAAAAGGACATTACATTGTTTATCAATTCGCCTGGTGGCTCGGTTACTGCTGGAATGGGAATATATGATGCAATGAAATTGTGCAAGGCAGATGTTTCAACTGTTTGCTTGGGGCTTGCTGCTTCTATGGGTGCATTTCTCCTTGCTTCCGGTTCAAAAGGAAAGAGGTACTGCATGCCCAATGCAAGAGTGATGATCCATCAACCTCTTGGAACTGCTGGAGGCAAAGCAACAGAAATGGGTATACGAATTAGAGAAATGGCGTACCACAAGATTAAATTGAACAAAATATTGTCAAGAATCACAGGGAAGCCTTTAGACCAGGTTGAGGAGGACACAGACCGTGATAATTTCATGAATCCCTGGGAAGCTAGGGATTATGGGTTGATTGATGAGGTTATTGATGATGGAAAGCCAGGGTTAGTTGCACCAATTGGAGATTCCACACCTCCACCCAAAACAAAAGTCTGGGATATGTGGAAAGTTGAAGGTACCAAGAAATCCAGAAAGAATTTACCCTCGGAGCTGAAAATTTCAGATAATGGATCTAAGGGGAGTGAAGGTCGTGAGAATGAGAAAGGTTTGGAAGCACCTACTGCAACATAG

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

328

Amino Acids

35.59

Weight (kDa)

8.87

Isoelectric Point (pI)

33.23

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
CLP_protease	PF00574	88 - 261	5.9e-75	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)	869
AccB1I	GGYRCC	1 cut(s)	869
AccB7I	CCANNNNNTGG	1 cut(s)	186
AccI	GTMKAC	1 cut(s)	622
AccII	CGCG	2 cut(s)	135, 243
AciI	CCGC	1 cut(s)	332
AclWI	GGATC	2 cut(s)	568, 931
AcoI	YGGCCR	1 cut(s)	54
AcsI	RAATTY	2 cut(s)	889, 909
AcuI	CTGAAG	1 cut(s)	390
AfaI	GTAC	3 cut(s)	548, 644, 871
AfeI	AGCGCT	1 cut(s)	91
AfiI	CCNNNNNNNGG	3 cut(s)	186, 382, 706
AflIII	ACRYGT	1 cut(s)	241
AgsI	TTSAA	7 cut(s)	27, 43, 149, 477, 534, 661, 866
AjnI	CCWGG	4 cut(s)	409, 699, 740, 793
AjuI	GAANNNNNNNTTGG	4 cut(s)	342, 374, 802, 834
AloI	GAACNNNNNNTCC	2 cut(s)	182, 214
AluBI	AGCT	5 cut(s)	23, 206, 262, 749, 904
AluI	AGCT	5 cut(s)	23, 206, 262, 749, 904
Alw21I	GWGCWC	1 cut(s)	264
AlwI	GGATC	2 cut(s)	568, 931
Aor51HI	AGCGCT	1 cut(s)	91
AoxI	GGCC	2 cut(s)	29, 54
ApeKI	GCWGC	5 cut(s)	14, 111, 203, 215, 497
ApoI	RAATTY	2 cut(s)	889, 909
ArsI	GACNNNNNNTTYG	4 cut(s)	319, 351, 828, 860
Asp718I	GGTACC	1 cut(s)	869
AspLEI	GCGC	2 cut(s)	92, 135
AsuII	TTCGAA	1 cut(s)	255
BanI	GGYRCC	1 cut(s)	869
BanII	GRGCYC	1 cut(s)	264
BbsI	GAAGAC	1 cut(s)	378
Bbv12I	GWGCWC	1 cut(s)	264
BbvCI	CCTCAGC	1 cut(s)	19
BbvI	GCAGC	5 cut(s)	26, 123, 202, 215, 484
BccI	CCATC	2 cut(s)	585, 779
BceAI	ACGGC	1 cut(s)	345
BciT130I	CCWGG	4 cut(s)	411, 701, 742, 795
BfaI	CTAG	3 cut(s)	96, 143, 750
BfoI	RGCGCY	1 cut(s)	93
BisI	GCNGC	5 cut(s)	15, 112, 204, 216, 498
BlsI	GCNGC	5 cut(s)	16, 113, 205, 217, 499
Bme1390I	CCNGG	4 cut(s)	411, 701, 742, 795
BmiI	GGNNCC	1 cut(s)	871
BmrFI	CCNGG	4 cut(s)	411, 701, 742, 795
BmsI	GCATC	2 cut(s)	355, 436
BpiI	GAAGAC	1 cut(s)	378
BpmI	CTGGAG	1 cut(s)	618
Bpu10I	CCTNAGC	1 cut(s)	19
Bpu14I	TTCGAA	1 cut(s)	255
Bsa29I	ATCGAT	1 cut(s)	105
BsaJI	CCNNGG	4 cut(s)	740, 741, 794, 897
BsaWI	WCCGGW	1 cut(s)	527
BsaXI	ACNNNNNCTCC	4 cut(s)	220, 250, 925, 955
Bsc4I	CCNNNNNNNGG	3 cut(s)	186, 382, 706
Bse118I	RCCGGY	1 cut(s)	52
Bse3DI	GCAATG	1 cut(s)	456
BseBI	CCWGG	4 cut(s)	411, 701, 742, 795
BseCI	ATCGAT	1 cut(s)	105
BseDI	CCNNGG	4 cut(s)	740, 741, 794, 897
BseGI	GGATG	2 cut(s)	325, 370
BseLI	CCNNNNNNNGG	3 cut(s)	186, 382, 706
BseMI	GCAATG	1 cut(s)	456
BseMII	CTCAG	2 cut(s)	33, 326
BseRI	GAGGAG	2 cut(s)	272, 722
BseXI	GCAGC	5 cut(s)	26, 123, 202, 215, 484
Bsh1236I	CGCG	2 cut(s)	135, 243
BshFI	GGCC	2 cut(s)	31, 56
BshNI	GGYRCC	1 cut(s)	869
BshVI	ATCGAT	1 cut(s)	105
BsiHKAI	GWGCWC	1 cut(s)	264
BsiSI	CCGG	2 cut(s)	53, 528
BslFI	GGGAC	1 cut(s)	230
BslI	CCNNNNNNNGG	3 cut(s)	186, 382, 706
BsmFI	GGGAC	1 cut(s)	230
BsnI	GGCC	2 cut(s)	31, 56
Bsp119I	TTCGAA	1 cut(s)	255
Bsp1286I	GDGCHC	1 cut(s)	264
Bsp143I	GATC	2 cut(s)	573, 923
BspACI	CCGC	1 cut(s)	332
BspANI	GGCC	2 cut(s)	31, 56
BspCNI	CTCAG	2 cut(s)	32, 325
BspDI	ATCGAT	1 cut(s)	105
BspFNI	CGCG	2 cut(s)	135, 243
BspHI	TCATGA	1 cut(s)	732
BspLI	GGNNCC	1 cut(s)	871
BspPI	GGATC	2 cut(s)	568, 931
BspQI	GCTCTTC	1 cut(s)	252
BspT104I	TTCGAA	1 cut(s)	255
BspT107I	GGYRCC	1 cut(s)	869
BsrDI	GCAATG	1 cut(s)	456
BsrFI	RCCGGY	1 cut(s)	52
BssAI	RCCGGY	1 cut(s)	52
BssECI	CCNNGG	4 cut(s)	740, 741, 794, 897
BssMI	GATC	2 cut(s)	573, 923
BssNAI	GTATAC	1 cut(s)	623
Bst1107I	GTATAC	1 cut(s)	623
Bst2UI	CCWGG	4 cut(s)	411, 701, 742, 795
Bst4CI	ACNGT	2 cut(s)	481, 722
Bst6I	CTCTTC	1 cut(s)	252
BstAPI	GCANNNNNTGC	1 cut(s)	974
BstBI	TTCGAA	1 cut(s)	255
BstC8I	GCNNGC	2 cut(s)	495, 554
BstDEI	CTNAG	3 cut(s)	19, 312, 927
BstF5I	GGATG	2 cut(s)	325, 370
BstFNI	CGCG	2 cut(s)	135, 243
BstH2I	RGCGCY	1 cut(s)	93
BstHHI	GCGC	2 cut(s)	92, 135
BstKTI	GATC	2 cut(s)	576, 926
BstMBI	GATC	2 cut(s)	573, 923
BstMWI	GCNNNNNNNGC	3 cut(s)	20, 212, 974
BstNI	CCWGG	4 cut(s)	411, 701, 742, 795
BstNSI	RCATGY	2 cut(s)	280, 556
BstSCI	CCNGG	4 cut(s)	409, 699, 740, 793
BstUI	CGCG	2 cut(s)	135, 243
BstV1I	GCAGC	5 cut(s)	26, 123, 202, 215, 484
BstV2I	GAAGAC	1 cut(s)	378
BstX2I	RGATCY	1 cut(s)	923
BstYI	RGATCY	1 cut(s)	923
BstZ17I	GTATAC	1 cut(s)	623
Bsu15I	ATCGAT	1 cut(s)	105
BsuRI	GGCC	2 cut(s)	31, 56
BsuTUI	ATCGAT	1 cut(s)	105
BtsCI	GGATG	2 cut(s)	325, 370
Cac8I	GCNNGC	2 cut(s)	495, 554
CciI	TCATGA	1 cut(s)	732
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, 232
CsiI	ACCWGGT	1 cut(s)	699
Csp6I	GTAC	3 cut(s)	547, 643, 870
CviAII	CATG	3 cut(s)	277, 553, 733
CviQI	GTAC	3 cut(s)	547, 643, 870
DdeI	CTNAG	3 cut(s)	19, 312, 927
DpnI	GATC	2 cut(s)	575, 925
DpnII	GATC	2 cut(s)	573, 923
EaeI	YGGCCR	1 cut(s)	54
Eam1104I	CTCTTC	1 cut(s)	252
EarI	CTCTTC	1 cut(s)	252
EciI	GGCGGA	1 cut(s)	347
Ecl136II	GAGCTC	1 cut(s)	262
Eco147I	AGGCCT	1 cut(s)	31
Eco24I	GRGCYC	1 cut(s)	264
Eco47III	AGCGCT	1 cut(s)	91
Eco53kI	GAGCTC	1 cut(s)	262
Eco57I	CTGAAG	1 cut(s)	390
EcoICRI	GAGCTC	1 cut(s)	262
EcoRII	CCWGG	4 cut(s)	409, 699, 740, 793
EcoT38I	GRGCYC	1 cut(s)	264
FaeI	CATG	3 cut(s)	280, 556, 736
FaqI	GGGAC	1 cut(s)	230
FatI	CATG	3 cut(s)	276, 552, 732
FblI	GTMKAC	1 cut(s)	622
Fnu4HI	GCNGC	5 cut(s)	15, 112, 204, 216, 498
FokI	GGATG	2 cut(s)	332, 377
FriOI	GRGCYC	1 cut(s)	264
Fsp4HI	GCNGC	5 cut(s)	15, 112, 204, 216, 498
FspBI	CTAG	3 cut(s)	96, 143, 750
GlaI	GCGC	2 cut(s)	91, 134
GluI	GCNGC	5 cut(s)	15, 112, 204, 216, 498
GsuI	CTGGAG	1 cut(s)	618
HaeII	RGCGCY	1 cut(s)	93
HaeIII	GGCC	2 cut(s)	31, 56
HapII	CCGG	2 cut(s)	53, 528
HgaI	GACGC	2 cut(s)	124, 232
HhaI	GCGC	2 cut(s)	92, 135
Hin1II	CATG	3 cut(s)	280, 556, 736
Hin6I	GCGC	2 cut(s)	90, 133
HinP1I	GCGC	2 cut(s)	90, 133
HinfI	GANTC	5 cut(s)	252, 294, 678, 736, 818
HpaII	CCGG	2 cut(s)	53, 528
Hpy166II	GTNNAC	2 cut(s)	64, 623
Hpy188I	TCNGA	3 cut(s)	291, 901, 916
Hpy188III	TCNNGA	5 cut(s)	362, 675, 733, 882, 944
Hpy8I	GTNNAC	2 cut(s)	64, 623
Hpy99I	CGWCG	2 cut(s)	140, 160
HpyAV	CCTTC	2 cut(s)	860, 932
HpyCH4III	ACNGT	2 cut(s)	481, 722
HpyCH4V	TGCA	8 cut(s)	111, 449, 462, 512, 552, 563, 806, 977
HpyF10VI	GCNNNNNNNGC	3 cut(s)	20, 212, 974
HpyF3I	CTNAG	3 cut(s)	19, 312, 927
Hsp92II	CATG	3 cut(s)	280, 556, 736
HspAI	GCGC	2 cut(s)	90, 133
KpnI	GGTACC	1 cut(s)	873
Kzo9I	GATC	2 cut(s)	573, 923
LguI	GCTCTTC	1 cut(s)	252
LmnI	GCTCC	2 cut(s)	285, 901
Lsp1109I	GCAGC	5 cut(s)	26, 123, 202, 215, 484
LweI	GCATC	2 cut(s)	355, 436
MabI	ACCWGGT	1 cut(s)	699
MaeI	CTAG	3 cut(s)	96, 143, 750
MaeIII	GTNAC	1 cut(s)	421
MalI	GATC	2 cut(s)	575, 925
MboI	GATC	2 cut(s)	573, 923
MboII	GAAGA	3 cut(s)	269, 292, 383
MfeI	CAATTG	2 cut(s)	184, 810
MflI	RGATCY	1 cut(s)	923
MhlI	GDGCHC	1 cut(s)	264
MluCI	AATT	9 cut(s)	184, 403, 455, 627, 656, 727, 810, 889, 909
MluI	ACGCGT	1 cut(s)	241
MseI	TTAA	2 cut(s)	78, 654
MslI	CAYNNNNRTG	1 cut(s)	275
MspI	CCGG	2 cut(s)	53, 528
MspR9I	CCNGG	4 cut(s)	411, 701, 742, 795
MunI	CAATTG	2 cut(s)	184, 810
MvaI	CCWGG	4 cut(s)	411, 701, 742, 795
MvnI	CGCG	2 cut(s)	135, 243
MwoI	GCNNNNNNNGC	3 cut(s)	20, 212, 974
NdeII	GATC	2 cut(s)	573, 923
NlaIII	CATG	3 cut(s)	280, 556, 736
NlaIV	GGNNCC	1 cut(s)	871
NspI	RCATGY	2 cut(s)	280, 556
NspV	TTCGAA	1 cut(s)	255
PaeI	GCATGC	1 cut(s)	556
PagI	TCATGA	1 cut(s)	732
PasI	CCCWGGG	1 cut(s)	741
PceI	AGGCCT	1 cut(s)	31
PciSI	GCTCTTC	1 cut(s)	252
PcsI	WCGNNNNNNNCGW	1 cut(s)	261
PfeI	GAWTC	5 cut(s)	252, 294, 678, 736, 818
PflMI	CCANNNNNTGG	1 cut(s)	186
PkrI	GCNGC	5 cut(s)	16, 113, 205, 217, 499
Psp124BI	GAGCTC	1 cut(s)	264
Psp6I	CCWGG	4 cut(s)	409, 699, 740, 793
PspGI	CCWGG	4 cut(s)	409, 699, 740, 793
PspN4I	GGNNCC	1 cut(s)	871
PsuI	RGATCY	1 cut(s)	923
RsaI	GTAC	3 cut(s)	548, 644, 871
RsaNI	GTAC	3 cut(s)	547, 643, 870
RseI	CAYNNNNRTG	1 cut(s)	275
SacI	GAGCTC	1 cut(s)	264
SapI	GCTCTTC	1 cut(s)	252
SaqAI	TTAA	2 cut(s)	78, 654
SatI	GCNGC	5 cut(s)	15, 112, 204, 216, 498
Sau3AI	GATC	2 cut(s)	573, 923
ScrFI	CCNGG	4 cut(s)	411, 701, 742, 795
SduI	GDGCHC	1 cut(s)	264
SexAI	ACCWGGT	1 cut(s)	699
SfaNI	GCATC	2 cut(s)	355, 436
SfuI	TTCGAA	1 cut(s)	255
SmiMI	CAYNNNNRTG	1 cut(s)	275
SphI	GCATGC	1 cut(s)	556
Sse9I	AATT	9 cut(s)	184, 403, 455, 627, 656, 727, 810, 889, 909
SseBI	AGGCCT	1 cut(s)	31
SsiI	CCGC	1 cut(s)	332
SspI	AATATT	1 cut(s)	669
SspMI	CTAG	3 cut(s)	96, 143, 750
SstI	GAGCTC	1 cut(s)	264
StuI	AGGCCT	1 cut(s)	31
StyD4I	CCNGG	4 cut(s)	409, 699, 740, 793
TaaI	ACNGT	2 cut(s)	481, 722
TaqI	TCGA	3 cut(s)	105, 255, 264
TaqII	GACCGA	1 cut(s)	128
TasI	AATT	9 cut(s)	184, 403, 455, 627, 656, 727, 810, 889, 909
TfiI	GAWTC	5 cut(s)	252, 294, 678, 736, 818
Tru1I	TTAA	2 cut(s)	78, 654
Tru9I	TTAA	2 cut(s)	78, 654
TseI	GCWGC	5 cut(s)	14, 111, 203, 215, 497
TspDTI	ATGAA	3 cut(s)	467, 721, 749
TspGWI	ACGGA	1 cut(s)	275
Van91I	CCANNNNNTGG	1 cut(s)	186
XapI	RAATTY	2 cut(s)	889, 909
XceI	RCATGY	2 cut(s)	280, 556
XcmI	CCANNNNNNNNNTGG	1 cut(s)	584
XmiI	GTMKAC	1 cut(s)	622
XspI	CTAG	3 cut(s)	96, 143, 750

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