Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1B

Orthogroup ID

OG0003024

Physical Location & Seq

Genomic Coordinates Reverse (-)

11090398 .. 11096884

Gene Structure 6487 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1BG071800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 987 bp

ATGATGACATACGCAGCCTCAGCTTCAAGGCCTCTCTGTTTCAACACCCAACCGGCCATTGTGAACAGCAATGGTCTTAATAGCAGTAGCTCTTCTAGTATCATCGATTGCAGCAGAACAACAAGGAGGAAGCGCGTCGGTCTAGTTCAAGCCTCGTCGCCTACAAGACCCACCTTGTCCAGCAATTGGGATTTTCAGTTCGCAGCTACTACTGCTACTACTACTACTACTACTTCCTCTCCACGCGTCCCCAGATTGGAAGAGCTCGATACCACCAACATGCTTCTCCGTCAGAGAATCATCTTCTTGGGTTCTCAGGTGGATGATATGACGGCCGATTTGATAATAAGCCAACTGCTATTTCTGGATGCTGAAGACCCCAAAAAGGACATTACATTGTTTATCAATTCGCCTGGTGGCTCGGTTACTGCTGGAATGGGAATATATGATGCAATGAAATTGTGCAAGGCAGATGTTTCAACTGTTTGCTTGGGGCTTGCTGCTTCTATGGGTGCATTTCTCCTTGCTTCCGGTTCAAAAGGAAAGAGGTACTGCATGCCCAATGCAAGAGTGATGATCCATCAACCTCTTGGAACTGCTGGAGGCAAAGCAACAGAAATGGGTATACGAATTAGAGAAATGGCGTACCACAAGATTAAATTGAACAAAATATTGTCAAGAATCACAGGGAAGCCTTTAGACCAGGTTGAGGAGGACACAGACCGTGATAATTTCATGAATCCCTGGGAAGCTAGGGATTATGGGTTGATTGATGAGGTTATTGATGATGGAAAGCCAGGGTTAGTTGCACCAATTGGAGATTCCACACCTCCACCCAAAACAAAAGTCTGGGATATGTGGAAAGTTGAAGGTACCAAGAAATCCAGAAAGAATTTACCCTCGGAGCTGAAAATTTCAGATAATGGATCTAAGGGGAGTGAAGGTCGTGAGAATGAGAAAGGTTTGGAAGCACCTACTGCAACATAG

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

35.63

Weight (kDa)

8.71

Isoelectric Point (pI)

33.95

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
CLP_protease	PF00574	89 - 262	5.8e-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)	872
AccB1I	GGYRCC	1 cut(s)	872
AccB7I	CCANNNNNTGG	1 cut(s)	186
AccI	GTMKAC	1 cut(s)	625
AccII	CGCG	2 cut(s)	135, 246
AclWI	GGATC	2 cut(s)	571, 934
AcoI	YGGCCR	2 cut(s)	54, 333
AcsI	RAATTY	2 cut(s)	892, 912
AcuI	CTGAAG	1 cut(s)	393
AfaI	GTAC	3 cut(s)	551, 647, 874
AfiI	CCNNNNNNNGG	4 cut(s)	186, 256, 385, 709
AflIII	ACRYGT	1 cut(s)	244
AgsI	TTSAA	7 cut(s)	27, 43, 149, 480, 537, 664, 869
AjnI	CCWGG	4 cut(s)	412, 702, 743, 796
AjuI	GAANNNNNNNTTGG	4 cut(s)	345, 377, 805, 837
AloI	GAACNNNNNNTCC	2 cut(s)	182, 214
AluBI	AGCT	6 cut(s)	23, 90, 206, 265, 752, 907
AluI	AGCT	6 cut(s)	23, 90, 206, 265, 752, 907
Alw21I	GWGCWC	1 cut(s)	267
AlwI	GGATC	2 cut(s)	571, 934
AoxI	GGCC	3 cut(s)	29, 54, 333
ApeKI	GCWGC	4 cut(s)	14, 111, 203, 500
ApoI	RAATTY	2 cut(s)	892, 912
ArsI	GACNNNNNNTTYG	4 cut(s)	322, 354, 831, 863
Asp718I	GGTACC	1 cut(s)	872
AspLEI	GCGC	1 cut(s)	135
BanI	GGYRCC	1 cut(s)	872
BanII	GRGCYC	1 cut(s)	267
BbsI	GAAGAC	1 cut(s)	381
Bbv12I	GWGCWC	1 cut(s)	267
BbvCI	CCTCAGC	1 cut(s)	19
BbvI	GCAGC	4 cut(s)	26, 123, 215, 487
BccI	CCATC	2 cut(s)	588, 782
BceAI	ACGGC	1 cut(s)	348
BciT130I	CCWGG	4 cut(s)	414, 704, 745, 798
BfaI	CTAG	3 cut(s)	96, 143, 753
BisI	GCNGC	4 cut(s)	15, 112, 204, 501
BlsI	GCNGC	4 cut(s)	16, 113, 205, 502
Bme1390I	CCNGG	4 cut(s)	414, 704, 745, 798
BmiI	GGNNCC	1 cut(s)	874
BmrFI	CCNGG	4 cut(s)	414, 704, 745, 798
BmsI	GCATC	2 cut(s)	358, 439
BpiI	GAAGAC	1 cut(s)	381
BpmI	CTGGAG	1 cut(s)	621
Bpu10I	CCTNAGC	1 cut(s)	19
Bsa29I	ATCGAT	1 cut(s)	105
BsaJI	CCNNGG	4 cut(s)	743, 744, 797, 900
BsaWI	WCCGGW	1 cut(s)	530
BsaXI	ACNNNNNCTCC	4 cut(s)	223, 253, 928, 958
Bsc4I	CCNNNNNNNGG	4 cut(s)	186, 256, 385, 709
Bse118I	RCCGGY	1 cut(s)	52
Bse3DI	GCAATG	2 cut(s)	76, 459
BseBI	CCWGG	4 cut(s)	414, 704, 745, 798
BseCI	ATCGAT	1 cut(s)	105
BseDI	CCNNGG	4 cut(s)	743, 744, 797, 900
BseGI	GGATG	2 cut(s)	328, 373
BseLI	CCNNNNNNNGG	4 cut(s)	186, 256, 385, 709
BseMI	GCAATG	2 cut(s)	76, 459
BseMII	CTCAG	2 cut(s)	33, 329
BseRI	GAGGAG	1 cut(s)	725
BseX3I	CGGCCG	1 cut(s)	333
BseXI	GCAGC	4 cut(s)	26, 123, 215, 487
Bsh1236I	CGCG	2 cut(s)	135, 246
Bsh1285I	CGRYCG	1 cut(s)	336
BshFI	GGCC	3 cut(s)	31, 56, 335
BshNI	GGYRCC	1 cut(s)	872
BshVI	ATCGAT	1 cut(s)	105
BsiEI	CGRYCG	1 cut(s)	336
BsiHKAI	GWGCWC	1 cut(s)	267
BsiSI	CCGG	2 cut(s)	53, 531
BslFI	GGGAC	1 cut(s)	233
BslI	CCNNNNNNNGG	4 cut(s)	186, 256, 385, 709
BsmFI	GGGAC	1 cut(s)	233
BsnI	GGCC	3 cut(s)	31, 56, 335
Bsp1286I	GDGCHC	1 cut(s)	267
Bsp143I	GATC	2 cut(s)	576, 926
BspANI	GGCC	3 cut(s)	31, 56, 335
BspCNI	CTCAG	2 cut(s)	32, 328
BspDI	ATCGAT	1 cut(s)	105
BspFNI	CGCG	2 cut(s)	135, 246
BspHI	TCATGA	1 cut(s)	735
BspLI	GGNNCC	1 cut(s)	874
BspPI	GGATC	2 cut(s)	571, 934
BspQI	GCTCTTC	2 cut(s)	97, 255
BspT107I	GGYRCC	1 cut(s)	872
BsrDI	GCAATG	2 cut(s)	76, 459
BsrFI	RCCGGY	1 cut(s)	52
BssAI	RCCGGY	1 cut(s)	52
BssECI	CCNNGG	4 cut(s)	743, 744, 797, 900
BssMI	GATC	2 cut(s)	576, 926
BssNAI	GTATAC	1 cut(s)	626
Bst1107I	GTATAC	1 cut(s)	626
Bst2UI	CCWGG	4 cut(s)	414, 704, 745, 798
Bst4CI	ACNGT	2 cut(s)	484, 725
Bst6I	CTCTTC	2 cut(s)	97, 255
BstAPI	GCANNNNNTGC	1 cut(s)	977
BstC8I	GCNNGC	2 cut(s)	498, 557
BstDEI	CTNAG	3 cut(s)	19, 315, 930
BstF5I	GGATG	2 cut(s)	328, 373
BstFNI	CGCG	2 cut(s)	135, 246
BstHHI	GCGC	1 cut(s)	135
BstKTI	GATC	2 cut(s)	579, 929
BstMBI	GATC	2 cut(s)	576, 926
BstMCI	CGRYCG	1 cut(s)	336
BstMWI	GCNNNNNNNGC	3 cut(s)	20, 212, 977
BstNI	CCWGG	4 cut(s)	414, 704, 745, 798
BstNSI	RCATGY	2 cut(s)	283, 559
BstSCI	CCNGG	4 cut(s)	412, 702, 743, 796
BstUI	CGCG	2 cut(s)	135, 246
BstV1I	GCAGC	4 cut(s)	26, 123, 215, 487
BstV2I	GAAGAC	1 cut(s)	381
BstX2I	RGATCY	1 cut(s)	926
BstYI	RGATCY	1 cut(s)	926
BstZ17I	GTATAC	1 cut(s)	626
BstZI	CGGCCG	1 cut(s)	333
Bsu15I	ATCGAT	1 cut(s)	105
BsuRI	GGCC	3 cut(s)	31, 56, 335
BsuTUI	ATCGAT	1 cut(s)	105
BtsCI	GGATG	2 cut(s)	328, 373
Cac8I	GCNNGC	2 cut(s)	498, 557
CciI	TCATGA	1 cut(s)	735
CfoI	GCGC	1 cut(s)	135
Cfr10I	RCCGGY	1 cut(s)	52
ClaI	ATCGAT	1 cut(s)	105
CseI	GACGC	2 cut(s)	124, 235
CsiI	ACCWGGT	1 cut(s)	702
Csp6I	GTAC	3 cut(s)	550, 646, 873
CviAII	CATG	3 cut(s)	280, 556, 736
CviQI	GTAC	3 cut(s)	550, 646, 873
DdeI	CTNAG	3 cut(s)	19, 315, 930
DpnI	GATC	2 cut(s)	578, 928
DpnII	GATC	2 cut(s)	576, 926
EaeI	YGGCCR	2 cut(s)	54, 333
EagI	CGGCCG	1 cut(s)	333
Eam1104I	CTCTTC	2 cut(s)	97, 255
EarI	CTCTTC	2 cut(s)	97, 255
Ecl136II	GAGCTC	1 cut(s)	265
EclXI	CGGCCG	1 cut(s)	333
Eco147I	AGGCCT	1 cut(s)	31
Eco24I	GRGCYC	1 cut(s)	267
Eco52I	CGGCCG	1 cut(s)	333
Eco53kI	GAGCTC	1 cut(s)	265
Eco57I	CTGAAG	1 cut(s)	393
EcoICRI	GAGCTC	1 cut(s)	265
EcoRII	CCWGG	4 cut(s)	412, 702, 743, 796
EcoT38I	GRGCYC	1 cut(s)	267
FaeI	CATG	3 cut(s)	283, 559, 739
FaqI	GGGAC	1 cut(s)	233
FatI	CATG	3 cut(s)	279, 555, 735
FblI	GTMKAC	1 cut(s)	625
Fnu4HI	GCNGC	4 cut(s)	15, 112, 204, 501
FokI	GGATG	2 cut(s)	335, 380
FriOI	GRGCYC	1 cut(s)	267
Fsp4HI	GCNGC	4 cut(s)	15, 112, 204, 501
FspBI	CTAG	3 cut(s)	96, 143, 753
GlaI	GCGC	1 cut(s)	134
GluI	GCNGC	4 cut(s)	15, 112, 204, 501
GsuI	CTGGAG	1 cut(s)	621
HaeIII	GGCC	3 cut(s)	31, 56, 335
HapII	CCGG	2 cut(s)	53, 531
HgaI	GACGC	2 cut(s)	124, 235
HhaI	GCGC	1 cut(s)	135
Hin1II	CATG	3 cut(s)	283, 559, 739
Hin6I	GCGC	1 cut(s)	133
HinP1I	GCGC	1 cut(s)	133
HinfI	GANTC	4 cut(s)	297, 681, 739, 821
HpaII	CCGG	2 cut(s)	53, 531
Hpy166II	GTNNAC	2 cut(s)	64, 626
Hpy188I	TCNGA	3 cut(s)	294, 904, 919
Hpy188III	TCNNGA	5 cut(s)	365, 678, 736, 885, 947
Hpy8I	GTNNAC	2 cut(s)	64, 626
Hpy99I	CGWCG	2 cut(s)	140, 160
HpyAV	CCTTC	2 cut(s)	863, 935
HpyCH4III	ACNGT	2 cut(s)	484, 725
HpyCH4V	TGCA	8 cut(s)	111, 452, 465, 515, 555, 566, 809, 980
HpyF10VI	GCNNNNNNNGC	3 cut(s)	20, 212, 977
HpyF3I	CTNAG	3 cut(s)	19, 315, 930
Hsp92II	CATG	3 cut(s)	283, 559, 739
HspAI	GCGC	1 cut(s)	133
KpnI	GGTACC	1 cut(s)	876
Kzo9I	GATC	2 cut(s)	576, 926
LguI	GCTCTTC	2 cut(s)	97, 255
LmnI	GCTCC	1 cut(s)	904
Lsp1109I	GCAGC	4 cut(s)	26, 123, 215, 487
LweI	GCATC	2 cut(s)	358, 439
MabI	ACCWGGT	1 cut(s)	702
MaeI	CTAG	3 cut(s)	96, 143, 753
MaeIII	GTNAC	1 cut(s)	424
MalI	GATC	2 cut(s)	578, 928
MboI	GATC	2 cut(s)	576, 926
MboII	GAAGA	4 cut(s)	84, 272, 295, 386
MfeI	CAATTG	2 cut(s)	184, 813
MflI	RGATCY	1 cut(s)	926
MhlI	GDGCHC	1 cut(s)	267
MluCI	AATT	9 cut(s)	184, 406, 458, 630, 659, 730, 813, 892, 912
MluI	ACGCGT	1 cut(s)	244
MseI	TTAA	2 cut(s)	78, 657
MslI	CAYNNNNRTG	1 cut(s)	278
MspI	CCGG	2 cut(s)	53, 531
MspR9I	CCNGG	4 cut(s)	414, 704, 745, 798
MunI	CAATTG	2 cut(s)	184, 813
MvaI	CCWGG	4 cut(s)	414, 704, 745, 798
MvnI	CGCG	2 cut(s)	135, 246
MwoI	GCNNNNNNNGC	3 cut(s)	20, 212, 977
NdeII	GATC	2 cut(s)	576, 926
NlaIII	CATG	3 cut(s)	283, 559, 739
NlaIV	GGNNCC	1 cut(s)	874
NspI	RCATGY	2 cut(s)	283, 559
PaeI	GCATGC	1 cut(s)	559
PagI	TCATGA	1 cut(s)	735
PasI	CCCWGGG	1 cut(s)	744
PceI	AGGCCT	1 cut(s)	31
PciSI	GCTCTTC	2 cut(s)	97, 255
PfeI	GAWTC	4 cut(s)	297, 681, 739, 821
PflMI	CCANNNNNTGG	1 cut(s)	186
PkrI	GCNGC	4 cut(s)	16, 113, 205, 502
Psp124BI	GAGCTC	1 cut(s)	267
Psp6I	CCWGG	4 cut(s)	412, 702, 743, 796
PspGI	CCWGG	4 cut(s)	412, 702, 743, 796
PspN4I	GGNNCC	1 cut(s)	874
PsuI	RGATCY	1 cut(s)	926
RsaI	GTAC	3 cut(s)	551, 647, 874
RsaNI	GTAC	3 cut(s)	550, 646, 873
RseI	CAYNNNNRTG	1 cut(s)	278
SacI	GAGCTC	1 cut(s)	267
SapI	GCTCTTC	2 cut(s)	97, 255
SaqAI	TTAA	2 cut(s)	78, 657
SatI	GCNGC	4 cut(s)	15, 112, 204, 501
Sau3AI	GATC	2 cut(s)	576, 926
ScrFI	CCNGG	4 cut(s)	414, 704, 745, 798
SduI	GDGCHC	1 cut(s)	267
SexAI	ACCWGGT	1 cut(s)	702
SfaNI	GCATC	2 cut(s)	358, 439
SmiMI	CAYNNNNRTG	1 cut(s)	278
SphI	GCATGC	1 cut(s)	559
Sse9I	AATT	9 cut(s)	184, 406, 458, 630, 659, 730, 813, 892, 912
SseBI	AGGCCT	1 cut(s)	31
SspI	AATATT	1 cut(s)	672
SspMI	CTAG	3 cut(s)	96, 143, 753
SstI	GAGCTC	1 cut(s)	267
StuI	AGGCCT	1 cut(s)	31
StyD4I	CCNGG	4 cut(s)	412, 702, 743, 796
TaaI	ACNGT	2 cut(s)	484, 725
TaqI	TCGA	2 cut(s)	105, 267
TaqII	GACCGA	1 cut(s)	128
TasI	AATT	9 cut(s)	184, 406, 458, 630, 659, 730, 813, 892, 912
TfiI	GAWTC	4 cut(s)	297, 681, 739, 821
Tru1I	TTAA	2 cut(s)	78, 657
Tru9I	TTAA	2 cut(s)	78, 657
TseI	GCWGC	4 cut(s)	14, 111, 203, 500
TspDTI	ATGAA	3 cut(s)	470, 724, 752
TspGWI	ACGGA	1 cut(s)	278
Van91I	CCANNNNNTGG	1 cut(s)	186
XapI	RAATTY	2 cut(s)	892, 912
XceI	RCATGY	2 cut(s)	283, 559
XcmI	CCANNNNNNNNNTGG	1 cut(s)	587
XmiI	GTMKAC	1 cut(s)	625
XspI	CTAG	3 cut(s)	96, 143, 753

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