Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr1

Orthogroup ID

OG0016900

Physical Location & Seq

Genomic Coordinates Reverse (-)

11705565 .. 11708893

Gene Structure 3329 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000001192

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1176 bp

ATGGCAGTTGCTACCTATCTTGTCGATAAACTTTGTCTGAGGGCTGGAAATGATACGGATGATGATGAAATTGATACTGTTGAGTGCTGCAAATTAAAAGTAGAGAACGTCAAAACAATTCCCCCTAACTCGTTGGAGTTCAACTTCCTCGTTAAAGATTCAATAAGATGTGAAAATACTGTTGACGTTGAGCTTCCTGTTTACAAGGCAATCGAAGAGTTCCTGGCTGGAAAGAATGGTAGTGAAGGTCTATTTGACAAGTTGGAGAATACCAGTAAATTGAATGCGCATCTAGAGGGACTGATGCCTGGCCTTACAGGAAAAGTATTCCGTACATACAATGCATGCATTACATTGGATGAAATATTGAACAAAGAAACTCTCTCTGGAGCAGTTTCAGAGAAACAATGTGTTTATAGACAGGCAACCAGGGAGGTTGCCATTATCTGCAATTTTCAGCGCACTGTTTCAAGGCCTGATGGTGTACAGATGTACTGGTTAAAAGAGAACATGAGTGAGTTGCAGGGCACATTGACGGAGCTGAAAACAGATTTGGACAGGGCAGTAATGGGATTGCCTCCACTGAGAATTTTTAATGGAAAACTAAAGAGAACCCTGATCCCAGAAGAGTTAGAGAGGACGATAGCTGAAACAATTCAGATGATTGAAAAATTGGAACAGGATATGAGGACCCAAGAGAACCAGAAATACACGTCAGTGGGAATGCCCAAAATCAAGTATCTTGACCCTAGGATCACTGTTGCATGGTGTAAGCGAAATGAAGTTCCTATAGACAAGGTGAGAAATTCAACCACACTGTCTCCTGCATCCCAAATCCAACCCAAAGGAGAATCTGAACCCAACATATGGGCTGAGTTGGGCCCAGCAGCCCAGGAACCCGTTGCAGCCGTCGACCGTCACCGAATGCATACGTCATCCATACCTACAGCCACCATACCAGCTACCTCCAAACCGCCAGACCCGAGATTCCGAACAGCCAAGCCAGCGCTACCAGCAAATCAACCCAGAAAGCAAGCAATCCTGCAGCCACATGCAGCCAGCCCACCCCCGTGGACCACACCAGCGGCTTCGGCATTAGCCGCCGCGCTACCCGCCGAAGCAGGACTCTGCCACCGCGCTGCAGCGCCGCCACCAGCAACTTTGACGCGCCATTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Topo_C_assoc Topoisom_I Topoisom_I_N

Protein Analysis

392

Amino Acids

43.27

Weight (kDa)

6.63

Isoelectric Point (pI)

43.23

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Topoisom_I	PF01028	1 - 184	1.9e-55	Eukaryotic DNA topoisomerase I, catalytic core
Topo_C_assoc	PF14370	221 - 272	2.4e-15	C-terminal topoisomerase 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: OG0016900)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_6g41220
rosa_laevigata	RLG00000001192 RLG00000001193 RLG00000001200 RLG00000001202 RLG00000001203
rosa_multiflora	Rmu_sc0000768.1_g000025
rosa_roxburghii	Rroxscaffold_3G00226480 Rroxscaffold_3G00226490 Rroxscaffold_3G00226550
rosa_rugosa	Rorug07G0286300
rosa_samantha	Rh7AG441000 Rh7BG413800 Rh7CG462700

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc16I	TGCGCA	1 cut(s)	288
AccB7I	CCANNNNNTGG	1 cut(s)	867
AccI	GTMKAC	1 cut(s)	912
AccII	CGCG	3 cut(s)	1106, 1137, 1168
AciI	CCGC	7 cut(s)	974, 1085, 1101, 1104, 1113, 1135, 1148
AclWI	GGATC	2 cut(s)	613, 761
AcsI	RAATTY	2 cut(s)	588, 805
AfaI	GTAC	3 cut(s)	334, 486, 494
AfeI	AGCGCT	1 cut(s)	1008
AfiI	CCNNNNNNNGG	1 cut(s)	867
AflIII	ACRYGT	1 cut(s)	711
AgsI	TTSAA	7 cut(s)	142, 162, 283, 370, 471, 668, 810
AjiI	CACGTC	1 cut(s)	714
AjnI	CCWGG	4 cut(s)	222, 307, 428, 891
AjuI	GAANNNNNNNTTGG	2 cut(s)	536, 568
AleI	CACNNNNGTG	2 cut(s)	716, 1069
AluBI	AGCT	4 cut(s)	193, 541, 647, 962
AluI	AGCT	4 cut(s)	193, 541, 647, 962
Alw26I	GTCTC	1 cut(s)	825
AlwI	GGATC	2 cut(s)	613, 761
Ama87I	CYCGRG	1 cut(s)	982
Aor51HI	AGCGCT	1 cut(s)	1008
AoxI	GGCC	3 cut(s)	310, 473, 880
ApaI	GGGCCC	1 cut(s)	884
ApeKI	GCWGC	7 cut(s)	87, 887, 905, 1045, 1055, 1139, 1142
ApoI	RAATTY	2 cut(s)	588, 805
Asp700I	GAANNNNTTC	1 cut(s)	654
AspA2I	CCTAGG	1 cut(s)	749
AspLEI	GCGC	7 cut(s)	289, 462, 1009, 1108, 1139, 1147, 1170
AspS9I	GGNCC	4 cut(s)	690, 880, 881, 1074
AsuHPI	GGTGA	2 cut(s)	811, 911
AvaI	CYCGRG	1 cut(s)	982
AvaII	GGWCC	2 cut(s)	690, 1074
AvrII	CCTAGG	1 cut(s)	749
BaeGI	GKGCMC	2 cut(s)	530, 884
BanII	GRGCYC	1 cut(s)	884
BbvI	GCAGC	7 cut(s)	74, 899, 917, 1057, 1067, 1126, 1154
BccI	CCATC	1 cut(s)	473
BceAI	ACGGC	1 cut(s)	893
BciT130I	CCWGG	4 cut(s)	224, 309, 430, 893
BcoDI	GTCTC	1 cut(s)	825
BfaI	CTAG	2 cut(s)	293, 750
BfmI	CTRYAG	4 cut(s)	789, 945, 1043, 1140
BfoI	RGCGCY	2 cut(s)	1010, 1148
BlnI	CCTAGG	1 cut(s)	749
Bme1390I	CCNGG	4 cut(s)	224, 309, 430, 893
Bme18I	GGWCC	2 cut(s)	690, 1074
BmeT110I	CYCGRG	1 cut(s)	982
BmgBI	CACGTC	1 cut(s)	714
BmgT120I	GGNCC	4 cut(s)	690, 880, 881, 1074
BmiI	GGNNCC	3 cut(s)	692, 882, 897
BmrFI	CCNGG	4 cut(s)	224, 309, 430, 893
BmsI	GCATC	3 cut(s)	294, 298, 836
BpmI	CTGGAG	1 cut(s)	408
BsaJI	CCNNGG	4 cut(s)	429, 749, 891, 1070
BsaXI	ACNNNNNCTCC	2 cut(s)	805, 835
Bsc4I	CCNNNNNNNGG	1 cut(s)	867
Bse1I	ACTGG	2 cut(s)	273, 500
BseBI	CCWGG	4 cut(s)	224, 309, 430, 893
BseDI	CCNNGG	4 cut(s)	429, 749, 891, 1070
BseGI	GGATG	4 cut(s)	64, 364, 827, 935
BseLI	CCNNNNNNNGG	1 cut(s)	867
BseMII	CTCAG	3 cut(s)	29, 575, 864
BseNI	ACTGG	2 cut(s)	273, 500
BseSI	GKGCMC	2 cut(s)	530, 884
BseXI	GCAGC	7 cut(s)	74, 899, 917, 1057, 1067, 1126, 1154
BseYI	CCCAGC	1 cut(s)	883
Bsh1236I	CGCG	3 cut(s)	1106, 1137, 1168
Bsh1285I	CGRYCG	1 cut(s)	916
BshFI	GGCC	3 cut(s)	312, 475, 882
BsiEI	CGRYCG	1 cut(s)	916
BsiHKCI	CYCGRG	1 cut(s)	982
BslFI	GGGAC	1 cut(s)	312
BslI	CCNNNNNNNGG	1 cut(s)	867
BsmAI	GTCTC	1 cut(s)	825
BsmFI	GGGAC	1 cut(s)	312
BsmI	GAATGC	3 cut(s)	289, 729, 930
BsnI	GGCC	3 cut(s)	312, 475, 882
BsoBI	CYCGRG	1 cut(s)	982
Bsp120I	GGGCCC	1 cut(s)	880
Bsp1286I	GDGCHC	2 cut(s)	530, 884
Bsp1407I	TGTACA	1 cut(s)	484
Bsp143I	GATC	2 cut(s)	618, 753
BspACI	CCGC	7 cut(s)	974, 1085, 1101, 1104, 1113, 1135, 1148
BspANI	GGCC	3 cut(s)	312, 475, 882
BspCNI	CTCAG	3 cut(s)	30, 576, 865
BspFNI	CGCG	3 cut(s)	1106, 1137, 1168
BspLI	GGNNCC	3 cut(s)	692, 882, 897
BspMAI	CTGCAG	2 cut(s)	1047, 1144
BspPI	GGATC	2 cut(s)	613, 761
BsrGI	TGTACA	1 cut(s)	484
BsrI	ACTGG	2 cut(s)	273, 500
BssECI	CCNNGG	4 cut(s)	429, 749, 891, 1070
BssMI	GATC	2 cut(s)	618, 753
BssT1I	CCWWGG	1 cut(s)	749
Bst2UI	CCWGG	4 cut(s)	224, 309, 430, 893
Bst4CI	ACNGT	6 cut(s)	79, 181, 466, 760, 819, 917
Bst6I	CTCTTC	2 cut(s)	210, 621
BstAUI	TGTACA	1 cut(s)	484
BstC8I	GCNNGC	4 cut(s)	346, 1005, 1035, 1060
BstDEI	CTNAG	3 cut(s)	38, 584, 873
BstDSI	CCRYGG	1 cut(s)	1070
BstF5I	GGATG	4 cut(s)	64, 364, 827, 935
BstFNI	CGCG	3 cut(s)	1106, 1137, 1168
BstH2I	RGCGCY	2 cut(s)	1010, 1148
BstHHI	GCGC	7 cut(s)	289, 462, 1009, 1108, 1139, 1147, 1170
BstKTI	GATC	2 cut(s)	621, 756
BstMAI	GTCTC	1 cut(s)	825
BstMBI	GATC	2 cut(s)	618, 753
BstMCI	CGRYCG	1 cut(s)	916
BstMWI	GCNNNNNNNGC	5 cut(s)	1004, 1013, 1091, 1100, 1112
BstNI	CCWGG	4 cut(s)	224, 309, 430, 893
BstNSI	RCATGY	2 cut(s)	348, 1055
BstSCI	CCNGG	4 cut(s)	222, 307, 428, 891
BstSFI	CTRYAG	4 cut(s)	789, 945, 1043, 1140
BstSLI	GKGCMC	2 cut(s)	530, 884
BstUI	CGCG	3 cut(s)	1106, 1137, 1168
BstV1I	GCAGC	7 cut(s)	74, 899, 917, 1057, 1067, 1126, 1154
BstXI	CCANNNNNNTGG	1 cut(s)	1071
BsuRI	GGCC	3 cut(s)	312, 475, 882
BtgI	CCRYGG	1 cut(s)	1070
BtrI	CACGTC	1 cut(s)	714
BtsCI	GGATG	4 cut(s)	64, 364, 827, 935
BtsIMutI	CAGTG	5 cut(s)	462, 581, 723, 756, 815
Cac8I	GCNNGC	4 cut(s)	346, 1005, 1035, 1060
CfoI	GCGC	7 cut(s)	289, 462, 1009, 1108, 1139, 1147, 1170
Cfr13I	GGNCC	4 cut(s)	690, 880, 881, 1074
Csp6I	GTAC	3 cut(s)	333, 485, 493
CviAII	CATG	4 cut(s)	345, 511, 765, 1052
CviQI	GTAC	3 cut(s)	333, 485, 493
DdeI	CTNAG	3 cut(s)	38, 584, 873
DpnI	GATC	2 cut(s)	620, 755
DpnII	GATC	2 cut(s)	618, 753
Eam1104I	CTCTTC	2 cut(s)	210, 621
EarI	CTCTTC	2 cut(s)	210, 621
Eco130I	CCWWGG	1 cut(s)	749
Eco147I	AGGCCT	1 cut(s)	475
Eco24I	GRGCYC	1 cut(s)	884
Eco47I	GGWCC	2 cut(s)	690, 1074
Eco47III	AGCGCT	1 cut(s)	1008
Eco88I	CYCGRG	1 cut(s)	982
EcoO109I	RGGNCCY	1 cut(s)	690
EcoRII	CCWGG	4 cut(s)	222, 307, 428, 891
EcoT14I	CCWWGG	1 cut(s)	749
EcoT22I	ATGCAT	3 cut(s)	346, 350, 930
EcoT38I	GRGCYC	1 cut(s)	884
ErhI	CCWWGG	1 cut(s)	749
FaeI	CATG	4 cut(s)	348, 514, 768, 1055
FaqI	GGGAC	1 cut(s)	312
FatI	CATG	4 cut(s)	344, 510, 764, 1051
FauI	CCCGC	1 cut(s)	1120
FauNDI	CATATG	1 cut(s)	866
FblI	GTMKAC	1 cut(s)	912
FokI	GGATG	4 cut(s)	71, 371, 814, 922
FriOI	GRGCYC	1 cut(s)	884
FspAI	RTGCGCAY	1 cut(s)	288
FspBI	CTAG	2 cut(s)	293, 750
FspI	TGCGCA	1 cut(s)	288
GlaI	GCGC	7 cut(s)	288, 461, 1008, 1107, 1138, 1146, 1169
GsaI	CCCAGC	1 cut(s)	887
GsuI	CTGGAG	1 cut(s)	408
HaeII	RGCGCY	2 cut(s)	1010, 1148
HaeIII	GGCC	3 cut(s)	312, 475, 882
HhaI	GCGC	7 cut(s)	289, 462, 1009, 1108, 1139, 1147, 1170
Hin1II	CATG	4 cut(s)	348, 514, 768, 1055
Hin6I	GCGC	7 cut(s)	287, 460, 1007, 1106, 1137, 1145, 1168
HinP1I	GCGC	7 cut(s)	287, 460, 1007, 1106, 1137, 1145, 1168
HincII	GTYRAC	2 cut(s)	184, 913
HindII	GTYRAC	2 cut(s)	184, 913
HinfI	GANTC	4 cut(s)	158, 851, 987, 1125
HphI	GGTGA	2 cut(s)	811, 911
Hpy166II	GTNNAC	5 cut(s)	184, 202, 485, 913, 1074
Hpy188I	TCNGA	5 cut(s)	39, 400, 660, 856, 992
Hpy188III	TCNNGA	3 cut(s)	293, 387, 743
Hpy8I	GTNNAC	5 cut(s)	184, 202, 485, 913, 1074
Hpy99I	CGWCG	1 cut(s)	914
HpyAV	CCTTC	1 cut(s)	239
HpyCH4III	ACNGT	6 cut(s)	79, 181, 466, 760, 819, 917
HpyCH4IV	ACGT	4 cut(s)	108, 186, 713, 932
HpyF10VI	GCNNNNNNNGC	5 cut(s)	1004, 1013, 1091, 1100, 1112
HpyF3I	CTNAG	3 cut(s)	38, 584, 873
HpySE526I	ACGT	4 cut(s)	108, 186, 713, 932
Hsp92II	CATG	4 cut(s)	348, 514, 768, 1055
HspAI	GCGC	7 cut(s)	287, 460, 1007, 1106, 1137, 1145, 1168
Kzo9I	GATC	2 cut(s)	618, 753
LmnI	GCTCC	2 cut(s)	389, 538
Lsp1109I	GCAGC	7 cut(s)	74, 899, 917, 1057, 1067, 1126, 1154
LweI	GCATC	3 cut(s)	294, 298, 836
MaeI	CTAG	2 cut(s)	293, 750
MaeII	ACGT	4 cut(s)	108, 186, 713, 932
MaeIII	GTNAC	1 cut(s)	917
MalI	GATC	2 cut(s)	620, 755
MboI	GATC	2 cut(s)	618, 753
MboII	GAAGA	2 cut(s)	227, 638
MhlI	GDGCHC	2 cut(s)	530, 884
MluCI	AATT	9 cut(s)	69, 92, 117, 278, 451, 588, 654, 671, 805
MlyI	GAGTC	1 cut(s)	1119
MmeI	TCCRAC	3 cut(s)	114, 243, 862
MnlI	CCTC	8 cut(s)	33, 158, 289, 427, 588, 630, 681, 976
Mph1103I	ATGCAT	3 cut(s)	346, 350, 930
MroXI	GAANNNNTTC	1 cut(s)	654
MseI	TTAA	5 cut(s)	95, 153, 500, 594, 1174
MslI	CAYNNNNRTG	2 cut(s)	716, 1069
MspA1I	CMGCKG	1 cut(s)	1085
MspR9I	CCNGG	4 cut(s)	224, 309, 430, 893
Mva1269I	GAATGC	3 cut(s)	289, 729, 930
MvaI	CCWGG	4 cut(s)	224, 309, 430, 893
MvnI	CGCG	3 cut(s)	1106, 1137, 1168
MwoI	GCNNNNNNNGC	5 cut(s)	1004, 1013, 1091, 1100, 1112
NdeI	CATATG	1 cut(s)	866
NdeII	GATC	2 cut(s)	618, 753
NlaIII	CATG	4 cut(s)	348, 514, 768, 1055
NlaIV	GGNNCC	3 cut(s)	692, 882, 897
NmuCI	GTSAC	1 cut(s)	917
NsbI	TGCGCA	1 cut(s)	288
NsiI	ATGCAT	3 cut(s)	346, 350, 930
NspI	RCATGY	2 cut(s)	348, 1055
OliI	CACNNNNGTG	2 cut(s)	716, 1069
PaeI	GCATGC	1 cut(s)	348
PceI	AGGCCT	1 cut(s)	475
PctI	GAATGC	3 cut(s)	289, 729, 930
PdmI	GAANNNNTTC	1 cut(s)	654
PfeI	GAWTC	3 cut(s)	158, 851, 987
PflMI	CCANNNNNTGG	1 cut(s)	867
PleI	GAGTC	1 cut(s)	1119
PpsI	GAGTC	1 cut(s)	1119
PpuMI	RGGWCCY	1 cut(s)	690
Psp5II	RGGWCCY	1 cut(s)	690
Psp6I	CCWGG	4 cut(s)	222, 307, 428, 891
PspFI	CCCAGC	1 cut(s)	883
PspGI	CCWGG	4 cut(s)	222, 307, 428, 891
PspN4I	GGNNCC	3 cut(s)	692, 882, 897
PspOMI	GGGCCC	1 cut(s)	880
PspPI	GGNCC	4 cut(s)	690, 880, 881, 1074
PspPPI	RGGWCCY	1 cut(s)	690
PsrI	GAACNNNNNNTAC	2 cut(s)	692, 724
PstI	CTGCAG	2 cut(s)	1047, 1144
RsaI	GTAC	3 cut(s)	334, 486, 494
RsaNI	GTAC	3 cut(s)	333, 485, 493
RseI	CAYNNNNRTG	2 cut(s)	716, 1069
SalI	GTCGAC	1 cut(s)	911
SaqAI	TTAA	5 cut(s)	95, 153, 500, 594, 1174
Sau3AI	GATC	2 cut(s)	618, 753
Sau96I	GGNCC	4 cut(s)	690, 880, 881, 1074
SchI	GAGTC	1 cut(s)	1119
ScrFI	CCNGG	4 cut(s)	224, 309, 430, 893
SduI	GDGCHC	2 cut(s)	530, 884
SfaNI	GCATC	3 cut(s)	294, 298, 836
SfcI	CTRYAG	4 cut(s)	789, 945, 1043, 1140
SinI	GGWCC	2 cut(s)	690, 1074
SmiMI	CAYNNNNRTG	2 cut(s)	716, 1069
SphI	GCATGC	1 cut(s)	348
Sse9I	AATT	9 cut(s)	69, 92, 117, 278, 451, 588, 654, 671, 805
SseBI	AGGCCT	1 cut(s)	475
SsiI	CCGC	7 cut(s)	974, 1085, 1101, 1104, 1113, 1135, 1148
SspI	AATATT	1 cut(s)	366
SspMI	CTAG	2 cut(s)	293, 750
StuI	AGGCCT	1 cut(s)	475
StyD4I	CCNGG	4 cut(s)	222, 307, 428, 891
StyI	CCWWGG	1 cut(s)	749
TaaI	ACNGT	6 cut(s)	79, 181, 466, 760, 819, 917
TaiI	ACGT	4 cut(s)	111, 189, 716, 935
TaqI	TCGA	3 cut(s)	24, 213, 912
TasI	AATT	9 cut(s)	69, 92, 117, 278, 451, 588, 654, 671, 805
TatI	WGTACW	2 cut(s)	484, 492
TauI	GCSGC	4 cut(s)	1088, 1103, 1106, 1150
TfiI	GAWTC	3 cut(s)	158, 851, 987
Tru1I	TTAA	5 cut(s)	95, 153, 500, 594, 1174
Tru9I	TTAA	5 cut(s)	95, 153, 500, 594, 1174
TscAI	CASTG	5 cut(s)	469, 588, 723, 763, 822
TseFI	GTSAC	1 cut(s)	917
TseI	GCWGC	7 cut(s)	87, 887, 905, 1045, 1055, 1139, 1142
Tsp45I	GTSAC	1 cut(s)	917
TspDTI	ATGAA	3 cut(s)	81, 375, 795
TspGWI	ACGGA	3 cut(s)	71, 320, 551
TspRI	CASTG	5 cut(s)	469, 588, 723, 763, 822
Van91I	CCANNNNNTGG	1 cut(s)	867
VpaK11BI	GGWCC	2 cut(s)	690, 1074
XapI	RAATTY	2 cut(s)	588, 805
XbaI	TCTAGA	1 cut(s)	292
XceI	RCATGY	2 cut(s)	348, 1055
XmaJI	CCTAGG	1 cut(s)	749
XmiI	GTMKAC	1 cut(s)	912
XmnI	GAANNNNTTC	1 cut(s)	654
XspI	CTAG	2 cut(s)	293, 750
Zsp2I	ATGCAT	3 cut(s)	346, 350, 930

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