Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1C

Orthogroup ID

OG0006852

Physical Location & Seq

Genomic Coordinates Forward (+)

62120287 .. 62125041

Gene Structure 4755 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1CG343700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1398 bp

ATGGAGCTTTCGGTGAAAATTGAAGATGTAGAGTTGACTTCAGATGATGAGGATGATTATGCATCCGCAGATGAAGATGAGTGTAAAATTAAAGTCAAAAGGACAAAGATTACTGATAATTATGCGATATGGGCCACTTTATCTCATAAGGGTCCTATTTTTCCAACTCCATACAAGCCTCATGGGATAAAAGTAAAATATAATGGAGTAGAAGTAGACTTAAATCCTGAACAAGAGGAGCTTGCAACAATGTACGCAGAGTATAGACAAACTCATTTCGGTCATCGTGAGAAGACATTTCAAGAAAATTTTTGGAAAGAATGGCAAGAAATGCTTGGAGGAGAGCATGTAATCAAGGACCTAAGCAGTTGTGACTTTGGAGATATAGAGACATGGCTTGATGATGAGAAGAAGAGGAAAAAAGACATGAAGGACAAAGAGAAGTTGCAAGAAGCGGATGAAGAAATAGAAAATAAATGGGCATATGTGGATGGCAAAAAGATGGAGGTGTCATGCTATCAAATTGAACCACCTGGATTATTTATAGGCCGTGGCAAGCACCCAAAGAATGGAATGTTAAAAAGACGGATCAACCCAAGTGATGTTGTCATCAACATTGGAGATACAAGTCAGACTCCATGTTGTCCAATTCCTGGATGTTGGAAGAAAGTTGTACGCGATCCTCATGTTAAATGGCTCGCTTATTGGAAAGATTCAATTTCCGGGAGAAGAAAGTTCATGAACTTGAAATATTGCAGCAGTAAGTCTGACATTTCAAAATTTAACACCGCGAGGGAATTAAAGATTAATCAAGCAGAGATCAAGCGACAGTATACAGTGGATTTCACCAGTCTAAATCTTGTGGATAAACAATGTGCAATTGTTACTTATCTTATTGATACATTAGCTTTAAGACCTGGACATGTTAAGGACGAAGAAATTACTGCACCTACTGTTGGATGTTGCACGTTAATGGTGAAAAATGTAATTTTACATGAACCCTCATGTTTGGAGTTTCGCTTTACTGGGAAAGCATCAGTCGACTACGAGAATCAGGTTGAAGTTGAAAACCTTGTGTTTAATTGCATTAAAGAATTCCAGCTTGGAAAATCTCCTGAAGACAATTTGTTTGACAAGTTGGATGCTAAAAAATTGAATGGATATTTACAAAACTTGGGAAAACCTTTTGGCCTCCATTTTACAGCAAAGACATTCCGCACATTTCGAGCATCTGAAATGATGGATGATTTGTTGAACAAGGAAGACTTGATGGAGAAAACAGAAGAAGATAAGCTTGCTGTTTATTGGGATGCAAACAAAGAAGTTGCTATTTTTCTAAATCGTCAGAGAGATGTGGCATGTTTTGATTCGAAACAAGCTTATGAGTTTACCAATTAG

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

465

Amino Acids

53.93

Weight (kDa)

5.52

Isoelectric Point (pI)

37.6

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Topoisom_I_N	PF02919	44 - 248	8.1e-68	Eukaryotic DNA topoisomerase I, DNA binding fragment
Topoisom_I	PF01028	254 - 457	3.7e-57	Eukaryotic DNA topoisomerase I, catalytic core

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: OG0006852)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G26701
rosa_chinensis	RchiOBHm_Chr1g0370531 RchiOBHm_Chr4g0420291 RchiOBHm_Chr4g0421651 RchiOBHm_Chr4g0421661
rosa_laevigata	RLG00000007661 RLG00000027031
rosa_multiflora	Rmu_sc0022275.1_g000007 Rmu_sc0026595.1_g000002
rosa_roxburghii	Rroxscaffold_5G00362880 Rroxscaffold_5G00362920
rosa_rugosa	Rorug01G0357400 Rorug04G0161800 Rorug04G0174200
rosa_samantha	Rh1AG366300 Rh1BG328900 Rh1BG329600 Rh1BG329800 Rh1CG342300 Rh1CG342400 Rh1CG343500 Rh1CG343700 Rh4BG236700 Rh4BG236800 Rh4CG248500 Rh4CG248600

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB7I	CCANNNNNTGG	2 cut(s)	569, 653
AccI	GTMKAC	3 cut(s)	216, 833, 1041
AccII	CGCG	2 cut(s)	678, 791
AciI	CCGC	4 cut(s)	66, 455, 789, 1216
AclWI	GGATC	2 cut(s)	596, 674
AcsI	RAATTY	3 cut(s)	307, 779, 1094
AcuI	CTGAAG	2 cut(s)	24, 1137
AfaI	GTAC	2 cut(s)	254, 675
AfiI	CCNNNNNNNGG	3 cut(s)	569, 653, 956
AflIII	ACRYGT	1 cut(s)	922
AjnI	CCWGG	3 cut(s)	532, 652, 916
AjuI	GAANNNNNNNTTGG	2 cut(s)	1086, 1118
AluBI	AGCT	6 cut(s)	7, 241, 908, 1102, 1294, 1379
AluI	AGCT	6 cut(s)	7, 241, 908, 1102, 1294, 1379
Alw26I	GTCTC	1 cut(s)	383
AlwI	GGATC	2 cut(s)	596, 674
AoxI	GGCC	3 cut(s)	132, 547, 1189
ApeKI	GCWGC	1 cut(s)	756
ApoI	RAATTY	3 cut(s)	307, 779, 1094
ArsI	GACNNNNNNTTYG	2 cut(s)	1112, 1144
AseI	ATTAAT	1 cut(s)	807
AspS9I	GGNCC	3 cut(s)	132, 152, 358
AsuC2I	CCSGG	1 cut(s)	724
AsuHPI	GGTGA	3 cut(s)	25, 838, 988
AsuII	TTCGAA	1 cut(s)	1370
AvaII	GGWCC	2 cut(s)	152, 358
BbsI	GAAGAC	3 cut(s)	299, 1125, 1269
BbvI	GCAGC	1 cut(s)	768
BccI	CCATC	4 cut(s)	485, 496, 1234, 1264
BceAI	ACGGC	1 cut(s)	534
BciT130I	CCWGG	3 cut(s)	534, 654, 918
BcnI	CCSGG	1 cut(s)	724
BcoDI	GTCTC	1 cut(s)	383
BisI	GCNGC	1 cut(s)	757
BlsI	GCNGC	1 cut(s)	758
Bme1390I	CCNGG	4 cut(s)	534, 654, 724, 918
Bme18I	GGWCC	2 cut(s)	152, 358
BmgT120I	GGNCC	3 cut(s)	132, 152, 358
BmiI	GGNNCC	1 cut(s)	153
BmrFI	CCNGG	4 cut(s)	534, 654, 724, 918
BmrI	ACTGGG	1 cut(s)	1035
BmsI	GCATC	5 cut(s)	71, 1043, 1132, 1238, 1300
BmuI	ACTGGG	1 cut(s)	1035
BpiI	GAAGAC	3 cut(s)	299, 1125, 1269
Bpu10I	CCTNAGC	1 cut(s)	362
Bpu14I	TTCGAA	1 cut(s)	1370
BpuMI	CCSGG	1 cut(s)	724
BsaJI	CCNNGG	1 cut(s)	550
BsaXI	ACNNNNNCTCC	4 cut(s)	198, 228, 333, 363
Bsc4I	CCNNNNNNNGG	3 cut(s)	569, 653, 956
Bse1I	ACTGG	2 cut(s)	849, 1030
BseBI	CCWGG	3 cut(s)	534, 654, 918
BseDI	CCNNGG	1 cut(s)	550
BseGI	GGATG	9 cut(s)	58, 62, 463, 496, 662, 965, 1147, 1249, 1315
BseLI	CCNNNNNNNGG	3 cut(s)	569, 653, 956
BseNI	ACTGG	2 cut(s)	849, 1030
BseRI	GAGGAG	2 cut(s)	251, 354
BseXI	GCAGC	1 cut(s)	768
BsgI	GTGCAG	1 cut(s)	930
Bsh1236I	CGCG	2 cut(s)	678, 791
BshFI	GGCC	3 cut(s)	134, 549, 1191
BsiSI	CCGG	1 cut(s)	723
BslI	CCNNNNNNNGG	3 cut(s)	569, 653, 956
BsmAI	GTCTC	1 cut(s)	383
BsnI	GGCC	3 cut(s)	134, 549, 1191
Bsp119I	TTCGAA	1 cut(s)	1370
Bsp143I	GATC	3 cut(s)	588, 679, 819
BspACI	CCGC	4 cut(s)	66, 455, 789, 1216
BspANI	GGCC	3 cut(s)	134, 549, 1191
BspFNI	CGCG	2 cut(s)	678, 791
BspHI	TCATGA	1 cut(s)	738
BspLI	GGNNCC	1 cut(s)	153
BspPI	GGATC	2 cut(s)	596, 674
BspT104I	TTCGAA	1 cut(s)	1370
BsrI	ACTGG	2 cut(s)	849, 1030
BssECI	CCNNGG	1 cut(s)	550
BssMI	GATC	3 cut(s)	588, 679, 819
BssNAI	GTATAC	1 cut(s)	834
Bst1107I	GTATAC	1 cut(s)	834
Bst2UI	CCWGG	3 cut(s)	534, 654, 918
Bst4CI	ACNGT	3 cut(s)	831, 838, 955
Bst6I	CTCTTC	1 cut(s)	407
BstAPI	GCANNNNNTGC	1 cut(s)	331
BstBI	TTCGAA	1 cut(s)	1370
BstC8I	GCNNGC	4 cut(s)	243, 557, 699, 1296
BstDEI	CTNAG	1 cut(s)	362
BstDSI	CCRYGG	1 cut(s)	550
BstF5I	GGATG	9 cut(s)	58, 62, 463, 496, 662, 965, 1147, 1249, 1315
BstFNI	CGCG	2 cut(s)	678, 791
BstKTI	GATC	3 cut(s)	591, 682, 822
BstMAI	GTCTC	1 cut(s)	383
BstMBI	GATC	3 cut(s)	588, 679, 819
BstMWI	GCNNNNNNNGC	2 cut(s)	131, 331
BstNI	CCWGG	3 cut(s)	534, 654, 918
BstNSI	RCATGY	3 cut(s)	350, 926, 1362
BstSCI	CCNGG	4 cut(s)	532, 652, 722, 916
BstUI	CGCG	2 cut(s)	678, 791
BstV1I	GCAGC	1 cut(s)	768
BstV2I	GAAGAC	3 cut(s)	299, 1125, 1269
BstZ17I	GTATAC	1 cut(s)	834
BsuRI	GGCC	3 cut(s)	134, 549, 1191
BtgI	CCRYGG	1 cut(s)	550
BtsCI	GGATG	9 cut(s)	58, 62, 463, 496, 662, 965, 1147, 1249, 1315
BtsIMutI	CAGTG	1 cut(s)	843
Cac8I	GCNNGC	4 cut(s)	243, 557, 699, 1296
CciI	TCATGA	1 cut(s)	738
Cfr13I	GGNCC	3 cut(s)	132, 152, 358
Csp6I	GTAC	2 cut(s)	253, 674
CviQI	GTAC	2 cut(s)	253, 674
DdeI	CTNAG	1 cut(s)	362
DpnI	GATC	3 cut(s)	590, 681, 821
DpnII	GATC	3 cut(s)	588, 679, 819
Eam1104I	CTCTTC	1 cut(s)	407
EarI	CTCTTC	1 cut(s)	407
Eco47I	GGWCC	2 cut(s)	152, 358
Eco57I	CTGAAG	2 cut(s)	24, 1137
EcoO109I	RGGNCCY	2 cut(s)	152, 358
EcoRI	GAATTC	1 cut(s)	1094
EcoRII	CCWGG	3 cut(s)	532, 652, 916
EcoT22I	ATGCAT	1 cut(s)	64
FalI	AAGNNNNNCTT	8 cut(s)	225, 257, 318, 350, 1250, 1282, 1278, 1310
FauNDI	CATATG	1 cut(s)	484
FblI	GTMKAC	3 cut(s)	216, 833, 1041
Fnu4HI	GCNGC	1 cut(s)	757
FokI	GGATG	9 cut(s)	49, 65, 470, 503, 669, 972, 1154, 1256, 1322
Fsp4HI	GCNGC	1 cut(s)	757
GluI	GCNGC	1 cut(s)	757
HaeIII	GGCC	3 cut(s)	134, 549, 1191
HapII	CCGG	1 cut(s)	723
HincII	GTYRAC	2 cut(s)	36, 1042
HindII	GTYRAC	2 cut(s)	36, 1042
HindIII	AAGCTT	2 cut(s)	1292, 1377
HinfI	GANTC	4 cut(s)	634, 713, 1051, 1367
HpaII	CCGG	1 cut(s)	723
HphI	GGTGA	3 cut(s)	25, 838, 988
Hpy166II	GTNNAC	5 cut(s)	36, 217, 834, 1042, 1389
Hpy188I	TCNGA	5 cut(s)	43, 633, 769, 1234, 1347
Hpy188III	TCNNGA	5 cut(s)	227, 287, 302, 739, 1115
Hpy8I	GTNNAC	5 cut(s)	36, 217, 834, 1042, 1389
HpyAV	CCTTC	1 cut(s)	424
HpyCH4III	ACNGT	3 cut(s)	831, 838, 955
HpyCH4IV	ACGT	1 cut(s)	968
HpyCH4V	TGCA	9 cut(s)	62, 245, 448, 756, 878, 947, 966, 1086, 1313
HpyF10VI	GCNNNNNNNGC	2 cut(s)	131, 331
HpyF3I	CTNAG	1 cut(s)	362
HpySE526I	ACGT	1 cut(s)	968
Kzo9I	GATC	3 cut(s)	588, 679, 819
LmnI	GCTCC	2 cut(s)	4, 238
Lsp1109I	GCAGC	1 cut(s)	768
LweI	GCATC	5 cut(s)	71, 1043, 1132, 1238, 1300
MaeII	ACGT	1 cut(s)	968
MaeIII	GTNAC	2 cut(s)	371, 883
MalI	GATC	3 cut(s)	590, 681, 821
MboI	GATC	3 cut(s)	588, 679, 819
MfeI	CAATTG	1 cut(s)	879
MlyI	GAGTC	1 cut(s)	628
MmeI	TCCRAC	4 cut(s)	188, 641, 937, 1119
Mph1103I	ATGCAT	1 cut(s)	64
MslI	CAYNNNNRTG	1 cut(s)	971
MspI	CCGG	1 cut(s)	723
MspR9I	CCNGG	4 cut(s)	534, 654, 724, 918
MunI	CAATTG	1 cut(s)	879
MvaI	CCWGG	3 cut(s)	534, 654, 918
MvnI	CGCG	2 cut(s)	678, 791
MwoI	GCNNNNNNNGC	2 cut(s)	131, 331
NciI	CCSGG	1 cut(s)	724
NdeI	CATATG	1 cut(s)	484
NdeII	GATC	3 cut(s)	588, 679, 819
NlaIV	GGNNCC	1 cut(s)	153
NmuCI	GTSAC	1 cut(s)	371
NsiI	ATGCAT	1 cut(s)	64
NspI	RCATGY	3 cut(s)	350, 926, 1362
NspV	TTCGAA	1 cut(s)	1370
PagI	TCATGA	1 cut(s)	738
PciI	ACATGT	1 cut(s)	922
PfeI	GAWTC	3 cut(s)	713, 1051, 1367
PflMI	CCANNNNNTGG	2 cut(s)	569, 653
PfoI	TCCNGGA	2 cut(s)	652, 722
PkrI	GCNGC	1 cut(s)	758
PleI	GAGTC	1 cut(s)	628
PpsI	GAGTC	1 cut(s)	628
PpuMI	RGGWCCY	2 cut(s)	152, 358
PscI	ACATGT	1 cut(s)	922
PshBI	ATTAAT	1 cut(s)	807
Psp5II	RGGWCCY	2 cut(s)	152, 358
Psp6I	CCWGG	3 cut(s)	532, 652, 916
PspGI	CCWGG	3 cut(s)	532, 652, 916
PspN4I	GGNNCC	1 cut(s)	153
PspPI	GGNCC	3 cut(s)	132, 152, 358
PspPPI	RGGWCCY	2 cut(s)	152, 358
RsaI	GTAC	2 cut(s)	254, 675
RsaNI	GTAC	2 cut(s)	253, 674
RseI	CAYNNNNRTG	1 cut(s)	971
SalI	GTCGAC	1 cut(s)	1040
SatI	GCNGC	1 cut(s)	757
Sau3AI	GATC	3 cut(s)	588, 679, 819
Sau96I	GGNCC	3 cut(s)	132, 152, 358
SchI	GAGTC	1 cut(s)	628
ScrFI	CCNGG	4 cut(s)	534, 654, 724, 918
SfaNI	GCATC	5 cut(s)	71, 1043, 1132, 1238, 1300
SfuI	TTCGAA	1 cut(s)	1370
SinI	GGWCC	2 cut(s)	152, 358
SmiMI	CAYNNNNRTG	1 cut(s)	971
SsiI	CCGC	4 cut(s)	66, 455, 789, 1216
SspI	AATATT	1 cut(s)	752
StyD4I	CCNGG	4 cut(s)	532, 652, 722, 916
TaaI	ACNGT	3 cut(s)	831, 838, 955
TaiI	ACGT	1 cut(s)	971
TaqI	TCGA	3 cut(s)	1041, 1225, 1370
TaqII	GACCGA	1 cut(s)	269
TfiI	GAWTC	3 cut(s)	713, 1051, 1367
TscAI	CASTG	1 cut(s)	843
TseFI	GTSAC	1 cut(s)	371
TseI	GCWGC	1 cut(s)	756
Tsp45I	GTSAC	1 cut(s)	371
TspDTI	ATGAA	6 cut(s)	87, 443, 474, 727, 755, 1011
TspGWI	ACGGA	1 cut(s)	601
TspRI	CASTG	1 cut(s)	843
Van91I	CCANNNNNTGG	2 cut(s)	569, 653
VpaK11BI	GGWCC	2 cut(s)	152, 358
VspI	ATTAAT	1 cut(s)	807
XapI	RAATTY	3 cut(s)	307, 779, 1094
XceI	RCATGY	3 cut(s)	350, 926, 1362
XmiI	GTMKAC	3 cut(s)	216, 833, 1041
Zsp2I	ATGCAT	1 cut(s)	64

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