Basic Information

Type: gene

Biological Identity

Species

rosa_wichuraiana

Chromosome

Contig00372

Orthogroup ID

OG0009922

Physical Location & Seq

Genomic Coordinates Reverse (-)

21668 .. 25138

Gene Structure 3471 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rw0G009550.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1107 bp

ATGGAGGGAAAGCGGTCAAGAGGGAGGTCACAGCCCCGTCCCCGCCATTTGCTAACAAAAATCAAAGAATTTACTCGGGCTCTTGTGAAAGATCTCAGCGATGGACGGTCACCGGAGATTCTCATCCATCGCTTCCGAAATTACTGCTCCAATTCTCAAGTTTTCACAGCAACCTCCTATTGTGGCTCTGATTTGCCGAAAGGGAAGGAGACGCTCACACTTCGTAAAGAAACCCATGTTCATAGATTAGATGTTCTGCTTAGGGTTCTTGTAATTGTTCAGCAACTTCTGCAAGAAAACAGACATGGGTCTAAGAGAGATATCTATTACATGCACCCTTCTATATTTTCAGATCAGTCAGTTGTAGACCGTGCAATCAATGACATATGCATCCTTCTGCAGTGTAGTCGCCACAATTTGAATGTGGTGTCTGTAGGAAAGGGGTTGGTAATGGGCTGGTTAAGGTTCGCAGAGGCTGGAAACATGTTTGATTGCATAAATAGACCAAACACTGCTTACCCTGTTCCAGTTCATGTTGAAGAGGTCAAAGATATTGTTAGTGTTGCCCAGTACATACTTGTTGTGGAGAAAGAATCAGTTTTTCAACGATTGGCAAATGACCAGTTTTGTAACACAAACCACTGCATTGTCATCACTGGACGTGGATATCCTGATATTTCCACAAGAAGGTTTTTGGGGCTCCTTGTTGATACTTTACATATCCCTGTCTATTGCTTGGTAGATTGTGATCCCTACGGTTTTGACATCTTGTCCACATATCGGTTTGGTTCTCTGCAAATGGCGTATGATGCAAAATTTCTACGGGTCCCCGAGATAATCTGGCTTGGAGCCTTCCCTTTGGACTCGGAGAAGTACCATCTTCCACACCAGTGTCTCCTTCCTTTGACTGCAGAAGACAAGAGGAAAACTGAAGCCATGTTACAGAGATGCTACTTAGAAAGAGAAGTGCCACAGTGGAGATTGGAGCTACAGTTGATGCTGGAAAGAGGCGTGAAATTTGAGCTAGAAGCATTGTCTGTGCATGAACTTTCCTTTTTGTCGACCGAGTACATACCATCAAAAATTCAAGGTGGATTGCTCATCTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0000228 GO:0000280 GO:0000706 GO:0000724 GO:0000725 GO:0000729 GO:0003674 GO:0003676 GO:0003677 GO:0003824 GO:0003916 GO:0003918 GO:0004518 GO:0004519 GO:0004520 GO:0004536 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005694 GO:0006139 GO:0006259 GO:0006281 GO:0006302 GO:0006310 GO:0006725 GO:0006807 GO:0006950 GO:0006974 GO:0006996 GO:0007049 GO:0007059 GO:0007127 GO:0007129 GO:0007131 GO:0008094 GO:0008150 GO:0008152 GO:0009987 GO:0016043 GO:0016462 GO:0016787 GO:0016788 GO:0016817 GO:0016818 GO:0016853 GO:0016887 GO:0016889 GO:0016894 GO:0017111 GO:0022402 GO:0022414 GO:0022607 GO:0031974 GO:0031981 GO:0033554 GO:0034641 GO:0035825 GO:0042138 GO:0042623 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0044085 GO:0044237 GO:0044238 GO:0044260 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0045132 GO:0045143 GO:0046483 GO:0048285 GO:0050896 GO:0051026 GO:0051276 GO:0051321 GO:0051716 GO:0061505 GO:0061982 GO:0070013 GO:0070192 GO:0071704 GO:0071840 GO:0090304 GO:0090305 GO:0097159 GO:0098813 GO:0140013 GO:0140097 GO:1901360 GO:1901363 GO:1903046

KEGG Pathways

Metabolic & Signaling

ko04113 map04113

Pfam Domains

Protein Families

TP6A_N

Protein Analysis

368

Amino Acids

42.41

Weight (kDa)

8.42

Isoelectric Point (pI)

48.43

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
TP6A_N	PF04406	82 - 142	2.9e-21	Type IIB DNA topoisomerase
TOP6A-Spo11_Toprim	PF21180	191 - 362	8.7e-65	Topoisomerase 6 subunit A/Spo11, Toprim domain

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: OG0009922)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G13170 AT3G13170 AT3G13170
fragaria_vesca	FvH4_3g29420
malus_domestica	MD03G1184400.v1.1 MD03G1184700.v1.1
prunus_persica	Prupe.4G241800_v2.0.a1 Prupe.4G241800_v2.0.a1
pyrus_communis	pycom03g13780
rosa_chinensis	RchiOBHm_Chr5g0053841
rosa_laevigata	RLG00000034906
rosa_multiflora	Rmu_sc0007356.1_g000010
rosa_roxburghii	Rroxscaffold_1G00026760
rosa_rugosa	Rorug05G0283600 Rorug05G0283700
rosa_samantha	Rh5AG353400 Rh5BG365000 Rh5CG390100 Rh5DG380000
rosa_wichuraiana	Rw0G002140 Rw0G009550

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccI	GTMKAC	2 cut(s)	366, 1061
AciI	CCGC	2 cut(s)	13, 43
AclWI	GGATC	1 cut(s)	743
AcsI	RAATTY	4 cut(s)	68, 815, 1016, 1083
AcuI	CTGAAG	1 cut(s)	951
AfaI	GTAC	3 cut(s)	572, 875, 1070
AfiI	CCNNNNNNNGG	2 cut(s)	687, 780
AflIII	ACRYGT	1 cut(s)	483
AgsI	TTSAA	4 cut(s)	421, 539, 605, 1088
AhdI	GACNNNNNGTC	1 cut(s)	769
AjiI	CACGTC	1 cut(s)	662
AleI	CACNNNNGTG	1 cut(s)	889
AluBI	AGCT	2 cut(s)	988, 1024
AluI	AGCT	2 cut(s)	988, 1024
Alw26I	GTCTC	2 cut(s)	203, 899
AlwI	GGATC	1 cut(s)	743
AlwNI	CAGNNNCTG	1 cut(s)	476
Ama87I	CYCGRG	2 cut(s)	75, 830
ApoI	RAATTY	4 cut(s)	68, 815, 1016, 1083
AspS9I	GGNCC	1 cut(s)	826
AsuHPI	GGTGA	1 cut(s)	102
AvaI	CYCGRG	2 cut(s)	75, 830
AvaII	GGWCC	1 cut(s)	826
BanII	GRGCYC	2 cut(s)	82, 702
BarI	GAAGNNNNNNTAC	2 cut(s)	924, 956
BbsI	GAAGAC	1 cut(s)	921
BccI	CCATC	4 cut(s)	95, 135, 885, 1084
BcgI	CGANNNNNNTGC	4 cut(s)	126, 160, 389, 423
BcoDI	GTCTC	2 cut(s)	203, 899
BfaI	CTAG	1 cut(s)	1025
BfmI	CTRYAG	4 cut(s)	398, 432, 909, 989
BglII	AGATCT	1 cut(s)	91
Bme18I	GGWCC	1 cut(s)	826
BmeRI	GACNNNNNGTC	1 cut(s)	769
BmeT110I	CYCGRG	2 cut(s)	75, 830
BmgBI	CACGTC	1 cut(s)	662
BmgT120I	GGNCC	1 cut(s)	826
BmiI	GGNNCC	4 cut(s)	701, 827, 828, 850
BmrI	ACTGGG	1 cut(s)	562
BmsI	GCATC	4 cut(s)	399, 799, 938, 987
BmuI	ACTGGG	1 cut(s)	562
BoxI	GACNNNNGTC	1 cut(s)	307
BpiI	GAAGAC	1 cut(s)	921
Bpu10I	CCTNAGC	1 cut(s)	260
BpuEI	CTTGAG	1 cut(s)	141
BsaBI	GATNNNNATC	2 cut(s)	122, 747
BsaWI	WCCGGW	1 cut(s)	112
BsaXI	ACNNNNNCTCC	2 cut(s)	977, 1007
Bsc4I	CCNNNNNNNGG	2 cut(s)	687, 780
Bse1I	ACTGG	5 cut(s)	527, 568, 622, 661, 889
Bse8I	GATNNNNATC	2 cut(s)	122, 747
BseGI	GGATG	2 cut(s)	123, 390
BseJI	GATNNNNATC	2 cut(s)	122, 747
BseLI	CCNNNNNNNGG	2 cut(s)	687, 780
BseMII	CTCAG	1 cut(s)	109
BseNI	ACTGG	5 cut(s)	527, 568, 622, 661, 889
Bsh1285I	CGRYCG	1 cut(s)	1065
BsiEI	CGRYCG	1 cut(s)	1065
BsiHKCI	CYCGRG	2 cut(s)	75, 830
BsiSI	CCGG	1 cut(s)	113
BslFI	GGGAC	2 cut(s)	24, 812
BslI	CCNNNNNNNGG	2 cut(s)	687, 780
BsmAI	GTCTC	2 cut(s)	203, 899
BsmBI	CGTCTC	1 cut(s)	203
BsmFI	GGGAC	2 cut(s)	24, 812
BsoBI	CYCGRG	2 cut(s)	75, 830
Bsp1286I	GDGCHC	2 cut(s)	82, 702
Bsp143I	GATC	3 cut(s)	91, 352, 748
BspACI	CCGC	2 cut(s)	13, 43
BspCNI	CTCAG	1 cut(s)	108
BspLI	GGNNCC	4 cut(s)	701, 827, 828, 850
BspMAI	CTGCAG	2 cut(s)	402, 913
BspPI	GGATC	1 cut(s)	743
BsrI	ACTGG	5 cut(s)	527, 568, 622, 661, 889
BssMI	GATC	3 cut(s)	91, 352, 748
Bst4CI	ACNGT	5 cut(s)	108, 371, 758, 975, 993
Bst6I	CTCTTC	1 cut(s)	534
BstAPI	GCANNNNNTGC	1 cut(s)	289
BstDEI	CTNAG	4 cut(s)	95, 260, 312, 955
BstEII	GGTNACC	1 cut(s)	108
BstF5I	GGATG	2 cut(s)	123, 390
BstKTI	GATC	3 cut(s)	94, 355, 751
BstMAI	GTCTC	2 cut(s)	203, 899
BstMBI	GATC	3 cut(s)	91, 352, 748
BstMCI	CGRYCG	1 cut(s)	1065
BstMWI	GCNNNNNNNGC	2 cut(s)	289, 809
BstNSI	RCATGY	2 cut(s)	334, 487
BstPAI	GACNNNNGTC	1 cut(s)	307
BstPI	GGTNACC	1 cut(s)	108
BstSFI	CTRYAG	4 cut(s)	398, 432, 909, 989
BstV2I	GAAGAC	1 cut(s)	921
BstX2I	RGATCY	1 cut(s)	91
BstYI	RGATCY	1 cut(s)	91
BtgZI	GCGATG	2 cut(s)	113, 114
BtrI	CACGTC	1 cut(s)	662
BtsCI	GGATG	2 cut(s)	123, 390
BtsI	GCAGTG	3 cut(s)	407, 510, 640
BtsIMutI	CAGTG	6 cut(s)	407, 510, 640, 654, 896, 980
CaiI	CAGNNNCTG	1 cut(s)	476
Cfr13I	GGNCC	1 cut(s)	826
CseI	GACGC	1 cut(s)	220
Csp6I	GTAC	3 cut(s)	571, 874, 1069
CviAII	CATG	7 cut(s)	236, 305, 331, 484, 533, 937, 1043
CviQI	GTAC	3 cut(s)	571, 874, 1069
DdeI	CTNAG	4 cut(s)	95, 260, 312, 955
DpnI	GATC	3 cut(s)	93, 354, 750
DpnII	GATC	3 cut(s)	91, 352, 748
DriI	GACNNNNNGTC	1 cut(s)	769
Eam1104I	CTCTTC	1 cut(s)	534
Eam1105I	GACNNNNNGTC	1 cut(s)	769
EarI	CTCTTC	1 cut(s)	534
Eco24I	GRGCYC	2 cut(s)	82, 702
Eco32I	GATATC	2 cut(s)	322, 668
Eco47I	GGWCC	1 cut(s)	826
Eco57I	CTGAAG	1 cut(s)	951
Eco88I	CYCGRG	2 cut(s)	75, 830
Eco91I	GGTNACC	1 cut(s)	108
EcoO109I	RGGNCCY	1 cut(s)	826
EcoO65I	GGTNACC	1 cut(s)	108
EcoRV	GATATC	2 cut(s)	322, 668
EcoT22I	ATGCAT	1 cut(s)	392
EcoT38I	GRGCYC	2 cut(s)	82, 702
Esp3I	CGTCTC	1 cut(s)	203
FaeI	CATG	7 cut(s)	239, 308, 334, 487, 536, 940, 1046
FaqI	GGGAC	2 cut(s)	24, 812
FatI	CATG	7 cut(s)	235, 304, 330, 483, 532, 936, 1042
FauI	CCCGC	1 cut(s)	50
FauNDI	CATATG	1 cut(s)	386
FblI	GTMKAC	2 cut(s)	366, 1061
FokI	GGATG	2 cut(s)	110, 377
FriOI	GRGCYC	2 cut(s)	82, 702
FspBI	CTAG	1 cut(s)	1025
HapII	CCGG	1 cut(s)	113
HgaI	GACGC	1 cut(s)	220
Hin1II	CATG	7 cut(s)	239, 308, 334, 487, 536, 940, 1046
HincII	GTYRAC	1 cut(s)	1062
HindII	GTYRAC	1 cut(s)	1062
HinfI	GANTC	3 cut(s)	118, 593, 863
HpaII	CCGG	1 cut(s)	113
HphI	GGTGA	1 cut(s)	102
Hpy166II	GTNNAC	3 cut(s)	367, 774, 1062
Hpy188I	TCNGA	4 cut(s)	137, 190, 352, 868
Hpy188III	TCNNGA	2 cut(s)	18, 671
Hpy8I	GTNNAC	3 cut(s)	367, 774, 1062
HpyAV	CCTTC	6 cut(s)	199, 348, 404, 681, 862, 908
HpyCH4III	ACNGT	5 cut(s)	108, 371, 758, 975, 993
HpyCH4IV	ACGT	1 cut(s)	661
HpyF10VI	GCNNNNNNNGC	2 cut(s)	289, 809
HpyF3I	CTNAG	4 cut(s)	95, 260, 312, 955
HpySE526I	ACGT	1 cut(s)	661
Hsp92II	CATG	7 cut(s)	239, 308, 334, 487, 536, 940, 1046
KflI	GGGWCCC	1 cut(s)	826
Kzo9I	GATC	3 cut(s)	91, 352, 748
LmnI	GCTCC	4 cut(s)	152, 705, 848, 985
LweI	GCATC	4 cut(s)	399, 799, 938, 987
MaeI	CTAG	1 cut(s)	1025
MaeII	ACGT	1 cut(s)	661
MaeIII	GTNAC	4 cut(s)	27, 108, 629, 939
MalI	GATC	3 cut(s)	93, 354, 750
MboI	GATC	3 cut(s)	91, 352, 748
MboII	GAAGA	3 cut(s)	551, 872, 926
MflI	RGATCY	1 cut(s)	91
MhlI	GDGCHC	2 cut(s)	82, 702
MluCI	AATT	8 cut(s)	68, 139, 151, 273, 415, 815, 1016, 1083
MlyI	GAGTC	1 cut(s)	857
MnlI	CCTC	7 cut(s)	14, 18, 184, 466, 535, 915, 1001
Mph1103I	ATGCAT	1 cut(s)	392
MseI	TTAA	1 cut(s)	461
MslI	CAYNNNNRTG	1 cut(s)	889
MspI	CCGG	1 cut(s)	113
MwoI	GCNNNNNNNGC	2 cut(s)	289, 809
NdeI	CATATG	1 cut(s)	386
NdeII	GATC	3 cut(s)	91, 352, 748
NlaIII	CATG	7 cut(s)	239, 308, 334, 487, 536, 940, 1046
NlaIV	GGNNCC	4 cut(s)	701, 827, 828, 850
NmuCI	GTSAC	2 cut(s)	27, 108
NsiI	ATGCAT	1 cut(s)	392
NspI	RCATGY	2 cut(s)	334, 487
OliI	CACNNNNGTG	1 cut(s)	889
PciI	ACATGT	1 cut(s)	483
PfeI	GAWTC	2 cut(s)	118, 593
PleI	GAGTC	1 cut(s)	857
PpsI	GAGTC	1 cut(s)	857
PpuMI	RGGWCCY	1 cut(s)	826
PscI	ACATGT	1 cut(s)	483
PshAI	GACNNNNGTC	1 cut(s)	307
Psp5II	RGGWCCY	1 cut(s)	826
PspEI	GGTNACC	1 cut(s)	108
PspN4I	GGNNCC	4 cut(s)	701, 827, 828, 850
PspPI	GGNCC	1 cut(s)	826
PspPPI	RGGWCCY	1 cut(s)	826
PstI	CTGCAG	2 cut(s)	402, 913
PstNI	CAGNNNCTG	1 cut(s)	476
PsuI	RGATCY	1 cut(s)	91
RsaI	GTAC	3 cut(s)	572, 875, 1070
RsaNI	GTAC	3 cut(s)	571, 874, 1069
RseI	CAYNNNNRTG	1 cut(s)	889
SalI	GTCGAC	1 cut(s)	1060
SaqAI	TTAA	1 cut(s)	461
Sau3AI	GATC	3 cut(s)	91, 352, 748
Sau96I	GGNCC	1 cut(s)	826
SchI	GAGTC	1 cut(s)	857
SduI	GDGCHC	2 cut(s)	82, 702
SetI	ASST	9 cut(s)	29, 176, 467, 546, 664, 692, 990, 1026, 1093
SfaNI	GCATC	4 cut(s)	399, 799, 938, 987
SfcI	CTRYAG	4 cut(s)	398, 432, 909, 989
SinI	GGWCC	1 cut(s)	826
SmiMI	CAYNNNNRTG	1 cut(s)	889
SmlI	CTYRAG	1 cut(s)	156
SmoI	CTYRAG	1 cut(s)	156
Sse9I	AATT	8 cut(s)	68, 139, 151, 273, 415, 815, 1016, 1083
SsiI	CCGC	2 cut(s)	13, 43
SspMI	CTAG	1 cut(s)	1025
TaaI	ACNGT	5 cut(s)	108, 371, 758, 975, 993
TaiI	ACGT	1 cut(s)	664
TaqI	TCGA	1 cut(s)	1061
TaqII	GACCGA	1 cut(s)	1079
TasI	AATT	8 cut(s)	68, 139, 151, 273, 415, 815, 1016, 1083
TatI	WGTACW	2 cut(s)	570, 1068
TfiI	GAWTC	2 cut(s)	118, 593
Tru1I	TTAA	1 cut(s)	461
Tru9I	TTAA	1 cut(s)	461
TscAI	CASTG	6 cut(s)	407, 517, 647, 661, 896, 980
TseFI	GTSAC	2 cut(s)	27, 108
Tsp45I	GTSAC	2 cut(s)	27, 108
TspDTI	ATGAA	3 cut(s)	230, 521, 1059
TspRI	CASTG	6 cut(s)	407, 517, 647, 661, 896, 980
VpaK11BI	GGWCC	1 cut(s)	826
XapI	RAATTY	4 cut(s)	68, 815, 1016, 1083
XceI	RCATGY	2 cut(s)	334, 487
XmiI	GTMKAC	2 cut(s)	366, 1061
XspI	CTAG	1 cut(s)	1025
Zsp2I	ATGCAT	1 cut(s)	392

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