Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5D

Orthogroup ID

OG0007476

Physical Location & Seq

Genomic Coordinates Forward (+)

69540358 .. 69541464

Gene Structure 1107 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5DG435800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 858 bp

ATGGCCAGCAGCAACAACCAGAGCTCCTCAAGCTCCCATGGTAAAACCCTTTACAAAATTCCTTGTTGGGTCACACCGGATAAGGAGTTTCACAATAGAACAATGGAGTTCCTTACGTGGTACCGGAAGTCTAACCGCACCTTGCCTTCCCCCTCCAATAAATGCATGAAGGTCAAAGATATGTCTCGCGAAGAAGTATTGGAGAAAATTAGGGAGGAGAAGAAACGTATTGAAGATGATTGTTCCTTTGAGTTGGTTGATCAATCGGCCTCCAACAAAATGTTCGATGGCGGAGATAGAGGCTTTGTCATAGGTCCTTTTACTTTCAATCTAGTCGGAAGATCGGTCGATTGTGAATTTGGTCCAGATAATAAGGTCAGGGTTGGACAAGTCGTTCCGCCTTGTATAAGTTCTGTTAGTGATATGAAGAACAATGGTGCAAAGTACGTGTTAGGAGTGGAAAGTGTTTCTGCTTATCAAAGATTGACGGGGGACAACTTTCATAATGATTATAAGTGTATAATCATGACCGGAAAGGGAATGTCTGATCTAGCACGTAGAGAATTCGCAAAGTATATAATGGACACGTTCGAGATTCCAATATTTCTCCTCTCAGATTCTGATTCATGGGGCATCGAAATTTATGCAGTCTTTAAATATGGCTCAGAAAGTATGGCATTTGATAGTGAAAATTTGGCTAACCCATTGGTACATTGGCTGGGTGTCTGGCCAACCGACTTAACCACACTTAAAACACCATCCGAGAAGTTGAGTTGCGATGACCTGAGAAAAGCAAGAAAATTGTTGAAGGAGTTTGTAACAAGTGATGAGATGCTGGTGAACCAGTGGACCACATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0000228 GO:0000280 GO:0000706 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:0005515 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:0007127 GO:0007131 GO:0008094 GO:0008134 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:0030957 GO:0031974 GO:0031981 GO:0033554 GO:0034641 GO:0035825 GO:0042138 GO:0042623 GO:0042802 GO:0042803 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0044237 GO:0044238 GO:0044260 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0046483 GO:0046983 GO:0048285 GO:0050896 GO:0051321 GO:0051716 GO:0061505 GO:0061982 GO:0070013 GO:0071704 GO:0071840 GO:0090304 GO:0090305 GO:0097159 GO:0140013 GO:0140097 GO:1901360 GO:1901363 GO:1903046

KEGG Pathways

Metabolic & Signaling

ko04113 map04113

Pfam Domains

Protein Families

TP6A_N

Protein Analysis

285

Amino Acids

32.45

Weight (kDa)

5.91

Isoelectric Point (pI)

43.58

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
TOP6A-Spo11_Toprim	PF21180	149 - 274	4.7e-37	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: OG0007476)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_1g02062 FvH4_7g23893
rosa_chinensis	RchiOBHm_Chr3g0447681 RchiOBHm_Chr5g0062071
rosa_laevigata	RLG00000015854 RLG00000025979 RLG00000035529
rosa_multiflora	Rmu_sc0002296.1_g000012 Rmu_sc0006064.1_g000010 Rmu_sc0017669.1_g000013
rosa_roxburghii	Rroxscaffold_2G00153710
rosa_rugosa	Rorug01G0475300 Rorug05G0345800
rosa_samantha	Rh2BG027000 Rh2BG028800 Rh3AG004200 Rh3BG003800 Rh3CG004200 Rh3DG004100 Rh5AG407400 Rh5BG420600 Rh5BG420700 Rh5CG444600 Rh5CG444800 Rh5DG435800

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	513
Acc65I	GGTACC	1 cut(s)	120
AccB1I	GGYRCC	1 cut(s)	120
AccII	CGCG	1 cut(s)	189
AciI	CCGC	3 cut(s)	136, 291, 398
AcoI	YGGCCR	2 cut(s)	3, 728
AcsI	RAATTY	5 cut(s)	57, 356, 563, 639, 691
AfaI	GTAC	3 cut(s)	122, 446, 711
AflIII	ACRYGT	2 cut(s)	447, 585
AgsI	TTSAA	3 cut(s)	233, 328, 808
AjuI	GAANNNNNNNTTGG	2 cut(s)	266, 298
AloI	GAACNNNNNNTCC	2 cut(s)	378, 410
AluBI	AGCT	2 cut(s)	24, 33
AluI	AGCT	2 cut(s)	24, 33
Alw21I	GWGCWC	1 cut(s)	26
Alw26I	GTCTC	1 cut(s)	189
AlwNI	CAGNNNCTG	1 cut(s)	620
AoxI	GGCC	3 cut(s)	3, 267, 728
ApeKI	GCWGC	1 cut(s)	9
ApoI	RAATTY	5 cut(s)	57, 356, 563, 639, 691
Asp718I	GGTACC	1 cut(s)	120
AspS9I	GGNCC	3 cut(s)	314, 362, 849
AsuHPI	GGTGA	1 cut(s)	850
AvaII	GGWCC	3 cut(s)	314, 362, 849
BalI	TGGCCA	2 cut(s)	5, 730
BanI	GGYRCC	1 cut(s)	120
BanII	GRGCYC	1 cut(s)	26
Bbv12I	GWGCWC	1 cut(s)	26
BbvI	GCAGC	1 cut(s)	21
BccI	CCATC	2 cut(s)	281, 766
BcgI	CGANNNNNNTGC	2 cut(s)	626, 660
BclI	TGATCA	1 cut(s)	259
BcoDI	GTCTC	1 cut(s)	189
BfaI	CTAG	2 cut(s)	332, 551
BisI	GCNGC	1 cut(s)	10
BlsI	GCNGC	1 cut(s)	11
Bme18I	GGWCC	3 cut(s)	314, 362, 849
BmgT120I	GGNCC	3 cut(s)	314, 362, 849
BmiI	GGNNCC	1 cut(s)	122
BmsI	GCATC	2 cut(s)	642, 822
BpuEI	CTTGAG	1 cut(s)	13
BsaAI	YACGTR	3 cut(s)	117, 448, 557
BsaJI	CCNNGG	1 cut(s)	37
BsaWI	WCCGGW	3 cut(s)	76, 123, 530
BsaXI	ACNNNNNCTCC	2 cut(s)	8, 38
Bse1I	ACTGG	1 cut(s)	844
BseDI	CCNNGG	1 cut(s)	37
BseGI	GGATG	1 cut(s)	758
BseMII	CTCAG	3 cut(s)	627, 678, 776
BseNI	ACTGG	1 cut(s)	844
BseRI	GAGGAG	3 cut(s)	16, 230, 599
BseXI	GCAGC	1 cut(s)	21
BseYI	CCCAGC	1 cut(s)	718
Bsh1236I	CGCG	1 cut(s)	189
Bsh1285I	CGRYCG	1 cut(s)	348
BshFI	GGCC	3 cut(s)	5, 269, 730
BshNI	GGYRCC	1 cut(s)	120
BsiEI	CGRYCG	1 cut(s)	348
BsiHKAI	GWGCWC	1 cut(s)	26
BsiSI	CCGG	3 cut(s)	77, 124, 531
BslFI	GGGAC	1 cut(s)	506
BsmAI	GTCTC	1 cut(s)	189
BsmFI	GGGAC	1 cut(s)	506
BsnI	GGCC	3 cut(s)	5, 269, 730
Bsp1286I	GDGCHC	1 cut(s)	26
Bsp143I	GATC	3 cut(s)	259, 341, 547
Bsp19I	CCATGG	1 cut(s)	37
Bsp68I	TCGCGA	1 cut(s)	189
BspACI	CCGC	3 cut(s)	136, 291, 398
BspANI	GGCC	3 cut(s)	5, 269, 730
BspCNI	CTCAG	3 cut(s)	626, 677, 777
BspFNI	CGCG	1 cut(s)	189
BspHI	TCATGA	1 cut(s)	525
BspLI	GGNNCC	1 cut(s)	122
BspT107I	GGYRCC	1 cut(s)	120
BsrI	ACTGG	1 cut(s)	844
BssECI	CCNNGG	1 cut(s)	37
BssMI	GATC	3 cut(s)	259, 341, 547
BssT1I	CCWWGG	1 cut(s)	37
BstBAI	YACGTR	3 cut(s)	117, 448, 557
BstC8I	GCNNGC	1 cut(s)	7
BstDEI	CTNAG	3 cut(s)	613, 664, 785
BstDSI	CCRYGG	1 cut(s)	37
BstF5I	GGATG	1 cut(s)	758
BstFNI	CGCG	1 cut(s)	189
BstKTI	GATC	3 cut(s)	262, 344, 550
BstMAI	GTCTC	1 cut(s)	189
BstMBI	GATC	3 cut(s)	259, 341, 547
BstMCI	CGRYCG	1 cut(s)	348
BstMWI	GCNNNNNNNGC	1 cut(s)	30
BstUI	CGCG	1 cut(s)	189
BstV1I	GCAGC	1 cut(s)	21
BsuRI	GGCC	3 cut(s)	5, 269, 730
BtgI	CCRYGG	1 cut(s)	37
BtgZI	GCGATG	1 cut(s)	792
BtsCI	GGATG	1 cut(s)	758
BtsIMutI	CAGTG	1 cut(s)	851
BtuMI	TCGCGA	1 cut(s)	189
Cac8I	GCNNGC	1 cut(s)	7
CaiI	CAGNNNCTG	1 cut(s)	620
CciI	TCATGA	1 cut(s)	525
Cfr13I	GGNCC	3 cut(s)	314, 362, 849
Csp6I	GTAC	3 cut(s)	121, 445, 710
CviAII	CATG	5 cut(s)	38, 166, 526, 627, 855
CviJI	RGCY	9 cut(s)	5, 24, 33, 269, 303, 663, 698, 718, 730
CviKI_1	RGCY	9 cut(s)	5, 24, 33, 269, 303, 663, 698, 718, 730
CviQI	GTAC	3 cut(s)	121, 445, 710
DdeI	CTNAG	3 cut(s)	613, 664, 785
DpnI	GATC	3 cut(s)	261, 343, 549
DpnII	GATC	3 cut(s)	259, 341, 547
DraI	TTTAAA	1 cut(s)	655
EaeI	YGGCCR	2 cut(s)	3, 728
EciI	GGCGGA	2 cut(s)	306, 387
Ecl136II	GAGCTC	1 cut(s)	24
Eco130I	CCWWGG	1 cut(s)	37
Eco24I	GRGCYC	1 cut(s)	26
Eco47I	GGWCC	3 cut(s)	314, 362, 849
Eco53kI	GAGCTC	1 cut(s)	24
EcoICRI	GAGCTC	1 cut(s)	24
EcoO109I	RGGNCCY	1 cut(s)	314
EcoRI	GAATTC	1 cut(s)	563
EcoT14I	CCWWGG	1 cut(s)	37
EcoT22I	ATGCAT	1 cut(s)	167
EcoT38I	GRGCYC	1 cut(s)	26
ErhI	CCWWGG	1 cut(s)	37
FaeI	CATG	5 cut(s)	41, 169, 529, 630, 858
FaqI	GGGAC	1 cut(s)	506
FatI	CATG	5 cut(s)	37, 165, 525, 626, 854
FbaI	TGATCA	1 cut(s)	259
Fnu4HI	GCNGC	1 cut(s)	10
FokI	GGATG	1 cut(s)	745
FriOI	GRGCYC	1 cut(s)	26
Fsp4HI	GCNGC	1 cut(s)	10
FspBI	CTAG	2 cut(s)	332, 551
GluI	GCNGC	1 cut(s)	10
GsaI	CCCAGC	1 cut(s)	722
HaeIII	GGCC	3 cut(s)	5, 269, 730
HapII	CCGG	3 cut(s)	77, 124, 531
Hin1II	CATG	5 cut(s)	41, 169, 529, 630, 858
HinfI	GANTC	3 cut(s)	595, 617, 623
HpaII	CCGG	3 cut(s)	77, 124, 531
HphI	GGTGA	1 cut(s)	850
Hpy166II	GTNNAC	2 cut(s)	841, 849
Hpy188I	TCNGA	6 cut(s)	338, 547, 616, 622, 667, 763
Hpy188III	TCNNGA	4 cut(s)	188, 365, 526, 592
Hpy8I	GTNNAC	2 cut(s)	841, 849
HpyAV	CCTTC	3 cut(s)	156, 163, 802
HpyCH4IV	ACGT	5 cut(s)	116, 226, 447, 556, 587
HpyCH4V	TGCA	3 cut(s)	165, 440, 647
HpyF10VI	GCNNNNNNNGC	1 cut(s)	30
HpyF3I	CTNAG	3 cut(s)	613, 664, 785
HpySE526I	ACGT	5 cut(s)	116, 226, 447, 556, 587
Hsp92II	CATG	5 cut(s)	41, 169, 529, 630, 858
KpnI	GGTACC	1 cut(s)	124
Ksp22I	TGATCA	1 cut(s)	259
Kzo9I	GATC	3 cut(s)	259, 341, 547
LmnI	GCTCC	2 cut(s)	29, 38
Lsp1109I	GCAGC	1 cut(s)	21
LweI	GCATC	2 cut(s)	642, 822
MaeI	CTAG	2 cut(s)	332, 551
MaeII	ACGT	5 cut(s)	116, 226, 447, 556, 587
MaeIII	GTNAC	2 cut(s)	70, 817
MalI	GATC	3 cut(s)	261, 343, 549
MboI	GATC	3 cut(s)	259, 341, 547
MboII	GAAGA	5 cut(s)	203, 232, 245, 351, 439
MhlI	GDGCHC	1 cut(s)	26
MlsI	TGGCCA	2 cut(s)	5, 730
MluCI	AATT	7 cut(s)	57, 207, 356, 563, 639, 691, 800
MluNI	TGGCCA	2 cut(s)	5, 730
MmeI	TCCRAC	3 cut(s)	297, 316, 364
MnlI	CCTC	6 cut(s)	37, 163, 208, 280, 293, 620
Mox20I	TGGCCA	2 cut(s)	5, 730
Mph1103I	ATGCAT	1 cut(s)	167
MscI	TGGCCA	2 cut(s)	5, 730
MseI	TTAA	3 cut(s)	654, 740, 750
Msp20I	TGGCCA	2 cut(s)	5, 730
MspI	CCGG	3 cut(s)	77, 124, 531
MvnI	CGCG	1 cut(s)	189
MwoI	GCNNNNNNNGC	1 cut(s)	30
NcoI	CCATGG	1 cut(s)	37
NdeII	GATC	3 cut(s)	259, 341, 547
NlaIII	CATG	5 cut(s)	41, 169, 529, 630, 858
NlaIV	GGNNCC	1 cut(s)	122
NmuCI	GTSAC	1 cut(s)	70
NruI	TCGCGA	1 cut(s)	189
NsiI	ATGCAT	1 cut(s)	167
PagI	TCATGA	1 cut(s)	525
PfeI	GAWTC	3 cut(s)	595, 617, 623
PkrI	GCNGC	1 cut(s)	11
Ppu21I	YACGTR	3 cut(s)	117, 448, 557
PpuMI	RGGWCCY	1 cut(s)	314
PsiI	TTATAA	1 cut(s)	513
Psp124BI	GAGCTC	1 cut(s)	26
Psp5II	RGGWCCY	1 cut(s)	314
PspFI	CCCAGC	1 cut(s)	718
PspN4I	GGNNCC	1 cut(s)	122
PspPI	GGNCC	3 cut(s)	314, 362, 849
PspPPI	RGGWCCY	1 cut(s)	314
PstNI	CAGNNNCTG	1 cut(s)	620
RruI	TCGCGA	1 cut(s)	189
RsaI	GTAC	3 cut(s)	122, 446, 711
RsaNI	GTAC	3 cut(s)	121, 445, 710
SacI	GAGCTC	1 cut(s)	26
SaqAI	TTAA	3 cut(s)	654, 740, 750
SatI	GCNGC	1 cut(s)	10
Sau3AI	GATC	3 cut(s)	259, 341, 547
Sau96I	GGNCC	3 cut(s)	314, 362, 849
SduI	GDGCHC	1 cut(s)	26
SfaNI	GCATC	2 cut(s)	642, 822
SinI	GGWCC	3 cut(s)	314, 362, 849
SmlI	CTYRAG	1 cut(s)	28
SmoI	CTYRAG	1 cut(s)	28
Sse9I	AATT	7 cut(s)	57, 207, 356, 563, 639, 691, 800
SsiI	CCGC	3 cut(s)	136, 291, 398
SspI	AATATT	1 cut(s)	603
SspMI	CTAG	2 cut(s)	332, 551
SstI	GAGCTC	1 cut(s)	26
StyI	CCWWGG	1 cut(s)	37
TaiI	ACGT	5 cut(s)	119, 229, 450, 559, 590
TaqI	TCGA	4 cut(s)	285, 348, 591, 636
TaqII	GACCGA	1 cut(s)	334
TasI	AATT	7 cut(s)	57, 207, 356, 563, 639, 691, 800
TfiI	GAWTC	3 cut(s)	595, 617, 623
Tru1I	TTAA	3 cut(s)	654, 740, 750
Tru9I	TTAA	3 cut(s)	654, 740, 750
TscAI	CASTG	1 cut(s)	851
TseFI	GTSAC	1 cut(s)	70
TseI	GCWGC	1 cut(s)	9
Tsp45I	GTSAC	1 cut(s)	70
TspDTI	ATGAA	4 cut(s)	182, 440, 491, 615
TspRI	CASTG	1 cut(s)	851
VpaK11BI	GGWCC	3 cut(s)	314, 362, 849
XapI	RAATTY	5 cut(s)	57, 356, 563, 639, 691
XcmI	CCANNNNNNNNNTGG	1 cut(s)	711
XspI	CTAG	2 cut(s)	332, 551
Zsp2I	ATGCAT	1 cut(s)	167

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