Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000002

Orthogroup ID

OG0007476

Physical Location & Seq

Genomic Coordinates Forward (+)

90458152 .. 90459396

Gene Structure 1245 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_2G00153710.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1245 bp

ATGGCCAACAACAACAACCAGAGCTCCTCAAGCTCCCATGGTAAAACCCTTTACCATATTCCCTGCTGGGTCACACCGGATAAAGAGGAGGTTCACAATAGAACAAAGGAGTTCCTTGCGTGGTACCGGAAGTCTAACCGCACCTTGCCTTCCCCCTCCAATAAATGCATGAAGGTCAAAGATATGTCTCATGAAGAAGTATTGGAGAAAATTAGGGAGGAGAAGAAACGTATTGAAGATGGTTGTTCCTTTGAGTTGGTTGATCAATCAGCCTCCAACAAAATCTTTGATGACGGCGCCCAACGTTTAGTTCTAAAAGACGGCAAAAAACTTTACAAGCCGCAAAAGGCTACAAAAGAAGCCTATGGTCGTGTTCTAAATGTTGTTAACGATATATGCGAGCACAATAAGCCGCGCACCCTCCGTGATATCTTTTACACGGCTCCCAACCTTTTCCGCAACCAATCTAGGTCTAACAAAGCCGTTAATCAACTATGTTGTGAAGTAGGTTGCAATCGTACCAGCCTCAATGTCATTGCAGGAGACAGAGGCTTTGTCATAGGTCCCTTCACTTTCAGTCTAGACGGAAGACCGGTCGATTGTAACAATGAATTTGGTCCAAAAAATAGGGTCAGGGTTGGACAAATCGTTCCTCCTTTGTTAAGTTCTGTTAGTGATATGAAGAATAATGGTGCAGAGTTCGTGTTAGTAGTGGAAAGTGTATCTGTTTATCAAAGATTGACGGCGGACAACTTTCATAATGATTATGAGTGTATAATCATGACCGGAAAAGGAATGTCTGATCTAGGACTTAGAGAATTCGCAAAGTATATAATGGACACGTTTGAGATTCCAATATTTCTCCTTTCAGATTCTGATCCATGGGGCATCGAAATTTATGCAGTTTTCAAATATGGCTCAGAAAGTATGGCATTTGATAGTGAAAATTTGGCTAACCCATTGGTATATTGGCTGGGTGTCTGGCCGACCGACTTAACCACACTTAAAATACCATCCGAGAAGTTGAGTTGCGAGGACCAGAGAAAAGCAAGAAAATTGTTGAAGAAGGAGTTTGTAACAAGTGATGAGATGTTGGTGAACCAGCTGGACCACAAGGTGATGAGCAGAAAGAAGGCAGGCATTTTAGCTCTGAATAATTTTGGGCCGGTCTATGGCCTATCTGATTATTTGTTGTATAAGTTATACAAGGTGATGGGTGATATCATGGAAAAAGGGAAAATTTAA

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

414

Amino Acids

47.14

Weight (kDa)

8.51

Isoelectric Point (pI)

37.27

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
TP6A_N	PF04406	124 - 178	5e-16	Type IIB DNA topoisomerase
TOP6A-Spo11_Toprim	PF21180	234 - 401	1.1e-45	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

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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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)
Acc65I	GGTACC	1 cut(s)	123
AccB1I	GGYRCC	2 cut(s)	123, 296
AccII	CGCG	1 cut(s)	415
AciI	CCGC	5 cut(s)	139, 341, 413, 457, 746
AclI	AACGTT	1 cut(s)	304
AclWI	GGATC	1 cut(s)	872
AcoI	YGGCCR	2 cut(s)	3, 983
AcsI	RAATTY	5 cut(s)	611, 818, 894, 946, 1239
AcyI	GRCGYC	1 cut(s)	297
AdeI	CACNNNGTG	1 cut(s)	1117
AfaI	GTAC	2 cut(s)	125, 520
AfiI	CCNNNNNNNGG	1 cut(s)	1172
AflIII	ACRYGT	1 cut(s)	840
AgeI	ACCGGT	1 cut(s)	592
AgsI	TTSAA	3 cut(s)	236, 910, 1063
AjuI	GAANNNNNNNTTGG	2 cut(s)	294, 326
AloI	GAACNNNNNNTCC	2 cut(s)	633, 665
AluBI	AGCT	4 cut(s)	24, 33, 1105, 1148
AluI	AGCT	4 cut(s)	24, 33, 1105, 1148
Alw21I	GWGCWC	2 cut(s)	26, 405
Alw26I	GTCTC	2 cut(s)	192, 537
AlwI	GGATC	1 cut(s)	872
AlwNI	CAGNNNCTG	1 cut(s)	875
AoxI	GGCC	4 cut(s)	3, 983, 1163, 1174
ApoI	RAATTY	5 cut(s)	611, 818, 894, 946, 1239
ArsI	GACNNNNNNTTYG	2 cut(s)	536, 568
AsiGI	ACCGGT	1 cut(s)	592
Asp718I	GGTACC	1 cut(s)	123
AspLEI	GCGC	2 cut(s)	299, 417
AspS9I	GGNCC	5 cut(s)	563, 617, 1036, 1108, 1163
AsuHPI	GGTGA	4 cut(s)	1108, 1129, 1222, 1229
AvaII	GGWCC	4 cut(s)	563, 617, 1036, 1108
BalI	TGGCCA	1 cut(s)	5
BanI	GGYRCC	2 cut(s)	123, 296
BanII	GRGCYC	1 cut(s)	26
BbsI	GAAGAC	1 cut(s)	595
Bbv12I	GWGCWC	2 cut(s)	26, 405
BccI	CCATC	3 cut(s)	233, 1021, 1207
BceAI	ACGGC	5 cut(s)	310, 337, 456, 467, 759
BcgI	CGANNNNNNTGC	2 cut(s)	881, 915
BclI	TGATCA	1 cut(s)	262
BcoDI	GTCTC	2 cut(s)	192, 537
BfaI	CTAG	3 cut(s)	468, 581, 806
BfoI	RGCGCY	1 cut(s)	300
BisI	GCNGC	2 cut(s)	341, 413
BlsI	GCNGC	2 cut(s)	342, 414
Bme18I	GGWCC	4 cut(s)	563, 617, 1036, 1108
BmgT120I	GGNCC	5 cut(s)	563, 617, 1036, 1108, 1163
BmiI	GGNNCC	4 cut(s)	125, 298, 444, 565
BmsI	GCATC	1 cut(s)	897
BpiI	GAAGAC	1 cut(s)	595
BpuEI	CTTGAG	1 cut(s)	13
BsaBI	GATNNNNATC	1 cut(s)	876
BsaHI	GRCGYC	1 cut(s)	297
BsaJI	CCNNGG	2 cut(s)	37, 881
BsaWI	WCCGGW	4 cut(s)	76, 126, 592, 785
BsaXI	ACNNNNNCTCC	2 cut(s)	8, 38
Bsc4I	CCNNNNNNNGG	1 cut(s)	1172
Bse118I	RCCGGY	2 cut(s)	592, 1165
Bse3DI	GCAATG	1 cut(s)	534
Bse8I	GATNNNNATC	1 cut(s)	876
BseDI	CCNNGG	2 cut(s)	37, 881
BseGI	GGATG	1 cut(s)	1013
BseJI	GATNNNNATC	1 cut(s)	876
BseLI	CCNNNNNNNGG	1 cut(s)	1172
BseMI	GCAATG	1 cut(s)	534
BseMII	CTCAG	1 cut(s)	933
BseRI	GAGGAG	3 cut(s)	16, 101, 233
BseYI	CCCAGC	2 cut(s)	66, 973
BsgI	GTGCAG	1 cut(s)	714
Bsh1236I	CGCG	1 cut(s)	415
Bsh1285I	CGRYCG	2 cut(s)	597, 990
BshFI	GGCC	4 cut(s)	5, 985, 1165, 1176
BshNI	GGYRCC	2 cut(s)	123, 296
BshTI	ACCGGT	1 cut(s)	592
BsiEI	CGRYCG	2 cut(s)	597, 990
BsiHKAI	GWGCWC	2 cut(s)	26, 405
BsiSI	CCGG	5 cut(s)	77, 127, 593, 786, 1166
BslFI	GGGAC	1 cut(s)	549
BslI	CCNNNNNNNGG	1 cut(s)	1172
BsmAI	GTCTC	2 cut(s)	192, 537
BsmFI	GGGAC	1 cut(s)	549
BsnI	GGCC	4 cut(s)	5, 985, 1165, 1176
Bsp1286I	GDGCHC	2 cut(s)	26, 405
Bsp143I	GATC	3 cut(s)	262, 802, 877
Bsp19I	CCATGG	2 cut(s)	37, 881
BspACI	CCGC	5 cut(s)	139, 341, 413, 457, 746
BspANI	GGCC	4 cut(s)	5, 985, 1165, 1176
BspCNI	CTCAG	1 cut(s)	932
BspFNI	CGCG	1 cut(s)	415
BspHI	TCATGA	2 cut(s)	190, 780
BspLI	GGNNCC	4 cut(s)	125, 298, 444, 565
BspPI	GGATC	1 cut(s)	872
BspT107I	GGYRCC	2 cut(s)	123, 296
BsrDI	GCAATG	1 cut(s)	534
BsrFI	RCCGGY	2 cut(s)	592, 1165
BssAI	RCCGGY	2 cut(s)	592, 1165
BssECI	CCNNGG	2 cut(s)	37, 881
BssMI	GATC	3 cut(s)	262, 802, 877
BssNI	GRCGYC	1 cut(s)	297
BssT1I	CCWWGG	2 cut(s)	37, 881
BstACI	GRCGYC	1 cut(s)	297
BstC8I	GCNNGC	2 cut(s)	401, 1138
BstDEI	CTNAG	2 cut(s)	812, 919
BstDSI	CCRYGG	2 cut(s)	37, 881
BstF5I	GGATG	1 cut(s)	1013
BstFNI	CGCG	1 cut(s)	415
BstH2I	RGCGCY	1 cut(s)	300
BstHHI	GCGC	2 cut(s)	299, 417
BstKTI	GATC	3 cut(s)	265, 805, 880
BstMAI	GTCTC	2 cut(s)	192, 537
BstMBI	GATC	3 cut(s)	262, 802, 877
BstMCI	CGRYCG	2 cut(s)	597, 990
BstMWI	GCNNNNNNNGC	2 cut(s)	30, 409
BstUI	CGCG	1 cut(s)	415
BstV2I	GAAGAC	1 cut(s)	595
BsuRI	GGCC	4 cut(s)	5, 985, 1165, 1176
BtgI	CCRYGG	2 cut(s)	37, 881
BtsCI	GGATG	1 cut(s)	1013
Cac8I	GCNNGC	2 cut(s)	401, 1138
CaiI	CAGNNNCTG	1 cut(s)	875
CciI	TCATGA	2 cut(s)	190, 780
CfoI	GCGC	2 cut(s)	299, 417
Cfr10I	RCCGGY	2 cut(s)	592, 1165
Cfr13I	GGNCC	5 cut(s)	563, 617, 1036, 1108, 1163
Csp6I	GTAC	2 cut(s)	124, 519
CspAI	ACCGGT	1 cut(s)	592
CviAII	CATG	6 cut(s)	38, 169, 191, 781, 882, 1225
CviQI	GTAC	2 cut(s)	124, 519
DdeI	CTNAG	2 cut(s)	812, 919
DinI	GGCGCC	1 cut(s)	298
DpnI	GATC	3 cut(s)	264, 804, 879
DpnII	GATC	3 cut(s)	262, 802, 877
DraIII	CACNNNGTG	1 cut(s)	1117
EaeI	YGGCCR	2 cut(s)	3, 983
EciI	GGCGGA	1 cut(s)	761
Ecl136II	GAGCTC	1 cut(s)	24
Eco130I	CCWWGG	2 cut(s)	37, 881
Eco24I	GRGCYC	1 cut(s)	26
Eco32I	GATATC	2 cut(s)	430, 1222
Eco47I	GGWCC	4 cut(s)	563, 617, 1036, 1108
Eco53kI	GAGCTC	1 cut(s)	24
EcoICRI	GAGCTC	1 cut(s)	24
EcoO109I	RGGNCCY	1 cut(s)	563
EcoRI	GAATTC	1 cut(s)	818
EcoRV	GATATC	2 cut(s)	430, 1222
EcoT14I	CCWWGG	2 cut(s)	37, 881
EcoT22I	ATGCAT	1 cut(s)	170
EcoT38I	GRGCYC	1 cut(s)	26
EgeI	GGCGCC	1 cut(s)	298
EheI	GGCGCC	1 cut(s)	298
ErhI	CCWWGG	2 cut(s)	37, 881
FaeI	CATG	6 cut(s)	41, 172, 194, 784, 885, 1228
FaqI	GGGAC	1 cut(s)	549
FatI	CATG	6 cut(s)	37, 168, 190, 780, 881, 1224
FbaI	TGATCA	1 cut(s)	262
Fnu4HI	GCNGC	2 cut(s)	341, 413
FokI	GGATG	1 cut(s)	1000
FriOI	GRGCYC	1 cut(s)	26
Fsp4HI	GCNGC	2 cut(s)	341, 413
FspBI	CTAG	3 cut(s)	468, 581, 806
GlaI	GCGC	2 cut(s)	298, 416
GluI	GCNGC	2 cut(s)	341, 413
GsaI	CCCAGC	2 cut(s)	70, 977
HaeII	RGCGCY	1 cut(s)	300
HaeIII	GGCC	4 cut(s)	5, 985, 1165, 1176
HapII	CCGG	5 cut(s)	77, 127, 593, 786, 1166
HhaI	GCGC	2 cut(s)	299, 417
Hin1I	GRCGYC	1 cut(s)	297
Hin1II	CATG	6 cut(s)	41, 172, 194, 784, 885, 1228
Hin6I	GCGC	2 cut(s)	297, 415
HinP1I	GCGC	2 cut(s)	297, 415
HincII	GTYRAC	1 cut(s)	388
HindII	GTYRAC	1 cut(s)	388
HinfI	GANTC	2 cut(s)	850, 872
HpaI	GTTAAC	1 cut(s)	388
HpaII	CCGG	5 cut(s)	77, 127, 593, 786, 1166
HphI	GGTGA	4 cut(s)	1108, 1129, 1222, 1229
Hpy166II	GTNNAC	3 cut(s)	94, 388, 1099
Hpy188I	TCNGA	7 cut(s)	802, 871, 877, 922, 1018, 1152, 1183
Hpy188III	TCNNGA	3 cut(s)	191, 581, 781
Hpy8I	GTNNAC	3 cut(s)	94, 388, 1099
HpyAV	CCTTC	5 cut(s)	159, 166, 577, 1060, 1126
HpyCH4IV	ACGT	3 cut(s)	229, 304, 842
HpyCH4V	TGCA	5 cut(s)	168, 513, 539, 695, 902
HpyF10VI	GCNNNNNNNGC	2 cut(s)	30, 409
HpyF3I	CTNAG	2 cut(s)	812, 919
HpySE526I	ACGT	3 cut(s)	229, 304, 842
Hsp92I	GRCGYC	1 cut(s)	297
Hsp92II	CATG	6 cut(s)	41, 172, 194, 784, 885, 1228
HspAI	GCGC	2 cut(s)	297, 415
KasI	GGCGCC	1 cut(s)	296
KpnI	GGTACC	1 cut(s)	127
Ksp22I	TGATCA	1 cut(s)	262
KspAI	GTTAAC	1 cut(s)	388
Kzo9I	GATC	3 cut(s)	262, 802, 877
LmnI	GCTCC	3 cut(s)	29, 38, 448
LweI	GCATC	1 cut(s)	897
MaeI	CTAG	3 cut(s)	468, 581, 806
MaeII	ACGT	3 cut(s)	229, 304, 842
MaeIII	GTNAC	3 cut(s)	70, 602, 1075
MalI	GATC	3 cut(s)	264, 804, 879
MboI	GATC	3 cut(s)	262, 802, 877
MboII	GAAGA	6 cut(s)	206, 235, 248, 600, 694, 1075
MhlI	GDGCHC	2 cut(s)	26, 405
MlsI	TGGCCA	1 cut(s)	5
MluCI	AATT	8 cut(s)	210, 611, 818, 894, 946, 1055, 1156, 1239
MluNI	TGGCCA	1 cut(s)	5
Mly113I	GGCGCC	1 cut(s)	297
MmeI	TCCRAC	2 cut(s)	300, 619
Mox20I	TGGCCA	1 cut(s)	5
Mph1103I	ATGCAT	1 cut(s)	170
MscI	TGGCCA	1 cut(s)	5
MseI	TTAA	6 cut(s)	387, 486, 662, 995, 1005, 1243
Msp20I	TGGCCA	1 cut(s)	5
MspA1I	CMGCKG	1 cut(s)	1105
MspI	CCGG	5 cut(s)	77, 127, 593, 786, 1166
MvnI	CGCG	1 cut(s)	415
MwoI	GCNNNNNNNGC	2 cut(s)	30, 409
NarI	GGCGCC	1 cut(s)	297
NcoI	CCATGG	2 cut(s)	37, 881
NdeII	GATC	3 cut(s)	262, 802, 877
NlaIII	CATG	6 cut(s)	41, 172, 194, 784, 885, 1228
NlaIV	GGNNCC	4 cut(s)	125, 298, 444, 565
NmuCI	GTSAC	1 cut(s)	70
NsiI	ATGCAT	1 cut(s)	170
PagI	TCATGA	2 cut(s)	190, 780
PcsI	WCGNNNNNNNCGW	1 cut(s)	396
PfeI	GAWTC	2 cut(s)	850, 872
PinAI	ACCGGT	1 cut(s)	592
PkrI	GCNGC	2 cut(s)	342, 414
PluTI	GGCGCC	1 cut(s)	300
PpuMI	RGGWCCY	1 cut(s)	563
Psp124BI	GAGCTC	1 cut(s)	26
Psp1406I	AACGTT	1 cut(s)	304
Psp5II	RGGWCCY	1 cut(s)	563
PspFI	CCCAGC	2 cut(s)	66, 973
PspN4I	GGNNCC	4 cut(s)	125, 298, 444, 565
PspPI	GGNCC	5 cut(s)	563, 617, 1036, 1108, 1163
PspPPI	RGGWCCY	1 cut(s)	563
PstNI	CAGNNNCTG	1 cut(s)	875
PvuII	CAGCTG	1 cut(s)	1105
RsaI	GTAC	2 cut(s)	125, 520
RsaNI	GTAC	2 cut(s)	124, 519
SacI	GAGCTC	1 cut(s)	26
SaqAI	TTAA	6 cut(s)	387, 486, 662, 995, 1005, 1243
SatI	GCNGC	2 cut(s)	341, 413
Sau3AI	GATC	3 cut(s)	262, 802, 877
Sau96I	GGNCC	5 cut(s)	563, 617, 1036, 1108, 1163
SduI	GDGCHC	2 cut(s)	26, 405
SfaNI	GCATC	1 cut(s)	897
SfoI	GGCGCC	1 cut(s)	298
SinI	GGWCC	4 cut(s)	563, 617, 1036, 1108
SmlI	CTYRAG	1 cut(s)	28
SmoI	CTYRAG	1 cut(s)	28
Sse9I	AATT	8 cut(s)	210, 611, 818, 894, 946, 1055, 1156, 1239
SsiI	CCGC	5 cut(s)	139, 341, 413, 457, 746
SspDI	GGCGCC	1 cut(s)	296
SspI	AATATT	1 cut(s)	858
SspMI	CTAG	3 cut(s)	468, 581, 806
SstI	GAGCTC	1 cut(s)	26
StyI	CCWWGG	2 cut(s)	37, 881
TaiI	ACGT	3 cut(s)	232, 307, 845
TaqI	TCGA	2 cut(s)	597, 891
TaqII	GACCGA	1 cut(s)	1004
TasI	AATT	8 cut(s)	210, 611, 818, 894, 946, 1055, 1156, 1239
TauI	GCSGC	2 cut(s)	343, 415
TfiI	GAWTC	2 cut(s)	850, 872
Tru1I	TTAA	6 cut(s)	387, 486, 662, 995, 1005, 1243
Tru9I	TTAA	6 cut(s)	387, 486, 662, 995, 1005, 1243
TseFI	GTSAC	1 cut(s)	70
Tsp45I	GTSAC	1 cut(s)	70
TspDTI	ATGAA	5 cut(s)	185, 207, 624, 695, 746
TspGWI	ACGGA	2 cut(s)	413, 600
VpaK11BI	GGWCC	4 cut(s)	563, 617, 1036, 1108
XapI	RAATTY	5 cut(s)	611, 818, 894, 946, 1239
XbaI	TCTAGA	1 cut(s)	580
XcmI	CCANNNNNNNNNTGG	1 cut(s)	966
XspI	CTAG	3 cut(s)	468, 581, 806
Zsp2I	ATGCAT	1 cut(s)	170

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