Basic Information

Type: gene

Biological Identity

Species

rosa_multiflora

Chromosome

Rmu_sc0002384.1

Orthogroup ID

OG0004536

Physical Location & Seq

Genomic Coordinates Reverse (-)

52159 .. 53256

Gene Structure 1098 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

N/A

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1098 bp

atgtacaccagactgatggcttatgagaacgctccaatagaagatcccaatcgttacgaggtcaaagacctctctatagaggaagtacaggagaaacttgaagctctcaagaaaaaattagatgatgggagctttagttgcatttcacgagacaagtccaacgtgacctatgttgagtgtagcgatggcgtcaaacgtcttacagtgaaggatataaataaacgctcaaaaccaggagatgaaaaaagaaaaaatatccgtttgatggttgatgttattctcaagttcttccaagcaaaccagcgagaaacacatcgtggggtgttttacgtagggaataataccagttcattgttccgacaaaaagatgagtacgaaattcttgatgacatctgttgcactataaggtgcagcagttcaagtctctacgtagatgctagagtaagaggcgttgttgcaggtctgctttctttcgagcttggagggcacgaaaccttttgtatgagccgggatgatgggatacccatcccgctgaattcagatattaaaatgaaggatcgtggagccaagttcatattggtggtggaaaagaaatccgctttcaatacattgatgcaagataagttttacaatgattatccatgtataatcatcaccggaatgggaatgccggaggtggcgaccagaagatttttaaagctattgtcggacaattttgggcttccagtgtatggccttttcgactgtgatccagaaggcatcgaaatgtttacaatttatactgttggatcatatgaggaggcctttgatagtgtaaacttaacttggccgtatatgacgtggttgggtgtttggccgagtgacctatgtgcgcttgatataccctgcaaggatttgagtccaagtgagattgcattggtcgattatcttttgagagaagattttgtgaaagagaatccaaggttggttgaggagctggaacatatgaaaataacggagaaaaaagcgaatcttgaagctttgaaggaatttgggcccacttgtttgtccaagtactatttgccatataagttgaattatcttttgaccgcgccgtga

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

365

Amino Acids

41.9

Weight (kDa)

5.19

Isoelectric Point (pI)

41.76

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
TOP6A-Spo11_Toprim	PF21180	191 - 358	1.1e-48	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: OG0004536)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_3g43731 FvH4_3g43753
rosa_chinensis	RchiOBHm_Chr2g0086091 RchiOBHm_Chr2g0089291 RchiOBHm_Chr2g0089851 RchiOBHm_Chr5g0083311
rosa_laevigata	RLG00000015741 RLG00000016061 RLG00000017209
rosa_multiflora	Rmu_co8293021.1_g000001 Rmu_co8360049.1_g000001 Rmu_sc0000388.1_g000047 Rmu_sc0002384.1_g000009 Rmu_sc0003382.1_g000021 Rmu_sc0017765.1_g000002 Rmu_ssc0000355.1_g000016
rosa_roxburghii	Rroxscaffold_2G00140180 Rroxscaffold_2G00151540
rosa_rugosa	Rorug01G0465600 Rorug01G0488800 Rorug02G0003700
rosa_samantha	Rh2AG015000 Rh2AG045100 Rh2AG048900 Rh2BG047800 Rh2CG016000 Rh2CG016100 Rh2CG045000 Rh2CG049900 Rh5BG561000 Rh5CG583600
rosa_wichuraiana	Rw2G001320

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	449
AccB7I	CCANNNNNTGG	1 cut(s)	731
AccII	CGCG	1 cut(s)	1091
AciI	CCGC	3 cut(s)	530, 597, 1089
AclWI	GGATC	4 cut(s)	38, 564, 743, 796
AcoI	YGGCCR	2 cut(s)	827, 854
AcsI	RAATTY	3 cut(s)	378, 535, 1028
AcyI	GRCGYC	1 cut(s)	189
AdeI	CACNNNGTG	1 cut(s)	317
AfaI	GTAC	4 cut(s)	5, 87, 374, 1055
AfiI	CCNNNNNNNGG	2 cut(s)	265, 731
AgsI	TTSAA	6 cut(s)	101, 420, 604, 1016, 1024, 1075
AjiI	CACGTC	1 cut(s)	840
AjnI	CCWGG	1 cut(s)	232
AjuI	GAANNNNNNNTTGG	2 cut(s)	947, 979
AluBI	AGCT	6 cut(s)	104, 132, 478, 700, 976, 1019
AluI	AGCT	6 cut(s)	104, 132, 478, 700, 976, 1019
Alw26I	GTCTC	2 cut(s)	144, 428
AlwI	GGATC	4 cut(s)	38, 564, 743, 796
AoxI	GGCC	5 cut(s)	733, 801, 827, 854, 1034
ApaI	GGGCCC	1 cut(s)	1038
ApeKI	GCWGC	1 cut(s)	411
ApoI	RAATTY	3 cut(s)	378, 535, 1028
AspLEI	GCGC	2 cut(s)	874, 1093
AspS9I	GGNCC	2 cut(s)	1034, 1035
AsuC2I	CCSGG	1 cut(s)	509
AsuHPI	GGTGA	1 cut(s)	646
BaeGI	GKGCMC	2 cut(s)	489, 1038
BanII	GRGCYC	1 cut(s)	1038
BauI	CACGAG	1 cut(s)	147
BbvI	GCAGC	1 cut(s)	423
BccI	CCATC	6 cut(s)	10, 119, 179, 259, 509, 533
BceAI	ACGGC	2 cut(s)	814, 1078
BciT130I	CCWGG	1 cut(s)	234
BciVI	GTATCC	1 cut(s)	513
BcnI	CCSGG	1 cut(s)	509
BcoDI	GTCTC	2 cut(s)	144, 428
BfaI	CTAG	1 cut(s)	438
BfmI	CTRYAG	1 cut(s)	75
BfuAI	ACCTGC	1 cut(s)	449
BfuI	GTATCC	1 cut(s)	513
BisI	GCNGC	1 cut(s)	412
BlsI	GCNGC	1 cut(s)	413
BmcAI	AGTACT	1 cut(s)	1055
Bme1390I	CCNGG	2 cut(s)	234, 509
BmgBI	CACGTC	1 cut(s)	840
BmgT120I	GGNCC	2 cut(s)	1034, 1035
BmiI	GGNNCC	2 cut(s)	565, 1036
BmrFI	CCNGG	2 cut(s)	234, 509
BmsI	GCATC	3 cut(s)	424, 603, 768
BpuEI	CTTGAG	2 cut(s)	92, 266
BpuMI	CCSGG	1 cut(s)	509
BsaAI	YACGTR	2 cut(s)	331, 430
BsaBI	GATNNNNATC	2 cut(s)	48, 524
BsaHI	GRCGYC	1 cut(s)	189
BsaJI	CCNNGG	1 cut(s)	959
BsaWI	WCCGGW	1 cut(s)	656
BsaXI	ACNNNNNCTCC	2 cut(s)	121, 151
Bsc4I	CCNNNNNNNGG	2 cut(s)	265, 731
Bse1I	ACTGG	2 cut(s)	345, 725
Bse8I	GATNNNNATC	2 cut(s)	48, 524
BseBI	CCWGG	1 cut(s)	234
BseDI	CCNNGG	1 cut(s)	959
BseGI	GGATG	2 cut(s)	517, 525
BseJI	GATNNNNATC	2 cut(s)	48, 524
BseLI	CCNNNNNNNGG	2 cut(s)	265, 731
BseNI	ACTGG	2 cut(s)	345, 725
BseRI	GAGGAG	2 cut(s)	812, 986
BseSI	GKGCMC	2 cut(s)	489, 1038
BseXI	GCAGC	1 cut(s)	423
BsgI	GTGCAG	1 cut(s)	430
Bsh1236I	CGCG	1 cut(s)	1091
BshFI	GGCC	5 cut(s)	735, 803, 829, 856, 1036
BsiSI	CCGG	3 cut(s)	508, 657, 671
BslI	CCNNNNNNNGG	2 cut(s)	265, 731
BsmAI	GTCTC	2 cut(s)	144, 428
BsmI	GAATGC	1 cut(s)	672
BsnI	GGCC	5 cut(s)	735, 803, 829, 856, 1036
Bsp120I	GGGCCC	1 cut(s)	1034
Bsp1286I	GDGCHC	2 cut(s)	489, 1038
Bsp1407I	TGTACA	1 cut(s)	3
Bsp143I	GATC	4 cut(s)	43, 556, 748, 788
BspACI	CCGC	3 cut(s)	530, 597, 1089
BspANI	GGCC	5 cut(s)	735, 803, 829, 856, 1036
BspFNI	CGCG	1 cut(s)	1091
BspLI	GGNNCC	2 cut(s)	565, 1036
BspMI	ACCTGC	1 cut(s)	449
BspPI	GGATC	4 cut(s)	38, 564, 743, 796
BsrGI	TGTACA	1 cut(s)	3
BsrI	ACTGG	2 cut(s)	345, 725
BssECI	CCNNGG	1 cut(s)	959
BssMI	GATC	4 cut(s)	43, 556, 748, 788
BssNI	GRCGYC	1 cut(s)	189
BssSI	CACGAG	1 cut(s)	147
BssT1I	CCWWGG	1 cut(s)	959
Bst2BI	CACGAG	1 cut(s)	147
Bst2UI	CCWGG	1 cut(s)	234
Bst4CI	ACNGT	3 cut(s)	205, 746, 784
BstACI	GRCGYC	1 cut(s)	189
BstAUI	TGTACA	1 cut(s)	3
BstBAI	YACGTR	2 cut(s)	331, 430
BstF5I	GGATG	2 cut(s)	517, 525
BstFNI	CGCG	1 cut(s)	1091
BstHHI	GCGC	2 cut(s)	874, 1093
BstKTI	GATC	4 cut(s)	46, 559, 751, 791
BstMAI	GTCTC	2 cut(s)	144, 428
BstMBI	GATC	4 cut(s)	43, 556, 748, 788
BstMWI	GCNNNNNNNGC	2 cut(s)	138, 484
BstNI	CCWGG	1 cut(s)	234
BstSCI	CCNGG	2 cut(s)	232, 507
BstSFI	CTRYAG	1 cut(s)	75
BstSLI	GKGCMC	2 cut(s)	489, 1038
BstSNI	TACGTA	2 cut(s)	331, 430
BstUI	CGCG	1 cut(s)	1091
BstV1I	GCAGC	1 cut(s)	423
BstX2I	RGATCY	1 cut(s)	43
BstXI	CCANNNNNNTGG	1 cut(s)	16
BstYI	RGATCY	1 cut(s)	43
BsuI	GTATCC	1 cut(s)	513
BsuRI	GGCC	5 cut(s)	735, 803, 829, 856, 1036
BtgZI	GCGATG	1 cut(s)	198
BtrI	CACGTC	1 cut(s)	840
BtsCI	GGATG	2 cut(s)	517, 525
BtsIMutI	CAGTG	2 cut(s)	210, 732
BveI	ACCTGC	1 cut(s)	449
CfoI	GCGC	2 cut(s)	874, 1093
Cfr13I	GGNCC	2 cut(s)	1034, 1035
CseI	GACGC	1 cut(s)	178
Csp6I	GTAC	4 cut(s)	4, 86, 373, 1054
CviAII	CATG	1 cut(s)	642
CviQI	GTAC	4 cut(s)	4, 86, 373, 1054
DpnI	GATC	4 cut(s)	45, 558, 750, 790
DpnII	GATC	4 cut(s)	43, 556, 748, 788
DraI	TTTAAA	1 cut(s)	696
DraIII	CACNNNGTG	1 cut(s)	317
EaeI	YGGCCR	2 cut(s)	827, 854
Eco105I	TACGTA	2 cut(s)	331, 430
Eco130I	CCWWGG	1 cut(s)	959
Eco147I	AGGCCT	1 cut(s)	803
Eco24I	GRGCYC	1 cut(s)	1038
EcoRI	GAATTC	1 cut(s)	535
EcoRII	CCWGG	1 cut(s)	232
EcoT14I	CCWWGG	1 cut(s)	959
EcoT38I	GRGCYC	1 cut(s)	1038
ErhI	CCWWGG	1 cut(s)	959
FaeI	CATG	1 cut(s)	645
FalI	AAGNNNNNCTT	2 cut(s)	996, 1028
FatI	CATG	1 cut(s)	641
FauI	CCCGC	1 cut(s)	537
FauNDI	CATATG	2 cut(s)	793, 984
Fnu4HI	GCNGC	1 cut(s)	412
FokI	GGATG	2 cut(s)	512, 524
FriOI	GRGCYC	1 cut(s)	1038
Fsp4HI	GCNGC	1 cut(s)	412
FspBI	CTAG	1 cut(s)	438
GlaI	GCGC	2 cut(s)	873, 1092
GluI	GCNGC	1 cut(s)	412
HaeIII	GGCC	5 cut(s)	735, 803, 829, 856, 1036
HapII	CCGG	3 cut(s)	508, 657, 671
HgaI	GACGC	1 cut(s)	178
HhaI	GCGC	2 cut(s)	874, 1093
Hin1I	GRCGYC	1 cut(s)	189
Hin1II	CATG	1 cut(s)	645
Hin6I	GCGC	2 cut(s)	872, 1091
HinP1I	GCGC	2 cut(s)	872, 1091
HindIII	AAGCTT	1 cut(s)	1017
HinfI	GANTC	3 cut(s)	898, 955, 1009
HpaII	CCGG	3 cut(s)	508, 657, 671
HphI	GGTGA	1 cut(s)	646
Hpy166II	GTNNAC	3 cut(s)	6, 771, 817
Hpy188I	TCNGA	3 cut(s)	359, 541, 709
Hpy188III	TCNNGA	5 cut(s)	109, 147, 383, 752, 1013
Hpy8I	GTNNAC	3 cut(s)	6, 771, 817
HpyAV	CCTTC	4 cut(s)	202, 547, 749, 1018
HpyCH4III	ACNGT	3 cut(s)	205, 746, 784
HpyCH4IV	ACGT	5 cut(s)	162, 196, 330, 429, 839
HpyCH4V	TGCA	7 cut(s)	141, 399, 411, 458, 616, 888, 914
HpyF10VI	GCNNNNNNNGC	2 cut(s)	138, 484
HpySE526I	ACGT	5 cut(s)	162, 196, 330, 429, 839
Hsp92I	GRCGYC	1 cut(s)	189
Hsp92II	CATG	1 cut(s)	645
HspAI	GCGC	2 cut(s)	872, 1091
Kzo9I	GATC	4 cut(s)	43, 556, 748, 788
LmnI	GCTCC	4 cut(s)	37, 129, 563, 973
Lsp1109I	GCAGC	1 cut(s)	423
LweI	GCATC	3 cut(s)	424, 603, 768
MaeI	CTAG	1 cut(s)	438
MaeII	ACGT	5 cut(s)	162, 196, 330, 429, 839
MaeIII	GTNAC	3 cut(s)	53, 163, 860
MalI	GATC	4 cut(s)	45, 558, 750, 790
MboI	GATC	4 cut(s)	43, 556, 748, 788
MboII	GAAGA	4 cut(s)	53, 280, 699, 950
MflI	RGATCY	1 cut(s)	43
MhlI	GDGCHC	2 cut(s)	489, 1038
MluCI	AATT	7 cut(s)	116, 378, 535, 712, 774, 1028, 1075
MlyI	GAGTC	1 cut(s)	907
MmeI	TCCRAC	4 cut(s)	183, 382, 687, 766
MnlI	CCTC	9 cut(s)	52, 73, 80, 440, 476, 667, 790, 793, 964
MseI	TTAA	3 cut(s)	546, 695, 821
MslI	CAYNNNNRTG	3 cut(s)	578, 659, 764
MspA1I	CMGCKG	1 cut(s)	532
MspI	CCGG	3 cut(s)	508, 657, 671
MspR9I	CCNGG	2 cut(s)	234, 509
Mva1269I	GAATGC	1 cut(s)	672
MvaI	CCWGG	1 cut(s)	234
MvnI	CGCG	1 cut(s)	1091
MwoI	GCNNNNNNNGC	2 cut(s)	138, 484
NciI	CCSGG	1 cut(s)	509
NdeI	CATATG	2 cut(s)	793, 984
NdeII	GATC	4 cut(s)	43, 556, 748, 788
NlaIII	CATG	1 cut(s)	645
NlaIV	GGNNCC	2 cut(s)	565, 1036
NmeAIII	GCCGAG	1 cut(s)	882
NmuCI	GTSAC	2 cut(s)	163, 860
PceI	AGGCCT	1 cut(s)	803
PctI	GAATGC	1 cut(s)	672
PfeI	GAWTC	2 cut(s)	955, 1009
PflMI	CCANNNNNTGG	1 cut(s)	731
PkrI	GCNGC	1 cut(s)	413
PleI	GAGTC	1 cut(s)	906
PpsI	GAGTC	1 cut(s)	906
Ppu21I	YACGTR	2 cut(s)	331, 430
Psp6I	CCWGG	1 cut(s)	232
PspGI	CCWGG	1 cut(s)	232
PspN4I	GGNNCC	2 cut(s)	565, 1036
PspOMI	GGGCCC	1 cut(s)	1034
PspPI	GGNCC	2 cut(s)	1034, 1035
PsuI	RGATCY	1 cut(s)	43
RsaI	GTAC	4 cut(s)	5, 87, 374, 1055
RsaNI	GTAC	4 cut(s)	4, 86, 373, 1054
RseI	CAYNNNNRTG	3 cut(s)	578, 659, 764
SaqAI	TTAA	3 cut(s)	546, 695, 821
SatI	GCNGC	1 cut(s)	412
Sau3AI	GATC	4 cut(s)	43, 556, 748, 788
Sau96I	GGNCC	2 cut(s)	1034, 1035
ScaI	AGTACT	1 cut(s)	1055
SchI	GAGTC	1 cut(s)	907
ScrFI	CCNGG	2 cut(s)	234, 509
SduI	GDGCHC	2 cut(s)	489, 1038
SfaNI	GCATC	3 cut(s)	424, 603, 768
SfcI	CTRYAG	1 cut(s)	75
SmiMI	CAYNNNNRTG	3 cut(s)	578, 659, 764
SmlI	CTYRAG	2 cut(s)	107, 281
SmoI	CTYRAG	2 cut(s)	107, 281
SnaBI	TACGTA	2 cut(s)	331, 430
Sse9I	AATT	7 cut(s)	116, 378, 535, 712, 774, 1028, 1075
SseBI	AGGCCT	1 cut(s)	803
SsiI	CCGC	3 cut(s)	530, 597, 1089
SspMI	CTAG	1 cut(s)	438
StuI	AGGCCT	1 cut(s)	803
StyD4I	CCNGG	2 cut(s)	232, 507
StyI	CCWWGG	1 cut(s)	959
TaaI	ACNGT	3 cut(s)	205, 746, 784
TaiI	ACGT	5 cut(s)	165, 199, 333, 432, 842
TaqI	TCGA	4 cut(s)	474, 741, 762, 921
TasI	AATT	7 cut(s)	116, 378, 535, 712, 774, 1028, 1075
TatI	WGTACW	3 cut(s)	3, 85, 1053
TfiI	GAWTC	2 cut(s)	955, 1009
Tru1I	TTAA	3 cut(s)	546, 695, 821
Tru9I	TTAA	3 cut(s)	546, 695, 821
TscAI	CASTG	2 cut(s)	210, 732
TseFI	GTSAC	2 cut(s)	163, 860
TseI	GCWGC	1 cut(s)	411
Tsp45I	GTSAC	2 cut(s)	163, 860
TspDTI	ATGAA	5 cut(s)	255, 339, 562, 566, 1001
TspGWI	ACGGA	2 cut(s)	248, 1010
TspRI	CASTG	2 cut(s)	210, 732
Van91I	CCANNNNNTGG	1 cut(s)	731
XapI	RAATTY	3 cut(s)	378, 535, 1028
XcmI	CCANNNNNNNNNTGG	1 cut(s)	574
XspI	CTAG	1 cut(s)	438
ZrmI	AGTACT	1 cut(s)	1055

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