Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6A

Orthogroup ID

OG0009658

Physical Location & Seq

Genomic Coordinates Forward (+)

41365587 .. 41366939

Gene Structure 1353 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6AG229400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1353 bp

ATGGCTGATGATTTTACTGAAAAGTTTCAAAACCTACACATAAGGGGGGATGAGAAAGCTGCTACAAGAGCTGATAATAAAACCGACAACATAAAACATAAGTTCGAACGTCTAAAACAAGAAGTTGAGTCAACAATTACTACGGCGAAGTCTCCGCATCCCTTGAAAGAAGAAGTCTTGCCTGCCAACGAAATCATCCAACTCATCCTAGGCATCGAGGGCCTGTCCATCTTTAGAGGACAACCACCTGCAGATTTTCCAAGCATCAAGGCCACACACAAATCAACTAATGAGATACTGGAGGAGGTTTTGGATATGTTGAAAAAGTTTGTAGATTCAGAAAATTATGCAATCGAAGTGCCATCAAGAGGCAAACAAAATCAGGAGTTCGACGAAGAAAGTGAATCCATGAAGCTCATGCCTAACAGTACTTTTTTACGTAAACTGACGGACAAACCCAACGATATATTTACGGTGACTATTTCTGTTCTCTTAGAAATATTTAAGTTGTGCAAAGCAAACATACATGCAAACATAAGAGATATTTATTATACCAATACGACACTATACAAAAATCAGCAAAGAATTAGCTCTGTTATTGATGACTTATGTTGCATACTTCGTTGTCATCGTTACTGTCTACACTTGTTCGCTACTGACAAAGGAGCCGTTTTGGGTAACATGAAGTACATATATAATGGCAAGGAAGTTGATTGTTCGAGTGACGAGTTTGGACAACCGATCCCGGCAAGGACAGACTTGCTTACTAGTATGAGCACTGACGACGAGGATTTGGCATTTGTCATAGTAGTGGAGAAACACAGCGTGTTTATGCGGTTGGCTCAAGATTTATTTTGGAAGAAATTTAAATGTATCATGATCACCGCCAGTGGAATGCCAGATGTGGGCTCTAGGTATTTTCTAAGAAGGGCAGAGACGACGTTCAAGAGACCCGTGTATGCTCTTTTTGATTCAAATCCATATGGGGCTAGGATTCTATGTACTTATCGTTATGGGTCAGACAACATGTCATATGATAGTAAGAGTTTGGCCACCCCGGGCATAATCTGGTTGGGTGTAAGGACAAAAGACATAGAGACTTACGAAATACCTCAAGATGACAAGTATAGGGTAAAGATGACTGAAACAGATTACAACGAGTGTCGGTGTTTGTTAAAAGCAAAATATTTGGTGAACAATGTAGAATGGCGGAACGAGCTGGAAGCTATGTTGGAAGTTGGCACGAAAACTGAAATCGAGGCATTGTATGTCCATGGTTACAAATTTTTGGCCGAGGTCTATTTACCACATAAATTGCAGAGGTACGGGATGGCTTTGCAGAGCATTGAATAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

ko04113 map04113

Pfam Domains

Protein Families

TP6A_N

Protein Analysis

450

Amino Acids

51.9

Weight (kDa)

5.91

Isoelectric Point (pI)

48.38

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
TP6A_N	PF04406	157 - 215	2.4e-15	Type IIB DNA topoisomerase
TOP6A-Spo11_Toprim	PF21180	267 - 439	3.7e-57	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: OG0009658)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_2g33020 FvH4_3g06060
rosa_chinensis	RchiOBHm_Chr1g0379621 RchiOBHm_Chr5g0010071 RchiOBHm_Chr6g0278391
rosa_laevigata	RLG00000013233
rosa_multiflora	Rmu_sc0002080.1_g000036 Rmu_sc0022226.1_g000003
rosa_roxburghii	Rroxscaffold_4G00280000
rosa_rugosa	Rorug01G0413600 Rorug04G0449100
rosa_samantha	Rh1AG437000 Rh1AG437300 Rh1AG437400 Rh1BG393500 Rh1CG406500 Rh1DG424400 Rh5CG087500 Rh6AG229400 Rh6CG233200 Rh7CG094900 Rh7CG095000

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	256
Acc36I	ACCTGC	1 cut(s)	256
AccI	GTMKAC	1 cut(s)	640
AciI	CCGC	4 cut(s)	155, 835, 885, 1210
AclWI	GGATC	1 cut(s)	736
AcoI	YGGCCR	2 cut(s)	1050, 1290
AcsI	RAATTY	2 cut(s)	863, 1283
AdeI	CACNNNGTG	1 cut(s)	826
AfaI	GTAC	4 cut(s)	430, 689, 1003, 1325
AfiI	CCNNNNNNNGG	2 cut(s)	368, 905
AflIII	ACRYGT	1 cut(s)	1026
AgsI	TTSAA	6 cut(s)	29, 166, 322, 946, 975, 1349
AhdI	GACNNNNNGTC	1 cut(s)	1027
AhlI	ACTAGT	1 cut(s)	767
AluBI	AGCT	6 cut(s)	59, 71, 415, 591, 1219, 1226
AluI	AGCT	6 cut(s)	59, 71, 415, 591, 1219, 1226
Alw21I	GWGCWC	1 cut(s)	779
Alw26I	GTCTC	4 cut(s)	156, 929, 943, 1091
AlwI	GGATC	1 cut(s)	736
Ama87I	CYCGRG	1 cut(s)	1057
AoxI	GGCC	4 cut(s)	220, 270, 1050, 1290
ApeKI	GCWGC	1 cut(s)	59
ApoI	RAATTY	2 cut(s)	863, 1283
Asp700I	GAANNNNTTC	1 cut(s)	24
AspA2I	CCTAGG	1 cut(s)	208
AspS9I	GGNCC	1 cut(s)	220
AsuC2I	CCSGG	3 cut(s)	746, 1058, 1059
AsuHPI	GGTGA	3 cut(s)	487, 874, 1204
AsuII	TTCGAA	1 cut(s)	105
AvaI	CYCGRG	1 cut(s)	1057
AvrII	CCTAGG	1 cut(s)	208
BalI	TGGCCA	1 cut(s)	1052
BanII	GRGCYC	1 cut(s)	911
Bbv12I	GWGCWC	1 cut(s)	779
BbvI	GCAGC	1 cut(s)	46
BccI	CCATC	3 cut(s)	236, 370, 1324
BceAI	ACGGC	2 cut(s)	159, 653
BclI	TGATCA	1 cut(s)	879
BcnI	CCSGG	3 cut(s)	746, 1058, 1059
BcoDI	GTCTC	4 cut(s)	156, 929, 943, 1091
BcuI	ACTAGT	1 cut(s)	767
BfaI	CTAG	4 cut(s)	209, 768, 912, 990
BfmI	CTRYAG	1 cut(s)	249
BfuAI	ACCTGC	1 cut(s)	256
BisI	GCNGC	1 cut(s)	60
BlnI	CCTAGG	1 cut(s)	208
BlsI	GCNGC	1 cut(s)	61
BmcAI	AGTACT	1 cut(s)	430
Bme1390I	CCNGG	3 cut(s)	746, 1058, 1059
BmeRI	GACNNNNNGTC	1 cut(s)	1027
BmeT110I	CYCGRG	1 cut(s)	1057
BmgT120I	GGNCC	1 cut(s)	220
BmiI	GGNNCC	1 cut(s)	667
BmrFI	CCNGG	3 cut(s)	746, 1058, 1059
BmsI	GCATC	3 cut(s)	166, 222, 273
BpmI	CTGGAG	1 cut(s)	320
Bpu14I	TTCGAA	1 cut(s)	105
BpuEI	CTTGAG	2 cut(s)	828, 1098
BpuMI	CCSGG	3 cut(s)	746, 1058, 1059
BsaAI	YACGTR	1 cut(s)	440
BsaBI	GATNNNNATC	1 cut(s)	975
BsaI	GGTCTC	1 cut(s)	943
BsaJI	CCNNGG	5 cut(s)	208, 1056, 1057, 1273, 1293
Bsc4I	CCNNNNNNNGG	2 cut(s)	368, 905
Bse1I	ACTGG	2 cut(s)	303, 888
Bse8I	GATNNNNATC	1 cut(s)	975
BseDI	CCNNGG	5 cut(s)	208, 1056, 1057, 1273, 1293
BseGI	GGATG	5 cut(s)	55, 157, 195, 204, 1335
BseJI	GATNNNNATC	1 cut(s)	975
BseLI	CCNNNNNNNGG	2 cut(s)	368, 905
BseNI	ACTGG	2 cut(s)	303, 888
BseRI	GAGGAG	1 cut(s)	317
BseXI	GCAGC	1 cut(s)	46
BshFI	GGCC	4 cut(s)	222, 272, 1052, 1292
BsiHKAI	GWGCWC	1 cut(s)	779
BsiHKCI	CYCGRG	1 cut(s)	1057
BsiSI	CCGG	2 cut(s)	746, 1058
BslI	CCNNNNNNNGG	2 cut(s)	368, 905
BsmAI	GTCTC	4 cut(s)	156, 929, 943, 1091
BsmBI	CGTCTC	1 cut(s)	929
BsmI	GAATGC	1 cut(s)	900
BsnI	GGCC	4 cut(s)	222, 272, 1052, 1292
Bso31I	GGTCTC	1 cut(s)	943
BsoBI	CYCGRG	1 cut(s)	1057
Bsp119I	TTCGAA	1 cut(s)	105
Bsp1286I	GDGCHC	2 cut(s)	779, 911
Bsp143I	GATC	2 cut(s)	741, 879
Bsp19I	CCATGG	1 cut(s)	1273
BspACI	CCGC	4 cut(s)	155, 835, 885, 1210
BspANI	GGCC	4 cut(s)	222, 272, 1052, 1292
BspHI	TCATGA	1 cut(s)	876
BspLI	GGNNCC	1 cut(s)	667
BspMAI	CTGCAG	1 cut(s)	253
BspMI	ACCTGC	1 cut(s)	256
BspPI	GGATC	1 cut(s)	736
BspT104I	TTCGAA	1 cut(s)	105
BspTNI	GGTCTC	1 cut(s)	943
BsrI	ACTGG	2 cut(s)	303, 888
BssECI	CCNNGG	5 cut(s)	208, 1056, 1057, 1273, 1293
BssMI	GATC	2 cut(s)	741, 879
BssT1I	CCWWGG	2 cut(s)	208, 1273
Bst4CI	ACNGT	3 cut(s)	428, 475, 638
BstBAI	YACGTR	1 cut(s)	440
BstBI	TTCGAA	1 cut(s)	105
BstC8I	GCNNGC	1 cut(s)	183
BstDEI	CTNAG	2 cut(s)	493, 923
BstDSI	CCRYGG	1 cut(s)	1273
BstF5I	GGATG	5 cut(s)	55, 157, 195, 204, 1335
BstKTI	GATC	2 cut(s)	744, 882
BstMAI	GTCTC	4 cut(s)	156, 929, 943, 1091
BstMBI	GATC	2 cut(s)	741, 879
BstMWI	GCNNNNNNNGC	3 cut(s)	68, 219, 1216
BstNSI	RCATGY	2 cut(s)	530, 1030
BstSCI	CCNGG	3 cut(s)	744, 1056, 1057
BstSFI	CTRYAG	1 cut(s)	249
BstSNI	TACGTA	1 cut(s)	440
BstV1I	GCAGC	1 cut(s)	46
BsuRI	GGCC	4 cut(s)	222, 272, 1052, 1292
BtgI	CCRYGG	1 cut(s)	1273
BtsCI	GGATG	5 cut(s)	55, 157, 195, 204, 1335
BtsIMutI	CAGTG	2 cut(s)	777, 895
BveI	ACCTGC	1 cut(s)	256
Cac8I	GCNNGC	1 cut(s)	183
CciI	TCATGA	1 cut(s)	876
Cfr13I	GGNCC	1 cut(s)	220
Cfr9I	CCCGGG	1 cut(s)	1057
Csp6I	GTAC	4 cut(s)	429, 688, 1002, 1324
CspCI	CAANNNNNGTGG	2 cut(s)	1296, 1331
CviAII	CATG	7 cut(s)	409, 418, 527, 682, 877, 1027, 1274
CviQI	GTAC	4 cut(s)	429, 688, 1002, 1324
DdeI	CTNAG	2 cut(s)	493, 923
DpnI	GATC	2 cut(s)	743, 881
DpnII	GATC	2 cut(s)	741, 879
DraI	TTTAAA	1 cut(s)	868
DraIII	CACNNNGTG	1 cut(s)	826
DriI	GACNNNNNGTC	1 cut(s)	1027
EaeI	YGGCCR	2 cut(s)	1050, 1290
Eam1105I	GACNNNNNGTC	1 cut(s)	1027
EciI	GGCGGA	1 cut(s)	1225
Eco105I	TACGTA	1 cut(s)	440
Eco130I	CCWWGG	2 cut(s)	208, 1273
Eco24I	GRGCYC	1 cut(s)	911
Eco31I	GGTCTC	1 cut(s)	943
Eco88I	CYCGRG	1 cut(s)	1057
EcoO109I	RGGNCCY	1 cut(s)	220
EcoT14I	CCWWGG	2 cut(s)	208, 1273
EcoT38I	GRGCYC	1 cut(s)	911
ErhI	CCWWGG	2 cut(s)	208, 1273
Esp3I	CGTCTC	1 cut(s)	929
FaeI	CATG	7 cut(s)	412, 421, 530, 685, 880, 1030, 1277
FatI	CATG	7 cut(s)	408, 417, 526, 681, 876, 1026, 1273
FauNDI	CATATG	2 cut(s)	982, 1033
FbaI	TGATCA	1 cut(s)	879
FblI	GTMKAC	1 cut(s)	640
Fnu4HI	GCNGC	1 cut(s)	60
FokI	GGATG	5 cut(s)	62, 144, 182, 191, 1342
FriOI	GRGCYC	1 cut(s)	911
Fsp4HI	GCNGC	1 cut(s)	60
FspBI	CTAG	4 cut(s)	209, 768, 912, 990
GluI	GCNGC	1 cut(s)	60
GsuI	CTGGAG	1 cut(s)	320
HaeIII	GGCC	4 cut(s)	222, 272, 1052, 1292
HapII	CCGG	2 cut(s)	746, 1058
Hin1II	CATG	7 cut(s)	412, 421, 530, 685, 880, 1030, 1277
HincII	GTYRAC	1 cut(s)	132
HindII	GTYRAC	1 cut(s)	132
HinfI	GANTC	5 cut(s)	128, 335, 404, 971, 994
HpaII	CCGG	2 cut(s)	746, 1058
HphI	GGTGA	3 cut(s)	487, 874, 1204
Hpy166II	GTNNAC	4 cut(s)	132, 443, 641, 1195
Hpy188I	TCNGA	2 cut(s)	340, 1021
Hpy188III	TCNNGA	6 cut(s)	366, 383, 845, 877, 946, 1115
Hpy8I	GTNNAC	4 cut(s)	132, 443, 641, 1195
Hpy99I	CGWCG	3 cut(s)	395, 788, 943
HpyAV	CCTTC	1 cut(s)	921
HpyCH4III	ACNGT	3 cut(s)	428, 475, 638
HpyCH4IV	ACGT	3 cut(s)	109, 439, 941
HpyCH4V	TGCA	7 cut(s)	251, 350, 513, 530, 615, 1318, 1339
HpyF10VI	GCNNNNNNNGC	3 cut(s)	68, 219, 1216
HpyF3I	CTNAG	2 cut(s)	493, 923
HpySE526I	ACGT	3 cut(s)	109, 439, 941
Hsp92II	CATG	7 cut(s)	412, 421, 530, 685, 880, 1030, 1277
Ksp22I	TGATCA	1 cut(s)	879
Kzo9I	GATC	2 cut(s)	741, 879
LmnI	GCTCC	1 cut(s)	665
Lsp1109I	GCAGC	1 cut(s)	46
LweI	GCATC	3 cut(s)	166, 222, 273
MaeI	CTAG	4 cut(s)	209, 768, 912, 990
MaeII	ACGT	3 cut(s)	109, 439, 941
MaeIII	GTNAC	5 cut(s)	475, 632, 677, 722, 1277
MalI	GATC	2 cut(s)	743, 881
MboI	GATC	2 cut(s)	741, 879
MboII	GAAGA	3 cut(s)	182, 407, 871
MhlI	GDGCHC	2 cut(s)	779, 911
MlsI	TGGCCA	1 cut(s)	1052
MluCI	AATT	6 cut(s)	135, 343, 585, 863, 1283, 1313
MluNI	TGGCCA	1 cut(s)	1052
MlyI	GAGTC	1 cut(s)	137
MmeI	TCCRAC	2 cut(s)	223, 1212
Mox20I	TGGCCA	1 cut(s)	1052
MroXI	GAANNNNTTC	1 cut(s)	24
MscI	TGGCCA	1 cut(s)	1052
MseI	TTAA	3 cut(s)	504, 867, 1175
MslI	CAYNNNNRTG	1 cut(s)	809
Msp20I	TGGCCA	1 cut(s)	1052
MspI	CCGG	2 cut(s)	746, 1058
MspR9I	CCNGG	3 cut(s)	746, 1058, 1059
Mva1269I	GAATGC	1 cut(s)	900
MwoI	GCNNNNNNNGC	3 cut(s)	68, 219, 1216
NciI	CCSGG	3 cut(s)	746, 1058, 1059
NcoI	CCATGG	1 cut(s)	1273
NdeI	CATATG	2 cut(s)	982, 1033
NdeII	GATC	2 cut(s)	741, 879
NlaIII	CATG	7 cut(s)	412, 421, 530, 685, 880, 1030, 1277
NlaIV	GGNNCC	1 cut(s)	667
NmeAIII	GCCGAG	1 cut(s)	1318
NmuCI	GTSAC	2 cut(s)	475, 722
NspI	RCATGY	2 cut(s)	530, 1030
NspV	TTCGAA	1 cut(s)	105
PagI	TCATGA	1 cut(s)	876
PaqCI	CACCTGC	1 cut(s)	256
PciI	ACATGT	1 cut(s)	1026
PcsI	WCGNNNNNNNCGW	1 cut(s)	628
PctI	GAATGC	1 cut(s)	900
PdmI	GAANNNNTTC	1 cut(s)	24
PfeI	GAWTC	4 cut(s)	335, 404, 971, 994
PkrI	GCNGC	1 cut(s)	61
PleI	GAGTC	1 cut(s)	136
PpsI	GAGTC	1 cut(s)	136
Ppu21I	YACGTR	1 cut(s)	440
PscI	ACATGT	1 cut(s)	1026
PspN4I	GGNNCC	1 cut(s)	667
PspPI	GGNCC	1 cut(s)	220
PstI	CTGCAG	1 cut(s)	253
RsaI	GTAC	4 cut(s)	430, 689, 1003, 1325
RsaNI	GTAC	4 cut(s)	429, 688, 1002, 1324
RseI	CAYNNNNRTG	1 cut(s)	809
SaqAI	TTAA	3 cut(s)	504, 867, 1175
SatI	GCNGC	1 cut(s)	60
Sau3AI	GATC	2 cut(s)	741, 879
Sau96I	GGNCC	1 cut(s)	220
ScaI	AGTACT	1 cut(s)	430
SchI	GAGTC	1 cut(s)	137
ScrFI	CCNGG	3 cut(s)	746, 1058, 1059
SduI	GDGCHC	2 cut(s)	779, 911
SfaNI	GCATC	3 cut(s)	166, 222, 273
SfcI	CTRYAG	1 cut(s)	249
SfuI	TTCGAA	1 cut(s)	105
SmaI	CCCGGG	1 cut(s)	1059
SmiI	ATTTAAAT	1 cut(s)	868
SmiMI	CAYNNNNRTG	1 cut(s)	809
SmlI	CTYRAG	2 cut(s)	843, 1113
SmoI	CTYRAG	2 cut(s)	843, 1113
SnaBI	TACGTA	1 cut(s)	440
SpeI	ACTAGT	1 cut(s)	767
Sse9I	AATT	6 cut(s)	135, 343, 585, 863, 1283, 1313
SsiI	CCGC	4 cut(s)	155, 835, 885, 1210
SspI	AATATT	2 cut(s)	501, 1187
SspMI	CTAG	4 cut(s)	209, 768, 912, 990
StyD4I	CCNGG	3 cut(s)	744, 1056, 1057
StyI	CCWWGG	2 cut(s)	208, 1273
SwaI	ATTTAAAT	1 cut(s)	868
TaaI	ACNGT	3 cut(s)	428, 475, 638
TaiI	ACGT	3 cut(s)	112, 442, 944
TaqI	TCGA	6 cut(s)	105, 216, 354, 390, 719, 1257
TasI	AATT	6 cut(s)	135, 343, 585, 863, 1283, 1313
TatI	WGTACW	3 cut(s)	428, 687, 1001
TfiI	GAWTC	4 cut(s)	335, 404, 971, 994
Tru1I	TTAA	3 cut(s)	504, 867, 1175
Tru9I	TTAA	3 cut(s)	504, 867, 1175
TscAI	CASTG	2 cut(s)	784, 895
TseFI	GTSAC	2 cut(s)	475, 722
TseI	GCWGC	1 cut(s)	59
Tsp45I	GTSAC	2 cut(s)	475, 722
TspDTI	ATGAA	2 cut(s)	425, 698
TspGWI	ACGGA	1 cut(s)	464
TspMI	CCCGGG	1 cut(s)	1057
TspRI	CASTG	2 cut(s)	784, 895
XapI	RAATTY	2 cut(s)	863, 1283
XceI	RCATGY	2 cut(s)	530, 1030
XmaI	CCCGGG	1 cut(s)	1057
XmaJI	CCTAGG	1 cut(s)	208
XmiI	GTMKAC	1 cut(s)	640
XmnI	GAANNNNTTC	1 cut(s)	24
XspI	CTAG	4 cut(s)	209, 768, 912, 990
ZrmI	AGTACT	1 cut(s)	430

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