Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr7B

Orthogroup ID

OG0005047

Physical Location & Seq

Genomic Coordinates Forward (+)

10387936 .. 10393027

Gene Structure 5092 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh7BG139600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1317 bp

ATGGAGAAGAGAGGTACTGGCGTTACTACTACTACTATGCATGAATCTGCAGCATTACTATGCGGTACAAATTTGTACGTTAAAAAGCCAAAAGAAGATGTTGATGATGAACTACTTAGGGCGGTTAATGGTGATCTCAGCTATGATATCGACTCTGCCCCACTAGTCTCAGCCGGAATTGATGATGAACACGATGAAGAACCTGGGGATGATCTTGTAAATCATCCTGAGATTCCTGGATGGTTTTCTGAGTATTGTCCAGTTTGGCCAGGGCAAGCACACTTTTTGAAGGTAGAAAAGATCTTATTTCAAGGGAAGTCCCAGTACCAAAGTATGATGGTATTTCAGTCATCAGCATATGGGAAGGTTTTTGTTCTGGATGGAGCCCTGCAACTCACTGAAAAGGATGAGTGTGCTTACCAAGAAATGATTACACATCTTCCTCTTTGCTCCATTCCAAACCCAAAAAAGGTATTACTCATTGGAGGAGGAGATGGCGGAATTTTAAGGGAAATTTCTCGACACTCTTCTGTTGAGCAGATTGATATATGCGAAATAGACACCATGTTAGTTGATATCTACAAGAAATTTTTTCCTGATGTTGCTATTGGATACAAGGACCCTCGGGTAACTCTTCATGTTAAAGATGGAACTGAATTTTGTAAGTACGTTCCAGAAGGAACATATGATGCAATAATAGTGGACGCATTTGACCCAATAAGGCCTGGTCATGAGCTTCTTGATGATGAGACTCCCTTCTTTGAACTGGTGAGAAAAGCTCTCCGCCCTGGAGGAGTCATGTGCATCCAAGCAGAAAGCCTATGGTTTCGCTCCTTCCAGGTTGATGAACTCGTTGCAAAATGTCGCCAAATTTTCGAAGGCTCTGTTGACTATGCTTGGACAATTGTTCCAGCATATCCAAGTGGGGTGATTGGTTTCTTGCTTTGCTCCAAGGAGGGGTCATACGTGAATTTCAGAAATCCTATCAACCCGATTAACCCCAACAATAGTTACGGAGTATCAAAAGAGCCCTTGAAATTTTACAATTCAGAGGTACACATGGCAGCATTTTGTTTGCCATCGTTTGCGAAGAAGATTGGGAGGATTGGGGAAGGGTTGAAGCGGGGGACGGTTCTGTTGCAGACGTCTGGAGATAGTAGGCAGCCTGCCCTTGGTGACGGGAACTGGTGGGATCCAGATTGGATGGATCTTTTTTCTCCATCCGATGGTGGCGACGGACCTTTCGATGTGTTGGACGGCAGCGGTGCTGGTTCGGTGAATTGGTCATGGCAATCTTCTAGCGGAGGTGGAGACTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

ko00270 ko00330 ko00410 ko00480 ko01100 map00270 map00330 map00410 map00480 map01100

Pfam Domains

Protein Families

Spermine_synt_N Spermine_synth

Protein Analysis

438

Amino Acids

48.39

Weight (kDa)

4.66

Isoelectric Point (pI)

38.73

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Spermine_synt_N	PF17284	80 - 134	2.5e-20	Spermidine synthase tetramerisation domain
Spermine_synth	PF01564	137 - 324	2e-62	Spermine/spermidine synthase 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: OG0005047)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G23820 AT1G23820 AT1G70310
fragaria_vesca	FvH4_4g34680
malus_domestica	MD13G1090400.v1.1 MD14G1183600.v1.1 MD16G1091000.v1.1
prunus_persica	Prupe.1G255300_v2.0.a1 Prupe.5G176100_v2.0.a1
pyrus_communis	pycom13g07870 pycom16g07770
rosa_chinensis	RchiOBHm_Chr4g0444031 RchiOBHm_Chr7g0193881
rosa_laevigata	RLG00000004238 RLG00000005863
rosa_multiflora	Rmu_sc0015522.1_g000006
rosa_roxburghii	Rroxscaffold_3G00261760 Rroxscaffold_5G00384600
rosa_rugosa	Rorug04G0349100 Rorug07G0012500
rosa_samantha	Rh4AG409900 Rh4BG421000 Rh4CG435300 Rh4DG416200 Rh7AG139200 Rh7BG139600 Rh7CG143100 Rh7DG140700
rosa_wichuraiana	Rw4G035210 Rw7G011880

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AatII	GACGTC	1 cut(s)	1148
AccB7I	CCANNNNNTGG	1 cut(s)	1226
AciI	CCGC	7 cut(s)	63, 122, 498, 784, 1123, 1263, 1302
AclWI	GGATC	3 cut(s)	1187, 1200, 1215
AcoI	YGGCCR	1 cut(s)	266
AcsI	RAATTY	8 cut(s)	70, 501, 513, 587, 656, 870, 970, 1037
AcyI	GRCGYC	1 cut(s)	1145
AfaI	GTAC	6 cut(s)	16, 67, 77, 326, 668, 1056
AfiI	CCNNNNNNNGG	4 cut(s)	469, 957, 1172, 1226
AgsI	TTSAA	5 cut(s)	289, 311, 764, 1036, 1120
AhlI	ACTAGT	1 cut(s)	163
AjnI	CCWGG	6 cut(s)	202, 235, 268, 724, 787, 837
AluBI	AGCT	3 cut(s)	141, 736, 779
AluI	AGCT	3 cut(s)	141, 736, 779
Alw26I	GTCTC	3 cut(s)	172, 743, 1305
AlwI	GGATC	3 cut(s)	1187, 1200, 1215
Ama87I	CYCGRG	1 cut(s)	624
AoxI	GGCC	2 cut(s)	266, 722
ApeKI	GCWGC	4 cut(s)	50, 1064, 1162, 1260
ApoI	RAATTY	8 cut(s)	70, 501, 513, 587, 656, 870, 970, 1037
ArsI	GACNNNNNNTTYG	2 cut(s)	1226, 1258
AspS9I	GGNCC	2 cut(s)	619, 1238
AsuHPI	GGTGA	5 cut(s)	143, 781, 940, 1187, 1288
AsuII	TTCGAA	1 cut(s)	876
AvaI	CYCGRG	1 cut(s)	624
AvaII	GGWCC	2 cut(s)	619, 1238
BaeI	ACNNNNGTAYC	1 cut(s)	39
BalI	TGGCCA	1 cut(s)	268
BamHI	GGATCC	1 cut(s)	1192
BanII	GRGCYC	2 cut(s)	388, 1032
BarI	GAAGNNNNNNTAC	2 cut(s)	308, 340
BbvI	GCAGC	4 cut(s)	62, 1076, 1174, 1272
BccI	CCATC	9 cut(s)	234, 331, 374, 488, 641, 1087, 1198, 1220, 1228
BceAI	ACGGC	1 cut(s)	1273
BciT130I	CCWGG	6 cut(s)	204, 237, 270, 726, 789, 839
BciVI	GTATCC	1 cut(s)	605
BcoDI	GTCTC	3 cut(s)	172, 743, 1305
BcuI	ACTAGT	1 cut(s)	163
BfaI	CTAG	2 cut(s)	164, 1299
BfmI	CTRYAG	1 cut(s)	48
BfuI	GTATCC	1 cut(s)	605
BglII	AGATCT	1 cut(s)	300
BisI	GCNGC	4 cut(s)	51, 1065, 1163, 1261
BlsI	GCNGC	4 cut(s)	52, 1066, 1164, 1262
Bme1390I	CCNGG	6 cut(s)	204, 237, 270, 726, 789, 839
Bme18I	GGWCC	2 cut(s)	619, 1238
BmeT110I	CYCGRG	1 cut(s)	624
BmgT120I	GGNCC	2 cut(s)	619, 1238
BmiI	GGNNCC	3 cut(s)	385, 621, 1194
BmrFI	CCNGG	6 cut(s)	204, 237, 270, 726, 789, 839
BmrI	ACTGGG	1 cut(s)	316
BmsI	GCATC	2 cut(s)	679, 813
BmuI	ACTGGG	1 cut(s)	316
BplI	GAGNNNNNCTC	2 cut(s)	763, 795
BpmI	CTGGAG	2 cut(s)	810, 1170
Bpu14I	TTCGAA	1 cut(s)	876
BsaAI	YACGTR	1 cut(s)	967
BsaHI	GRCGYC	1 cut(s)	1145
BsaJI	CCNNGG	6 cut(s)	203, 269, 623, 787, 951, 1171
Bsc4I	CCNNNNNNNGG	4 cut(s)	469, 957, 1172, 1226
Bse1I	ACTGG	5 cut(s)	22, 260, 322, 771, 1190
BseBI	CCWGG	6 cut(s)	204, 237, 270, 726, 789, 839
BseDI	CCNNGG	6 cut(s)	203, 269, 623, 787, 951, 1171
BseGI	GGATG	8 cut(s)	214, 223, 245, 385, 412, 804, 1209, 1220
BseLI	CCNNNNNNNGG	4 cut(s)	469, 957, 1172, 1226
BseMII	CTCAG	4 cut(s)	151, 183, 219, 240
BseNI	ACTGG	5 cut(s)	22, 260, 322, 771, 1190
BseRI	GAGGAG	3 cut(s)	501, 504, 807
BseXI	GCAGC	4 cut(s)	62, 1076, 1174, 1272
BshFI	GGCC	2 cut(s)	268, 724
BsiHKCI	CYCGRG	1 cut(s)	624
BsiSI	CCGG	1 cut(s)	174
BslFI	GGGAC	2 cut(s)	304, 1141
BslI	CCNNNNNNNGG	4 cut(s)	469, 957, 1172, 1226
BsmAI	GTCTC	3 cut(s)	172, 743, 1305
BsmFI	GGGAC	2 cut(s)	304, 1141
BsnI	GGCC	2 cut(s)	268, 724
BsoBI	CYCGRG	1 cut(s)	624
Bsp119I	TTCGAA	1 cut(s)	876
Bsp1286I	GDGCHC	2 cut(s)	388, 1032
Bsp143I	GATC	5 cut(s)	133, 211, 300, 1192, 1207
BspACI	CCGC	7 cut(s)	63, 122, 498, 784, 1123, 1263, 1302
BspANI	GGCC	2 cut(s)	268, 724
BspCNI	CTCAG	4 cut(s)	150, 182, 220, 241
BspHI	TCATGA	1 cut(s)	730
BspLI	GGNNCC	3 cut(s)	385, 621, 1194
BspMAI	CTGCAG	1 cut(s)	52
BspPI	GGATC	3 cut(s)	1187, 1200, 1215
BspT104I	TTCGAA	1 cut(s)	876
BsrI	ACTGG	5 cut(s)	22, 260, 322, 771, 1190
BssECI	CCNNGG	6 cut(s)	203, 269, 623, 787, 951, 1171
BssMI	GATC	5 cut(s)	133, 211, 300, 1192, 1207
BssNI	GRCGYC	1 cut(s)	1145
BssT1I	CCWWGG	2 cut(s)	951, 1171
Bst2UI	CCWGG	6 cut(s)	204, 237, 270, 726, 789, 839
Bst4CI	ACNGT	1 cut(s)	1132
Bst6I	CTCTTC	3 cut(s)	2, 532, 639
BstACI	GRCGYC	1 cut(s)	1145
BstBAI	YACGTR	1 cut(s)	967
BstBI	TTCGAA	1 cut(s)	876
BstC8I	GCNNGC	2 cut(s)	276, 1167
BstDEI	CTNAG	5 cut(s)	116, 137, 169, 228, 249
BstF5I	GGATG	8 cut(s)	214, 223, 245, 385, 412, 804, 1209, 1220
BstKTI	GATC	5 cut(s)	136, 214, 303, 1195, 1210
BstMAI	GTCTC	3 cut(s)	172, 743, 1305
BstMBI	GATC	5 cut(s)	133, 211, 300, 1192, 1207
BstNI	CCWGG	6 cut(s)	204, 237, 270, 726, 789, 839
BstSCI	CCNGG	6 cut(s)	202, 235, 268, 724, 787, 837
BstSFI	CTRYAG	1 cut(s)	48
BstV1I	GCAGC	4 cut(s)	62, 1076, 1174, 1272
BstX2I	RGATCY	3 cut(s)	300, 1192, 1207
BstYI	RGATCY	3 cut(s)	300, 1192, 1207
BsuI	GTATCC	1 cut(s)	605
BsuRI	GGCC	2 cut(s)	268, 724
BtsCI	GGATG	8 cut(s)	214, 223, 245, 385, 412, 804, 1209, 1220
BtsIMutI	CAGTG	1 cut(s)	396
Cac8I	GCNNGC	2 cut(s)	276, 1167
CciI	TCATGA	1 cut(s)	730
Cfr13I	GGNCC	2 cut(s)	619, 1238
CseI	GACGC	1 cut(s)	713
Csp6I	GTAC	6 cut(s)	15, 66, 76, 325, 667, 1055
CspCI	CAANNNNNGTGG	2 cut(s)	681, 716
CviAII	CATG	7 cut(s)	41, 565, 638, 731, 799, 1060, 1287
CviQI	GTAC	6 cut(s)	15, 66, 76, 325, 667, 1055
DdeI	CTNAG	5 cut(s)	116, 137, 169, 228, 249
DpnI	GATC	5 cut(s)	135, 213, 302, 1194, 1209
DpnII	GATC	5 cut(s)	133, 211, 300, 1192, 1207
EaeI	YGGCCR	1 cut(s)	266
Eam1104I	CTCTTC	3 cut(s)	2, 532, 639
EarI	CTCTTC	3 cut(s)	2, 532, 639
EciI	GGCGGA	2 cut(s)	513, 773
Eco130I	CCWWGG	2 cut(s)	951, 1171
Eco147I	AGGCCT	1 cut(s)	724
Eco24I	GRGCYC	2 cut(s)	388, 1032
Eco32I	GATATC	2 cut(s)	148, 577
Eco47I	GGWCC	2 cut(s)	619, 1238
Eco88I	CYCGRG	1 cut(s)	624
EcoO109I	RGGNCCY	1 cut(s)	619
EcoRII	CCWGG	6 cut(s)	202, 235, 268, 724, 787, 837
EcoRV	GATATC	2 cut(s)	148, 577
EcoT14I	CCWWGG	2 cut(s)	951, 1171
EcoT22I	ATGCAT	1 cut(s)	42
EcoT38I	GRGCYC	2 cut(s)	388, 1032
ErhI	CCWWGG	2 cut(s)	951, 1171
FaeI	CATG	7 cut(s)	44, 568, 641, 734, 802, 1063, 1290
FaqI	GGGAC	2 cut(s)	304, 1141
FatI	CATG	7 cut(s)	40, 564, 637, 730, 798, 1059, 1286
FauI	CCCGC	1 cut(s)	1116
FauNDI	CATATG	2 cut(s)	358, 685
Fnu4HI	GCNGC	4 cut(s)	51, 1065, 1163, 1261
FokI	GGATG	8 cut(s)	210, 221, 252, 392, 419, 791, 1207, 1216
FriOI	GRGCYC	2 cut(s)	388, 1032
Fsp4HI	GCNGC	4 cut(s)	51, 1065, 1163, 1261
FspBI	CTAG	2 cut(s)	164, 1299
GluI	GCNGC	4 cut(s)	51, 1065, 1163, 1261
GsuI	CTGGAG	2 cut(s)	810, 1170
HaeIII	GGCC	2 cut(s)	268, 724
HapII	CCGG	1 cut(s)	174
HgaI	GACGC	1 cut(s)	713
Hin1I	GRCGYC	1 cut(s)	1145
Hin1II	CATG	7 cut(s)	44, 568, 641, 734, 802, 1063, 1290
HincII	GTYRAC	1 cut(s)	889
HindII	GTYRAC	1 cut(s)	889
HinfI	GANTC	5 cut(s)	44, 152, 232, 751, 795
HpaII	CCGG	1 cut(s)	174
HphI	GGTGA	5 cut(s)	143, 781, 940, 1187, 1288
Hpy166II	GTNNAC	3 cut(s)	703, 889, 1057
Hpy188I	TCNGA	4 cut(s)	250, 977, 1051, 1225
Hpy188III	TCNNGA	9 cut(s)	227, 377, 519, 596, 674, 731, 740, 1149, 1196
Hpy8I	GTNNAC	3 cut(s)	703, 889, 1057
Hpy99I	CGWCG	1 cut(s)	1238
HpyAV	CCTTC	7 cut(s)	283, 358, 671, 766, 844, 872, 1106
HpyCH4III	ACNGT	1 cut(s)	1132
HpyCH4IV	ACGT	4 cut(s)	78, 669, 966, 1145
HpyCH4V	TGCA	7 cut(s)	40, 50, 391, 692, 804, 857, 1141
HpyF3I	CTNAG	5 cut(s)	116, 137, 169, 228, 249
HpySE526I	ACGT	4 cut(s)	78, 669, 966, 1145
Hsp92I	GRCGYC	1 cut(s)	1145
Hsp92II	CATG	7 cut(s)	44, 568, 641, 734, 802, 1063, 1290
Kzo9I	GATC	5 cut(s)	133, 211, 300, 1192, 1207
LmnI	GCTCC	4 cut(s)	383, 455, 836, 953
Lsp1109I	GCAGC	4 cut(s)	62, 1076, 1174, 1272
LweI	GCATC	2 cut(s)	679, 813
MaeI	CTAG	2 cut(s)	164, 1299
MaeII	ACGT	4 cut(s)	78, 669, 966, 1145
MaeIII	GTNAC	4 cut(s)	22, 628, 1010, 1175
MalI	GATC	5 cut(s)	135, 213, 302, 1194, 1209
MboI	GATC	5 cut(s)	133, 211, 300, 1192, 1207
MboII	GAAGA	9 cut(s)	19, 107, 209, 431, 519, 626, 1102, 1105, 1287
MfeI	CAATTG	1 cut(s)	903
MflI	RGATCY	3 cut(s)	300, 1192, 1207
MhlI	GDGCHC	2 cut(s)	388, 1032
MlsI	TGGCCA	1 cut(s)	268
MluNI	TGGCCA	1 cut(s)	268
MlyI	GAGTC	3 cut(s)	146, 745, 804
MmeI	TCCRAC	1 cut(s)	1233
Mox20I	TGGCCA	1 cut(s)	268
Mph1103I	ATGCAT	1 cut(s)	42
MscI	TGGCCA	1 cut(s)	268
MseI	TTAA	5 cut(s)	81, 126, 506, 642, 996
MslI	CAYNNNNRTG	1 cut(s)	58
Msp20I	TGGCCA	1 cut(s)	268
MspA1I	CMGCKG	1 cut(s)	1263
MspI	CCGG	1 cut(s)	174
MspR9I	CCNGG	6 cut(s)	204, 237, 270, 726, 789, 839
MunI	CAATTG	1 cut(s)	903
MvaI	CCWGG	6 cut(s)	204, 237, 270, 726, 789, 839
NdeI	CATATG	2 cut(s)	358, 685
NdeII	GATC	5 cut(s)	133, 211, 300, 1192, 1207
NlaIII	CATG	7 cut(s)	44, 568, 641, 734, 802, 1063, 1290
NlaIV	GGNNCC	3 cut(s)	385, 621, 1194
NmuCI	GTSAC	1 cut(s)	1175
NsiI	ATGCAT	1 cut(s)	42
NspV	TTCGAA	1 cut(s)	876
PagI	TCATGA	1 cut(s)	730
PceI	AGGCCT	1 cut(s)	724
PcsI	WCGNNNNNNNCGW	1 cut(s)	1242
PfeI	GAWTC	2 cut(s)	44, 232
PflMI	CCANNNNNTGG	1 cut(s)	1226
PfoI	TCCNGGA	1 cut(s)	235
PkrI	GCNGC	4 cut(s)	52, 1066, 1164, 1262
PleI	GAGTC	3 cut(s)	146, 745, 803
PpsI	GAGTC	3 cut(s)	146, 745, 803
Ppu21I	YACGTR	1 cut(s)	967
PpuMI	RGGWCCY	1 cut(s)	619
Psp5II	RGGWCCY	1 cut(s)	619
Psp6I	CCWGG	6 cut(s)	202, 235, 268, 724, 787, 837
PspGI	CCWGG	6 cut(s)	202, 235, 268, 724, 787, 837
PspN4I	GGNNCC	3 cut(s)	385, 621, 1194
PspPI	GGNCC	2 cut(s)	619, 1238
PspPPI	RGGWCCY	1 cut(s)	619
PstI	CTGCAG	1 cut(s)	52
PsuI	RGATCY	3 cut(s)	300, 1192, 1207
RsaI	GTAC	6 cut(s)	16, 67, 77, 326, 668, 1056
RsaNI	GTAC	6 cut(s)	15, 66, 76, 325, 667, 1055
RseI	CAYNNNNRTG	1 cut(s)	58
SaqAI	TTAA	5 cut(s)	81, 126, 506, 642, 996
SatI	GCNGC	4 cut(s)	51, 1065, 1163, 1261
Sau3AI	GATC	5 cut(s)	133, 211, 300, 1192, 1207
Sau96I	GGNCC	2 cut(s)	619, 1238
SchI	GAGTC	3 cut(s)	146, 745, 804
ScrFI	CCNGG	6 cut(s)	204, 237, 270, 726, 789, 839
SduI	GDGCHC	2 cut(s)	388, 1032
SfaNI	GCATC	2 cut(s)	679, 813
SfcI	CTRYAG	1 cut(s)	48
SfuI	TTCGAA	1 cut(s)	876
SinI	GGWCC	2 cut(s)	619, 1238
SmiMI	CAYNNNNRTG	1 cut(s)	58
SpeI	ACTAGT	1 cut(s)	163
SseBI	AGGCCT	1 cut(s)	724
SsiI	CCGC	7 cut(s)	63, 122, 498, 784, 1123, 1263, 1302
SspMI	CTAG	2 cut(s)	164, 1299
StuI	AGGCCT	1 cut(s)	724
StyD4I	CCNGG	6 cut(s)	202, 235, 268, 724, 787, 837
StyI	CCWWGG	2 cut(s)	951, 1171
TaaI	ACNGT	1 cut(s)	1132
TaiI	ACGT	4 cut(s)	81, 672, 969, 1148
TaqI	TCGA	4 cut(s)	150, 520, 876, 1245
TfiI	GAWTC	2 cut(s)	44, 232
Tru1I	TTAA	5 cut(s)	81, 126, 506, 642, 996
Tru9I	TTAA	5 cut(s)	81, 126, 506, 642, 996
TscAI	CASTG	1 cut(s)	403
TseFI	GTSAC	1 cut(s)	1175
TseI	GCWGC	4 cut(s)	50, 1064, 1162, 1260
Tsp45I	GTSAC	1 cut(s)	1175
TspDTI	ATGAA	6 cut(s)	57, 123, 201, 210, 626, 861
TspGWI	ACGGA	2 cut(s)	1029, 1251
TspRI	CASTG	1 cut(s)	403
Van91I	CCANNNNNTGG	1 cut(s)	1226
VpaK11BI	GGWCC	2 cut(s)	619, 1238
XapI	RAATTY	8 cut(s)	70, 501, 513, 587, 656, 870, 970, 1037
XspI	CTAG	2 cut(s)	164, 1299
ZraI	GACGTC	1 cut(s)	1146
Zsp2I	ATGCAT	1 cut(s)	42

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