Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3A

Orthogroup ID

OG0010169

Physical Location & Seq

Genomic Coordinates Reverse (-)

42698667 .. 42699932

Gene Structure 1266 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3AG314800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1266 bp

ATGGGTGGGATTGATTATATGGGAGTCAAGAACAGTTCAGAGGAAGAGCCCTTAGCATTGAGCATTGTTTCTTCTGGAGGGTATGAGGATCATATACAGGATGGGAATGAGTTGATATATAGTGGCCAAGGTGGGAATGCCGGCAATGATAACAGGAAAGATAAGGAAATAAAGGATCAGAAGCTTGAAAGGGGTAATCTAGCTTTGGAGAAACGTTTGCATCGGGGTAATGATGTAAGAGTAATTTGGGGTGTTAAGGATGTTTCTAATCCAACTGGGAAGGTATATGTCTATGATGGTCTATACAAAATCCATGAATCATGGGTAGATAAAGGGAAGAGTGGTGGCAATGTATTCAAGTACAGATTGGTAAGATTACCTGGACAGCCTGAAGCGTTTACATTATGGAAATCAATTGAGCAATGGAAAGAAACAAATACTACAAGGGTTGGATTGATATTGCCAGATCTTACTTCAGGGGCAGAAACTTTTCCCGTTTCTCTTGTAAATGACGTAGATGGTGAGAAAGGCCCTGCACACTTTGCATATATTCCTAGTCTTAAGTATTCAAAACCTGTTAATCTTACAGAACCTACTGCTAGGTGTAATTGTACCAGTGGATGTCTCCCTGGTAATTCTAACTGCCCTTGCATTCAGAAAAATGGAGGTTATCTCCCATATACTGCAAATGGGCTTCTTGTGAACCAAAAATCCTTATTACATGAATGTGGTCCTTCCTGCACGTGCCCTCCTAATTGTCGTAATCGTGTGTCCCAAGGTGGCTTGAAAATTCGTTTGGAAGTGTTTAAGACTAAGGATAAAGGTTGGGGTTTGAGGTCCTGGGATCCCATCCGTGCTGGTGCTTTCATATGTGAGTATGCAGGGGAAGCTCTAGAAAAGCTTGGGGATGACCGTGCAGATGATTACTGTTTTGATGCTAATCGTACTTGTCAGCCACTGGGAGTTCTGCCTGGTGATTCTAATGAGACTCCAAATGTCCCTTTTCCTCTACTTATAAGTGCAAATACTGCTGGAAATGTTGCTCGCTTTATGAATCACAGCTGTTCTCCAAATGTGTTCTGGCAACCAATTTTACGTGAAAATAAAAATGAATCGGACTTACATGTTGCGTTTTATGCGGTTGGACGCATTCCTCCTATGACAGAGTTGACTTATGATTATGGGATGATCGCTCATGAGAAAGCATACCAGAGGAAGAAAATATGCCTTTGTGGGTCAATAAAGTGTAGAAGCTTCTTTTACTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

ko00260 ko00310 ko01100 ko04146 ko04211 map00260 map00310 map01100 map04146 map04211

Pfam Domains

Protein Families

AT_hook Pre-SET SAD_SRA SET

Protein Analysis

421

Amino Acids

46.64

Weight (kDa)

7.81

Isoelectric Point (pI)

35.0

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
SAD_SRA	PF02182	1 - 129	7e-38	SAD/SRA domain
Pre-SET	PF05033	159 - 256	1.2e-22	Pre-SET motif
SET	PF00856	275 - 395	1.8e-18	SET domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

Font Size (px)

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0010169)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G05900
fragaria_vesca	FvH4_7g07980
malus_domestica	MD00G1068300.v1.1 MD12G1112200.v1.1 MD14G1101300.v1.1
prunus_persica	Prupe.7G021100_v2.0.a1 Prupe.7G021100_v2.0.a1
pyrus_communis	pycom12g09140 pycom14g08780
rosa_chinensis	RchiOBHm_Chr3g0494321 RchiOBHm_Chr3g0494471
rosa_laevigata	RLG00000022673
rosa_multiflora	Rmu_sc0000152.1_g000010
rosa_roxburghii	Rroxscaffold_6G00391110
rosa_rugosa	Rorug03G0265400
rosa_samantha	Rh3AG314800 Rh3AG315600 Rh3BG350800 Rh3CG347500 Rh3DG350100
rosa_wichuraiana	Rw3G027550

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	1016
AciI	CCGC	1 cut(s)	1139
AclI	AACGTT	1 cut(s)	214
AclWI	GGATC	4 cut(s)	96, 183, 839, 852
AcoI	YGGCCR	1 cut(s)	124
AcsI	RAATTY	1 cut(s)	789
AcuI	CTGAAG	2 cut(s)	411, 459
AcvI	CACGTG	1 cut(s)	744
AfaI	GTAC	3 cut(s)	362, 613, 946
AflII	CTTAAG	1 cut(s)	560
AflIII	ACRYGT	1 cut(s)	1123
AgsI	TTSAA	4 cut(s)	188, 358, 570, 787
AjnI	CCWGG	4 cut(s)	379, 628, 839, 970
AjuI	GAANNNNNNNTTGG	2 cut(s)	779, 811
AloI	GAACNNNNNNTCC	2 cut(s)	695, 727
AluBI	AGCT	6 cut(s)	184, 203, 890, 901, 1062, 1254
AluI	AGCT	6 cut(s)	184, 203, 890, 901, 1062, 1254
Alw26I	GTCTC	2 cut(s)	629, 980
AlwI	GGATC	4 cut(s)	96, 183, 839, 852
AlwNI	CAGNNNCTG	1 cut(s)	958
AoxI	GGCC	2 cut(s)	124, 529
ApoI	RAATTY	1 cut(s)	789
Asp700I	GAANNNNTTC	1 cut(s)	489
AspS9I	GGNCC	3 cut(s)	530, 731, 837
AsuHPI	GGTGA	2 cut(s)	533, 986
AvaII	GGWCC	2 cut(s)	731, 837
BaeGI	GKGCMC	1 cut(s)	749
BalI	TGGCCA	1 cut(s)	126
BamHI	GGATCC	1 cut(s)	844
BanII	GRGCYC	1 cut(s)	51
BbrPI	CACGTG	1 cut(s)	744
BccI	CCATC	4 cut(s)	95, 290, 512, 857
BciT130I	CCWGG	4 cut(s)	381, 630, 841, 972
BcoDI	GTCTC	2 cut(s)	629, 980
BfaI	CTAG	4 cut(s)	200, 555, 600, 893
BfrI	CTTAAG	1 cut(s)	560
BglII	AGATCT	1 cut(s)	466
Bme1390I	CCNGG	4 cut(s)	381, 630, 841, 972
Bme18I	GGWCC	2 cut(s)	731, 837
BmgT120I	GGNCC	3 cut(s)	530, 731, 837
BmiI	GGNNCC	1 cut(s)	846
BmrFI	CCNGG	4 cut(s)	381, 630, 841, 972
BmrI	ACTGGG	2 cut(s)	285, 968
BmsI	GCATC	2 cut(s)	229, 925
BmuI	ACTGGG	2 cut(s)	285, 968
BplI	GAGNNNNNCTC	2 cut(s)	657, 689
BpmI	CTGGAG	1 cut(s)	96
Bpu10I	CCTNAGC	1 cut(s)	52
BsaAI	YACGTR	2 cut(s)	744, 1097
BsaBI	GATNNNNATC	1 cut(s)	939
BsaJI	CCNNGG	4 cut(s)	127, 628, 775, 840
BsaXI	ACNNNNNCTCC	2 cut(s)	733, 763
Bse118I	RCCGGY	1 cut(s)	140
Bse1I	ACTGG	3 cut(s)	280, 615, 963
Bse3DI	GCAATG	3 cut(s)	151, 355, 428
Bse8I	GATNNNNATC	1 cut(s)	939
BseBI	CCWGG	4 cut(s)	381, 630, 841, 972
BseDI	CCNNGG	4 cut(s)	127, 628, 775, 840
BseGI	GGATG	6 cut(s)	106, 265, 626, 849, 913, 1191
BseJI	GATNNNNATC	1 cut(s)	939
BseMI	GCAATG	3 cut(s)	151, 355, 428
BseNI	ACTGG	3 cut(s)	280, 615, 963
BseSI	GKGCMC	1 cut(s)	749
BsgI	GTGCAG	3 cut(s)	519, 724, 936
BshFI	GGCC	2 cut(s)	126, 531
BsiSI	CCGG	1 cut(s)	141
BslFI	GGGAC	2 cut(s)	757, 983
BsmAI	GTCTC	2 cut(s)	629, 980
BsmFI	GGGAC	2 cut(s)	757, 983
BsmI	GAATGC	3 cut(s)	142, 651, 1149
BsnI	GGCC	2 cut(s)	126, 531
Bsp1286I	GDGCHC	2 cut(s)	51, 749
Bsp143I	GATC	5 cut(s)	88, 175, 466, 844, 1188
BspACI	CCGC	1 cut(s)	1139
BspANI	GGCC	2 cut(s)	126, 531
BspHI	TCATGA	1 cut(s)	1195
BspLI	GGNNCC	1 cut(s)	846
BspPI	GGATC	4 cut(s)	96, 183, 839, 852
BspQI	GCTCTTC	1 cut(s)	39
BspTI	CTTAAG	1 cut(s)	560
BsrDI	GCAATG	3 cut(s)	151, 355, 428
BsrFI	RCCGGY	1 cut(s)	140
BsrI	ACTGG	3 cut(s)	280, 615, 963
BssAI	RCCGGY	1 cut(s)	140
BssECI	CCNNGG	4 cut(s)	127, 628, 775, 840
BssMI	GATC	5 cut(s)	88, 175, 466, 844, 1188
BssT1I	CCWWGG	2 cut(s)	127, 775
Bst2UI	CCWGG	4 cut(s)	381, 630, 841, 972
Bst4CI	ACNGT	3 cut(s)	35, 914, 929
Bst6I	CTCTTC	2 cut(s)	39, 332
BstAFI	CTTAAG	1 cut(s)	560
BstAPI	GCANNNNNTGC	2 cut(s)	542, 1028
BstBAI	YACGTR	2 cut(s)	744, 1097
BstC8I	GCNNGC	2 cut(s)	142, 1045
BstDEI	CTNAG	2 cut(s)	52, 813
BstF5I	GGATG	6 cut(s)	106, 265, 626, 849, 913, 1191
BstKTI	GATC	5 cut(s)	91, 178, 469, 847, 1191
BstMAI	GTCTC	2 cut(s)	629, 980
BstMBI	GATC	5 cut(s)	88, 175, 466, 844, 1188
BstMWI	GCNNNNNNNGC	4 cut(s)	542, 887, 1028, 1136
BstNI	CCWGG	4 cut(s)	381, 630, 841, 972
BstNSI	RCATGY	1 cut(s)	1127
BstSCI	CCNGG	4 cut(s)	379, 628, 839, 970
BstSLI	GKGCMC	1 cut(s)	749
BstX2I	RGATCY	2 cut(s)	466, 844
BstYI	RGATCY	2 cut(s)	466, 844
BsuRI	GGCC	2 cut(s)	126, 531
BtsCI	GGATG	6 cut(s)	106, 265, 626, 849, 913, 1191
BtsIMutI	CAGTG	2 cut(s)	622, 956
Cac8I	GCNNGC	2 cut(s)	142, 1045
CaiI	CAGNNNCTG	1 cut(s)	958
CciI	TCATGA	1 cut(s)	1195
Cfr10I	RCCGGY	1 cut(s)	140
Cfr13I	GGNCC	3 cut(s)	530, 731, 837
CseI	GACGC	1 cut(s)	1155
Csp6I	GTAC	3 cut(s)	361, 612, 945
CviAII	CATG	5 cut(s)	314, 321, 722, 1124, 1196
CviQI	GTAC	3 cut(s)	361, 612, 945
DdeI	CTNAG	2 cut(s)	52, 813
DpnI	GATC	5 cut(s)	90, 177, 468, 846, 1190
DpnII	GATC	5 cut(s)	88, 175, 466, 844, 1188
EaeI	YGGCCR	1 cut(s)	124
Eam1104I	CTCTTC	2 cut(s)	39, 332
EarI	CTCTTC	2 cut(s)	39, 332
Eco130I	CCWWGG	2 cut(s)	127, 775
Eco24I	GRGCYC	1 cut(s)	51
Eco47I	GGWCC	2 cut(s)	731, 837
Eco57I	CTGAAG	2 cut(s)	411, 459
Eco72I	CACGTG	1 cut(s)	744
EcoO109I	RGGNCCY	2 cut(s)	530, 837
EcoRII	CCWGG	4 cut(s)	379, 628, 839, 970
EcoT14I	CCWWGG	2 cut(s)	127, 775
EcoT38I	GRGCYC	1 cut(s)	51
ErhI	CCWWGG	2 cut(s)	127, 775
FaeI	CATG	5 cut(s)	317, 324, 725, 1127, 1199
FaqI	GGGAC	2 cut(s)	757, 983
FatI	CATG	5 cut(s)	313, 320, 721, 1123, 1195
FauNDI	CATATG	1 cut(s)	869
FokI	GGATG	6 cut(s)	113, 272, 633, 836, 920, 1198
FriOI	GRGCYC	1 cut(s)	51
FspBI	CTAG	4 cut(s)	200, 555, 600, 893
GsuI	CTGGAG	1 cut(s)	96
HaeIII	GGCC	2 cut(s)	126, 531
HapII	CCGG	1 cut(s)	141
HgaI	GACGC	1 cut(s)	1155
Hin1II	CATG	5 cut(s)	317, 324, 725, 1127, 1199
HincII	GTYRAC	1 cut(s)	1170
HindII	GTYRAC	1 cut(s)	1170
HindIII	AAGCTT	3 cut(s)	182, 899, 1252
HinfI	GANTC	6 cut(s)	24, 317, 977, 988, 1054, 1112
HpaII	CCGG	1 cut(s)	141
HphI	GGTGA	2 cut(s)	533, 986
Hpy166II	GTNNAC	3 cut(s)	399, 703, 1170
Hpy188I	TCNGA	4 cut(s)	40, 180, 657, 1117
Hpy188III	TCNNGA	4 cut(s)	28, 75, 893, 1196
Hpy8I	GTNNAC	3 cut(s)	399, 703, 1170
HpyAV	CCTTC	2 cut(s)	274, 744
HpyCH4III	ACNGT	3 cut(s)	35, 914, 929
HpyCH4IV	ACGT	4 cut(s)	214, 513, 743, 1096
HpyCH4V	TGCA	9 cut(s)	220, 536, 545, 651, 686, 741, 881, 917, 1022
HpyF10VI	GCNNNNNNNGC	4 cut(s)	542, 887, 1028, 1136
HpyF3I	CTNAG	2 cut(s)	52, 813
HpySE526I	ACGT	4 cut(s)	214, 513, 743, 1096
Hsp92II	CATG	5 cut(s)	317, 324, 725, 1127, 1199
KroI	GCCGGC	1 cut(s)	140
KroNI	GCCGGC	1 cut(s)	142
Kzo9I	GATC	5 cut(s)	88, 175, 466, 844, 1188
LguI	GCTCTTC	1 cut(s)	39
LweI	GCATC	2 cut(s)	229, 925
MaeI	CTAG	4 cut(s)	200, 555, 600, 893
MaeII	ACGT	4 cut(s)	214, 513, 743, 1096
MalI	GATC	5 cut(s)	90, 177, 468, 846, 1190
MboI	GATC	5 cut(s)	88, 175, 466, 844, 1188
MboII	GAAGA	4 cut(s)	56, 63, 349, 1228
MfeI	CAATTG	1 cut(s)	414
MflI	RGATCY	2 cut(s)	466, 844
MhlI	GDGCHC	2 cut(s)	51, 749
MlsI	TGGCCA	1 cut(s)	126
MluCI	AATT	7 cut(s)	243, 414, 607, 634, 754, 789, 1089
MluNI	TGGCCA	1 cut(s)	126
MlyI	GAGTC	2 cut(s)	33, 982
MmeI	TCCRAC	3 cut(s)	296, 430, 1123
MnlI	CCTC	9 cut(s)	34, 71, 79, 659, 759, 828, 1017, 1164, 1206
Mox20I	TGGCCA	1 cut(s)	126
MroNI	GCCGGC	1 cut(s)	140
MroXI	GAANNNNTTC	1 cut(s)	489
MscI	TGGCCA	1 cut(s)	126
MseI	TTAA	4 cut(s)	255, 561, 579, 807
MslI	CAYNNNNRTG	1 cut(s)	726
Msp20I	TGGCCA	1 cut(s)	126
MspA1I	CMGCKG	1 cut(s)	1062
MspCI	CTTAAG	1 cut(s)	560
MspI	CCGG	1 cut(s)	141
MspR9I	CCNGG	4 cut(s)	381, 630, 841, 972
MunI	CAATTG	1 cut(s)	414
Mva1269I	GAATGC	3 cut(s)	142, 651, 1149
MvaI	CCWGG	4 cut(s)	381, 630, 841, 972
MwoI	GCNNNNNNNGC	4 cut(s)	542, 887, 1028, 1136
NaeI	GCCGGC	1 cut(s)	142
NdeI	CATATG	1 cut(s)	869
NdeII	GATC	5 cut(s)	88, 175, 466, 844, 1188
NgoMIV	GCCGGC	1 cut(s)	140
NlaIII	CATG	5 cut(s)	317, 324, 725, 1127, 1199
NlaIV	GGNNCC	1 cut(s)	846
NspI	RCATGY	1 cut(s)	1127
PagI	TCATGA	1 cut(s)	1195
PciI	ACATGT	1 cut(s)	1123
PciSI	GCTCTTC	1 cut(s)	39
PctI	GAATGC	3 cut(s)	142, 651, 1149
PdiI	GCCGGC	1 cut(s)	142
PdmI	GAANNNNTTC	1 cut(s)	489
PfeI	GAWTC	4 cut(s)	317, 977, 1054, 1112
PleI	GAGTC	2 cut(s)	32, 982
PmaCI	CACGTG	1 cut(s)	744
PmlI	CACGTG	1 cut(s)	744
PpsI	GAGTC	2 cut(s)	32, 982
Ppu21I	YACGTR	2 cut(s)	744, 1097
PpuMI	RGGWCCY	1 cut(s)	837
PscI	ACATGT	1 cut(s)	1123
PsiI	TTATAA	1 cut(s)	1016
Psp1406I	AACGTT	1 cut(s)	214
Psp5II	RGGWCCY	1 cut(s)	837
Psp6I	CCWGG	4 cut(s)	379, 628, 839, 970
PspCI	CACGTG	1 cut(s)	744
PspGI	CCWGG	4 cut(s)	379, 628, 839, 970
PspN4I	GGNNCC	1 cut(s)	846
PspPI	GGNCC	3 cut(s)	530, 731, 837
PspPPI	RGGWCCY	1 cut(s)	837
PstNI	CAGNNNCTG	1 cut(s)	958
PsuI	RGATCY	2 cut(s)	466, 844
PvuII	CAGCTG	1 cut(s)	1062
RsaI	GTAC	3 cut(s)	362, 613, 946
RsaNI	GTAC	3 cut(s)	361, 612, 945
RseI	CAYNNNNRTG	1 cut(s)	726
SapI	GCTCTTC	1 cut(s)	39
SaqAI	TTAA	4 cut(s)	255, 561, 579, 807
Sau3AI	GATC	5 cut(s)	88, 175, 466, 844, 1188
Sau96I	GGNCC	3 cut(s)	530, 731, 837
SchI	GAGTC	2 cut(s)	33, 982
ScrFI	CCNGG	4 cut(s)	381, 630, 841, 972
SduI	GDGCHC	2 cut(s)	51, 749
SfaNI	GCATC	2 cut(s)	229, 925
SinI	GGWCC	2 cut(s)	731, 837
SmiMI	CAYNNNNRTG	1 cut(s)	726
SmlI	CTYRAG	1 cut(s)	560
SmoI	CTYRAG	1 cut(s)	560
Sse9I	AATT	7 cut(s)	243, 414, 607, 634, 754, 789, 1089
SsiI	CCGC	1 cut(s)	1139
SspMI	CTAG	4 cut(s)	200, 555, 600, 893
StyD4I	CCNGG	4 cut(s)	379, 628, 839, 970
StyI	CCWWGG	2 cut(s)	127, 775
TaaI	ACNGT	3 cut(s)	35, 914, 929
TaiI	ACGT	4 cut(s)	217, 516, 746, 1099
TasI	AATT	7 cut(s)	243, 414, 607, 634, 754, 789, 1089
TatI	WGTACW	1 cut(s)	360
TfiI	GAWTC	4 cut(s)	317, 977, 1054, 1112
Tru1I	TTAA	4 cut(s)	255, 561, 579, 807
Tru9I	TTAA	4 cut(s)	255, 561, 579, 807
TscAI	CASTG	2 cut(s)	622, 963
TspDTI	ATGAA	5 cut(s)	330, 738, 856, 1067, 1125
TspGWI	ACGGA	1 cut(s)	842
TspRI	CASTG	2 cut(s)	622, 963
Vha464I	CTTAAG	1 cut(s)	560
VpaK11BI	GGWCC	2 cut(s)	731, 837
XapI	RAATTY	1 cut(s)	789
XbaI	TCTAGA	1 cut(s)	892
XceI	RCATGY	1 cut(s)	1127
XcmI	CCANNNNNNNNNTGG	1 cut(s)	1077
XmnI	GAANNNNTTC	1 cut(s)	489
XspI	CTAG	4 cut(s)	200, 555, 600, 893

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