Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3D

Orthogroup ID

OG0004828

Physical Location & Seq

Genomic Coordinates Reverse (-)

17542597 .. 17546967

Gene Structure 4371 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3DG195500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1221 bp

ATGGAGGCTGGAAGGCATTTTCTTTCTTCATCTTCAGCATTTCCATCAACAACCCAACTCAGGCATCCTCTTCCTCCTCCTTCTCCTTCTACTACTTCAGTCTTGATGCTTCATGAGCAAGCAGCTCCTGCAGTTACTTCTCTGCCAACTACATTTATAACTCGACATTTTCCTACTTCAGTTCTTATACAAGAGCAGCGCGATGAGTTCAAGCCTCTATTGCACATATTTAAGGAAGAGAAACCATCTCAGGCCACATTAGATCGGATGCAGATAGAGAATACCACTGCTGAGGAAGATTTCAACATTGATGACTTTTACAAGTTGGTCAAAGACTTTCGCCAGTTGCATGTTTTACCCTTACAAACAGGTGAAAATTCATCCACCACTTTGGCTTCGAAGTCTAATACCATTGCTACTGAGCATATGGCTGTTGAGCCATGTGATGTATTGTCCCTAGCTAAAAATGCTTTGTCGGCCTCAATAGAAGCAGCCTCTTTAGCTGAAAGCTCCAACTCGATCGGAGCTGCTTTTAATGAGTCTATTTCTATGGGTTTGGGGTGGGAAGAGGAAACTTTAAGGTCAACCCGACTTCTAGAGAGGCGGCGCAAGCGACTTAAGAAAAGGAATTTGCTTAACTCAAAAGTTCCAATTCATGAGACTAGCAGTTATAGAAGTTCAGATGTACGGAGAAAATCTAGTGATGGATTAAATCCTAATGATCCCCTGCGATTATTCTTGTGGGGACCTGAAACGAGACAACTTTTGACACTTAAAGAAGAGACTGAGTTGATTTCCCGAGTTCAGGATGTATTCGAGTTAGAAGCGGTGAAGAGTAGACTTCAATCTCAATATGGCCGTGAACCAACTTTGGTTGAATGGGCTGAAGCTGTTGGTATTAGTTGTCGGATGTTGCAATCACAACTTCACTCTGGTACCAGCAGCCGTGAAAAGTTGATATATGCCAACTTACGTATGGTGGTGCACATTGCTAAACAATATCAAGGGAGAGGTCTTGGCCTTCAGGATTTACTGCAGGAGGGAAGTATGGGTCTAATGAAAAGTGTTGAGAAATTCAAACCCCAAGCTGGTTGCCGATTTGCTACTTATGCATACTGGTGGGTGAGACAAACAATTAGGAAGGCCATATTTCAACATTCCAGGACTATCCGCTTGCCGGTAATAACCATCTTTATCACTTCTCTGGTCTTCAATTTATAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Sigma70_r2 Sigma70_r3 Sigma70_r4

Protein Analysis

406

Amino Acids

45.96

Weight (kDa)

9.14

Isoelectric Point (pI)

58.07

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Sigma70_r2	PF04542	320 - 389	2.3e-18	Sigma-70 region 2

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: OG0004828)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G36990
fragaria_vesca	FvH4_6g16180 FvH4_6g16180 FvH4_6g16180 FvH4_6g16180 FvH4_6g16180 FvH4_6g16180
malus_domestica	MD12G1115000.v1.1
prunus_persica	Prupe.6G234100_v2.0.a1 Prupe.6G234100_v2.0.a1 Prupe.6G234100_v2.0.a1 Prupe.6G234100_v2.0.a1 Prupe.6G234100_v2.0.a1 Prupe.6G234100_v2.0.a1
pyrus_communis	pycom04g09010 pycom12g11420
rosa_chinensis	RchiOBHm_Chr3g0470031
rosa_laevigata	RLG00000024302
rosa_multiflora	Rmu_co8112822.1_g000001 Rmu_co8234937.1_g000001 Rmu_sc0017440.1_g000004 Rmu_sc0032107.1_g000001
rosa_roxburghii	Rroxscaffold_6G00411270
rosa_rugosa	Rorug03G0106100 Rorug03G0106100 Rorug03G0106200
rosa_samantha	Rh3AG155500 Rh3BG179600 Rh3CG170200 Rh3DG195500
rosa_wichuraiana	Rw3G014640

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	2 cut(s)	158, 1219
Acc65I	GGTACC	1 cut(s)	935
AccB1I	GGYRCC	1 cut(s)	935
AccI	GTMKAC	1 cut(s)	838
AccII	CGCG	1 cut(s)	201
AciI	CCGC	3 cut(s)	604, 827, 1171
AclWI	GGATC	1 cut(s)	716
AcoI	YGGCCR	1 cut(s)	856
AcsI	RAATTY	3 cut(s)	376, 628, 1073
AcuI	CTGAAG	5 cut(s)	18, 81, 162, 906, 1007
AfaI	GTAC	2 cut(s)	687, 937
AfiI	CCNNNNNNNGG	4 cut(s)	60, 805, 1088, 1177
AflII	CTTAAG	1 cut(s)	617
AgsI	TTSAA	7 cut(s)	211, 304, 845, 878, 1078, 1154, 1213
AjnI	CCWGG	1 cut(s)	1160
AluBI	AGCT	7 cut(s)	125, 461, 503, 510, 527, 890, 1088
AluI	AGCT	7 cut(s)	125, 461, 503, 510, 527, 890, 1088
Alw21I	GWGCWC	1 cut(s)	987
Alw26I	GTCTC	4 cut(s)	653, 751, 776, 1120
Alw44I	GTGCAC	1 cut(s)	983
AlwI	GGATC	1 cut(s)	716
AlwNI	CAGNNNCTG	1 cut(s)	128
Ama87I	CYCGRG	1 cut(s)	798
AoxI	GGCC	5 cut(s)	252, 477, 856, 1018, 1143
ApaLI	GTGCAC	1 cut(s)	983
ApeKI	GCWGC	5 cut(s)	122, 196, 491, 527, 942
ApoI	RAATTY	3 cut(s)	376, 628, 1073
Asp718I	GGTACC	1 cut(s)	935
AspLEI	GCGC	2 cut(s)	201, 609
AspS9I	GGNCC	1 cut(s)	746
AsuHPI	GGTGA	3 cut(s)	383, 841, 1135
AsuII	TTCGAA	1 cut(s)	398
AvaI	CYCGRG	1 cut(s)	798
AvaII	GGWCC	1 cut(s)	746
BaeGI	GKGCMC	1 cut(s)	987
BaeI	ACNNNNGTAYC	2 cut(s)	919, 952
BanI	GGYRCC	1 cut(s)	935
BbsI	GAAGAC	1 cut(s)	1201
Bbv12I	GWGCWC	1 cut(s)	987
BbvCI	CCTCAGC	1 cut(s)	291
BbvI	GCAGC	5 cut(s)	134, 208, 503, 514, 954
BccI	CCATC	4 cut(s)	52, 253, 698, 1196
BceAI	ACGGC	2 cut(s)	843, 930
BciT130I	CCWGG	1 cut(s)	1162
BcoDI	GTCTC	4 cut(s)	653, 751, 776, 1120
BfaI	CTAG	4 cut(s)	458, 596, 663, 699
BfmI	CTRYAG	2 cut(s)	129, 1034
BfrI	CTTAAG	1 cut(s)	617
BisI	GCNGC	6 cut(s)	123, 197, 492, 528, 605, 943
BlsI	GCNGC	6 cut(s)	124, 198, 493, 529, 606, 944
Bme1390I	CCNGG	1 cut(s)	1162
Bme18I	GGWCC	1 cut(s)	746
BmeT110I	CYCGRG	1 cut(s)	798
BmgT120I	GGNCC	1 cut(s)	746
BmiI	GGNNCC	2 cut(s)	747, 937
BmrFI	CCNGG	1 cut(s)	1162
BmsI	GCATC	3 cut(s)	73, 96, 258
BpiI	GAAGAC	1 cut(s)	1201
Bpu10I	CCTNAGC	1 cut(s)	291
Bpu14I	TTCGAA	1 cut(s)	398
BsaAI	YACGTR	1 cut(s)	974
Bsc4I	CCNNNNNNNGG	4 cut(s)	60, 805, 1088, 1177
Bse118I	RCCGGY	1 cut(s)	1177
Bse1I	ACTGG	2 cut(s)	343, 1121
Bse3DI	GCAATG	2 cut(s)	411, 987
BseBI	CCWGG	1 cut(s)	1162
BseGI	GGATG	5 cut(s)	64, 273, 380, 814, 915
BseLI	CCNNNNNNNGG	4 cut(s)	60, 805, 1088, 1177
BseMI	GCAATG	2 cut(s)	411, 987
BseMII	CTCAG	5 cut(s)	73, 263, 282, 411, 777
BseNI	ACTGG	2 cut(s)	343, 1121
BseRI	GAGGAG	1 cut(s)	66
BseSI	GKGCMC	1 cut(s)	987
BseXI	GCAGC	5 cut(s)	134, 208, 503, 514, 954
Bsh1236I	CGCG	1 cut(s)	201
Bsh1285I	CGRYCG	1 cut(s)	522
BshFI	GGCC	5 cut(s)	254, 479, 858, 1020, 1145
BshNI	GGYRCC	1 cut(s)	935
BsiEI	CGRYCG	1 cut(s)	522
BsiHKAI	GWGCWC	1 cut(s)	987
BsiHKCI	CYCGRG	1 cut(s)	798
BsiSI	CCGG	1 cut(s)	1178
BslFI	GGGAC	2 cut(s)	439, 759
BslI	CCNNNNNNNGG	4 cut(s)	60, 805, 1088, 1177
BsmAI	GTCTC	4 cut(s)	653, 751, 776, 1120
BsmFI	GGGAC	2 cut(s)	439, 759
BsnI	GGCC	5 cut(s)	254, 479, 858, 1020, 1145
BsoBI	CYCGRG	1 cut(s)	798
Bsp119I	TTCGAA	1 cut(s)	398
Bsp1286I	GDGCHC	1 cut(s)	987
Bsp143I	GATC	3 cut(s)	262, 519, 721
BspACI	CCGC	3 cut(s)	604, 827, 1171
BspANI	GGCC	5 cut(s)	254, 479, 858, 1020, 1145
BspCNI	CTCAG	5 cut(s)	72, 262, 283, 412, 778
BspFNI	CGCG	1 cut(s)	201
BspHI	TCATGA	2 cut(s)	112, 655
BspLI	GGNNCC	2 cut(s)	747, 937
BspMAI	CTGCAG	2 cut(s)	133, 1038
BspPI	GGATC	1 cut(s)	716
BspT104I	TTCGAA	1 cut(s)	398
BspT107I	GGYRCC	1 cut(s)	935
BspTI	CTTAAG	1 cut(s)	617
BsrDI	GCAATG	2 cut(s)	411, 987
BsrFI	RCCGGY	1 cut(s)	1177
BsrI	ACTGG	2 cut(s)	343, 1121
BssAI	RCCGGY	1 cut(s)	1177
BssMI	GATC	3 cut(s)	262, 519, 721
Bst2UI	CCWGG	1 cut(s)	1162
Bst6I	CTCTTC	5 cut(s)	75, 231, 561, 774, 827
BstAFI	CTTAAG	1 cut(s)	617
BstAPI	GCANNNNNTGC	1 cut(s)	128
BstBAI	YACGTR	1 cut(s)	974
BstBI	TTCGAA	1 cut(s)	398
BstC8I	GCNNGC	3 cut(s)	120, 611, 1175
BstDEI	CTNAG	5 cut(s)	59, 249, 291, 420, 786
BstF5I	GGATG	5 cut(s)	64, 273, 380, 814, 915
BstFNI	CGCG	1 cut(s)	201
BstHHI	GCGC	2 cut(s)	201, 609
BstKTI	GATC	3 cut(s)	265, 522, 724
BstMAI	GTCTC	4 cut(s)	653, 751, 776, 1120
BstMBI	GATC	3 cut(s)	262, 519, 721
BstMCI	CGRYCG	1 cut(s)	522
BstMWI	GCNNNNNNNGC	8 cut(s)	115, 128, 220, 467, 476, 500, 610, 1109
BstNI	CCWGG	1 cut(s)	1162
BstNSI	RCATGY	1 cut(s)	353
BstSCI	CCNGG	1 cut(s)	1160
BstSFI	CTRYAG	2 cut(s)	129, 1034
BstSLI	GKGCMC	1 cut(s)	987
BstSNI	TACGTA	1 cut(s)	974
BstUI	CGCG	1 cut(s)	201
BstV1I	GCAGC	5 cut(s)	134, 208, 503, 514, 954
BstV2I	GAAGAC	1 cut(s)	1201
BstXI	CCANNNNNNTGG	1 cut(s)	391
BsuRI	GGCC	5 cut(s)	254, 479, 858, 1020, 1145
BtgZI	GCGATG	1 cut(s)	216
BtsCI	GGATG	5 cut(s)	64, 273, 380, 814, 915
BtsI	GCAGTG	1 cut(s)	285
BtsIMutI	CAGTG	1 cut(s)	285
Cac8I	GCNNGC	3 cut(s)	120, 611, 1175
CaiI	CAGNNNCTG	1 cut(s)	128
CciI	TCATGA	2 cut(s)	112, 655
CfoI	GCGC	2 cut(s)	201, 609
Cfr10I	RCCGGY	1 cut(s)	1177
Cfr13I	GGNCC	1 cut(s)	746
Csp6I	GTAC	2 cut(s)	686, 936
CviAII	CATG	4 cut(s)	113, 350, 441, 656
CviQI	GTAC	2 cut(s)	686, 936
DdeI	CTNAG	5 cut(s)	59, 249, 291, 420, 786
DpnI	GATC	3 cut(s)	264, 521, 723
DpnII	GATC	3 cut(s)	262, 519, 721
EaeI	YGGCCR	1 cut(s)	856
Eam1104I	CTCTTC	5 cut(s)	75, 231, 561, 774, 827
EarI	CTCTTC	5 cut(s)	75, 231, 561, 774, 827
Eco105I	TACGTA	1 cut(s)	974
Eco47I	GGWCC	1 cut(s)	746
Eco57I	CTGAAG	5 cut(s)	18, 81, 162, 906, 1007
Eco88I	CYCGRG	1 cut(s)	798
EcoO109I	RGGNCCY	1 cut(s)	746
EcoRII	CCWGG	1 cut(s)	1160
EcoT22I	ATGCAT	1 cut(s)	1114
FaeI	CATG	4 cut(s)	116, 353, 444, 659
FaqI	GGGAC	2 cut(s)	439, 759
FatI	CATG	4 cut(s)	112, 349, 440, 655
FauNDI	CATATG	1 cut(s)	426
FblI	GTMKAC	1 cut(s)	838
Fnu4HI	GCNGC	6 cut(s)	123, 197, 492, 528, 605, 943
FokI	GGATG	5 cut(s)	51, 280, 367, 821, 922
Fsp4HI	GCNGC	6 cut(s)	123, 197, 492, 528, 605, 943
FspBI	CTAG	4 cut(s)	458, 596, 663, 699
GlaI	GCGC	2 cut(s)	200, 608
GluI	GCNGC	6 cut(s)	123, 197, 492, 528, 605, 943
HaeIII	GGCC	5 cut(s)	254, 479, 858, 1020, 1145
HapII	CCGG	1 cut(s)	1178
HhaI	GCGC	2 cut(s)	201, 609
Hin1II	CATG	4 cut(s)	116, 353, 444, 659
Hin6I	GCGC	2 cut(s)	199, 607
HinP1I	GCGC	2 cut(s)	199, 607
HincII	GTYRAC	1 cut(s)	585
HindII	GTYRAC	1 cut(s)	585
HinfI	GANTC	1 cut(s)	539
HpaII	CCGG	1 cut(s)	1178
HphI	GGTGA	3 cut(s)	383, 841, 1135
Hpy166II	GTNNAC	4 cut(s)	585, 839, 863, 985
Hpy188I	TCNGA	4 cut(s)	267, 524, 682, 909
Hpy188III	TCNNGA	7 cut(s)	103, 113, 596, 656, 798, 806, 1025
Hpy8I	GTNNAC	4 cut(s)	585, 839, 863, 985
HpyAV	CCTTC	5 cut(s)	6, 90, 96, 1031, 1135
HpyCH4IV	ACGT	1 cut(s)	973
HpyCH4V	TGCA	8 cut(s)	131, 223, 271, 349, 916, 985, 1036, 1112
HpyF10VI	GCNNNNNNNGC	8 cut(s)	115, 128, 220, 467, 476, 500, 610, 1109
HpyF3I	CTNAG	5 cut(s)	59, 249, 291, 420, 786
HpySE526I	ACGT	1 cut(s)	973
Hsp92II	CATG	4 cut(s)	116, 353, 444, 659
HspAI	GCGC	2 cut(s)	199, 607
KpnI	GGTACC	1 cut(s)	939
Kzo9I	GATC	3 cut(s)	262, 519, 721
LmnI	GCTCC	3 cut(s)	130, 515, 524
Lsp1109I	GCAGC	5 cut(s)	134, 208, 503, 514, 954
LweI	GCATC	3 cut(s)	73, 96, 258
MaeI	CTAG	4 cut(s)	458, 596, 663, 699
MaeII	ACGT	1 cut(s)	973
MaeIII	GTNAC	1 cut(s)	133
MalI	GATC	3 cut(s)	264, 521, 723
MboI	GATC	3 cut(s)	262, 519, 721
MboII	GAAGA	9 cut(s)	18, 24, 62, 248, 308, 578, 791, 844, 1201
MhlI	GDGCHC	1 cut(s)	987
MluCI	AATT	6 cut(s)	376, 628, 651, 1073, 1134, 1213
MlyI	GAGTC	1 cut(s)	548
MmeI	TCCRAC	2 cut(s)	537, 887
Mph1103I	ATGCAT	1 cut(s)	1114
MseI	TTAA	7 cut(s)	231, 534, 578, 618, 636, 710, 774
MslI	CAYNNNNRTG	1 cut(s)	1117
MspCI	CTTAAG	1 cut(s)	617
MspI	CCGG	1 cut(s)	1178
MspR9I	CCNGG	1 cut(s)	1162
MvaI	CCWGG	1 cut(s)	1162
MvnI	CGCG	1 cut(s)	201
MwoI	GCNNNNNNNGC	8 cut(s)	115, 128, 220, 467, 476, 500, 610, 1109
NdeI	CATATG	1 cut(s)	426
NdeII	GATC	3 cut(s)	262, 519, 721
NlaIII	CATG	4 cut(s)	116, 353, 444, 659
NlaIV	GGNNCC	2 cut(s)	747, 937
NsiI	ATGCAT	1 cut(s)	1114
NspI	RCATGY	1 cut(s)	353
NspV	TTCGAA	1 cut(s)	398
PagI	TCATGA	2 cut(s)	112, 655
PfoI	TCCNGGA	1 cut(s)	1160
PkrI	GCNGC	6 cut(s)	124, 198, 493, 529, 606, 944
Ple19I	CGATCG	1 cut(s)	522
PleI	GAGTC	1 cut(s)	547
PpsI	GAGTC	1 cut(s)	547
Ppu21I	YACGTR	1 cut(s)	974
PpuMI	RGGWCCY	1 cut(s)	746
PsiI	TTATAA	2 cut(s)	158, 1219
Psp5II	RGGWCCY	1 cut(s)	746
Psp6I	CCWGG	1 cut(s)	1160
PspGI	CCWGG	1 cut(s)	1160
PspN4I	GGNNCC	2 cut(s)	747, 937
PspPI	GGNCC	1 cut(s)	746
PspPPI	RGGWCCY	1 cut(s)	746
PstI	CTGCAG	2 cut(s)	133, 1038
PstNI	CAGNNNCTG	1 cut(s)	128
PvuI	CGATCG	1 cut(s)	522
RsaI	GTAC	2 cut(s)	687, 937
RsaNI	GTAC	2 cut(s)	686, 936
RseI	CAYNNNNRTG	1 cut(s)	1117
SaqAI	TTAA	7 cut(s)	231, 534, 578, 618, 636, 710, 774
SatI	GCNGC	6 cut(s)	123, 197, 492, 528, 605, 943
Sau3AI	GATC	3 cut(s)	262, 519, 721
Sau96I	GGNCC	1 cut(s)	746
SchI	GAGTC	1 cut(s)	548
ScrFI	CCNGG	1 cut(s)	1162
SduI	GDGCHC	1 cut(s)	987
SfaNI	GCATC	3 cut(s)	73, 96, 258
SfcI	CTRYAG	2 cut(s)	129, 1034
SfuI	TTCGAA	1 cut(s)	398
SinI	GGWCC	1 cut(s)	746
SmiMI	CAYNNNNRTG	1 cut(s)	1117
SmlI	CTYRAG	1 cut(s)	617
SmoI	CTYRAG	1 cut(s)	617
SnaBI	TACGTA	1 cut(s)	974
Sse9I	AATT	6 cut(s)	376, 628, 651, 1073, 1134, 1213
SsiI	CCGC	3 cut(s)	604, 827, 1171
SspMI	CTAG	4 cut(s)	458, 596, 663, 699
StyD4I	CCNGG	1 cut(s)	1160
TaiI	ACGT	1 cut(s)	976
TaqI	TCGA	4 cut(s)	163, 398, 518, 816
TasI	AATT	6 cut(s)	376, 628, 651, 1073, 1134, 1213
TauI	GCSGC	1 cut(s)	607
Tru1I	TTAA	7 cut(s)	231, 534, 578, 618, 636, 710, 774
Tru9I	TTAA	7 cut(s)	231, 534, 578, 618, 636, 710, 774
TscAI	CASTG	1 cut(s)	292
TseI	GCWGC	5 cut(s)	122, 196, 491, 527, 942
TspDTI	ATGAA	5 cut(s)	18, 101, 369, 644, 1073
TspGWI	ACGGA	1 cut(s)	703
TspRI	CASTG	1 cut(s)	292
Vha464I	CTTAAG	1 cut(s)	617
VneI	GTGCAC	1 cut(s)	983
VpaK11BI	GGWCC	1 cut(s)	746
XapI	RAATTY	3 cut(s)	376, 628, 1073
XbaI	TCTAGA	1 cut(s)	595
XceI	RCATGY	1 cut(s)	353
XcmI	CCANNNNNNNNNTGG	1 cut(s)	973
XmiI	GTMKAC	1 cut(s)	838
XspI	CTAG	4 cut(s)	458, 596, 663, 699
Zsp2I	ATGCAT	1 cut(s)	1114

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