Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3A

Orthogroup ID

OG0003037

Physical Location & Seq

Genomic Coordinates Reverse (-)

33606069 .. 33616044

Gene Structure 9976 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3AG285100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1152 bp

ATGGAATTGGACTCCATTGGCCTGAAGGCCGTCATCAACACTGAGTGCCGCCGCCAAGAGACAGAGGAGTACGGTGCCGCCACTGCAACCACCATAGTTACTCGTTGTCGTCGACTTGGAAGTTGGGAGCTCATCGAAGCCTCCCCCAAGCTTGACGACCTACACCCCGACAACCTATCATTGGCAGGATTTACAGAGCGAGAGATTGATGAGTTATCATCCCATGGGTTCACCAGCAACATGTACCCATTCACTGGGAGGAATACCCTGACAGCTTGGGGTAATGAGAAGGAATTTGTTGAGGATGCTGCAAAGGAGTATGATGAGAGTACTATTAATTGTGCTTCAGAACTCGGGCTGCTGGAGCAAAATGCCAAAGAGAAGTTGCTCTTTGTTCAGTTGCCTCCTACTCTACCATTGGTCAAGCGACCTACTAGTGCAAAGGGGAAAGAGAAAGTCGGAAGCTCAGCACCATCAGAGAAGGTAGGTGCTGCAAGGAAGGGCGGTAGTTTGGAAGAGTTATCTGAGGGGTATATGGGGAAGATGCTGGTTTACAAGAGTGGAGCAGTCAAGTTCAAGCTAGGAGATGCACTGTATGATGTTTCACCCGGTTCAGATTGTATATTTTCTCAAGATGTTGCTGCAATCAACACTGCAGCGAGAAATGATGAAGGGGCTTATTTTCTTGAGGCCCAAGTCAACTGCCAGCTCTCGGACTTGCTTAATCTTCCTGAACACGGCTTACTCAACAACCTCATCCCGGAGTTTGATCCTCAAACTGCCCATTCCGCCTTAGGTTCTGCAGTTTTGGCTGTCCAAACGAGTCATTTTAACTGCGGAGGAATCGCTCTTGCTGTGTCGCTGTCGCACAAGATCGCAGATGCAACCTCATGTCAAATATTTGTACGAGCATGGGCAGGCATACATCGTGATAATGGATCTGATAGTCAACTAATGGTACCACAGTTTAACGGAGCATCTCTGTTGCCGGCTAAAGACTCCTTCGTAAACAATTTAGGGCTACCAAAGTTCCAAAGTTTAACTACTAGGAGGTTCGTGTTTGATGTCACGAAGATTGCCACTCTCAAGGCTAAAATTGGAGGAGACGAGTTCAAGTACAGCAGTGTTGTCGCAAATGGTAAATGTCCGTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000428 GO:0001817 GO:0001819 GO:0002682 GO:0002684 GO:0003674 GO:0003682 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005666 GO:0005737 GO:0005829 GO:0008150 GO:0016604 GO:0016607 GO:0030880 GO:0031347 GO:0031349 GO:0031974 GO:0031981 GO:0032479 GO:0032481 GO:0032648 GO:0032728 GO:0032991 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0044422 GO:0044424 GO:0044428 GO:0044444 GO:0044446 GO:0044451 GO:0044464 GO:0045088 GO:0045089 GO:0048518 GO:0048583 GO:0048584 GO:0050776 GO:0050778 GO:0050789 GO:0051239 GO:0051240 GO:0055029 GO:0061695 GO:0065007 GO:0070013 GO:0080134 GO:1902494 GO:1990234

KEGG Pathways

Metabolic & Signaling

ko00230 ko00240 ko01100 ko03020 ko04623 ko05169 map00230 map00240 map01100 map03020 map04623 map05169

Pfam Domains

Protein Families

RNA_pol_Rpc4

Protein Analysis

383

Amino Acids

41.41

Weight (kDa)

5.33

Isoelectric Point (pI)

36.66

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RNA_pol_Rpc4	PF05132	127 - 229	7e-20	RNA polymerase III RPC4
Transferase	PF02458	222 - 343	1.2e-22	Transferase family

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: OG0003037)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G09380 AT5G09380 AT5G09380
fragaria_vesca	FvH4_1g08400 FvH4_1g08400 FvH4_7g27240 FvH4_7g27240
malus_domestica	MD01G1181300.v1.1 MD02G1088300.v1.1 MD07G1251400.v1.1
prunus_persica	Prupe.2G275200_v2.0.a1 Prupe.7G201300_v2.0.a1
pyrus_communis	pycom02g07090 pycom07g22410
rosa_chinensis	RchiOBHm_Chr1g0374021 RchiOBHm_Chr2g0094511 RchiOBHm_Chr3g0487921
rosa_laevigata	RLG00000016497 RLG00000026785
rosa_multiflora	Rmu_sc0004359.1_g000044 Rmu_sc0006924.1_g000006 Rmu_sc0009793.1_g000002
rosa_roxburghii	Rroxscaffold_2G00147110 Rroxscaffold_4G00283820
rosa_rugosa	Rorug01G0380300 Rorug02G0044300.1
rosa_samantha	Rh1AG390800 Rh1BG354900 Rh1CG368000 Rh1DG385600 Rh2AG092600 Rh2BG092800 Rh2CG095300 Rh2DG091700 Rh3AG285100 Rh6AG149200
rosa_wichuraiana	Rw1G034440 Rw6G012910

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc65I	GGTACC	1 cut(s)	958
AccB1I	GGYRCC	2 cut(s)	74, 958
AccB7I	CCANNNNNTGG	1 cut(s)	254
AccI	GTMKAC	1 cut(s)	112
AciI	CCGC	6 cut(s)	49, 52, 78, 504, 789, 837
AclWI	GGATC	2 cut(s)	764, 946
AcsI	RAATTY	1 cut(s)	293
AcuI	CTGAAG	2 cut(s)	44, 330
AdeI	CACNNNGTG	1 cut(s)	45
AfaI	GTAC	6 cut(s)	71, 245, 331, 906, 960, 1118
AfiI	CCNNNNNNNGG	5 cut(s)	181, 254, 712, 737, 760
AflIII	ACRYGT	1 cut(s)	240
AgsI	TTSAA	2 cut(s)	577, 1114
AhlI	ACTAGT	1 cut(s)	434
AluBI	AGCT	6 cut(s)	130, 151, 275, 465, 580, 709
AluI	AGCT	6 cut(s)	130, 151, 275, 465, 580, 709
Alw21I	GWGCWC	1 cut(s)	132
Alw26I	GTCTC	2 cut(s)	53, 1098
AlwI	GGATC	2 cut(s)	764, 946
Ama87I	CYCGRG	1 cut(s)	353
AoxI	GGCC	3 cut(s)	19, 27, 690
ApeKI	GCWGC	5 cut(s)	308, 358, 491, 641, 656
ApoI	RAATTY	1 cut(s)	293
AseI	ATTAAT	1 cut(s)	336
Asp718I	GGTACC	1 cut(s)	958
AspS9I	GGNCC	1 cut(s)	691
AsuC2I	CCSGG	2 cut(s)	609, 761
AsuHPI	GGTGA	2 cut(s)	223, 597
AvaI	CYCGRG	1 cut(s)	353
AxyI	CCTNAGG	1 cut(s)	793
BaeI	ACNNNNGTAYC	2 cut(s)	950, 983
BanI	GGYRCC	2 cut(s)	74, 958
BanII	GRGCYC	1 cut(s)	132
Bbv12I	GWGCWC	1 cut(s)	132
BbvI	GCAGC	5 cut(s)	295, 345, 478, 628, 668
BccI	CCATC	1 cut(s)	481
BceAI	ACGGC	2 cut(s)	14, 754
BcgI	CGANNNNNNTGC	2 cut(s)	1111, 1145
BcnI	CCSGG	2 cut(s)	609, 761
BcoDI	GTCTC	2 cut(s)	53, 1098
BcuI	ACTAGT	1 cut(s)	434
BfaI	CTAG	3 cut(s)	435, 581, 1047
BfmI	CTRYAG	2 cut(s)	654, 801
BisI	GCNGC	8 cut(s)	49, 52, 78, 309, 359, 492, 642, 657
BlpI	GCTNAGC	1 cut(s)	466
BlsI	GCNGC	8 cut(s)	50, 53, 79, 310, 360, 493, 643, 658
BmcAI	AGTACT	1 cut(s)	331
Bme1390I	CCNGG	2 cut(s)	609, 761
BmeT110I	CYCGRG	1 cut(s)	353
BmgT120I	GGNCC	1 cut(s)	691
BmiI	GGNNCC	2 cut(s)	76, 960
BmrFI	CCNGG	2 cut(s)	609, 761
BmrI	ACTGGG	1 cut(s)	264
BmsI	GCATC	5 cut(s)	295, 534, 577, 871, 986
BmuI	ACTGGG	1 cut(s)	264
BpmI	CTGGAG	1 cut(s)	383
Bpu1102I	GCTNAGC	1 cut(s)	466
BpuEI	CTTGAG	3 cut(s)	615, 707, 1070
BpuMI	CCSGG	2 cut(s)	609, 761
BsaJI	CCNNGG	1 cut(s)	223
Bsc4I	CCNNNNNNNGG	5 cut(s)	181, 254, 712, 737, 760
Bse118I	RCCGGY	1 cut(s)	988
Bse1I	ACTGG	1 cut(s)	259
Bse21I	CCTNAGG	1 cut(s)	793
BseDI	CCNNGG	1 cut(s)	223
BseGI	GGATG	3 cut(s)	218, 310, 756
BseLI	CCNNNNNNNGG	5 cut(s)	181, 254, 712, 737, 760
BseMII	CTCAG	3 cut(s)	33, 480, 516
BseNI	ACTGG	1 cut(s)	259
BseRI	GAGGAG	2 cut(s)	80, 1116
BseXI	GCAGC	5 cut(s)	295, 345, 478, 628, 668
BshFI	GGCC	3 cut(s)	21, 29, 692
BshNI	GGYRCC	2 cut(s)	74, 958
BsiHKAI	GWGCWC	1 cut(s)	132
BsiHKCI	CYCGRG	1 cut(s)	353
BsiSI	CCGG	3 cut(s)	609, 761, 989
BslI	CCNNNNNNNGG	5 cut(s)	181, 254, 712, 737, 760
BsmAI	GTCTC	2 cut(s)	53, 1098
BsmBI	CGTCTC	1 cut(s)	1098
BsnI	GGCC	3 cut(s)	21, 29, 692
BsoBI	CYCGRG	1 cut(s)	353
Bsp1286I	GDGCHC	1 cut(s)	132
Bsp143I	GATC	3 cut(s)	769, 873, 938
Bsp1720I	GCTNAGC	1 cut(s)	466
Bsp19I	CCATGG	1 cut(s)	223
BspACI	CCGC	6 cut(s)	49, 52, 78, 504, 789, 837
BspANI	GGCC	3 cut(s)	21, 29, 692
BspCNI	CTCAG	3 cut(s)	34, 479, 517
BspLI	GGNNCC	2 cut(s)	76, 960
BspMAI	CTGCAG	2 cut(s)	658, 805
BspPI	GGATC	2 cut(s)	764, 946
BspT107I	GGYRCC	2 cut(s)	74, 958
BsrFI	RCCGGY	1 cut(s)	988
BsrI	ACTGG	1 cut(s)	259
BssAI	RCCGGY	1 cut(s)	988
BssECI	CCNNGG	1 cut(s)	223
BssMI	GATC	3 cut(s)	769, 873, 938
BssT1I	CCWWGG	1 cut(s)	223
Bst4CI	ACNGT	3 cut(s)	74, 594, 966
Bst6I	CTCTTC	1 cut(s)	510
BstC8I	GCNNGC	3 cut(s)	707, 919, 990
BstDEI	CTNAG	4 cut(s)	42, 466, 525, 793
BstDSI	CCRYGG	1 cut(s)	223
BstF5I	GGATG	3 cut(s)	218, 310, 756
BstKTI	GATC	3 cut(s)	772, 876, 941
BstMAI	GTCTC	2 cut(s)	53, 1098
BstMBI	GATC	3 cut(s)	769, 873, 938
BstMWI	GCNNNNNNNGC	4 cut(s)	83, 364, 788, 809
BstNSI	RCATGY	1 cut(s)	244
BstSCI	CCNGG	2 cut(s)	607, 759
BstSFI	CTRYAG	2 cut(s)	654, 801
BstV1I	GCAGC	5 cut(s)	295, 345, 478, 628, 668
BstX2I	RGATCY	1 cut(s)	938
BstYI	RGATCY	1 cut(s)	938
Bsu36I	CCTNAGG	1 cut(s)	793
BsuRI	GGCC	3 cut(s)	21, 29, 692
BtgI	CCRYGG	1 cut(s)	223
BtsCI	GGATG	3 cut(s)	218, 310, 756
BtsI	GCAGTG	3 cut(s)	81, 651, 1129
BtsIMutI	CAGTG	6 cut(s)	39, 81, 252, 590, 651, 1129
Cac8I	GCNNGC	3 cut(s)	707, 919, 990
Cfr10I	RCCGGY	1 cut(s)	988
Cfr13I	GGNCC	1 cut(s)	691
Csp6I	GTAC	6 cut(s)	70, 244, 330, 905, 959, 1117
CviAII	CATG	4 cut(s)	224, 241, 891, 912
CviQI	GTAC	6 cut(s)	70, 244, 330, 905, 959, 1117
DdeI	CTNAG	4 cut(s)	42, 466, 525, 793
DpnI	GATC	3 cut(s)	771, 875, 940
DpnII	GATC	3 cut(s)	769, 873, 938
DraIII	CACNNNGTG	1 cut(s)	45
Eam1104I	CTCTTC	1 cut(s)	510
EarI	CTCTTC	1 cut(s)	510
EciI	GGCGGA	1 cut(s)	778
Ecl136II	GAGCTC	1 cut(s)	130
Eco130I	CCWWGG	1 cut(s)	223
Eco24I	GRGCYC	1 cut(s)	132
Eco53kI	GAGCTC	1 cut(s)	130
Eco57I	CTGAAG	2 cut(s)	44, 330
Eco81I	CCTNAGG	1 cut(s)	793
Eco88I	CYCGRG	1 cut(s)	353
EcoICRI	GAGCTC	1 cut(s)	130
EcoT14I	CCWWGG	1 cut(s)	223
EcoT38I	GRGCYC	1 cut(s)	132
ErhI	CCWWGG	1 cut(s)	223
Esp3I	CGTCTC	1 cut(s)	1098
FaeI	CATG	4 cut(s)	227, 244, 894, 915
FalI	AAGNNNNNCTT	2 cut(s)	374, 406
FatI	CATG	4 cut(s)	223, 240, 890, 911
FblI	GTMKAC	1 cut(s)	112
Fnu4HI	GCNGC	8 cut(s)	49, 52, 78, 309, 359, 492, 642, 657
FokI	GGATG	3 cut(s)	205, 317, 743
FriOI	GRGCYC	1 cut(s)	132
Fsp4HI	GCNGC	8 cut(s)	49, 52, 78, 309, 359, 492, 642, 657
FspBI	CTAG	3 cut(s)	435, 581, 1047
GluI	GCNGC	8 cut(s)	49, 52, 78, 309, 359, 492, 642, 657
GsuI	CTGGAG	1 cut(s)	383
HaeIII	GGCC	3 cut(s)	21, 29, 692
HapII	CCGG	3 cut(s)	609, 761, 989
Hin1II	CATG	4 cut(s)	227, 244, 894, 915
HincII	GTYRAC	3 cut(s)	113, 700, 950
HindII	GTYRAC	3 cut(s)	113, 700, 950
HindIII	AAGCTT	1 cut(s)	149
HinfI	GANTC	4 cut(s)	11, 823, 843, 998
HpaII	CCGG	3 cut(s)	609, 761, 989
HphI	GGTGA	2 cut(s)	223, 597
Hpy166II	GTNNAC	6 cut(s)	113, 231, 553, 700, 950, 1009
Hpy188I	TCNGA	7 cut(s)	349, 461, 478, 526, 616, 715, 943
Hpy188III	TCNNGA	5 cut(s)	632, 686, 731, 929, 1069
Hpy8I	GTNNAC	6 cut(s)	113, 231, 553, 700, 950, 1009
Hpy99I	CGWCG	1 cut(s)	114
HpyAV	CCTTC	6 cut(s)	19, 283, 475, 493, 665, 1012
HpyCH4III	ACNGT	3 cut(s)	74, 594, 966
HpyCH4V	TGCA	9 cut(s)	86, 311, 440, 494, 590, 644, 656, 803, 884
HpyF10VI	GCNNNNNNNGC	4 cut(s)	83, 364, 788, 809
HpyF3I	CTNAG	4 cut(s)	42, 466, 525, 793
Hsp92II	CATG	4 cut(s)	227, 244, 894, 915
KpnI	GGTACC	1 cut(s)	962
KroI	GCCGGC	1 cut(s)	988
KroNI	GCCGGC	1 cut(s)	990
Kzo9I	GATC	3 cut(s)	769, 873, 938
LmnI	GCTCC	4 cut(s)	127, 364, 563, 974
Lsp1109I	GCAGC	5 cut(s)	295, 345, 478, 628, 668
LweI	GCATC	5 cut(s)	295, 534, 577, 871, 986
MaeI	CTAG	3 cut(s)	435, 581, 1047
MaeIII	GTNAC	2 cut(s)	97, 1066
MalI	GATC	3 cut(s)	771, 875, 940
MboI	GATC	3 cut(s)	769, 873, 938
MboII	GAAGA	4 cut(s)	527, 553, 719, 1084
MflI	RGATCY	1 cut(s)	938
MhlI	GDGCHC	1 cut(s)	132
MluCI	AATT	5 cut(s)	5, 293, 337, 1012, 1095
MlyI	GAGTC	3 cut(s)	5, 832, 992
MmeI	TCCRAC	1 cut(s)	439
MroNI	GCCGGC	1 cut(s)	988
MseI	TTAA	5 cut(s)	336, 723, 831, 969, 1040
MspI	CCGG	3 cut(s)	609, 761, 989
MspR9I	CCNGG	2 cut(s)	609, 761
MwoI	GCNNNNNNNGC	4 cut(s)	83, 364, 788, 809
NaeI	GCCGGC	1 cut(s)	990
NciI	CCSGG	2 cut(s)	609, 761
NcoI	CCATGG	1 cut(s)	223
NdeII	GATC	3 cut(s)	769, 873, 938
NgoMIV	GCCGGC	1 cut(s)	988
NlaIII	CATG	4 cut(s)	227, 244, 894, 915
NlaIV	GGNNCC	2 cut(s)	76, 960
NmuCI	GTSAC	1 cut(s)	1066
NspI	RCATGY	1 cut(s)	244
PciI	ACATGT	1 cut(s)	240
PcsI	WCGNNNNNNNCGW	1 cut(s)	109
PdiI	GCCGGC	1 cut(s)	990
PfeI	GAWTC	1 cut(s)	843
PflMI	CCANNNNNTGG	1 cut(s)	254
PfoI	TCCNGGA	1 cut(s)	759
PkrI	GCNGC	8 cut(s)	50, 53, 79, 310, 360, 493, 643, 658
PleI	GAGTC	3 cut(s)	5, 831, 992
PpsI	GAGTC	3 cut(s)	5, 831, 992
PscI	ACATGT	1 cut(s)	240
PshBI	ATTAAT	1 cut(s)	336
Psp124BI	GAGCTC	1 cut(s)	132
PspN4I	GGNNCC	2 cut(s)	76, 960
PspPI	GGNCC	1 cut(s)	691
PsrI	GAACNNNNNNTAC	2 cut(s)	726, 758
PstI	CTGCAG	2 cut(s)	658, 805
PsuI	RGATCY	1 cut(s)	938
RsaI	GTAC	6 cut(s)	71, 245, 331, 906, 960, 1118
RsaNI	GTAC	6 cut(s)	70, 244, 330, 905, 959, 1117
SacI	GAGCTC	1 cut(s)	132
SalI	GTCGAC	1 cut(s)	111
SaqAI	TTAA	5 cut(s)	336, 723, 831, 969, 1040
SatI	GCNGC	8 cut(s)	49, 52, 78, 309, 359, 492, 642, 657
Sau3AI	GATC	3 cut(s)	769, 873, 938
Sau96I	GGNCC	1 cut(s)	691
ScaI	AGTACT	1 cut(s)	331
SchI	GAGTC	3 cut(s)	5, 832, 992
ScrFI	CCNGG	2 cut(s)	609, 761
SduI	GDGCHC	1 cut(s)	132
SfaNI	GCATC	5 cut(s)	295, 534, 577, 871, 986
SfcI	CTRYAG	2 cut(s)	654, 801
SmlI	CTYRAG	3 cut(s)	630, 686, 1085
SmoI	CTYRAG	3 cut(s)	630, 686, 1085
SpeI	ACTAGT	1 cut(s)	434
Sse9I	AATT	5 cut(s)	5, 293, 337, 1012, 1095
SsiI	CCGC	6 cut(s)	49, 52, 78, 504, 789, 837
SspI	AATATT	1 cut(s)	900
SspMI	CTAG	3 cut(s)	435, 581, 1047
SstI	GAGCTC	1 cut(s)	132
StyD4I	CCNGG	2 cut(s)	607, 759
StyI	CCWWGG	1 cut(s)	223
TaaI	ACNGT	3 cut(s)	74, 594, 966
TaqI	TCGA	2 cut(s)	112, 135
TasI	AATT	5 cut(s)	5, 293, 337, 1012, 1095
TatI	WGTACW	2 cut(s)	329, 1116
TauI	GCSGC	3 cut(s)	51, 54, 80
TfiI	GAWTC	1 cut(s)	843
Tru1I	TTAA	5 cut(s)	336, 723, 831, 969, 1040
Tru9I	TTAA	5 cut(s)	336, 723, 831, 969, 1040
TscAI	CASTG	6 cut(s)	46, 88, 259, 597, 658, 1129
TseFI	GTSAC	1 cut(s)	1066
TseI	GCWGC	5 cut(s)	308, 358, 491, 641, 656
Tsp45I	GTSAC	1 cut(s)	1066
TspDTI	ATGAA	1 cut(s)	684
TspGWI	ACGGA	2 cut(s)	987, 1137
TspRI	CASTG	6 cut(s)	46, 88, 259, 597, 658, 1129
Van91I	CCANNNNNTGG	1 cut(s)	254
VspI	ATTAAT	1 cut(s)	336
XapI	RAATTY	1 cut(s)	293
XceI	RCATGY	1 cut(s)	244
XmiI	GTMKAC	1 cut(s)	112
XspI	CTAG	3 cut(s)	435, 581, 1047
ZrmI	AGTACT	1 cut(s)	331

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