Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000001

Orthogroup ID

OG0003037

Physical Location & Seq

Genomic Coordinates Reverse (-)

49300518 .. 49302304

Gene Structure 1787 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug01G0380300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1209 bp

ATGGATATCATTCATAGTAAGTCAACAAGTGCTTGGAATTGGTTGAAGGATAGACCTGCTGAGCATTGGAGTAGGTCACATTTTAAGGATATACATAAGTGTGACATACTTTTAAACAATCACTGTGAGAGCTTCAACTCAACATTTCTTGATGGAAGGAAAATGCCAATACTTGGATTATGGGAAGAACTGAGGATGAATCTAATGATTAGATTGGCAAATAGGAGGTGTGCAGCCCCAAGATGGAAGTGTAAAGTTGGTCCAAGGATTGAAAAGCTTTTGAAGAAATATGCAGATCTAAGCCATGACTATATGGCTTTCGAGTCCTCTCACAACAGGTTTCAAGTGAAGGGAAGAGGGGTTGCCTGTGCATCAGGTGTAAATTCTCTTCATGATGTGAACTTGAGTGCAATGACCTGCACTTGCAGGAGATGGAATCTAAATGGATTGCCTTGTCCACATGCAATTGCTTGCATATACTCCAAAGGTTACTCACCAGAAGACTATGTACATGAGGCATACTCTCAAAAGAAGTACATGCTTGCCTATAAGCCTGCTATAAATCCTATTCCAGGTGTTCACGAGTGGGATGTAGTGGAGAAGCCAATTATACCTCCAAAATACACAAGGGGACCTGGCAGACCCAAATTGTCAAGAAATAAGGAACCAGGTGAATTACCACCACCTGCTGGAGCTACAAAGTTACCTAAAAGCTATTATTCTAAAGTCACCTGTTCTAAGTGTAAAAAGAAGGGCCATAATACGAGAACATGTGGCAAGAGAAATGATCAAGCCAACAATACTCAATTTGGGGTTGAAGCTCAAAATGTTAACCAAGTTGATAATTCTGATAATGTTCTAAATTCTGCAAATCATGTGGCAAACGAGAATGGCATGCCAAATGAAAATGTTGATGTTGATACTATGATGCAGGAGGTAAACCATCAAACACCCACACAACAATCTGAACCAGTTTATGTCCAAAGTGTGGCTTCATCTCAACCAGTGCATTTATCAGAACCAAGTTGGCAATCTTTCCTTGCTCCAACCAGTTCTTCACAACCTATTGTATCATCAATGCCATCATTCTCAAACATGTTCAATGATTCACTAACAGTGAGGTCCAAGTCATATGCAAGGAAGCCACCTATGAGGTCTGACTCTATTAAAGGACCAAAAGATGCCAACAAGAAGGTTTGGAGGCCTTGA

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

402

Amino Acids

45.42

Weight (kDa)

9.41

Isoelectric Point (pI)

53.67

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
SWIM	PF04434	133 - 161	4.4e-06	SWIM zinc finger

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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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)
AarI	CACCTGC	1 cut(s)	694
Acc36I	ACCTGC	3 cut(s)	64, 425, 694
AccB7I	CCANNNNNTGG	3 cut(s)	173, 689, 988
AcsI	RAATTY	2 cut(s)	382, 862
AfaI	GTAC	2 cut(s)	510, 536
AfiI	CCNNNNNNNGG	5 cut(s)	173, 243, 572, 689, 988
AflIII	ACRYGT	2 cut(s)	770, 1095
AgsI	TTSAA	7 cut(s)	46, 136, 272, 283, 344, 818, 1102
AjnI	CCWGG	3 cut(s)	571, 634, 667
AjuI	GAANNNNNNNTTGG	2 cut(s)	1039, 1071
AluBI	AGCT	5 cut(s)	132, 277, 695, 714, 821
AluI	AGCT	5 cut(s)	132, 277, 695, 714, 821
AoxI	GGCC	2 cut(s)	754, 1202
ApeKI	GCWGC	1 cut(s)	233
ApoI	RAATTY	2 cut(s)	382, 862
AspS9I	GGNCC	5 cut(s)	260, 632, 754, 1122, 1172
AsuHPI	GGTGA	3 cut(s)	486, 683, 721
AvaII	GGWCC	4 cut(s)	260, 632, 1122, 1172
BarI	GAAGNNNNNNTAC	4 cut(s)	372, 404, 492, 524
BauI	CACGAG	1 cut(s)	581
BbsI	GAAGAC	1 cut(s)	507
BbvI	GCAGC	1 cut(s)	245
BccI	CCATC	5 cut(s)	146, 237, 426, 951, 1090
BciT130I	CCWGG	3 cut(s)	573, 636, 669
BclI	TGATCA	1 cut(s)	787
BfuAI	ACCTGC	3 cut(s)	64, 425, 694
BglII	AGATCT	1 cut(s)	295
BisI	GCNGC	1 cut(s)	234
BlpI	GCTNAGC	1 cut(s)	60
BlsI	GCNGC	1 cut(s)	235
Bme1390I	CCNGG	3 cut(s)	573, 636, 669
Bme18I	GGWCC	4 cut(s)	260, 632, 1122, 1172
BmgT120I	GGNCC	5 cut(s)	260, 632, 754, 1122, 1172
BmiI	GGNNCC	2 cut(s)	633, 666
BmrFI	CCNGG	3 cut(s)	573, 636, 669
BmsI	GCATC	3 cut(s)	380, 918, 1171
BpiI	GAAGAC	1 cut(s)	507
BplI	GAGNNNNNCTC	2 cut(s)	506, 538
BpmI	CTGGAG	1 cut(s)	711
Bpu1102I	GCTNAGC	1 cut(s)	60
BpuEI	CTTGAG	1 cut(s)	424
BsaJI	CCNNGG	1 cut(s)	263
Bsc4I	CCNNNNNNNGG	5 cut(s)	173, 243, 572, 689, 988
Bse1I	ACTGG	3 cut(s)	971, 1004, 1050
Bse3DI	GCAATG	1 cut(s)	417
BseBI	CCWGG	3 cut(s)	573, 636, 669
BseDI	CCNNGG	1 cut(s)	263
BseGI	GGATG	2 cut(s)	201, 595
BseLI	CCNNNNNNNGG	5 cut(s)	173, 243, 572, 689, 988
BseMI	GCAATG	1 cut(s)	417
BseMII	CTCAG	2 cut(s)	51, 182
BseNI	ACTGG	3 cut(s)	971, 1004, 1050
BseXI	GCAGC	1 cut(s)	245
BsgI	GTGCAG	2 cut(s)	252, 403
BshFI	GGCC	2 cut(s)	756, 1204
BslFI	GGGAC	1 cut(s)	645
BslI	CCNNNNNNNGG	5 cut(s)	173, 243, 572, 689, 988
BsmFI	GGGAC	1 cut(s)	645
BsnI	GGCC	2 cut(s)	756, 1204
Bsp1407I	TGTACA	1 cut(s)	508
Bsp143I	GATC	2 cut(s)	295, 787
Bsp1720I	GCTNAGC	1 cut(s)	60
BspANI	GGCC	2 cut(s)	756, 1204
BspCNI	CTCAG	2 cut(s)	52, 183
BspHI	TCATGA	1 cut(s)	391
BspLI	GGNNCC	2 cut(s)	633, 666
BspMI	ACCTGC	3 cut(s)	64, 425, 694
BsrDI	GCAATG	1 cut(s)	417
BsrGI	TGTACA	1 cut(s)	508
BsrI	ACTGG	3 cut(s)	971, 1004, 1050
BssECI	CCNNGG	1 cut(s)	263
BssMI	GATC	2 cut(s)	295, 787
BssSI	CACGAG	1 cut(s)	581
BssT1I	CCWWGG	1 cut(s)	263
Bst2BI	CACGAG	1 cut(s)	581
Bst2UI	CCWGG	3 cut(s)	573, 636, 669
Bst4CI	ACNGT	2 cut(s)	125, 1117
Bst6I	CTCTTC	2 cut(s)	349, 393
BstAUI	TGTACA	1 cut(s)	508
BstC8I	GCNNGC	4 cut(s)	472, 543, 555, 896
BstDEI	CTNAG	4 cut(s)	60, 191, 299, 738
BstENI	CCTNNNNNAGG	1 cut(s)	570
BstF5I	GGATG	2 cut(s)	201, 595
BstKTI	GATC	2 cut(s)	298, 790
BstMBI	GATC	2 cut(s)	295, 787
BstNI	CCWGG	3 cut(s)	573, 636, 669
BstNSI	RCATGY	5 cut(s)	464, 541, 774, 898, 1099
BstSCI	CCNGG	3 cut(s)	571, 634, 667
BstV1I	GCAGC	1 cut(s)	245
BstV2I	GAAGAC	1 cut(s)	507
BstX2I	RGATCY	1 cut(s)	295
BstYI	RGATCY	1 cut(s)	295
BsuRI	GGCC	2 cut(s)	756, 1204
BtsCI	GGATG	2 cut(s)	201, 595
BtsIMutI	CAGTG	3 cut(s)	121, 1011, 1122
BveI	ACCTGC	3 cut(s)	64, 425, 694
Cac8I	GCNNGC	4 cut(s)	472, 543, 555, 896
CciI	TCATGA	1 cut(s)	391
Cfr13I	GGNCC	5 cut(s)	260, 632, 754, 1122, 1172
CsiI	ACCWGGT	1 cut(s)	667
Csp6I	GTAC	2 cut(s)	509, 535
CspCI	CAANNNNNGTGG	2 cut(s)	858, 893
CviAII	CATG	9 cut(s)	305, 392, 461, 512, 538, 771, 875, 895, 1096
CviQI	GTAC	2 cut(s)	509, 535
DdeI	CTNAG	4 cut(s)	60, 191, 299, 738
DpnI	GATC	2 cut(s)	297, 789
DpnII	GATC	2 cut(s)	295, 787
DraI	TTTAAA	1 cut(s)	114
Eam1104I	CTCTTC	2 cut(s)	349, 393
EarI	CTCTTC	2 cut(s)	349, 393
Eco130I	CCWWGG	1 cut(s)	263
Eco147I	AGGCCT	1 cut(s)	1204
Eco32I	GATATC	1 cut(s)	7
Eco47I	GGWCC	4 cut(s)	260, 632, 1122, 1172
EcoNI	CCTNNNNNAGG	1 cut(s)	570
EcoO109I	RGGNCCY	1 cut(s)	632
EcoRII	CCWGG	3 cut(s)	571, 634, 667
EcoRV	GATATC	1 cut(s)	7
EcoT14I	CCWWGG	1 cut(s)	263
ErhI	CCWWGG	1 cut(s)	263
FaeI	CATG	9 cut(s)	308, 395, 464, 515, 541, 774, 878, 898, 1099
FalI	AAGNNNNNCTT	2 cut(s)	976, 1008
FaqI	GGGAC	1 cut(s)	645
FatI	CATG	9 cut(s)	304, 391, 460, 511, 537, 770, 874, 894, 1095
FauNDI	CATATG	1 cut(s)	1132
FbaI	TGATCA	1 cut(s)	787
Fnu4HI	GCNGC	1 cut(s)	234
FokI	GGATG	2 cut(s)	208, 602
Fsp4HI	GCNGC	1 cut(s)	234
GluI	GCNGC	1 cut(s)	234
GsuI	CTGGAG	1 cut(s)	711
HaeIII	GGCC	2 cut(s)	756, 1204
Hin1II	CATG	9 cut(s)	308, 395, 464, 515, 541, 774, 878, 898, 1099
HincII	GTYRAC	2 cut(s)	24, 832
HindII	GTYRAC	2 cut(s)	24, 832
HindIII	AAGCTT	1 cut(s)	275
HinfI	GANTC	5 cut(s)	199, 323, 436, 1106, 1160
HpaI	GTTAAC	1 cut(s)	832
HphI	GGTGA	3 cut(s)	486, 683, 721
Hpy166II	GTNNAC	6 cut(s)	24, 400, 458, 580, 832, 940
Hpy188I	TCNGA	4 cut(s)	850, 967, 1018, 1159
Hpy188III	TCNNGA	4 cut(s)	149, 392, 581, 654
Hpy8I	GTNNAC	6 cut(s)	24, 400, 458, 580, 832, 940
HpyAV	CCTTC	5 cut(s)	40, 150, 343, 745, 1186
HpyCH4III	ACNGT	2 cut(s)	125, 1117
HpyF3I	CTNAG	4 cut(s)	60, 191, 299, 738
Hsp92II	CATG	9 cut(s)	308, 395, 464, 515, 541, 774, 878, 898, 1099
Ksp22I	TGATCA	1 cut(s)	787
KspAI	GTTAAC	1 cut(s)	832
Kzo9I	GATC	2 cut(s)	295, 787
LmnI	GCTCC	2 cut(s)	692, 1048
Lsp1109I	GCAGC	1 cut(s)	245
LweI	GCATC	3 cut(s)	380, 918, 1171
MabI	ACCWGGT	1 cut(s)	667
MaeIII	GTNAC	5 cut(s)	75, 101, 488, 702, 727
MalI	GATC	2 cut(s)	297, 789
MboI	GATC	2 cut(s)	295, 787
MboII	GAAGA	6 cut(s)	197, 295, 366, 380, 512, 1047
MfeI	CAATTG	1 cut(s)	465
MflI	RGATCY	1 cut(s)	295
MluCI	AATT	9 cut(s)	37, 382, 465, 606, 647, 674, 806, 844, 862
MlyI	GAGTC	2 cut(s)	332, 1154
MmeI	TCCRAC	1 cut(s)	1070
MseI	TTAA	4 cut(s)	84, 113, 831, 1167
MslI	CAYNNNNRTG	1 cut(s)	99
MspR9I	CCNGG	3 cut(s)	573, 636, 669
MunI	CAATTG	1 cut(s)	465
MvaI	CCWGG	3 cut(s)	573, 636, 669
NdeI	CATATG	1 cut(s)	1132
NdeII	GATC	2 cut(s)	295, 787
NlaIII	CATG	9 cut(s)	308, 395, 464, 515, 541, 774, 878, 898, 1099
NlaIV	GGNNCC	2 cut(s)	633, 666
NmuCI	GTSAC	3 cut(s)	75, 101, 727
NspI	RCATGY	5 cut(s)	464, 541, 774, 898, 1099
PaeI	GCATGC	1 cut(s)	898
PagI	TCATGA	1 cut(s)	391
PaqCI	CACCTGC	1 cut(s)	694
PceI	AGGCCT	1 cut(s)	1204
PciI	ACATGT	2 cut(s)	770, 1095
PfeI	GAWTC	3 cut(s)	199, 436, 1106
PflMI	CCANNNNNTGG	3 cut(s)	173, 689, 988
PkrI	GCNGC	1 cut(s)	235
PleI	GAGTC	2 cut(s)	331, 1154
PpsI	GAGTC	2 cut(s)	331, 1154
PpuMI	RGGWCCY	1 cut(s)	632
PscI	ACATGT	2 cut(s)	770, 1095
Psp5II	RGGWCCY	1 cut(s)	632
Psp6I	CCWGG	3 cut(s)	571, 634, 667
PspGI	CCWGG	3 cut(s)	571, 634, 667
PspN4I	GGNNCC	2 cut(s)	633, 666
PspPI	GGNCC	5 cut(s)	260, 632, 754, 1122, 1172
PspPPI	RGGWCCY	1 cut(s)	632
PsuI	RGATCY	1 cut(s)	295
RsaI	GTAC	2 cut(s)	510, 536
RsaNI	GTAC	2 cut(s)	509, 535
RseI	CAYNNNNRTG	1 cut(s)	99
SaqAI	TTAA	4 cut(s)	84, 113, 831, 1167
SatI	GCNGC	1 cut(s)	234
Sau3AI	GATC	2 cut(s)	295, 787
Sau96I	GGNCC	5 cut(s)	260, 632, 754, 1122, 1172
SchI	GAGTC	2 cut(s)	332, 1154
ScrFI	CCNGG	3 cut(s)	573, 636, 669
SexAI	ACCWGGT	1 cut(s)	667
SfaNI	GCATC	3 cut(s)	380, 918, 1171
SinI	GGWCC	4 cut(s)	260, 632, 1122, 1172
SmiMI	CAYNNNNRTG	1 cut(s)	99
SmlI	CTYRAG	1 cut(s)	403
SmoI	CTYRAG	1 cut(s)	403
SphI	GCATGC	1 cut(s)	898
Sse9I	AATT	9 cut(s)	37, 382, 465, 606, 647, 674, 806, 844, 862
SseBI	AGGCCT	1 cut(s)	1204
StuI	AGGCCT	1 cut(s)	1204
StyD4I	CCNGG	3 cut(s)	571, 634, 667
StyI	CCWWGG	1 cut(s)	263
TaaI	ACNGT	2 cut(s)	125, 1117
TaqI	TCGA	1 cut(s)	321
TasI	AATT	9 cut(s)	37, 382, 465, 606, 647, 674, 806, 844, 862
TatI	WGTACW	2 cut(s)	508, 534
TfiI	GAWTC	3 cut(s)	199, 436, 1106
Tru1I	TTAA	4 cut(s)	84, 113, 831, 1167
Tru9I	TTAA	4 cut(s)	84, 113, 831, 1167
TscAI	CASTG	3 cut(s)	128, 1011, 1122
TseFI	GTSAC	3 cut(s)	75, 101, 727
TseI	GCWGC	1 cut(s)	233
Tsp45I	GTSAC	3 cut(s)	75, 101, 727
TspDTI	ATGAA	4 cut(s)	212, 380, 918, 984
TspRI	CASTG	3 cut(s)	128, 1011, 1122
Van91I	CCANNNNNTGG	3 cut(s)	173, 689, 988
VpaK11BI	GGWCC	4 cut(s)	260, 632, 1122, 1172
XagI	CCTNNNNNAGG	1 cut(s)	570
XapI	RAATTY	2 cut(s)	382, 862
XceI	RCATGY	5 cut(s)	464, 541, 774, 898, 1099

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