Basic Information

Type: gene

Biological Identity

Species

rosa_multiflora

Chromosome

Rmu_sc0005290.1

Orthogroup ID

OG0002788

Physical Location & Seq

Genomic Coordinates Forward (+)

59448 .. 65772

Gene Structure 6325 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

N/A

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1413 bp

atgtggtgtgtgaaagagggatggaggttagatctgagggtgtacatctgcggtgcgataactttccaggctgggcttaaagttcagtacattgcggtgtacgataacatactccatcgccttaggtttgcaaaatttctggcggttgtggcccaggagcttgatgatgattgcaaacaacttcttgctggtttactcgagcatggtagacttacacagcaacaattaatggacagagccaatcagaaatccaaatcaaatagtagtcaagttcagattgctgctcaagctaactttgttagacttgtgactgcccgttttgttgaacgctgcccggcccctgaaccacttcttgaagaagcacctgaacaagaaggtccaaagaagccacgcactaaatctgctaagatggctcaagtatcagagaccatagaacaacgtgttctcgcagcagcaaggcctatggaagcaataagattcttaattatgacagatgcagaaactgatgatccgtcacaaaaaagtgataataattcttctagtatgagtgttggggagaagcgcaagtttgatgatttggatattggtgaagaacatgggtctaatgataaggaagtgattctttggcgtgctaattttgagcagttcattcattgtctaaggcataaggcttgtgttgagaatgttagagcacaacatgatgatgaagctgcagttgagttaggagaaacgctgaaggcaactagaactgcagagaccaaagtgaaatcagattattcaggtaagctggaagtttggattagagtatatgaggatgagggtgagggtgagggtgagggtgagggtgagggtgagggtgagggtgagggtgagggtgagggtgagggtgagggtgagggtgagggtgagggtgagggtgagggtgagggtgagggtgagggtgagggtgagggtgagggtgagggtgagggtgagggtgagggtgagggtgagggtgagggtgagggtgagggtgtgccatatagcgttgccttgaaggaaagtatacaacttcttcaaaatgatgaggtggagttgattgttttgaaaagatatggagaggatgctcatagaatatttaggttactgacaatgcagtcaaacgctgctaaacagtcacaagtcatggtgtggaaagtacacaagcccattgtttggacacatgttttagatgagatgtaccatgcggcgtacaatttggttaagcgatatgatcatgagagggaagagaataaggaggttacaaataccccgaaggagaaacgcgtgggtgaattagagaaaaaagccaaccggtttctaggtgtgaggaaaatcatggcattatccctcatgaagcttgatgatgctctcatgctcttccatgacttctga

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000428 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005666 GO:0030880 GO:0031974 GO:0031981 GO:0032991 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044451 GO:0044464 GO:0055029 GO:0061695 GO:0070013 GO:1902494 GO:1990234

KEGG Pathways

Metabolic & Signaling

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

Pfam Domains

Protein Families

HTH_9 RNA_pol_Rpc82

Protein Analysis

470

Amino Acids

52.64

Weight (kDa)

4.82

Isoelectric Point (pI)

26.33

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RNA_pol_Rpc82	PF05645	98 - 260	1.6e-13	RNA polymerase III subunit RPC82

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

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0002788)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G49000
fragaria_vesca	FvH4_7g29570 FvH4_7g29570 FvH4_7g29570 FvH4_7g29570 FvH4_7g29570 FvH4_7g29570 FvH4_7g29570
malus_domestica	MD01G1202100.v1.1 MD07G1271200.v1.1 MD07G1271300.v1.1
prunus_persica	Prupe.2G295500_v2.0.a1
pyrus_communis	pycom01g21170 pycom07g24820 pycom16g25350
rosa_chinensis	RchiOBHm_Chr1g0377571 RchiOBHm_Chr6g0258831
rosa_laevigata	RLG00000014582 RLG00000026516
rosa_multiflora	Rmu_co8176084.1_g000001 Rmu_sc0002832.1_g000008 Rmu_sc0005290.1_g000010 Rmu_sc0012587.1_g000006 Rmu_sc0041364.1_g000001
rosa_roxburghii	Rroxscaffold_4G00281230 Rroxscaffold_7G00206100
rosa_rugosa	Rorug01G0403500 Rorug01G0403500 Rorug05G0583700
rosa_samantha	Rh1AG429300 Rh1BG380000 Rh1CG394200 Rh1DG411200 Rh6AG100200 Rh6BG091700 Rh6CG089200 Rh6DG083500
rosa_wichuraiana	Rw1G036950 Rw6G008680

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	1135
AccB7I	CCANNNNNTGG	1 cut(s)	1194
AccI	GTMKAC	2 cut(s)	208, 1045
AccII	CGCG	1 cut(s)	1305
AciI	CCGC	4 cut(s)	51, 95, 143, 1226
AclWI	GGATC	1 cut(s)	503
AcsI	RAATTY	1 cut(s)	134
AcuI	CTGAAG	1 cut(s)	755
AfaI	GTAC	6 cut(s)	44, 89, 101, 1179, 1220, 1232
AfiI	CCNNNNNNNGG	1 cut(s)	1194
AflIII	ACRYGT	3 cut(s)	439, 1201, 1303
AgeI	ACCGGT	1 cut(s)	1332
AgsI	TTSAA	5 cut(s)	326, 356, 1036, 1058, 1087
AjnI	CCWGG	2 cut(s)	66, 153
AluBI	AGCT	5 cut(s)	160, 290, 710, 787, 1378
AluI	AGCT	5 cut(s)	160, 290, 710, 787, 1378
Alw21I	GWGCWC	1 cut(s)	694
Alw26I	GTCTC	2 cut(s)	419, 749
AlwI	GGATC	1 cut(s)	503
AlwNI	CAGNNNCTG	1 cut(s)	503
Ama87I	CYCGRG	1 cut(s)	197
AoxI	GGCC	3 cut(s)	150, 336, 458
ApeKI	GCWGC	6 cut(s)	281, 330, 449, 452, 710, 1145
ApoI	RAATTY	1 cut(s)	134
AseI	ATTAAT	1 cut(s)	227
AsiGI	ACCGGT	1 cut(s)	1332
Asp700I	GAANNNNTTC	2 cut(s)	348, 618
AspLEI	GCGC	1 cut(s)	564
AspS9I	GGNCC	3 cut(s)	151, 337, 377
AsuC2I	CCSGG	1 cut(s)	335
AvaI	CYCGRG	1 cut(s)	197
AvaII	GGWCC	1 cut(s)	377
AxyI	CCTNAGG	1 cut(s)	122
Bbv12I	GWGCWC	1 cut(s)	694
BbvI	GCAGC	6 cut(s)	268, 317, 461, 464, 697, 1132
BccI	CCATC	3 cut(s)	15, 123, 403
BciT130I	CCWGG	2 cut(s)	68, 155
BclI	TGATCA	1 cut(s)	1252
BcnI	CCSGG	1 cut(s)	335
BcoDI	GTCTC	2 cut(s)	419, 749
BfaI	CTAG	3 cut(s)	540, 744, 1340
BfmI	CTRYAG	2 cut(s)	711, 750
BglII	AGATCT	1 cut(s)	31
BisI	GCNGC	7 cut(s)	282, 331, 450, 453, 711, 1146, 1227
BlsI	GCNGC	7 cut(s)	283, 332, 451, 454, 712, 1147, 1228
Bme1390I	CCNGG	3 cut(s)	68, 155, 335
Bme18I	GGWCC	1 cut(s)	377
BmeT110I	CYCGRG	1 cut(s)	197
BmgT120I	GGNCC	3 cut(s)	151, 337, 377
BmiI	GGNNCC	1 cut(s)	339
BmrFI	CCNGG	3 cut(s)	68, 155, 335
BmsI	GCATC	3 cut(s)	484, 1093, 1375
BpuEI	CTTGAG	2 cut(s)	270, 399
BpuMI	CCSGG	1 cut(s)	335
BsaI	GGTCTC	2 cut(s)	419, 749
BsaJI	CCNNGG	1 cut(s)	153
BsaWI	WCCGGW	1 cut(s)	1332
Bsc4I	CCNNNNNNNGG	1 cut(s)	1194
Bse118I	RCCGGY	1 cut(s)	1332
Bse21I	CCTNAGG	1 cut(s)	122
Bse3DI	GCAATG	1 cut(s)	90
BseBI	CCWGG	2 cut(s)	68, 155
BseDI	CCNNGG	1 cut(s)	153
BseGI	GGATG	3 cut(s)	26, 820, 1108
BseLI	CCNNNNNNNGG	1 cut(s)	1194
BseMI	GCAATG	1 cut(s)	90
BseMII	CTCAG	1 cut(s)	26
BseXI	GCAGC	6 cut(s)	268, 317, 461, 464, 697, 1132
BseYI	CCCAGC	1 cut(s)	71
Bsh1236I	CGCG	1 cut(s)	1305
BshFI	GGCC	3 cut(s)	152, 338, 460
BshTI	ACCGGT	1 cut(s)	1332
BsiHKAI	GWGCWC	1 cut(s)	694
BsiHKCI	CYCGRG	1 cut(s)	197
BsiSI	CCGG	2 cut(s)	335, 1333
BslI	CCNNNNNNNGG	1 cut(s)	1194
BsmAI	GTCTC	2 cut(s)	419, 749
BsnI	GGCC	3 cut(s)	152, 338, 460
Bso31I	GGTCTC	2 cut(s)	419, 749
BsoBI	CYCGRG	1 cut(s)	197
Bsp1286I	GDGCHC	1 cut(s)	694
Bsp1407I	TGTACA	1 cut(s)	42
Bsp143I	GATC	3 cut(s)	31, 508, 1252
BspACI	CCGC	4 cut(s)	51, 95, 143, 1226
BspANI	GGCC	3 cut(s)	152, 338, 460
BspCNI	CTCAG	1 cut(s)	27
BspFNI	CGCG	1 cut(s)	1305
BspHI	TCATGA	2 cut(s)	1255, 1371
BspLI	GGNNCC	1 cut(s)	339
BspMAI	CTGCAG	2 cut(s)	715, 754
BspPI	GGATC	1 cut(s)	503
BspQI	GCTCTTC	1 cut(s)	1403
BspTNI	GGTCTC	2 cut(s)	419, 749
BsrDI	GCAATG	1 cut(s)	90
BsrFI	RCCGGY	1 cut(s)	1332
BsrGI	TGTACA	1 cut(s)	42
BssAI	RCCGGY	1 cut(s)	1332
BssECI	CCNNGG	1 cut(s)	153
BssMI	GATC	3 cut(s)	31, 508, 1252
BssNAI	GTATAC	1 cut(s)	1046
Bst1107I	GTATAC	1 cut(s)	1046
Bst2UI	CCWGG	2 cut(s)	68, 155
Bst4CI	ACNGT	1 cut(s)	1155
Bst6I	CTCTTC	2 cut(s)	1260, 1403
BstAUI	TGTACA	1 cut(s)	42
BstC8I	GCNNGC	1 cut(s)	630
BstDEI	CTNAG	4 cut(s)	35, 122, 405, 659
BstF5I	GGATG	3 cut(s)	26, 820, 1108
BstFNI	CGCG	1 cut(s)	1305
BstHHI	GCGC	1 cut(s)	564
BstKTI	GATC	3 cut(s)	34, 511, 1255
BstMAI	GTCTC	2 cut(s)	419, 749
BstMBI	GATC	3 cut(s)	31, 508, 1252
BstMWI	GCNNNNNNNGC	3 cut(s)	149, 287, 410
BstNI	CCWGG	2 cut(s)	68, 155
BstNSI	RCATGY	1 cut(s)	1205
BstSCI	CCNGG	3 cut(s)	66, 153, 333
BstSFI	CTRYAG	2 cut(s)	711, 750
BstUI	CGCG	1 cut(s)	1305
BstV1I	GCAGC	6 cut(s)	268, 317, 461, 464, 697, 1132
BstX2I	RGATCY	1 cut(s)	31
BstYI	RGATCY	1 cut(s)	31
BstZ17I	GTATAC	1 cut(s)	1046
Bsu36I	CCTNAGG	1 cut(s)	122
BsuRI	GGCC	3 cut(s)	152, 338, 460
BtgZI	GCGATG	1 cut(s)	101
BtsCI	GGATG	3 cut(s)	26, 820, 1108
Cac8I	GCNNGC	1 cut(s)	630
CaiI	CAGNNNCTG	1 cut(s)	503
CciI	TCATGA	2 cut(s)	1255, 1371
CfoI	GCGC	1 cut(s)	564
Cfr10I	RCCGGY	1 cut(s)	1332
Cfr13I	GGNCC	3 cut(s)	151, 337, 377
Csp6I	GTAC	6 cut(s)	43, 88, 100, 1178, 1219, 1231
CspAI	ACCGGT	1 cut(s)	1332
CviQI	GTAC	6 cut(s)	43, 88, 100, 1178, 1219, 1231
DdeI	CTNAG	4 cut(s)	35, 122, 405, 659
DpnI	GATC	3 cut(s)	33, 510, 1254
DpnII	GATC	3 cut(s)	31, 508, 1252
DrdI	GACNNNNNNGTC	1 cut(s)	1135
DseDI	GACNNNNNNGTC	1 cut(s)	1135
Eam1104I	CTCTTC	2 cut(s)	1260, 1403
EarI	CTCTTC	2 cut(s)	1260, 1403
Eco147I	AGGCCT	1 cut(s)	460
Eco31I	GGTCTC	2 cut(s)	419, 749
Eco47I	GGWCC	1 cut(s)	377
Eco57I	CTGAAG	1 cut(s)	755
Eco81I	CCTNAGG	1 cut(s)	122
Eco88I	CYCGRG	1 cut(s)	197
EcoRII	CCWGG	2 cut(s)	66, 153
FalI	AAGNNNNNCTT	2 cut(s)	606, 638
FbaI	TGATCA	1 cut(s)	1252
FblI	GTMKAC	2 cut(s)	208, 1045
Fnu4HI	GCNGC	7 cut(s)	282, 331, 450, 453, 711, 1146, 1227
FokI	GGATG	3 cut(s)	33, 827, 1115
Fsp4HI	GCNGC	7 cut(s)	282, 331, 450, 453, 711, 1146, 1227
FspBI	CTAG	3 cut(s)	540, 744, 1340
GlaI	GCGC	1 cut(s)	563
GluI	GCNGC	7 cut(s)	282, 331, 450, 453, 711, 1146, 1227
GsaI	CCCAGC	1 cut(s)	75
HaeIII	GGCC	3 cut(s)	152, 338, 460
HapII	CCGG	2 cut(s)	335, 1333
HhaI	GCGC	1 cut(s)	564
Hin6I	GCGC	1 cut(s)	562
HinP1I	GCGC	1 cut(s)	562
HindIII	AAGCTT	1 cut(s)	1376
HinfI	GANTC	2 cut(s)	477, 619
HpaII	CCGG	2 cut(s)	335, 1333
Hpy166II	GTNNAC	6 cut(s)	43, 100, 194, 209, 1046, 1180
Hpy188I	TCNGA	6 cut(s)	36, 246, 276, 424, 772, 1412
Hpy188III	TCNNGA	3 cut(s)	353, 1256, 1372
Hpy8I	GTNNAC	6 cut(s)	43, 100, 194, 209, 1046, 1180
HpyAV	CCTTC	4 cut(s)	368, 730, 1030, 1288
HpyCH4III	ACNGT	1 cut(s)	1155
HpyCH4IV	ACGT	1 cut(s)	439
HpyCH4V	TGCA	6 cut(s)	131, 174, 497, 713, 752, 1135
HpyF10VI	GCNNNNNNNGC	3 cut(s)	149, 287, 410
HpyF3I	CTNAG	4 cut(s)	35, 122, 405, 659
HpySE526I	ACGT	1 cut(s)	439
HspAI	GCGC	1 cut(s)	562
Ksp22I	TGATCA	1 cut(s)	1252
Kzo9I	GATC	3 cut(s)	31, 508, 1252
LguI	GCTCTTC	1 cut(s)	1403
LmnI	GCTCC	1 cut(s)	157
Lsp1109I	GCAGC	6 cut(s)	268, 317, 461, 464, 697, 1132
LweI	GCATC	3 cut(s)	484, 1093, 1375
MaeI	CTAG	3 cut(s)	540, 744, 1340
MaeII	ACGT	1 cut(s)	439
MaeIII	GTNAC	5 cut(s)	307, 513, 1122, 1155, 1279
MalI	GATC	3 cut(s)	33, 510, 1254
MboI	GATC	3 cut(s)	31, 508, 1252
MboII	GAAGA	6 cut(s)	368, 528, 602, 1046, 1277, 1390
MflI	RGATCY	1 cut(s)	31
MhlI	GDGCHC	1 cut(s)	694
MluCI	AATT	7 cut(s)	134, 224, 483, 532, 634, 1234, 1313
MluI	ACGCGT	1 cut(s)	1303
MroXI	GAANNNNTTC	2 cut(s)	348, 618
MseI	TTAA	4 cut(s)	78, 227, 482, 1242
MslI	CAYNNNNRTG	2 cut(s)	95, 702
MspI	CCGG	2 cut(s)	335, 1333
MspR9I	CCNGG	3 cut(s)	68, 155, 335
MvaI	CCWGG	2 cut(s)	68, 155
MvnI	CGCG	1 cut(s)	1305
MwoI	GCNNNNNNNGC	3 cut(s)	149, 287, 410
NciI	CCSGG	1 cut(s)	335
NdeII	GATC	3 cut(s)	31, 508, 1252
NlaIV	GGNNCC	1 cut(s)	339
NmuCI	GTSAC	3 cut(s)	307, 513, 1155
NspI	RCATGY	1 cut(s)	1205
PaeR7I	CTCGAG	1 cut(s)	197
PagI	TCATGA	2 cut(s)	1255, 1371
PceI	AGGCCT	1 cut(s)	460
PciI	ACATGT	1 cut(s)	1201
PciSI	GCTCTTC	1 cut(s)	1403
PdmI	GAANNNNTTC	2 cut(s)	348, 618
PfeI	GAWTC	2 cut(s)	477, 619
PflMI	CCANNNNNTGG	1 cut(s)	1194
PinAI	ACCGGT	1 cut(s)	1332
PkrI	GCNGC	7 cut(s)	283, 332, 451, 454, 712, 1147, 1228
PscI	ACATGT	1 cut(s)	1201
PshBI	ATTAAT	1 cut(s)	227
Psp6I	CCWGG	2 cut(s)	66, 153
PspFI	CCCAGC	1 cut(s)	71
PspGI	CCWGG	2 cut(s)	66, 153
PspN4I	GGNNCC	1 cut(s)	339
PspPI	GGNCC	3 cut(s)	151, 337, 377
PspXI	VCTCGAGB	1 cut(s)	197
PstI	CTGCAG	2 cut(s)	715, 754
PstNI	CAGNNNCTG	1 cut(s)	503
PsuI	RGATCY	1 cut(s)	31
RsaI	GTAC	6 cut(s)	44, 89, 101, 1179, 1220, 1232
RsaNI	GTAC	6 cut(s)	43, 88, 100, 1178, 1219, 1231
RseI	CAYNNNNRTG	2 cut(s)	95, 702
SapI	GCTCTTC	1 cut(s)	1403
SaqAI	TTAA	4 cut(s)	78, 227, 482, 1242
SatI	GCNGC	7 cut(s)	282, 331, 450, 453, 711, 1146, 1227
Sau3AI	GATC	3 cut(s)	31, 508, 1252
Sau96I	GGNCC	3 cut(s)	151, 337, 377
ScrFI	CCNGG	3 cut(s)	68, 155, 335
SduI	GDGCHC	1 cut(s)	694
SfaNI	GCATC	3 cut(s)	484, 1093, 1375
SfcI	CTRYAG	2 cut(s)	711, 750
Sfr274I	CTCGAG	1 cut(s)	197
SinI	GGWCC	1 cut(s)	377
SlaI	CTCGAG	1 cut(s)	197
SmiMI	CAYNNNNRTG	2 cut(s)	95, 702
SmlI	CTYRAG	3 cut(s)	197, 285, 414
SmoI	CTYRAG	3 cut(s)	197, 285, 414
Sse9I	AATT	7 cut(s)	134, 224, 483, 532, 634, 1234, 1313
SseBI	AGGCCT	1 cut(s)	460
SsiI	CCGC	4 cut(s)	51, 95, 143, 1226
SspI	AATATT	1 cut(s)	1116
SspMI	CTAG	3 cut(s)	540, 744, 1340
StuI	AGGCCT	1 cut(s)	460
StyD4I	CCNGG	3 cut(s)	66, 153, 333
TaaI	ACNGT	1 cut(s)	1155
TaiI	ACGT	1 cut(s)	442
TaqI	TCGA	1 cut(s)	198
TasI	AATT	7 cut(s)	134, 224, 483, 532, 634, 1234, 1313
TatI	WGTACW	3 cut(s)	42, 87, 1177
TauI	GCSGC	1 cut(s)	1229
TfiI	GAWTC	2 cut(s)	477, 619
Tru1I	TTAA	4 cut(s)	78, 227, 482, 1242
Tru9I	TTAA	4 cut(s)	78, 227, 482, 1242
TseFI	GTSAC	3 cut(s)	307, 513, 1155
TseI	GCWGC	6 cut(s)	281, 330, 449, 452, 710, 1145
Tsp45I	GTSAC	3 cut(s)	307, 513, 1155
TspDTI	ATGAA	4 cut(s)	637, 641, 720, 1388
TspGWI	ACGGA	1 cut(s)	501
Van91I	CCANNNNNTGG	1 cut(s)	1194
VpaK11BI	GGWCC	1 cut(s)	377
VspI	ATTAAT	1 cut(s)	227
XapI	RAATTY	1 cut(s)	134
XceI	RCATGY	1 cut(s)	1205
XhoI	CTCGAG	1 cut(s)	197
XmiI	GTMKAC	2 cut(s)	208, 1045
XmnI	GAANNNNTTC	2 cut(s)	348, 618
XspI	CTAG	3 cut(s)	540, 744, 1340

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