Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000002

Orthogroup ID

OG0003823

Physical Location & Seq

Genomic Coordinates Forward (+)

40088387 .. 40093127

Gene Structure 4741 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug02G0327000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1548 bp

ATGGCTTTGAACATGATTCGGATTGCTTCCCATGAAGCTGAAAACCCCGTGGGCTGCTCTCTGAAGGAGGCCTTTGAGCTCCTTGAACCAAAACTAAGACCCCCATTGGCAATAACAATCTCAACCCCACAGGAATACTTGCTGCTCAACAAGGCTATTTTGTATGGAGTTCTATGTGAAACCCATTTTGCCAAAACACATATTAAGCATTTACATGCCATTGTCACTGATGGGTATGGCTTGTTTGCTAGTTTGATTGCTAAGGTTGTGAATGAATTGTACTCGAAACTTGTTGACCCAGTGAAGTGCCAGTTGATTTGGGTTACTAAGGAGATGATTGATGTTCAGGCTGTAGGCATCCATGGTTTGTTGGTTTGTTTTCTGAGGCAAATTGTTGGTGGGGATTTTAGTGATGGAAATTTGTGGCTGTGTTTTGAGATCGTGAGCATTTTTTTGACCAAATGGGATTCGCTCTTGGAAGTAGAACCAATGATTTTGACCAGTGGATTGTATACATATCTTCGGCTAGTAGCTGATCACTATAGATTGCTAAGTAATCCAAAGTTGGAAGCGTTAAAGCAATTGGAAATTGATTTCTGCATTAAAGTGTTAAGGGAGCAGTTTTCGGTCTGTTTAAAGATTGGGAGGGATCTTGTTCGGCTCCTACAAGATGTGGTTCATATACCAAACTTTAGAGCTACGTGGAAAGATTTGGTATTGAATCAAGGCAAGTTTAAGACTCCTGGTTTTTCTGTTATTTCGCAGCTCTATAACACAAGGACTTCAAGTCAATATATTTTACTTCGGATTTCACCAGAAATGGAGACACAGTTGCGGTTTTTACTTATTTGCGTGAAGTTGGGGAGTCAAAAGCGTTACCAGGCATGGTTTGCTAAGAAGTTTCTATGTGCACCAAACAGAGAGACTTTGATAGTTGACATTGTCCGTTTTATATGTTGTGCACACCACCCACCAAATGAAATCATACAATCAGATATCATTCCAAGATGGGCTGTTGTAGGTTGGCTATTGAAATATTGCACAAAGAATTATGTCCAAGCCAATGTGAAACTAGCTCTACTTTATGATTGGCTATTCTTTGATGAAAGAGTAGATAATATAATGAATATTGAGCCTGCAATGCTACTGATGGTGTACTCTATACCCAGATACATTGATGTGACTCACACACTTCTTGAGTTTTTGTTCCTTCTTGTGGACAGTTATGATGTGGAACATAAAGATATAATTATTAGAGGCGTGTCTTCATCTCTTCGTGTACTTGTCAAGAAAGGAGTGATTCGCTCCTTTGATGTGTTGACATCTTGTGATGCACTTTCTCCTGTATTGAAAGAGAGGCTTGATAGGTTTTTGTCAGGTGCGGAATTGGAAATTTATAAAAGGCTGGAACAAACTAGATTTCCCAGTCCCTTTGCTTTGGAGAATTCCTCTTGTATGGGAACTCCGACTCCATCACCAGAACGTGAACGAGATAGATTTGCTATAAAATCAGCTGATACTTCTGTTATGATATCAGATTTGCAATAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000428 GO:0001817 GO:0001819 GO:0002682 GO:0002684 GO:0003674 GO:0003676 GO:0003677 GO:0003690 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005666 GO:0008150 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: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:0097159 GO:1901363 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_Rpc34

Protein Analysis

515

Amino Acids

59.05

Weight (kDa)

7.86

Isoelectric Point (pI)

35.38

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Ints3_N	PF10189	45 - 454	5.3e-154	Integrator complex subunit 3 N-terminal

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: OG0003823)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G23710
fragaria_vesca	FvH4_6g29950 FvH4_6g29950 FvH4_6g41460
malus_domestica	MD08G1239800.v1.1 MD15G1431400.v1.1
prunus_persica	Prupe.1G576300_v2.0.a1 Prupe.5G067300_v2.0.a1
pyrus_communis	pycom08g20810 pycom15g38120
rosa_chinensis	RchiOBHm_Chr2g0135951 RchiOBHm_Chr6g0271261 RchiOBHm_Chr6g0271271
rosa_laevigata	RLG00000019491 RLG00000020962
rosa_multiflora	Rmu_sc0004866.1_g000010 Rmu_ssc0000343.1_g000019
rosa_roxburghii	Rroxscaffold_2G00108750 Rroxscaffold_7G00200610
rosa_rugosa	Rorug02G0327000 Rorug02G0457600 Rorug06G0035800 Rorug06G0036000
rosa_samantha	Rh2BG385300 Rh2CG364400 Rh2DG401600 Rh6AG179300 Rh6BG182300 Rh6CG179200 Rh6DG170900
rosa_wichuraiana	Rw2G030860 Rw2G031070 Rw2G043270 Rw6G015420

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	1398
AccI	GTMKAC	1 cut(s)	512
AciI	CCGC	2 cut(s)	835, 1382
AclWI	GGATC	1 cut(s)	657
AcsI	RAATTY	3 cut(s)	418, 1392, 1444
AcuI	CTGAAG	1 cut(s)	83
AfaI	GTAC	3 cut(s)	281, 1157, 1281
AfiI	CCNNNNNNNGG	1 cut(s)	1216
AgsI	TTSAA	6 cut(s)	10, 86, 721, 786, 1033, 1351
AhdI	GACNNNNNGTC	1 cut(s)	786
AjnI	CCWGG	2 cut(s)	742, 879
AloI	GAACNNNNNNTCC	2 cut(s)	1453, 1485
AluBI	AGCT	7 cut(s)	38, 79, 533, 698, 766, 1076, 1514
AluI	AGCT	7 cut(s)	38, 79, 533, 698, 766, 1076, 1514
Alw21I	GWGCWC	3 cut(s)	81, 913, 964
Alw26I	GTCTC	2 cut(s)	818, 917
Alw44I	GTGCAC	2 cut(s)	909, 960
AlwI	GGATC	1 cut(s)	657
AoxI	GGCC	1 cut(s)	69
ApaLI	GTGCAC	2 cut(s)	909, 960
ApeKI	GCWGC	3 cut(s)	54, 142, 763
ApoI	RAATTY	3 cut(s)	418, 1392, 1444
AsuHPI	GGTGA	2 cut(s)	804, 1467
BaeGI	GKGCMC	2 cut(s)	913, 964
BaeI	ACNNNNGTAYC	2 cut(s)	1509, 1542
BanII	GRGCYC	1 cut(s)	81
BbsI	GAAGAC	1 cut(s)	1257
Bbv12I	GWGCWC	3 cut(s)	81, 913, 964
BbvI	GCAGC	3 cut(s)	41, 129, 775
BccI	CCATC	5 cut(s)	224, 407, 1002, 1144, 1480
BciT130I	CCWGG	2 cut(s)	744, 881
BclI	TGATCA	1 cut(s)	535
BcoDI	GTCTC	2 cut(s)	818, 917
BfaI	CTAG	4 cut(s)	249, 527, 1073, 1416
BfmI	CTRYAG	2 cut(s)	351, 541
BisI	GCNGC	3 cut(s)	55, 143, 764
BlsI	GCNGC	3 cut(s)	56, 144, 765
Bme1390I	CCNGG	2 cut(s)	744, 881
BmeRI	GACNNNNNGTC	1 cut(s)	786
BmiI	GGNNCC	1 cut(s)	662
BmrFI	CCNGG	2 cut(s)	744, 881
BmrI	ACTGGG	2 cut(s)	293, 1419
BmsI	GCATC	2 cut(s)	366, 1321
BmuI	ACTGGG	2 cut(s)	293, 1419
BpiI	GAAGAC	1 cut(s)	1257
BplI	GAGNNNNNCTC	2 cut(s)	1433, 1465
Bpu10I	CCTNAGC	1 cut(s)	261
BpuEI	CTTGAG	1 cut(s)	1217
BsaAI	YACGTR	1 cut(s)	702
BsaJI	CCNNGG	2 cut(s)	48, 361
BsaXI	ACNNNNNCTCC	4 cut(s)	815, 845, 1453, 1483
Bsc4I	CCNNNNNNNGG	1 cut(s)	1216
Bse1I	ACTGG	4 cut(s)	299, 310, 501, 1425
Bse3DI	GCAATG	1 cut(s)	1146
BseBI	CCWGG	2 cut(s)	744, 881
BseDI	CCNNGG	2 cut(s)	48, 361
BseGI	GGATG	1 cut(s)	357
BseLI	CCNNNNNNNGG	1 cut(s)	1216
BseMI	GCAATG	1 cut(s)	1146
BseMII	CTCAG	1 cut(s)	374
BseNI	ACTGG	4 cut(s)	299, 310, 501, 1425
BseSI	GKGCMC	2 cut(s)	913, 964
BseXI	GCAGC	3 cut(s)	41, 129, 775
BshFI	GGCC	1 cut(s)	71
BsiHKAI	GWGCWC	3 cut(s)	81, 913, 964
BslFI	GGGAC	1 cut(s)	1413
BslI	CCNNNNNNNGG	1 cut(s)	1216
BsmAI	GTCTC	2 cut(s)	818, 917
BsmFI	GGGAC	1 cut(s)	1413
BsnI	GGCC	1 cut(s)	71
Bsp1286I	GDGCHC	3 cut(s)	81, 913, 964
Bsp143I	GATC	3 cut(s)	438, 535, 649
Bsp19I	CCATGG	1 cut(s)	361
BspACI	CCGC	2 cut(s)	835, 1382
BspANI	GGCC	1 cut(s)	71
BspCNI	CTCAG	1 cut(s)	375
BspLI	GGNNCC	1 cut(s)	662
BspPI	GGATC	1 cut(s)	657
BsrDI	GCAATG	1 cut(s)	1146
BsrI	ACTGG	4 cut(s)	299, 310, 501, 1425
BssECI	CCNNGG	2 cut(s)	48, 361
BssMI	GATC	3 cut(s)	438, 535, 649
BssNAI	GTATAC	1 cut(s)	513
BssT1I	CCWWGG	1 cut(s)	361
Bst1107I	GTATAC	1 cut(s)	513
Bst2UI	CCWGG	2 cut(s)	744, 881
Bst4CI	ACNGT	2 cut(s)	831, 1223
Bst6I	CTCTTC	1 cut(s)	1278
BstAPI	GCANNNNNTGC	1 cut(s)	890
BstBAI	YACGTR	1 cut(s)	702
BstC8I	GCNNGC	1 cut(s)	1137
BstDEI	CTNAG	6 cut(s)	95, 261, 327, 383, 551, 894
BstDSI	CCRYGG	2 cut(s)	48, 361
BstF5I	GGATG	1 cut(s)	357
BstKTI	GATC	3 cut(s)	441, 538, 652
BstMAI	GTCTC	2 cut(s)	818, 917
BstMBI	GATC	3 cut(s)	438, 535, 649
BstMWI	GCNNNNNNNGC	2 cut(s)	890, 1141
BstNI	CCWGG	2 cut(s)	744, 881
BstNSI	RCATGY	1 cut(s)	218
BstSCI	CCNGG	2 cut(s)	742, 879
BstSFI	CTRYAG	2 cut(s)	351, 541
BstSLI	GKGCMC	2 cut(s)	913, 964
BstV1I	GCAGC	3 cut(s)	41, 129, 775
BstV2I	GAAGAC	1 cut(s)	1257
BstX2I	RGATCY	1 cut(s)	649
BstYI	RGATCY	1 cut(s)	649
BstZ17I	GTATAC	1 cut(s)	513
BsuRI	GGCC	1 cut(s)	71
BtgI	CCRYGG	2 cut(s)	48, 361
BtsCI	GGATG	1 cut(s)	357
BtsIMutI	CAGTG	3 cut(s)	225, 306, 508
Cac8I	GCNNGC	1 cut(s)	1137
Csp6I	GTAC	3 cut(s)	280, 1156, 1280
CviAII	CATG	5 cut(s)	13, 32, 215, 362, 885
CviQI	GTAC	3 cut(s)	280, 1156, 1280
DdeI	CTNAG	6 cut(s)	95, 261, 327, 383, 551, 894
DpnI	GATC	3 cut(s)	440, 537, 651
DpnII	GATC	3 cut(s)	438, 535, 649
DraI	TTTAAA	1 cut(s)	636
DriI	GACNNNNNGTC	1 cut(s)	786
Eam1104I	CTCTTC	1 cut(s)	1278
Eam1105I	GACNNNNNGTC	1 cut(s)	786
EarI	CTCTTC	1 cut(s)	1278
Ecl136II	GAGCTC	1 cut(s)	79
Eco130I	CCWWGG	1 cut(s)	361
Eco147I	AGGCCT	1 cut(s)	71
Eco24I	GRGCYC	1 cut(s)	81
Eco32I	GATATC	2 cut(s)	997, 1533
Eco53kI	GAGCTC	1 cut(s)	79
Eco57I	CTGAAG	1 cut(s)	83
EcoICRI	GAGCTC	1 cut(s)	79
EcoRI	GAATTC	1 cut(s)	1444
EcoRII	CCWGG	2 cut(s)	742, 879
EcoRV	GATATC	2 cut(s)	997, 1533
EcoT14I	CCWWGG	1 cut(s)	361
EcoT38I	GRGCYC	1 cut(s)	81
ErhI	CCWWGG	1 cut(s)	361
FaeI	CATG	5 cut(s)	16, 35, 218, 365, 888
FalI	AAGNNNNNCTT	4 cut(s)	56, 88, 1344, 1376
FaqI	GGGAC	1 cut(s)	1413
FatI	CATG	5 cut(s)	12, 31, 214, 361, 884
FbaI	TGATCA	1 cut(s)	535
FblI	GTMKAC	1 cut(s)	512
Fnu4HI	GCNGC	3 cut(s)	55, 143, 764
FokI	GGATG	1 cut(s)	344
FriOI	GRGCYC	1 cut(s)	81
Fsp4HI	GCNGC	3 cut(s)	55, 143, 764
FspBI	CTAG	4 cut(s)	249, 527, 1073, 1416
GluI	GCNGC	3 cut(s)	55, 143, 764
HaeIII	GGCC	1 cut(s)	71
Hin1II	CATG	5 cut(s)	16, 35, 218, 365, 888
HincII	GTYRAC	3 cut(s)	295, 937, 1320
HindII	GTYRAC	3 cut(s)	295, 937, 1320
HinfI	GANTC	8 cut(s)	16, 467, 721, 739, 865, 1183, 1300, 1468
HphI	GGTGA	2 cut(s)	804, 1467
Hpy188I	TCNGA	7 cut(s)	21, 63, 384, 807, 994, 1467, 1537
Hpy188III	TCNNGA	3 cut(s)	442, 1196, 1288
HpyAV	CCTTC	2 cut(s)	58, 1220
HpyCH4III	ACNGT	2 cut(s)	831, 1223
HpyCH4IV	ACGT	2 cut(s)	701, 1483
HpyCH4V	TGCA	7 cut(s)	600, 911, 962, 1041, 1139, 1334, 1543
HpyF10VI	GCNNNNNNNGC	2 cut(s)	890, 1141
HpyF3I	CTNAG	6 cut(s)	95, 261, 327, 383, 551, 894
HpySE526I	ACGT	2 cut(s)	701, 1483
Hsp92II	CATG	5 cut(s)	16, 35, 218, 365, 888
Ksp22I	TGATCA	1 cut(s)	535
Kzo9I	GATC	3 cut(s)	438, 535, 649
LmnI	GCTCC	4 cut(s)	84, 616, 666, 1310
Lsp1109I	GCAGC	3 cut(s)	41, 129, 775
LweI	GCATC	2 cut(s)	366, 1321
MaeI	CTAG	4 cut(s)	249, 527, 1073, 1416
MaeII	ACGT	2 cut(s)	701, 1483
MaeIII	GTNAC	4 cut(s)	223, 322, 875, 1180
MalI	GATC	3 cut(s)	440, 537, 651
MboI	GATC	3 cut(s)	438, 535, 649
MboII	GAAGA	3 cut(s)	512, 1257, 1265
MfeI	CAATTG	1 cut(s)	581
MflI	RGATCY	1 cut(s)	649
MhlI	GDGCHC	3 cut(s)	81, 913, 964
MlyI	GAGTC	4 cut(s)	733, 874, 1177, 1462
MmeI	TCCRAC	2 cut(s)	546, 1490
MnlI	CCTC	6 cut(s)	61, 378, 639, 1250, 1350, 1459
MseI	TTAA	6 cut(s)	204, 575, 603, 611, 635, 735
MslI	CAYNNNNRTG	3 cut(s)	213, 605, 1178
MspA1I	CMGCKG	1 cut(s)	1514
MspR9I	CCNGG	2 cut(s)	744, 881
MunI	CAATTG	1 cut(s)	581
MvaI	CCWGG	2 cut(s)	744, 881
MwoI	GCNNNNNNNGC	2 cut(s)	890, 1141
NcoI	CCATGG	1 cut(s)	361
NdeII	GATC	3 cut(s)	438, 535, 649
NlaIII	CATG	5 cut(s)	16, 35, 218, 365, 888
NlaIV	GGNNCC	1 cut(s)	662
NmuCI	GTSAC	2 cut(s)	223, 1180
NspI	RCATGY	1 cut(s)	218
PceI	AGGCCT	1 cut(s)	71
PfeI	GAWTC	4 cut(s)	16, 467, 721, 1300
PflFI	GACNNNGTC	1 cut(s)	941
PkrI	GCNGC	3 cut(s)	56, 144, 765
PleI	GAGTC	4 cut(s)	733, 873, 1177, 1462
PpsI	GAGTC	4 cut(s)	733, 873, 1177, 1462
Ppu21I	YACGTR	1 cut(s)	702
PsiI	TTATAA	1 cut(s)	1398
Psp124BI	GAGCTC	1 cut(s)	81
Psp6I	CCWGG	2 cut(s)	742, 879
PspGI	CCWGG	2 cut(s)	742, 879
PspN4I	GGNNCC	1 cut(s)	662
PsuI	RGATCY	1 cut(s)	649
PsyI	GACNNNGTC	1 cut(s)	941
PvuII	CAGCTG	1 cut(s)	1514
RsaI	GTAC	3 cut(s)	281, 1157, 1281
RsaNI	GTAC	3 cut(s)	280, 1156, 1280
RseI	CAYNNNNRTG	3 cut(s)	213, 605, 1178
SacI	GAGCTC	1 cut(s)	81
SaqAI	TTAA	6 cut(s)	204, 575, 603, 611, 635, 735
SatI	GCNGC	3 cut(s)	55, 143, 764
Sau3AI	GATC	3 cut(s)	438, 535, 649
SchI	GAGTC	4 cut(s)	733, 874, 1177, 1462
ScrFI	CCNGG	2 cut(s)	744, 881
SduI	GDGCHC	3 cut(s)	81, 913, 964
SfaNI	GCATC	2 cut(s)	366, 1321
SfcI	CTRYAG	2 cut(s)	351, 541
SmiMI	CAYNNNNRTG	3 cut(s)	213, 605, 1178
SmlI	CTYRAG	1 cut(s)	1196
SmoI	CTYRAG	1 cut(s)	1196
SseBI	AGGCCT	1 cut(s)	71
SsiI	CCGC	2 cut(s)	835, 1382
SspI	AATATT	2 cut(s)	1037, 1129
SspMI	CTAG	4 cut(s)	249, 527, 1073, 1416
SstI	GAGCTC	1 cut(s)	81
StuI	AGGCCT	1 cut(s)	71
StyD4I	CCNGG	2 cut(s)	742, 879
StyI	CCWWGG	1 cut(s)	361
TaaI	ACNGT	2 cut(s)	831, 1223
TaiI	ACGT	2 cut(s)	704, 1486
TaqI	TCGA	1 cut(s)	284
TaqII	GACCGA	1 cut(s)	616
TatI	WGTACW	3 cut(s)	279, 1155, 1279
TfiI	GAWTC	4 cut(s)	16, 467, 721, 1300
Tru1I	TTAA	6 cut(s)	204, 575, 603, 611, 635, 735
Tru9I	TTAA	6 cut(s)	204, 575, 603, 611, 635, 735
TscAI	CASTG	3 cut(s)	232, 306, 508
TseFI	GTSAC	2 cut(s)	223, 1180
TseI	GCWGC	3 cut(s)	54, 142, 763
Tsp45I	GTSAC	2 cut(s)	223, 1180
TspDTI	ATGAA	7 cut(s)	48, 288, 668, 993, 1119, 1139, 1257
TspGWI	ACGGA	1 cut(s)	935
TspRI	CASTG	3 cut(s)	232, 306, 508
Tth111I	GACNNNGTC	1 cut(s)	941
VneI	GTGCAC	2 cut(s)	909, 960
XapI	RAATTY	3 cut(s)	418, 1392, 1444
XceI	RCATGY	1 cut(s)	218
XmiI	GTMKAC	1 cut(s)	512
XspI	CTAG	4 cut(s)	249, 527, 1073, 1416

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