Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000004

Orthogroup ID

OG0002242

Physical Location & Seq

Genomic Coordinates Reverse (-)

2526843 .. 2528547

Gene Structure 1705 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug04G0016500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1491 bp

ATGAAGGACAGTGGAGATCTCAAACGTGCACTGCACGATTCAAAATCACAACTCCAACCTGCGGAAGGTATTGGAGATGACAGGATCAGTGCGTTACCGGATGAGATTCTCTGTCATATACTCTCTCTCCTCATCCCGTTATATTCTGTCCGGACCACTGTCTTGTCTAAGAGGTGGAACAACTTGTGGACTAGTTGTATTACCAACCTTGATTTTGACATGTATGATTTCCGTTCATCATGGCATAACTATCGCATTTTCGTCAGGTTCGTTAATCGGGTGTTGGCCTTACGCGACTCATCGTTAGACATCAGAAGATTTCGTGTTGATTGGGTCGATTGTGAAGATTTCTCTATTATTGATCGTTGGATACGTGCCGCCATCAAGGCTAATGTTGTTGAGCTTGATGTTTCTTTTTCTGTGGAATGTTCTGGTGAACCTTACTTGGTGCGTCCTTTCGAAATGCCTCGAAGTGTTTTTACCAGCAAATCACTGGTGGCTTTGAAGGTGAAGTCAAATTATCTTACCTATTCTCTTCCTACAACAGGTTGTTATTTCCCAAATCTCAAGTTCCTTCATTTTTCTTCTGGGTATAATTCCGATTCGGCCTCAGAGGAAAATCTTTTCCGTAGCTGCCCTGTACTCGAAGAGTTGACTATAGAAGGACATCATAAGGAAGATGTTTTGAATTTCAACATATCTGCACCTGAATTGCGGACACTAACGACCATCATTTCAGAAGCAAGGCATGATGAAGAATTTGATGAATCGGATGAAGATTCTGGCGGAGAAGGTTCTGGAGAATATAGGGTAGAACCCTGCAATTTCTTTATCGATGCCCCGAAACTTGAAAACTTTTGTGTTGCGGGAGAGGTTATGTCAAAGTATATTTTGGAGAACTCTAGCTCCTTAGTTCAAGCCAAAGTTCAACTCCAAGAGTTCCATGAAGCTTGCGCTCACCGTGTTGCTGAGTTCTTGGATAGAATTTCAAGCGTCAGATATATGGTCCTTTCAGCTCCTGATTTTAAGCCTTGTTTGCCGCATGTTTTTAGTAATTTGATCAAGCTAGAGCTGGTTTTTTACAATCAGTCTTGCTGGAAATGGCTTGCCGACGTGCTCAACATATCGCCTAATCTAGAATATCTGGTCTTAGACTTTGCAAAAATAAAATCAGGAGGACGAGATTCATTGCCTGATTTGGAATCTTTTGGCGATGACTTTGCAAGCATCAACATGAGAGAAGGATGGGATTCCTTCCATCCACCAGAGTTTTTGCCTAGTTGTTTGTCTTCACAGCTCAAGACTATCTCCATAAAGGGATTCAAAGGAACACCGAATGAGATTGGCGTGGCAGTGTATTTGTTAATCTATGGTGAAGTTCTAAATAAGGTGATTGTTTCTTGTGAGAGTTGTTCCAGCATTCGCGGTGCAAAGGAGAAGATTTTATCCTTTGTAAAGGGTTCAAAGACATGTCAAGTTAGTTTTATCTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000726 GO:0003674 GO:0003824 GO:0003909 GO:0003910 GO:0005575 GO:0005576 GO:0005622 GO:0005623 GO:0005634 GO:0005737 GO:0005911 GO:0006139 GO:0006259 GO:0006266 GO:0006281 GO:0006289 GO:0006297 GO:0006302 GO:0006303 GO:0006725 GO:0006807 GO:0006950 GO:0006974 GO:0008150 GO:0008152 GO:0009314 GO:0009506 GO:0009628 GO:0009987 GO:0010165 GO:0010212 GO:0016874 GO:0016886 GO:0030054 GO:0032807 GO:0032991 GO:0033554 GO:0034641 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044237 GO:0044238 GO:0044260 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0046483 GO:0048046 GO:0050896 GO:0051103 GO:0051716 GO:0055044 GO:0071704 GO:0090304 GO:0140097 GO:1901360

KEGG Pathways

Metabolic & Signaling

ko03450 map03450

Pfam Domains

Protein Families

BRCT_2 DNA_ligase_A_C DNA_ligase_A_M DNA_ligase_A_N DNA_ligase_IV

Protein Analysis

496

Amino Acids

56.32

Weight (kDa)

5.21

Isoelectric Point (pI)

50.64

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
F-box	PF00646	29 - 66	2.7e-06	F-box domain
LRR_At5g56370	PF24758	120 - 246	4.5e-09	FBD-associated F-box protein At5g56370, LRR repeats
FBD	PF08387	422 - 465	1e-08	FBD

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: OG0002242)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G57160 AT5G57160
fragaria_vesca	FvH4_4g07160
malus_domestica	MD16G1247900.v1.1
prunus_persica	Prupe.1G074600_v2.0.a1 Prupe.1G074600_v2.0.a1
pyrus_communis	pycom12g16110 pycom12g16210 pycom16g20800
rosa_chinensis	RchiOBHm_Chr0c22g0500591 RchiOBHm_Chr4g0399311 RchiOBHm_Chr5g0052491 RchiOBHm_Chr7g0206661
rosa_laevigata	RLG00000009274 RLG00000012027 RLG00000013478 RLG00000013735 RLG00000034678
rosa_multiflora	Rmu_co8101330.1_g000001 Rmu_co8329359.1_g000001 Rmu_sc0000924.1_g000031 Rmu_sc0003135.1_g000008
rosa_roxburghii	Rroxscaffold_4G00283390 Rroxscaffold_4G00329320 Rroxscaffold_5G00344240
rosa_rugosa	Rorug04G0016500
rosa_samantha	Rh2AG218900 Rh2BG192100 Rh2BG230700 Rh2CG361900 Rh2DG225100 Rh3BG254200 Rh3DG357600 Rh4AG094200 Rh4AG102100 Rh4BG091600 Rh4CG102400 Rh4CG110300 Rh4DG086300 Rh7DG237100 Rh7DG335000 Rh7DG335200
rosa_wichuraiana	Rw4G007730

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	67
AccII	CGCG	2 cut(s)	294, 1425
AccIII	TCCGGA	1 cut(s)	150
AciI	CCGC	7 cut(s)	62, 378, 715, 786, 866, 1040, 1425
AclWI	GGATC	1 cut(s)	92
AcsI	RAATTY	3 cut(s)	688, 758, 984
AfaI	GTAC	1 cut(s)	642
AfiI	CCNNNNNNNGG	3 cut(s)	61, 65, 545
AflIII	ACRYGT	2 cut(s)	219, 1469
AhlI	ACTAGT	1 cut(s)	191
AjiI	CACGTC	1 cut(s)	1114
AloI	GAACNNNNNNTCC	2 cut(s)	890, 922
AluBI	AGCT	8 cut(s)	403, 633, 906, 950, 1016, 1066, 1072, 1297
AluI	AGCT	8 cut(s)	403, 633, 906, 950, 1016, 1066, 1072, 1297
Alw21I	GWGCWC	2 cut(s)	31, 1119
Alw44I	GTGCAC	1 cut(s)	27
AlwI	GGATC	1 cut(s)	92
AlwNI	CAGNNNCTG	1 cut(s)	1019
Aor13HI	TCCGGA	1 cut(s)	150
AoxI	GGCC	2 cut(s)	285, 606
ApaLI	GTGCAC	1 cut(s)	27
ApeKI	GCWGC	1 cut(s)	633
ApoI	RAATTY	3 cut(s)	688, 758, 984
AspLEI	GCGC	1 cut(s)	956
AspS9I	GGNCC	2 cut(s)	153, 1006
AsuHPI	GGTGA	5 cut(s)	446, 520, 950, 1385, 1402
AsuII	TTCGAA	1 cut(s)	459
AvaII	GGWCC	2 cut(s)	153, 1006
BaeGI	GKGCMC	1 cut(s)	31
BarI	GAAGNNNNNNTAC	2 cut(s)	463, 495
BbsI	GAAGAC	1 cut(s)	1281
Bbv12I	GWGCWC	2 cut(s)	31, 1119
BbvI	GCAGC	1 cut(s)	620
BccI	CCATC	4 cut(s)	389, 737, 1239, 1266
BcgI	CGANNNNNNTGC	4 cut(s)	233, 267, 1202, 1236
BciVI	GTATCC	1 cut(s)	363
BclI	TGATCA	1 cut(s)	1059
BcuI	ACTAGT	1 cut(s)	191
BfaI	CTAG	5 cut(s)	192, 903, 1067, 1136, 1278
BfmI	CTRYAG	1 cut(s)	657
BfuAI	ACCTGC	1 cut(s)	67
BfuI	GTATCC	1 cut(s)	363
BglI	GCCNNNNNGGC	1 cut(s)	386
BglII	AGATCT	1 cut(s)	16
BisI	GCNGC	3 cut(s)	378, 634, 1040
BlsI	GCNGC	3 cut(s)	379, 635, 1041
Bme18I	GGWCC	2 cut(s)	153, 1006
BmgBI	CACGTC	1 cut(s)	1114
BmgT120I	GGNCC	2 cut(s)	153, 1006
BmsI	GCATC	2 cut(s)	826, 1236
BoxI	GACNNNNGTC	1 cut(s)	158
BpiI	GAAGAC	1 cut(s)	1281
BpmI	CTGGAG	1 cut(s)	819
Bpu14I	TTCGAA	1 cut(s)	459
BpuEI	CTTGAG	2 cut(s)	551, 1283
Bsa29I	ATCGAT	1 cut(s)	834
BsaAI	YACGTR	1 cut(s)	374
BsaWI	WCCGGW	2 cut(s)	97, 150
BsaXI	ACNNNNNCTCC	4 cut(s)	111, 141, 890, 920
Bsc4I	CCNNNNNNNGG	3 cut(s)	61, 65, 545
Bse1I	ACTGG	1 cut(s)	498
Bse3DI	GCAATG	1 cut(s)	1187
BseAI	TCCGGA	1 cut(s)	150
BseCI	ATCGAT	1 cut(s)	834
BseGI	GGATG	5 cut(s)	106, 132, 778, 1250, 1258
BseLI	CCNNNNNNNGG	3 cut(s)	61, 65, 545
BseMI	GCAATG	1 cut(s)	1187
BseMII	CTCAG	2 cut(s)	624, 960
BseNI	ACTGG	1 cut(s)	498
BseRI	GAGGAG	1 cut(s)	119
BseSI	GKGCMC	1 cut(s)	31
BseXI	GCAGC	1 cut(s)	620
BsgI	GTGCAG	2 cut(s)	17, 687
Bsh1236I	CGCG	2 cut(s)	294, 1425
BshFI	GGCC	2 cut(s)	287, 608
BshVI	ATCGAT	1 cut(s)	834
BsiHKAI	GWGCWC	2 cut(s)	31, 1119
BsiSI	CCGG	2 cut(s)	98, 151
BslI	CCNNNNNNNGG	3 cut(s)	61, 65, 545
BsmI	GAATGC	1 cut(s)	1419
BsnI	GGCC	2 cut(s)	287, 608
Bsp119I	TTCGAA	1 cut(s)	459
Bsp1286I	GDGCHC	2 cut(s)	31, 1119
Bsp13I	TCCGGA	1 cut(s)	150
Bsp143I	GATC	4 cut(s)	16, 84, 361, 1059
BspACI	CCGC	7 cut(s)	62, 378, 715, 786, 866, 1040, 1425
BspANI	GGCC	2 cut(s)	287, 608
BspCNI	CTCAG	2 cut(s)	623, 961
BspDI	ATCGAT	1 cut(s)	834
BspEI	TCCGGA	1 cut(s)	150
BspFNI	CGCG	2 cut(s)	294, 1425
BspMI	ACCTGC	1 cut(s)	67
BspPI	GGATC	1 cut(s)	92
BspT104I	TTCGAA	1 cut(s)	459
BsrDI	GCAATG	1 cut(s)	1187
BsrI	ACTGG	1 cut(s)	498
BssMI	GATC	4 cut(s)	16, 84, 361, 1059
Bst4CI	ACNGT	3 cut(s)	11, 160, 962
Bst6I	CTCTTC	2 cut(s)	540, 642
BstBAI	YACGTR	1 cut(s)	374
BstBI	TTCGAA	1 cut(s)	459
BstC8I	GCNNGC	3 cut(s)	952, 1107, 1225
BstDEI	CTNAG	5 cut(s)	168, 610, 910, 969, 1150
BstENI	CCTNNNNNAGG	2 cut(s)	63, 543
BstF5I	GGATG	5 cut(s)	106, 132, 778, 1250, 1258
BstFNI	CGCG	2 cut(s)	294, 1425
BstHHI	GCGC	1 cut(s)	956
BstKTI	GATC	4 cut(s)	19, 87, 364, 1062
BstMBI	GATC	4 cut(s)	16, 84, 361, 1059
BstMWI	GCNNNNNNNGC	2 cut(s)	386, 1036
BstNSI	RCATGY	3 cut(s)	223, 1046, 1473
BstPAI	GACNNNNGTC	1 cut(s)	158
BstSFI	CTRYAG	1 cut(s)	657
BstSLI	GKGCMC	1 cut(s)	31
BstUI	CGCG	2 cut(s)	294, 1425
BstV1I	GCAGC	1 cut(s)	620
BstV2I	GAAGAC	1 cut(s)	1281
BstX2I	RGATCY	1 cut(s)	16
BstYI	RGATCY	1 cut(s)	16
Bsu15I	ATCGAT	1 cut(s)	834
BsuI	GTATCC	1 cut(s)	363
BsuRI	GGCC	2 cut(s)	287, 608
BsuTUI	ATCGAT	1 cut(s)	834
BtgZI	GCGATG	1 cut(s)	1227
BtrI	CACGTC	1 cut(s)	1114
BtsCI	GGATG	5 cut(s)	106, 132, 778, 1250, 1258
BtsI	GCAGTG	2 cut(s)	29, 1359
BtsIMutI	CAGTG	6 cut(s)	16, 29, 94, 156, 491, 1359
BveI	ACCTGC	1 cut(s)	67
Cac8I	GCNNGC	3 cut(s)	952, 1107, 1225
CaiI	CAGNNNCTG	1 cut(s)	1019
CfoI	GCGC	1 cut(s)	956
Cfr13I	GGNCC	2 cut(s)	153, 1006
ClaI	ATCGAT	1 cut(s)	834
CseI	GACGC	2 cut(s)	440, 982
Csp6I	GTAC	1 cut(s)	641
CviAII	CATG	7 cut(s)	220, 240, 749, 944, 1043, 1234, 1470
CviQI	GTAC	1 cut(s)	641
DdeI	CTNAG	5 cut(s)	168, 610, 910, 969, 1150
DpnI	GATC	4 cut(s)	18, 86, 363, 1061
DpnII	GATC	4 cut(s)	16, 84, 361, 1059
Eam1104I	CTCTTC	2 cut(s)	540, 642
EarI	CTCTTC	2 cut(s)	540, 642
EciI	GGCGGA	1 cut(s)	801
Eco47I	GGWCC	2 cut(s)	153, 1006
EcoNI	CCTNNNNNAGG	2 cut(s)	63, 543
FaeI	CATG	7 cut(s)	223, 243, 752, 947, 1046, 1237, 1473
FatI	CATG	7 cut(s)	219, 239, 748, 943, 1042, 1233, 1469
FauI	CCCGC	1 cut(s)	859
FbaI	TGATCA	1 cut(s)	1059
Fnu4HI	GCNGC	3 cut(s)	378, 634, 1040
FokI	GGATG	5 cut(s)	113, 119, 785, 1245, 1257
Fsp4HI	GCNGC	3 cut(s)	378, 634, 1040
FspBI	CTAG	5 cut(s)	192, 903, 1067, 1136, 1278
GlaI	GCGC	1 cut(s)	955
GluI	GCNGC	3 cut(s)	378, 634, 1040
GsuI	CTGGAG	1 cut(s)	819
HaeIII	GGCC	2 cut(s)	287, 608
HapII	CCGG	2 cut(s)	98, 151
HgaI	GACGC	2 cut(s)	440, 982
HhaI	GCGC	1 cut(s)	956
Hin1II	CATG	7 cut(s)	223, 243, 752, 947, 1046, 1237, 1473
Hin6I	GCGC	1 cut(s)	954
HinP1I	GCGC	1 cut(s)	954
HincII	GTYRAC	1 cut(s)	654
HindII	GTYRAC	1 cut(s)	654
HindIII	AAGCTT	1 cut(s)	948
HpaII	CCGG	2 cut(s)	98, 151
HphI	GGTGA	5 cut(s)	446, 520, 950, 1385, 1402
Hpy166II	GTNNAC	4 cut(s)	29, 189, 437, 654
Hpy188I	TCNGA	7 cut(s)	314, 601, 613, 739, 772, 998, 1490
Hpy188III	TCNNGA	6 cut(s)	151, 798, 1019, 1136, 1173, 1300
Hpy8I	GTNNAC	4 cut(s)	29, 189, 437, 654
Hpy99I	CGWCG	1 cut(s)	1115
HpyAV	CCTTC	7 cut(s)	59, 499, 584, 656, 785, 1235, 1264
HpyCH4III	ACNGT	3 cut(s)	11, 160, 962
HpyCH4IV	ACGT	3 cut(s)	25, 373, 1113
HpyCH4V	TGCA	7 cut(s)	29, 34, 704, 822, 1160, 1223, 1430
HpyF10VI	GCNNNNNNNGC	2 cut(s)	386, 1036
HpyF3I	CTNAG	5 cut(s)	168, 610, 910, 969, 1150
HpySE526I	ACGT	3 cut(s)	25, 373, 1113
Hsp92II	CATG	7 cut(s)	223, 243, 752, 947, 1046, 1237, 1473
HspAI	GCGC	1 cut(s)	954
Kpn2I	TCCGGA	1 cut(s)	150
Ksp22I	TGATCA	1 cut(s)	1059
Kzo9I	GATC	4 cut(s)	16, 84, 361, 1059
LmnI	GCTCC	2 cut(s)	911, 1021
Lsp1109I	GCAGC	1 cut(s)	620
LweI	GCATC	2 cut(s)	826, 1236
MaeI	CTAG	5 cut(s)	192, 903, 1067, 1136, 1278
MaeII	ACGT	3 cut(s)	25, 373, 1113
MaeIII	GTNAC	1 cut(s)	93
MalI	GATC	4 cut(s)	18, 86, 363, 1061
MboI	GATC	4 cut(s)	16, 84, 361, 1059
MflI	RGATCY	1 cut(s)	16
MhlI	GDGCHC	2 cut(s)	31, 1119
MluCI	AATT	8 cut(s)	517, 595, 688, 710, 758, 823, 984, 1054
MlyI	GAGTC	1 cut(s)	290
MmeI	TCCRAC	2 cut(s)	79, 347
MnlI	CCTC	7 cut(s)	140, 165, 477, 607, 619, 865, 1169
MroI	TCCGGA	1 cut(s)	150
MseI	TTAA	3 cut(s)	273, 1026, 1364
MslI	CAYNNNNRTG	1 cut(s)	1232
MspI	CCGG	2 cut(s)	98, 151
Mva1269I	GAATGC	1 cut(s)	1419
MvnI	CGCG	2 cut(s)	294, 1425
MwoI	GCNNNNNNNGC	2 cut(s)	386, 1036
NdeII	GATC	4 cut(s)	16, 84, 361, 1059
NlaIII	CATG	7 cut(s)	223, 243, 752, 947, 1046, 1237, 1473
NspI	RCATGY	3 cut(s)	223, 1046, 1473
NspV	TTCGAA	1 cut(s)	459
PciI	ACATGT	2 cut(s)	219, 1469
PcsI	WCGNNNNNNNCGW	2 cut(s)	267, 370
PctI	GAATGC	1 cut(s)	1419
PfeI	GAWTC	9 cut(s)	38, 106, 602, 767, 779, 1184, 1202, 1250, 1320
PkrI	GCNGC	3 cut(s)	379, 635, 1041
PleI	GAGTC	1 cut(s)	290
PpsI	GAGTC	1 cut(s)	290
Ppu21I	YACGTR	1 cut(s)	374
PscI	ACATGT	2 cut(s)	219, 1469
PshAI	GACNNNNGTC	1 cut(s)	158
PspPI	GGNCC	2 cut(s)	153, 1006
PstNI	CAGNNNCTG	1 cut(s)	1019
PsuI	RGATCY	1 cut(s)	16
RsaI	GTAC	1 cut(s)	642
RsaNI	GTAC	1 cut(s)	641
RseI	CAYNNNNRTG	1 cut(s)	1232
SaqAI	TTAA	3 cut(s)	273, 1026, 1364
SatI	GCNGC	3 cut(s)	378, 634, 1040
Sau3AI	GATC	4 cut(s)	16, 84, 361, 1059
Sau96I	GGNCC	2 cut(s)	153, 1006
SchI	GAGTC	1 cut(s)	290
SduI	GDGCHC	2 cut(s)	31, 1119
SfaNI	GCATC	2 cut(s)	826, 1236
SfcI	CTRYAG	1 cut(s)	657
SfuI	TTCGAA	1 cut(s)	459
SinI	GGWCC	2 cut(s)	153, 1006
SmiMI	CAYNNNNRTG	1 cut(s)	1232
SmlI	CTYRAG	2 cut(s)	566, 1298
SmoI	CTYRAG	2 cut(s)	566, 1298
SpeI	ACTAGT	1 cut(s)	191
Sse9I	AATT	8 cut(s)	517, 595, 688, 710, 758, 823, 984, 1054
SsiI	CCGC	7 cut(s)	62, 378, 715, 786, 866, 1040, 1425
SspMI	CTAG	5 cut(s)	192, 903, 1067, 1136, 1278
TaaI	ACNGT	3 cut(s)	11, 160, 962
TaiI	ACGT	3 cut(s)	28, 376, 1116
TaqI	TCGA	5 cut(s)	336, 459, 469, 645, 834
TasI	AATT	8 cut(s)	517, 595, 688, 710, 758, 823, 984, 1054
TatI	WGTACW	1 cut(s)	640
TauI	GCSGC	2 cut(s)	380, 1042
TfiI	GAWTC	9 cut(s)	38, 106, 602, 767, 779, 1184, 1202, 1250, 1320
Tru1I	TTAA	3 cut(s)	273, 1026, 1364
Tru9I	TTAA	3 cut(s)	273, 1026, 1364
TscAI	CASTG	6 cut(s)	16, 36, 94, 163, 498, 1359
TseI	GCWGC	1 cut(s)	633
TspDTI	ATGAA	8 cut(s)	17, 225, 566, 768, 780, 789, 960, 1176
TspGWI	ACGGA	2 cut(s)	221, 617
TspRI	CASTG	6 cut(s)	16, 36, 94, 163, 498, 1359
VneI	GTGCAC	1 cut(s)	27
VpaK11BI	GGWCC	2 cut(s)	153, 1006
XagI	CCTNNNNNAGG	2 cut(s)	63, 543
XapI	RAATTY	3 cut(s)	688, 758, 984
XbaI	TCTAGA	1 cut(s)	1135
XceI	RCATGY	3 cut(s)	223, 1046, 1473
XcmI	CCANNNNNNNNNTGG	1 cut(s)	490
XspI	CTAG	5 cut(s)	192, 903, 1067, 1136, 1278

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