Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000005

Orthogroup ID

OG0002117

Physical Location & Seq

Genomic Coordinates Reverse (-)

1074329 .. 1078678

Gene Structure 4350 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_5G00333670.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1308 bp

ATGGAAGAGAGCGGCAGCATGATTAATTTTTTCTCACTTGAGGGCCAACTCGCGAAATTAGAAGTTATGGGATCAAAAGCATTTCAACTCCTCCAAAGGACATTGTGCCCTGTTACAAGAAGAAAGGATCATACTTGGGCATTGGAGAGACATTCAGCTGCTGAAGCTCCAGATGATTCCCAATCTAAGACTATACTTGAAAATGAGGAAGACATTCCTTCTCATGCAGTGTTGTCTCTTAGAGTCAAGGATCCTCGCATGTTCATAGAGAAACGAAAGACTGCATGTGCTTCAGACTTAGGTTCTGCTAGTATACTAGCCGATGAACAAGGAACTGAAGACAAAGAGCATGCTGTCAGTGGAATTATTTCAGACAAGAAGAAAGAGTTACTTTCCTCGATGGGTTCAGAACTCGAAGGTACTAGCATGCTCGCAGAAAAGAATTTGTGGGATGTTAACAGTGGTATAAGTCCTCCAGTGGAAGAGATGGTTCTTTGCCAGGAAAGATATGACCAGAATAAAAAATTCTTCTGCCTTGATGAATCAAGTTCAAGGGTACTAAATACTTCAACCAATTTGCAGTGCAGTTCTTGTCCTGTTCTGCTTTTGAAAAATGACAACGGAAGGGGCTTGCATATTGGTTGGTCAGTAATTCTACCCTTGAGCTGGGTCAGGGCATTTTGGATTCCTCTCGTCTCCAAGGGGGCTCATGTGATAGGTTTAAGAGAGAGGCACTGGATTTCATGTGACGTAGGATTGCCATGTTTTCCTTCGGATTTCCCTGATTGCAGTGCATATTTATGCCTTAAGGAAACTGAAAGTGCCGCCTCCAATGTTAAAGAGGAACTTCGTCCTCCAGCACAAAGACCTTTGAGGGTTCCCATTTTACCCCCATGGAATAGTATCCAAGTTTCTTTAAGGGAAGGACCCACCAAAATGCGAAATGCCGAAACTTTCAGACTGGAAAACGGGGTCAGAAGCAATTCATCATCTAACTCGGAGTGTGACAATTATGATGTTACATTCTGTCCTGGTAATTTGTTTGATGGTTTTGTAGCACGGACATCTTTTTCACTGACAAATTTCTTGAATGAATTCCAAGGCTGTAATTTACGCCTATGTCCTCATGTGACCGATAAGACAACTAGCTTTACTTGGTTTATGAGGGATGAAAGCAAGCTTGGGCAGGGCCAAAATGGGATTACCAAATTTAGTTACAAGCACAAGTTATGCTTTGTAAGGGTACTTCTTCATGCTTACAAAGAAGGGTTTTTGAAGAGGGAGCAGTTGTTTGTGCACCTCAAGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000171 GO:0000172 GO:0000966 GO:0001682 GO:0003674 GO:0003824 GO:0004518 GO:0004519 GO:0004521 GO:0004526 GO:0004540 GO:0004549 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005655 GO:0005730 GO:0005732 GO:0006139 GO:0006396 GO:0006399 GO:0006401 GO:0006725 GO:0006807 GO:0008033 GO:0008150 GO:0008152 GO:0009056 GO:0009057 GO:0009987 GO:0010467 GO:0016070 GO:0016078 GO:0016787 GO:0016788 GO:0016891 GO:0016893 GO:0019439 GO:0030677 GO:0030681 GO:0031974 GO:0031981 GO:0032991 GO:0034470 GO:0034471 GO:0034641 GO:0034655 GO:0034660 GO:0034661 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0044237 GO:0044238 GO:0044248 GO:0044260 GO:0044265 GO:0044270 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044452 GO:0044464 GO:0046483 GO:0046700 GO:0070013 GO:0071704 GO:0090304 GO:0090305 GO:0090501 GO:0090502 GO:0099116 GO:0140098 GO:0140101 GO:1901360 GO:1901361 GO:1901575 GO:1902494 GO:1902555 GO:1905348 GO:1990904

KEGG Pathways

Metabolic & Signaling

ko03008 ko03013 map03008 map03013

Pfam Domains

Protein Families

POP1 POPLD

Protein Analysis

435

Amino Acids

48.99

Weight (kDa)

6.44

Isoelectric Point (pI)

46.22

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
POPLD	PF08170	214 - 290	8.5e-17	POPLD (NUC188) domain

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: OG0002117)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G47300 AT2G47300 AT2G47300
fragaria_vesca	FvH4_1g27070
malus_domestica	MD17G1273000.v1.1 MD17G1275500.v1.1 MD17G1275600.v1.1 MD17G1275700.v1.1 MD17G1277400.v1.1
prunus_persica	Prupe.3G010600_v2.0.a1 Prupe.3G010600_v2.0.a1 Prupe.3G010600_v2.0.a1
pyrus_communis	pycom09g19200 pycom17g27430 pycom17g27440 pycom17g27500
rosa_chinensis	RchiOBHm_Chr3g0487391 RchiOBHm_Chr3g0487761
rosa_laevigata	RLG00000023008
rosa_multiflora	Rmu_co8087646.1_g000001 Rmu_sc0001955.1_g000003 Rmu_sc0003620.1_g000002 Rmu_sc0008132.1_g000008 Rmu_sc0009101.1_g000013 Rmu_sc0021127.1_g000002
rosa_roxburghii	Rroxscaffold_5G00333670 Rroxscaffold_6G00394510 Rroxscaffold_6G00394520 Rroxscaffold_6G00394820 Rroxscaffold_6G00394830
rosa_rugosa	Rorug03G0233600
rosa_samantha	Rh3AG281700 Rh3BG317300 Rh3BG321000 Rh3CG315400 Rh3DG313300 Rh3DG318100 Rh5DG285200
rosa_wichuraiana	Rw1G008590 Rw2G029580 Rw3G024940 Rw5G013600 Rw5G015220 Rw7G032520

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccBSI	CCGCTC	1 cut(s)	12
AccI	GTMKAC	1 cut(s)	313
AccII	CGCG	1 cut(s)	53
AciI	CCGC	2 cut(s)	12, 825
AclWI	GGATC	4 cut(s)	79, 135, 245, 258
AcsI	RAATTY	5 cut(s)	442, 524, 1081, 1094, 1208
AcuI	CTGAAG	3 cut(s)	183, 276, 357
AfaI	GTAC	3 cut(s)	421, 558, 1245
AfiI	CCNNNNNNNGG	1 cut(s)	666
AflII	CTTAAG	1 cut(s)	806
AgsI	TTSAA	7 cut(s)	86, 200, 552, 570, 610, 1090, 1276
AjnI	CCWGG	2 cut(s)	498, 1030
AjuI	GAANNNNNNNTTGG	2 cut(s)	1164, 1196
AluBI	AGCT	5 cut(s)	158, 167, 666, 1149, 1180
AluI	AGCT	5 cut(s)	158, 167, 666, 1149, 1180
Alw21I	GWGCWC	1 cut(s)	1299
Alw26I	GTCTC	3 cut(s)	142, 240, 700
Alw44I	GTGCAC	1 cut(s)	1295
AlwI	GGATC	4 cut(s)	79, 135, 245, 258
AlwNI	CAGNNNCTG	1 cut(s)	161
AoxI	GGCC	2 cut(s)	43, 1189
ApaLI	GTGCAC	1 cut(s)	1295
ApeKI	GCWGC	2 cut(s)	15, 158
ApoI	RAATTY	5 cut(s)	442, 524, 1081, 1094, 1208
AseI	ATTAAT	1 cut(s)	24
Asp700I	GAANNNNTTC	4 cut(s)	213, 367, 982, 1094
AspS9I	GGNCC	3 cut(s)	43, 926, 1189
AvaII	GGWCC	1 cut(s)	926
BaeGI	GKGCMC	2 cut(s)	110, 1299
BamHI	GGATCC	1 cut(s)	250
BanII	GRGCYC	1 cut(s)	709
BarI	GAAGNNNNNNTAC	2 cut(s)	1230, 1262
BbsI	GAAGAC	2 cut(s)	216, 345
Bbv12I	GWGCWC	1 cut(s)	1299
BbvI	GCAGC	2 cut(s)	27, 145
BccI	CCATC	3 cut(s)	394, 481, 1040
BciT130I	CCWGG	2 cut(s)	500, 1032
BciVI	GTATCC	1 cut(s)	914
BcoDI	GTCTC	3 cut(s)	142, 240, 700
BfaI	CTAG	4 cut(s)	309, 317, 423, 1146
BfrI	CTTAAG	1 cut(s)	806
BfuI	GTATCC	1 cut(s)	914
BisI	GCNGC	4 cut(s)	13, 16, 159, 825
BlsI	GCNGC	4 cut(s)	14, 17, 160, 826
Bme1390I	CCNGG	2 cut(s)	500, 1032
Bme18I	GGWCC	1 cut(s)	926
BmgT120I	GGNCC	3 cut(s)	43, 926, 1189
BmiI	GGNNCC	3 cut(s)	252, 879, 928
BmrFI	CCNGG	2 cut(s)	500, 1032
BpiI	GAAGAC	2 cut(s)	216, 345
BpmI	CTGGAG	3 cut(s)	153, 459, 840
BpuEI	CTTGAG	3 cut(s)	59, 682, 1286
BsaJI	CCNNGG	3 cut(s)	699, 893, 1099
BsaXI	ACNNNNNCTCC	2 cut(s)	1274, 1304
Bsc4I	CCNNNNNNNGG	1 cut(s)	666
Bse1I	ACTGG	3 cut(s)	476, 740, 966
BseBI	CCWGG	2 cut(s)	500, 1032
BseDI	CCNNGG	3 cut(s)	699, 893, 1099
BseGI	GGATG	2 cut(s)	457, 1174
BseLI	CCNNNNNNNGG	1 cut(s)	666
BseNI	ACTGG	3 cut(s)	476, 740, 966
BseRI	GAGGAG	1 cut(s)	80
BseSI	GKGCMC	2 cut(s)	110, 1299
BseXI	GCAGC	2 cut(s)	27, 145
BseYI	CCCAGC	1 cut(s)	666
BsgI	GTGCAG	1 cut(s)	604
Bsh1236I	CGCG	1 cut(s)	53
BshFI	GGCC	2 cut(s)	45, 1191
BsiHKAI	GWGCWC	1 cut(s)	1299
BslI	CCNNNNNNNGG	1 cut(s)	666
BsmAI	GTCTC	3 cut(s)	142, 240, 700
BsmBI	CGTCTC	1 cut(s)	700
BsnI	GGCC	2 cut(s)	45, 1191
Bsp1286I	GDGCHC	3 cut(s)	110, 709, 1299
Bsp143I	GATC	3 cut(s)	71, 127, 250
Bsp19I	CCATGG	1 cut(s)	893
Bsp68I	TCGCGA	1 cut(s)	53
BspACI	CCGC	2 cut(s)	12, 825
BspANI	GGCC	2 cut(s)	45, 1191
BspFNI	CGCG	1 cut(s)	53
BspLI	GGNNCC	3 cut(s)	252, 879, 928
BspPI	GGATC	4 cut(s)	79, 135, 245, 258
BspTI	CTTAAG	1 cut(s)	806
BsrBI	CCGCTC	1 cut(s)	12
BsrI	ACTGG	3 cut(s)	476, 740, 966
BssECI	CCNNGG	3 cut(s)	699, 893, 1099
BssMI	GATC	3 cut(s)	71, 127, 250
BssNAI	GTATAC	1 cut(s)	314
BssT1I	CCWWGG	3 cut(s)	699, 893, 1099
Bst1107I	GTATAC	1 cut(s)	314
Bst2UI	CCWGG	2 cut(s)	500, 1032
Bst4CI	ACNGT	1 cut(s)	461
Bst6I	CTCTTC	2 cut(s)	477, 1271
BstAFI	CTTAAG	1 cut(s)	806
BstC8I	GCNNGC	5 cut(s)	351, 428, 432, 632, 1178
BstDEI	CTNAG	3 cut(s)	186, 239, 298
BstDSI	CCRYGG	1 cut(s)	893
BstF5I	GGATG	2 cut(s)	457, 1174
BstFNI	CGCG	1 cut(s)	53
BstKTI	GATC	3 cut(s)	74, 130, 253
BstMAI	GTCTC	3 cut(s)	142, 240, 700
BstMBI	GATC	3 cut(s)	71, 127, 250
BstMWI	GCNNNNNNNGC	1 cut(s)	164
BstNI	CCWGG	2 cut(s)	500, 1032
BstNSI	RCATGY	4 cut(s)	262, 288, 353, 430
BstSCI	CCNGG	2 cut(s)	498, 1030
BstSLI	GKGCMC	2 cut(s)	110, 1299
BstUI	CGCG	1 cut(s)	53
BstV1I	GCAGC	2 cut(s)	27, 145
BstV2I	GAAGAC	2 cut(s)	216, 345
BstX2I	RGATCY	1 cut(s)	250
BstYI	RGATCY	1 cut(s)	250
BstZ17I	GTATAC	1 cut(s)	314
BsuI	GTATCC	1 cut(s)	914
BsuRI	GGCC	2 cut(s)	45, 1191
BtgI	CCRYGG	1 cut(s)	893
BtsCI	GGATG	2 cut(s)	457, 1174
BtsI	GCAGTG	3 cut(s)	234, 587, 796
BtsIMutI	CAGTG	8 cut(s)	234, 364, 466, 483, 587, 733, 796, 1073
BtuMI	TCGCGA	1 cut(s)	53
Cac8I	GCNNGC	5 cut(s)	351, 428, 432, 632, 1178
CaiI	CAGNNNCTG	1 cut(s)	161
Cfr13I	GGNCC	3 cut(s)	43, 926, 1189
Csp6I	GTAC	3 cut(s)	420, 557, 1244
CviQI	GTAC	3 cut(s)	420, 557, 1244
DdeI	CTNAG	3 cut(s)	186, 239, 298
DpnI	GATC	3 cut(s)	73, 129, 252
DpnII	GATC	3 cut(s)	71, 127, 250
Eam1104I	CTCTTC	2 cut(s)	477, 1271
EarI	CTCTTC	2 cut(s)	477, 1271
Eco130I	CCWWGG	3 cut(s)	699, 893, 1099
Eco24I	GRGCYC	1 cut(s)	709
Eco47I	GGWCC	1 cut(s)	926
Eco57I	CTGAAG	3 cut(s)	183, 276, 357
EcoO109I	RGGNCCY	1 cut(s)	926
EcoRI	GAATTC	1 cut(s)	1094
EcoRII	CCWGG	2 cut(s)	498, 1030
EcoT14I	CCWWGG	3 cut(s)	699, 893, 1099
EcoT38I	GRGCYC	1 cut(s)	709
ErhI	CCWWGG	3 cut(s)	699, 893, 1099
Esp3I	CGTCTC	1 cut(s)	700
FalI	AAGNNNNNCTT	6 cut(s)	375, 407, 831, 863, 1217, 1249
FblI	GTMKAC	1 cut(s)	313
Fnu4HI	GCNGC	4 cut(s)	13, 16, 159, 825
FokI	GGATG	2 cut(s)	464, 1181
FriOI	GRGCYC	1 cut(s)	709
Fsp4HI	GCNGC	4 cut(s)	13, 16, 159, 825
FspBI	CTAG	4 cut(s)	309, 317, 423, 1146
GluI	GCNGC	4 cut(s)	13, 16, 159, 825
GsaI	CCCAGC	1 cut(s)	670
GsuI	CTGGAG	3 cut(s)	153, 459, 840
HaeIII	GGCC	2 cut(s)	45, 1191
HincII	GTYRAC	1 cut(s)	457
HindII	GTYRAC	1 cut(s)	457
HindIII	AAGCTT	1 cut(s)	1178
HinfI	GANTC	4 cut(s)	176, 243, 542, 685
HpaI	GTTAAC	1 cut(s)	457
Hpy166II	GTNNAC	3 cut(s)	314, 457, 1297
Hpy188I	TCNGA	7 cut(s)	295, 373, 409, 775, 959, 977, 1000
Hpy188III	TCNNGA	3 cut(s)	52, 170, 1087
Hpy8I	GTNNAC	3 cut(s)	314, 457, 1297
HpyAV	CCTTC	6 cut(s)	228, 410, 618, 780, 917, 1259
HpyCH4III	ACNGT	1 cut(s)	461
HpyCH4IV	ACGT	1 cut(s)	750
HpyCH4V	TGCA	8 cut(s)	227, 284, 580, 585, 634, 789, 794, 1297
HpyF10VI	GCNNNNNNNGC	1 cut(s)	164
HpyF3I	CTNAG	3 cut(s)	186, 239, 298
HpySE526I	ACGT	1 cut(s)	750
KspAI	GTTAAC	1 cut(s)	457
Kzo9I	GATC	3 cut(s)	71, 127, 250
LmnI	GCTCC	2 cut(s)	172, 1282
Lsp1109I	GCAGC	2 cut(s)	27, 145
MaeI	CTAG	4 cut(s)	309, 317, 423, 1146
MaeII	ACGT	1 cut(s)	750
MaeIII	GTNAC	7 cut(s)	112, 387, 746, 1004, 1018, 1129, 1214
MalI	GATC	3 cut(s)	73, 129, 252
MbiI	CCGCTC	1 cut(s)	12
MboI	GATC	3 cut(s)	71, 127, 250
MboII	GAAGA	9 cut(s)	17, 132, 221, 350, 391, 494, 520, 1241, 1288
MflI	RGATCY	1 cut(s)	250
MhlI	GDGCHC	3 cut(s)	110, 709, 1299
MlyI	GAGTC	1 cut(s)	252
MroXI	GAANNNNTTC	4 cut(s)	213, 367, 982, 1094
MseI	TTAA	6 cut(s)	24, 456, 722, 807, 837, 917
MslI	CAYNNNNRTG	2 cut(s)	799, 935
MspA1I	CMGCKG	1 cut(s)	158
MspCI	CTTAAG	1 cut(s)	806
MspR9I	CCNGG	2 cut(s)	500, 1032
MvaI	CCWGG	2 cut(s)	500, 1032
MvnI	CGCG	1 cut(s)	53
MwoI	GCNNNNNNNGC	1 cut(s)	164
NcoI	CCATGG	1 cut(s)	893
NdeII	GATC	3 cut(s)	71, 127, 250
NlaIV	GGNNCC	3 cut(s)	252, 879, 928
NmuCI	GTSAC	3 cut(s)	746, 1004, 1129
NruI	TCGCGA	1 cut(s)	53
NspI	RCATGY	4 cut(s)	262, 288, 353, 430
PaeI	GCATGC	2 cut(s)	353, 430
PdmI	GAANNNNTTC	4 cut(s)	213, 367, 982, 1094
PfeI	GAWTC	3 cut(s)	176, 542, 685
PkrI	GCNGC	4 cut(s)	14, 17, 160, 826
PleI	GAGTC	1 cut(s)	251
PpsI	GAGTC	1 cut(s)	251
PpuMI	RGGWCCY	1 cut(s)	926
PshBI	ATTAAT	1 cut(s)	24
Psp5II	RGGWCCY	1 cut(s)	926
Psp6I	CCWGG	2 cut(s)	498, 1030
PspFI	CCCAGC	1 cut(s)	666
PspGI	CCWGG	2 cut(s)	498, 1030
PspN4I	GGNNCC	3 cut(s)	252, 879, 928
PspPI	GGNCC	3 cut(s)	43, 926, 1189
PspPPI	RGGWCCY	1 cut(s)	926
PstNI	CAGNNNCTG	1 cut(s)	161
PsuI	RGATCY	1 cut(s)	250
PvuII	CAGCTG	1 cut(s)	158
RruI	TCGCGA	1 cut(s)	53
RsaI	GTAC	3 cut(s)	421, 558, 1245
RsaNI	GTAC	3 cut(s)	420, 557, 1244
RseI	CAYNNNNRTG	2 cut(s)	799, 935
SaqAI	TTAA	6 cut(s)	24, 456, 722, 807, 837, 917
SatI	GCNGC	4 cut(s)	13, 16, 159, 825
Sau3AI	GATC	3 cut(s)	71, 127, 250
Sau96I	GGNCC	3 cut(s)	43, 926, 1189
SchI	GAGTC	1 cut(s)	252
ScrFI	CCNGG	2 cut(s)	500, 1032
SduI	GDGCHC	3 cut(s)	110, 709, 1299
SinI	GGWCC	1 cut(s)	926
SmiMI	CAYNNNNRTG	2 cut(s)	799, 935
SmlI	CTYRAG	4 cut(s)	38, 661, 806, 1301
SmoI	CTYRAG	4 cut(s)	38, 661, 806, 1301
SphI	GCATGC	2 cut(s)	353, 430
SsiI	CCGC	2 cut(s)	12, 825
SspMI	CTAG	4 cut(s)	309, 317, 423, 1146
StyD4I	CCNGG	2 cut(s)	498, 1030
StyI	CCWWGG	3 cut(s)	699, 893, 1099
TaaI	ACNGT	1 cut(s)	461
TaiI	ACGT	1 cut(s)	753
TaqI	TCGA	2 cut(s)	398, 414
TaqII	GACCGA	1 cut(s)	1148
TauI	GCSGC	2 cut(s)	15, 827
TfiI	GAWTC	3 cut(s)	176, 542, 685
Tru1I	TTAA	6 cut(s)	24, 456, 722, 807, 837, 917
Tru9I	TTAA	6 cut(s)	24, 456, 722, 807, 837, 917
TscAI	CASTG	8 cut(s)	234, 364, 466, 483, 587, 740, 796, 1080
TseFI	GTSAC	3 cut(s)	746, 1004, 1129
TseI	GCWGC	2 cut(s)	15, 158
Tsp45I	GTSAC	3 cut(s)	746, 1004, 1129
TspDTI	ATGAA	8 cut(s)	253, 339, 555, 732, 975, 1107, 1185, 1241
TspGWI	ACGGA	2 cut(s)	636, 1075
TspRI	CASTG	8 cut(s)	234, 364, 466, 483, 587, 740, 796, 1080
Vha464I	CTTAAG	1 cut(s)	806
VneI	GTGCAC	1 cut(s)	1295
VpaK11BI	GGWCC	1 cut(s)	926
VspI	ATTAAT	1 cut(s)	24
XapI	RAATTY	5 cut(s)	442, 524, 1081, 1094, 1208
XceI	RCATGY	4 cut(s)	262, 288, 353, 430
XmiI	GTMKAC	1 cut(s)	313
XmnI	GAANNNNTTC	4 cut(s)	213, 367, 982, 1094
XspI	CTAG	4 cut(s)	309, 317, 423, 1146

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