Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000006

Orthogroup ID

OG0009624

Physical Location & Seq

Genomic Coordinates Forward (+)

30426198 .. 30428180

Gene Structure 1983 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_6G00407800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1563 bp

ATGAGGAGGTTCCGAAAACCAAAGGTGATACCTTTACTGGAGCAAAAGCCTCCAACACTCCCACAGCTCTCTCCAATCCCAAACCCATCTCTCCCAAAACCCCCACAACACCCATCACCACCACCTTCCCCAATCCTCACTCTCTCCCACACCTCAAACCACACCCACCTCCTCACCTTCATCAAAACCCACATCAAAAACCCACCTCTCTCCCCCAAAACCCTCCTCCATTTCCTCAAGTCCAAGCTCCACCACCACCCCACCTTCACCCATTTCGACTTCCACGTCTTCAACTGGGCCTCCTCCGTCGACTCCTTCCGCCACGACCACTCCACTTTCGAATGGATGGTCTGCACTCTCGCAACCACCGACCGCTTCGCCGAGCTGGGCCATCTCATTAGTTTCATGGTTTCGAACCCATGCCCTTGTTCCGATGGTATTTTCTCTTGCCCAAGAACAGAACCCATTTTCAAATTTGCGATTAGTGCTTATTGTAGAGTAGGGAGATTGGATGATGCTGTTAGTGCTTTTGATTCCATGAGGAAATTGATTGATGGGAAGCCTAGTGTTGTGGTTTATAACATTGTGATTAATGGGTTTGTGAAATGTGGGGCACATGATAAGGCTTTGGGGTTTTATGAGAAGATGGGGAGGGATAGAGTAAGGGGTGATGTGTTTACTTTCAATATTTTGATTAGTAGTTATTGTCGAAATTCGCAATTCGGGTTGGCTTTGGAATTGTTTAAGGAGATGAGGGAGAAGGGGTGTAGTCCCAATGTGGTTAGTTTCAATACTTTGATTAAGGGGTTCTTTAGGGAGAGGAAGTTTGAGGATGGGATTGAGATGGCTTATGAGATGATTGAGTTTGGGTGCAAGTTTTCGAGTGTGACTTGTGAGATTTTGGTTGATGGACTTTGTAGAGAAGGTCGGGTTGAGGAGGCATGTGAGCTGTTGATTGATTTTTCGAGGAAAGGAGTGTTGCCTAGATTGTTTGATTATTATGGTCTTGTTGAAGTGCTATGTGGGAAAAGAAATTCGGGGAGAGCGTTGGAGGTTGTGGATGAGCTGTGGAGGACAGGAAATGTTCCGAGCTTGATTGCTTGTACCACTTTGGTTGAGGGTTTGAGGAGGTCAGCGAAGATTGATGAAGCTTTAGAAGTGATGGAAAGGATGCTTGAAGAGGGTATGGTTCCAGATATTGTGACTTTTAATTGCCTCCTTCAAGATCTTTGCAATTTGGGGAGAACTGAGGAAGCTGATAACCTTAGGTTGTTGTCTTCGAGTAAAGGCTTGGAGCTGGATGGCACGGCGTATACCATTTTGGTGTCTGGGTATTCAAGAGAAGGGAAAAAGAAGGAGGTGAAAGTGGTGGTCGATGAGATGCTGGATATGGGATTTATACCTGATCTTGCTACATATAATAGCAAGATTGGTTTTGATGGCCAGGGGTCCAAACGAAGCCCTGTTCCCAGCCTTTGCCTCAAAGGTTCAAGTCTTCAAGACACCACCCCCACTTATAGGCCCAGTGGTGCTGTCAAGAACGATAGGATCCTTCTGATGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003723 GO:0003824 GO:0004518 GO:0004519 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0006139 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009451 GO:0009987 GO:0016070 GO:0016787 GO:0016788 GO:0034641 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043412 GO:0044237 GO:0044238 GO:0044424 GO:0044464 GO:0046483 GO:0071704 GO:0090304 GO:0090305 GO:0097159 GO:1901360 GO:1901363

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

PPR PPR_1 PPR_2 PPR_3

Protein Analysis

520

Amino Acids

58.46

Weight (kDa)

8.05

Isoelectric Point (pI)

41.68

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	188 - 237	2.9e-14	PPR repeat family
PPR_3	PF13812	214 - 268	3.7e-12	Pentatricopeptide repeat domain
PPR_2	PF13041	224 - 271	4.8e-18	PPR repeat family
PPR_1	PF12854	224 - 252	1.5e-08	PPR repeat
PPR	PF01535	226 - 256	1.1e-09	PPR repeat
PPR_1	PF12854	254 - 286	2.9e-07	PPR repeat
PPR_2	PF13041	258 - 307	7.4e-12	PPR repeat family
PPR_1	PF12854	290 - 318	4.6e-07	PPR repeat
PPR_3	PF13812	352 - 408	2.2e-07	Pentatricopeptide repeat domain
PPR_2	PF13041	363 - 412	1.5e-09	PPR repeat family
PPR_3	PF13812	428 - 478	1e-05	Pentatricopeptide repeat domain
PPR_2	PF13041	437 - 475	4.3e-06	PPR repeat family

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

Font Size (px)

Line Width

Align Labels (Cladogram)

Image

Tree File

Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready

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

Orthologous Genes (Group: OG0009624)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G36240
fragaria_vesca	FvH4_6g18780
prunus_persica	Prupe.7G109800_v2.0.a1
pyrus_communis	pycom04g01140 pycom15g30020
rosa_chinensis	RchiOBHm_Chr3g0473791
rosa_laevigata	RLG00000015254 RLG00000023984
rosa_multiflora	Rmu_co8122080.1_g000001 Rmu_sc0001293.1_g000012 Rmu_sc0007035.1_g000006 Rmu_sc0007035.1_g000008
rosa_roxburghii	Rroxscaffold_1G00029320 Rroxscaffold_6G00407800
rosa_rugosa	Rorug03G0135500
rosa_samantha	Rh3BG214200 Rh3BG214500 Rh3CG210900 Rh3CG211100 Rh3DG210100 Rh3DG210300
rosa_wichuraiana	Rw3G017010

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	579
AasI	GACNNNNNNGTC	1 cut(s)	284
AccI	GTMKAC	2 cut(s)	309, 1313
AciI	CCGC	2 cut(s)	319, 373
AclWI	GGATC	2 cut(s)	1543, 1556
AcoI	YGGCCR	1 cut(s)	1441
AcsI	RAATTY	3 cut(s)	473, 712, 1033
AfaI	GTAC	1 cut(s)	1105
AfiI	CCNNNNNNNGG	1 cut(s)	1518
AjiI	CACGTC	1 cut(s)	286
AjnI	CCWGG	1 cut(s)	1443
AluBI	AGCT	9 cut(s)	67, 247, 385, 949, 1066, 1092, 1151, 1256, 1297
AluI	AGCT	9 cut(s)	67, 247, 385, 949, 1066, 1092, 1151, 1256, 1297
AlwI	GGATC	2 cut(s)	1543, 1556
AoxI	GGCC	4 cut(s)	297, 388, 1441, 1520
ApoI	RAATTY	3 cut(s)	473, 712, 1033
ArsI	GACNNNNNNTTYG	2 cut(s)	333, 365
AseI	ATTAAT	1 cut(s)	591
AspS9I	GGNCC	4 cut(s)	297, 388, 1449, 1521
AsuHPI	GGTGA	6 cut(s)	37, 108, 166, 259, 680, 1372
AsuII	TTCGAA	2 cut(s)	339, 413
AvaII	GGWCC	1 cut(s)	1449
AxyI	CCTNAGG	1 cut(s)	1265
BaeGI	GKGCMC	1 cut(s)	616
BalI	TGGCCA	1 cut(s)	1443
BamHI	GGATCC	1 cut(s)	1548
BbsI	GAAGAC	3 cut(s)	280, 1269, 1487
BceAI	ACGGC	1 cut(s)	1323
BciT130I	CCWGG	1 cut(s)	1445
BfaI	CTAG	2 cut(s)	564, 984
BglII	AGATCT	1 cut(s)	1225
Bme1390I	CCNGG	1 cut(s)	1445
Bme18I	GGWCC	1 cut(s)	1449
BmgBI	CACGTC	1 cut(s)	286
BmgT120I	GGNCC	4 cut(s)	297, 388, 1449, 1521
BmiI	GGNNCC	4 cut(s)	11, 1191, 1450, 1550
BmrFI	CCNGG	1 cut(s)	1445
BmrI	ACTGGG	2 cut(s)	304, 1518
BmsI	GCATC	3 cut(s)	505, 1161, 1371
BmuI	ACTGGG	2 cut(s)	304, 1518
BpiI	GAAGAC	3 cut(s)	280, 1269, 1487
BpmI	CTGGAG	1 cut(s)	59
Bpu14I	TTCGAA	2 cut(s)	339, 413
BpuEI	CTTGAG	1 cut(s)	221
BsaJI	CCNNGG	1 cut(s)	1444
BsaXI	ACNNNNNCTCC	8 cut(s)	284, 314, 314, 344, 749, 779, 809, 839
Bsc4I	CCNNNNNNNGG	1 cut(s)	1518
Bse1I	ACTGG	3 cut(s)	42, 299, 1524
Bse21I	CCTNAGG	1 cut(s)	1265
BseBI	CCWGG	1 cut(s)	1445
BseDI	CCNNGG	1 cut(s)	1444
BseGI	GGATG	6 cut(s)	351, 517, 838, 1066, 1176, 1306
BseLI	CCNNNNNNNGG	1 cut(s)	1518
BseMII	CTCAG	1 cut(s)	1239
BseNI	ACTGG	3 cut(s)	42, 299, 1524
BseRI	GAGGAG	6 cut(s)	19, 161, 215, 292, 950, 1141
BseSI	GKGCMC	1 cut(s)	616
BseYI	CCCAGC	2 cut(s)	385, 1469
BsgI	GTGCAG	1 cut(s)	337
Bsh1285I	CGRYCG	1 cut(s)	373
BshFI	GGCC	4 cut(s)	299, 390, 1443, 1522
BsiEI	CGRYCG	1 cut(s)	373
BslFI	GGGAC	1 cut(s)	756
BslI	CCNNNNNNNGG	1 cut(s)	1518
BsmFI	GGGAC	1 cut(s)	756
BsnI	GGCC	4 cut(s)	299, 390, 1443, 1522
Bsp119I	TTCGAA	2 cut(s)	339, 413
Bsp1286I	GDGCHC	1 cut(s)	616
Bsp143I	GATC	3 cut(s)	1225, 1405, 1548
BspACI	CCGC	2 cut(s)	319, 373
BspANI	GGCC	4 cut(s)	299, 390, 1443, 1522
BspCNI	CTCAG	1 cut(s)	1240
BspLI	GGNNCC	4 cut(s)	11, 1191, 1450, 1550
BspPI	GGATC	2 cut(s)	1543, 1556
BspT104I	TTCGAA	2 cut(s)	339, 413
BsrI	ACTGG	3 cut(s)	42, 299, 1524
BssECI	CCNNGG	1 cut(s)	1444
BssMI	GATC	3 cut(s)	1225, 1405, 1548
BssNAI	GTATAC	1 cut(s)	1314
Bst1107I	GTATAC	1 cut(s)	1314
Bst2UI	CCWGG	1 cut(s)	1445
Bst6I	CTCTTC	1 cut(s)	1173
BstBI	TTCGAA	2 cut(s)	339, 413
BstDEI	CTNAG	2 cut(s)	1248, 1265
BstF5I	GGATG	6 cut(s)	351, 517, 838, 1066, 1176, 1306
BstKTI	GATC	3 cut(s)	1228, 1408, 1551
BstMBI	GATC	3 cut(s)	1225, 1405, 1548
BstMCI	CGRYCG	1 cut(s)	373
BstMWI	GCNNNNNNNGC	2 cut(s)	485, 524
BstNI	CCWGG	1 cut(s)	1445
BstNSI	RCATGY	1 cut(s)	945
BstSCI	CCNGG	1 cut(s)	1443
BstSLI	GKGCMC	1 cut(s)	616
BstV2I	GAAGAC	3 cut(s)	280, 1269, 1487
BstX2I	RGATCY	2 cut(s)	1225, 1548
BstYI	RGATCY	2 cut(s)	1225, 1548
BstZ17I	GTATAC	1 cut(s)	1314
Bsu36I	CCTNAGG	1 cut(s)	1265
BsuRI	GGCC	4 cut(s)	299, 390, 1443, 1522
BtrI	CACGTC	1 cut(s)	286
BtsCI	GGATG	6 cut(s)	351, 517, 838, 1066, 1176, 1306
BtsIMutI	CAGTG	1 cut(s)	1531
Cfr13I	GGNCC	4 cut(s)	297, 388, 1449, 1521
Csp6I	GTAC	1 cut(s)	1104
CspCI	CAANNNNNGTGG	2 cut(s)	1096, 1131
CviAII	CATG	5 cut(s)	406, 420, 538, 617, 942
CviQI	GTAC	1 cut(s)	1104
DdeI	CTNAG	2 cut(s)	1248, 1265
DpnI	GATC	3 cut(s)	1227, 1407, 1550
DpnII	GATC	3 cut(s)	1225, 1405, 1548
DrdI	GACNNNNNNGTC	1 cut(s)	284
DseDI	GACNNNNNNGTC	1 cut(s)	284
EaeI	YGGCCR	1 cut(s)	1441
Eam1104I	CTCTTC	1 cut(s)	1173
EarI	CTCTTC	1 cut(s)	1173
EciI	GGCGGA	1 cut(s)	308
Eco47I	GGWCC	1 cut(s)	1449
Eco81I	CCTNAGG	1 cut(s)	1265
EcoRII	CCWGG	1 cut(s)	1443
FaeI	CATG	5 cut(s)	409, 423, 541, 620, 945
FalI	AAGNNNNNCTT	2 cut(s)	794, 826
FaqI	GGGAC	1 cut(s)	756
FatI	CATG	5 cut(s)	405, 419, 537, 616, 941
FblI	GTMKAC	2 cut(s)	309, 1313
FokI	GGATG	6 cut(s)	358, 524, 845, 1073, 1183, 1313
FspBI	CTAG	2 cut(s)	564, 984
GsaI	CCCAGC	2 cut(s)	389, 1473
GsuI	CTGGAG	1 cut(s)	59
HaeIII	GGCC	4 cut(s)	299, 390, 1443, 1522
Hin1II	CATG	5 cut(s)	409, 423, 541, 620, 945
HincII	GTYRAC	1 cut(s)	310
HindII	GTYRAC	1 cut(s)	310
HindIII	AAGCTT	1 cut(s)	1149
HinfI	GANTC	2 cut(s)	311, 533
HphI	GGTGA	6 cut(s)	37, 108, 166, 259, 680, 1372
Hpy166II	GTNNAC	3 cut(s)	310, 678, 1314
Hpy188I	TCNGA	4 cut(s)	14, 433, 1089, 1557
Hpy188III	TCNNGA	5 cut(s)	1193, 1223, 1338, 1499, 1537
Hpy8I	GTNNAC	3 cut(s)	310, 678, 1314
Hpy99I	CGWCG	1 cut(s)	311
HpyCH4IV	ACGT	1 cut(s)	285
HpyCH4V	TGCA	3 cut(s)	354, 873, 1233
HpyF10VI	GCNNNNNNNGC	2 cut(s)	485, 524
HpyF3I	CTNAG	2 cut(s)	1248, 1265
HpySE526I	ACGT	1 cut(s)	285
Hsp92II	CATG	5 cut(s)	409, 423, 541, 620, 945
Kzo9I	GATC	3 cut(s)	1225, 1405, 1548
LmnI	GCTCC	3 cut(s)	40, 252, 1294
LweI	GCATC	3 cut(s)	505, 1161, 1371
MaeI	CTAG	2 cut(s)	564, 984
MaeII	ACGT	1 cut(s)	285
MaeIII	GTNAC	2 cut(s)	886, 1201
MalI	GATC	3 cut(s)	1227, 1407, 1550
MboI	GATC	3 cut(s)	1225, 1405, 1548
MboII	GAAGA	6 cut(s)	280, 655, 1150, 1190, 1269, 1487
MflI	RGATCY	2 cut(s)	1225, 1548
MhlI	GDGCHC	1 cut(s)	616
MlsI	TGGCCA	1 cut(s)	1443
MluCI	AATT	8 cut(s)	473, 545, 712, 719, 737, 1033, 1210, 1234
MluNI	TGGCCA	1 cut(s)	1443
MlyI	GAGTC	1 cut(s)	305
MmeI	TCCRAC	2 cut(s)	77, 1029
Mox20I	TGGCCA	1 cut(s)	1443
MscI	TGGCCA	1 cut(s)	1443
MseI	TTAA	4 cut(s)	591, 744, 801, 1209
MslI	CAYNNNNRTG	1 cut(s)	1322
Msp20I	TGGCCA	1 cut(s)	1443
MspR9I	CCNGG	1 cut(s)	1445
MvaI	CCWGG	1 cut(s)	1445
MwoI	GCNNNNNNNGC	2 cut(s)	485, 524
NdeII	GATC	3 cut(s)	1225, 1405, 1548
NlaIII	CATG	5 cut(s)	409, 423, 541, 620, 945
NlaIV	GGNNCC	4 cut(s)	11, 1191, 1450, 1550
NmeAIII	GCCGAG	1 cut(s)	406
NmuCI	GTSAC	2 cut(s)	886, 1201
NspI	RCATGY	1 cut(s)	945
NspV	TTCGAA	2 cut(s)	339, 413
PcsI	WCGNNNNNNNCGW	3 cut(s)	282, 366, 1043
PfeI	GAWTC	1 cut(s)	533
PleI	GAGTC	1 cut(s)	305
PpsI	GAGTC	1 cut(s)	305
PshBI	ATTAAT	1 cut(s)	591
PsiI	TTATAA	1 cut(s)	579
Psp6I	CCWGG	1 cut(s)	1443
PspFI	CCCAGC	2 cut(s)	385, 1469
PspGI	CCWGG	1 cut(s)	1443
PspN4I	GGNNCC	4 cut(s)	11, 1191, 1450, 1550
PspPI	GGNCC	4 cut(s)	297, 388, 1449, 1521
PsuI	RGATCY	2 cut(s)	1225, 1548
RsaI	GTAC	1 cut(s)	1105
RsaNI	GTAC	1 cut(s)	1104
RseI	CAYNNNNRTG	1 cut(s)	1322
SalI	GTCGAC	1 cut(s)	308
SaqAI	TTAA	4 cut(s)	591, 744, 801, 1209
Sau3AI	GATC	3 cut(s)	1225, 1405, 1548
Sau96I	GGNCC	4 cut(s)	297, 388, 1449, 1521
SchI	GAGTC	1 cut(s)	305
ScrFI	CCNGG	1 cut(s)	1445
SduI	GDGCHC	1 cut(s)	616
SfaNI	GCATC	3 cut(s)	505, 1161, 1371
SfuI	TTCGAA	2 cut(s)	339, 413
SinI	GGWCC	1 cut(s)	1449
SmiMI	CAYNNNNRTG	1 cut(s)	1322
SmlI	CTYRAG	1 cut(s)	236
SmoI	CTYRAG	1 cut(s)	236
Sse9I	AATT	8 cut(s)	473, 545, 712, 719, 737, 1033, 1210, 1234
SsiI	CCGC	2 cut(s)	319, 373
SspI	AATATT	1 cut(s)	688
SspMI	CTAG	2 cut(s)	564, 984
StyD4I	CCNGG	1 cut(s)	1443
TaiI	ACGT	1 cut(s)	288
TaqI	TCGA	9 cut(s)	276, 309, 339, 413, 709, 881, 965, 1280, 1374
TasI	AATT	8 cut(s)	473, 545, 712, 719, 737, 1033, 1210, 1234
TfiI	GAWTC	1 cut(s)	533
Tru1I	TTAA	4 cut(s)	591, 744, 801, 1209
Tru9I	TTAA	4 cut(s)	591, 744, 801, 1209
TscAI	CASTG	1 cut(s)	1531
TseFI	GTSAC	2 cut(s)	886, 1201
Tsp45I	GTSAC	2 cut(s)	886, 1201
TspDTI	ATGAA	3 cut(s)	169, 394, 1161
TspGWI	ACGGA	1 cut(s)	295
TspRI	CASTG	1 cut(s)	1531
VpaK11BI	GGWCC	1 cut(s)	1449
VspI	ATTAAT	1 cut(s)	591
XapI	RAATTY	3 cut(s)	473, 712, 1033
XceI	RCATGY	1 cut(s)	945
XmiI	GTMKAC	2 cut(s)	309, 1313
XspI	CTAG	2 cut(s)	564, 984

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