Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000004

Orthogroup ID

OG0005202

Physical Location & Seq

Genomic Coordinates Forward (+)

1979888 .. 1981519

Gene Structure 1632 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_4G00279090.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1164 bp

ATGAAGTTTGGACATGAGTGTGATGTTTATGTTACTAGCTCAGTTATTAGTGTGTACTGTAAATTGAGAGTTGTGGAATTTGCTGGGAGAGTGTTTGATGAAAGTTTGGATAGGAATGTGGTGTGTTGGACTAGTCTTGTTAGTGGGTATTGTGGCAATGGGTTGGTTGATGATGCCCGTGACATGTTCGATAAAATGCCTGAGAGAAATGATGTGTCTTATAGTGCAATAGTTTCGGGTTATGTTCAGAATGCTTGTTTCAACAAAGCTATTGATTTGTTTCGTGATTTCAAGCGTCGTCGTGCGAATGTGAGGTTGAAAGAGTCTCTTTTGGTTAGTGTTCTTAATGCCTGTGCTTCTGTGGGTGCATTCGAGGAAGGGAAGTGGATTCAGATGTATTTGGATGACCATGGTTTTGAGTATGGACTTGAGCTCGGTACAGCAGGAATAGATTTTTATGCAAAATGTGGATTCATTAAAGATGCTAAAGAGATATTTGATAAGATGCCGCGTAAAGATGTAACTACTTGGAGTGCTATGATCATGGGATATGCTACTAATGGTGAGAATGATACAGGGCTTGAACTTTTTGCTGAAATGGAAAAGGAGGGACCTAAACCAAATGCTGTGACATTTGTTGGAGTTCTCACTGCATGTAATCACAAAACTCTGGTAAATGAAGCATGGCGAGTATTGGGAAGTATGAGTAAAATTTATAGCATTGTTCCAGAGATTGAGCACTATGGGTGCATGGTTGATCTCTTGGCCTGTGCTGGGCAAGTGAAAGAGGCAGAGATATTGATAAGAAGTATGGCAATGGAACCAGACGGAGCTATATGGGGGTCTTTACTTAACGGGTGTCTGATACATGGCCATTTTGAGTTAGCCGGTAAGGTTGGGAAGCTTCTCATTCAATTAGAGCCTCAACATAGTGGAAGCCTGGAAGGAAACAGACAAGTGGACATCCTGTGCTATTGTGTGTCCTCGAGTCATAAGCTTCTCCAAGGGACTGAGAATTATATAAAGCTTCATCAGATTGTGGATGAAACTGTCAAGAAGCTTCAAGCTGAAGTATTTGGCTTACATGTTAATATGCGCAGGGTTATATTTTGGCACTGTAAGGCTCGAAAAATGAATTATCCTCCTGCACACCAACTTGCATAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

PPR PPR_2

Protein Analysis

387

Amino Acids

43.37

Weight (kDa)

6.08

Isoelectric Point (pI)

36.65

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_1	PF12854	37 - 66	3.3e-09	PPR repeat
PPR_2	PF13041	38 - 70	5.7e-07	PPR repeat family
PPR	PF01535	41 - 70	8.2e-08	PPR repeat
PPR_2	PF13041	172 - 219	3.3e-10	PPR repeat family
PPR	PF01535	176 - 204	9.1e-06	PPR repeat

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: OG0005202)

Species	Orthologous Gene IDs
malus_domestica	MD04G1188600.v1.1 MD13G1252400.v1.1
prunus_persica	Prupe.1G084600_v2.0.a1
pyrus_communis	pycom13g22560
rosa_chinensis	RchiOBHm_Chr1g0380711 RchiOBHm_Chr3g0484681 RchiOBHm_Chr4g0401751
rosa_laevigata	RLG00000009137 RLG00000023208 RLG00000026276
rosa_multiflora	Rmu_sc0001637.1_g000010 Rmu_sc0014815.1_g000014 Rmu_sc0039959.1_g000001
rosa_roxburghii	Rroxscaffold_2G00113990 Rroxscaffold_4G00279090 Rroxscaffold_5G00345080 Rroxscaffold_5G00353300 Rroxscaffold_6G00397530
rosa_rugosa	Rorug04G0031400
rosa_samantha	Rh1BG403400 Rh1CG417600 Rh1DG433700 Rh3AG263400 Rh3DG292100 Rh4AG108800 Rh4BG102500 Rh4CG117100
rosa_wichuraiana	Rw0G005870 Rw1G038990 Rw4G024940

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc16I	TGCGCA	1 cut(s)	1097
AccII	CGCG	1 cut(s)	511
AciI	CCGC	1 cut(s)	509
AcoI	YGGCCR	1 cut(s)	871
AcsI	RAATTY	2 cut(s)	77, 711
AcuI	CTGAAG	1 cut(s)	1089
AfaI	GTAC	2 cut(s)	56, 439
AfiI	CCNNNNNNNGG	1 cut(s)	774
AflIII	ACRYGT	2 cut(s)	183, 1084
AgsI	TTSAA	6 cut(s)	262, 292, 319, 584, 914, 1064
AhlI	ACTAGT	1 cut(s)	131
AjnI	CCWGG	1 cut(s)	939
AluBI	AGCT	9 cut(s)	39, 269, 433, 833, 904, 997, 1027, 1060, 1067
AluI	AGCT	9 cut(s)	39, 269, 433, 833, 904, 997, 1027, 1060, 1067
Alw21I	GWGCWC	2 cut(s)	435, 741
Alw26I	GTCTC	1 cut(s)	330
Ama87I	CYCGRG	1 cut(s)	985
AoxI	GGCC	2 cut(s)	765, 871
ApoI	RAATTY	2 cut(s)	77, 711
ArsI	GACNNNNNNTTYG	2 cut(s)	398, 430
AspLEI	GCGC	1 cut(s)	1098
AspS9I	GGNCC	1 cut(s)	611
AsuHPI	GGTGA	1 cut(s)	575
AvaI	CYCGRG	1 cut(s)	985
AvaII	GGWCC	1 cut(s)	611
BalI	TGGCCA	1 cut(s)	873
BanII	GRGCYC	1 cut(s)	435
Bbv12I	GWGCWC	2 cut(s)	435, 741
BcgI	CGANNNNNNTGC	2 cut(s)	216, 250
BciT130I	CCWGG	1 cut(s)	941
BclI	TGATCA	1 cut(s)	540
BcoDI	GTCTC	1 cut(s)	330
BcuI	ACTAGT	1 cut(s)	131
BfaI	CTAG	2 cut(s)	36, 132
BisI	GCNGC	1 cut(s)	509
BlsI	GCNGC	1 cut(s)	510
Bme1390I	CCNGG	1 cut(s)	941
Bme18I	GGWCC	1 cut(s)	611
BmeT110I	CYCGRG	1 cut(s)	985
BmgT120I	GGNCC	1 cut(s)	611
BmiI	GGNNCC	2 cut(s)	612, 822
BmrFI	CCNGG	1 cut(s)	941
BmsI	GCATC	3 cut(s)	163, 472, 495
BpuEI	CTTGAG	1 cut(s)	449
BsaJI	CCNNGG	2 cut(s)	409, 1003
Bsc4I	CCNNNNNNNGG	1 cut(s)	774
Bse118I	RCCGGY	1 cut(s)	887
Bse3DI	GCAATG	2 cut(s)	163, 822
BseBI	CCWGG	1 cut(s)	941
BseDI	CCNNGG	2 cut(s)	409, 1003
BseGI	GGATG	3 cut(s)	409, 963, 1048
BseLI	CCNNNNNNNGG	1 cut(s)	774
BseMI	GCAATG	2 cut(s)	163, 822
BseMII	CTCAG	3 cut(s)	54, 192, 1002
BseYI	CCCAGC	2 cut(s)	83, 773
BsgI	GTGCAG	1 cut(s)	1131
Bsh1236I	CGCG	1 cut(s)	511
BshFI	GGCC	2 cut(s)	767, 873
BsiHKAI	GWGCWC	2 cut(s)	435, 741
BsiHKCI	CYCGRG	1 cut(s)	985
BsiSI	CCGG	1 cut(s)	888
BslFI	GGGAC	2 cut(s)	624, 1021
BslI	CCNNNNNNNGG	1 cut(s)	774
BsmAI	GTCTC	1 cut(s)	330
BsmFI	GGGAC	2 cut(s)	624, 1021
BsmI	GAATGC	2 cut(s)	256, 368
BsnI	GGCC	2 cut(s)	767, 873
BsoBI	CYCGRG	1 cut(s)	985
Bsp1286I	GDGCHC	2 cut(s)	435, 741
Bsp143I	GATC	2 cut(s)	540, 757
Bsp19I	CCATGG	1 cut(s)	409
BspACI	CCGC	1 cut(s)	509
BspANI	GGCC	2 cut(s)	767, 873
BspCNI	CTCAG	3 cut(s)	53, 193, 1003
BspFNI	CGCG	1 cut(s)	511
BspLI	GGNNCC	2 cut(s)	612, 822
BsrDI	GCAATG	2 cut(s)	163, 822
BsrFI	RCCGGY	1 cut(s)	887
BssAI	RCCGGY	1 cut(s)	887
BssECI	CCNNGG	2 cut(s)	409, 1003
BssMI	GATC	2 cut(s)	540, 757
BssT1I	CCWWGG	2 cut(s)	409, 1003
Bst2UI	CCWGG	1 cut(s)	941
Bst4CI	ACNGT	3 cut(s)	59, 1051, 1118
BstDEI	CTNAG	3 cut(s)	40, 201, 1011
BstDSI	CCRYGG	1 cut(s)	409
BstF5I	GGATG	3 cut(s)	409, 963, 1048
BstFNI	CGCG	1 cut(s)	511
BstHHI	GCGC	1 cut(s)	1098
BstKTI	GATC	2 cut(s)	543, 760
BstMAI	GTCTC	1 cut(s)	330
BstMBI	GATC	2 cut(s)	540, 757
BstNI	CCWGG	1 cut(s)	941
BstNSI	RCATGY	3 cut(s)	187, 657, 1088
BstSCI	CCNGG	1 cut(s)	939
BstUI	CGCG	1 cut(s)	511
BsuRI	GGCC	2 cut(s)	767, 873
BtgI	CCRYGG	1 cut(s)	409
BtsCI	GGATG	3 cut(s)	409, 963, 1048
BtsI	GCAGTG	1 cut(s)	648
BtsIMutI	CAGTG	2 cut(s)	648, 1114
CfoI	GCGC	1 cut(s)	1098
Cfr10I	RCCGGY	1 cut(s)	887
Cfr13I	GGNCC	1 cut(s)	611
CseI	GACGC	1 cut(s)	284
Csp6I	GTAC	2 cut(s)	55, 438
CviAII	CATG	9 cut(s)	14, 184, 410, 544, 654, 684, 751, 869, 1085
CviQI	GTAC	2 cut(s)	55, 438
DdeI	CTNAG	3 cut(s)	40, 201, 1011
DpnI	GATC	2 cut(s)	542, 759
DpnII	GATC	2 cut(s)	540, 757
EaeI	YGGCCR	1 cut(s)	871
Ecl136II	GAGCTC	1 cut(s)	433
Eco130I	CCWWGG	2 cut(s)	409, 1003
Eco24I	GRGCYC	1 cut(s)	435
Eco47I	GGWCC	1 cut(s)	611
Eco53kI	GAGCTC	1 cut(s)	433
Eco57I	CTGAAG	1 cut(s)	1089
Eco88I	CYCGRG	1 cut(s)	985
EcoICRI	GAGCTC	1 cut(s)	433
EcoO109I	RGGNCCY	1 cut(s)	611
EcoRII	CCWGG	1 cut(s)	939
EcoT14I	CCWWGG	2 cut(s)	409, 1003
EcoT38I	GRGCYC	1 cut(s)	435
ErhI	CCWWGG	2 cut(s)	409, 1003
FaeI	CATG	9 cut(s)	17, 187, 413, 547, 657, 687, 754, 872, 1088
FalI	AAGNNNNNCTT	2 cut(s)	312, 344
FaqI	GGGAC	2 cut(s)	624, 1021
FatI	CATG	9 cut(s)	13, 183, 409, 543, 653, 683, 750, 868, 1084
FbaI	TGATCA	1 cut(s)	540
Fnu4HI	GCNGC	1 cut(s)	509
FokI	GGATG	3 cut(s)	416, 950, 1055
FriOI	GRGCYC	1 cut(s)	435
Fsp4HI	GCNGC	1 cut(s)	509
FspBI	CTAG	2 cut(s)	36, 132
FspI	TGCGCA	1 cut(s)	1097
GlaI	GCGC	1 cut(s)	1097
GluI	GCNGC	1 cut(s)	509
GsaI	CCCAGC	2 cut(s)	87, 777
HaeIII	GGCC	2 cut(s)	767, 873
HapII	CCGG	1 cut(s)	888
HgaI	GACGC	1 cut(s)	284
HhaI	GCGC	1 cut(s)	1098
Hin1II	CATG	9 cut(s)	17, 187, 413, 547, 657, 687, 754, 872, 1088
Hin6I	GCGC	1 cut(s)	1096
HinP1I	GCGC	1 cut(s)	1096
HindIII	AAGCTT	4 cut(s)	902, 995, 1025, 1058
HinfI	GANTC	4 cut(s)	323, 388, 471, 988
HpaII	CCGG	1 cut(s)	888
HphI	GGTGA	1 cut(s)	575
Hpy166II	GTNNAC	2 cut(s)	55, 961
Hpy188I	TCNGA	4 cut(s)	249, 393, 864, 1035
Hpy188III	TCNNGA	3 cut(s)	284, 728, 1054
Hpy8I	GTNNAC	2 cut(s)	55, 961
Hpy99I	CGWCG	2 cut(s)	300, 303
HpyAV	CCTTC	2 cut(s)	371, 938
HpyCH4III	ACNGT	3 cut(s)	59, 1051, 1118
HpyCH4V	TGCA	7 cut(s)	227, 368, 461, 653, 750, 1148, 1160
HpyF3I	CTNAG	3 cut(s)	40, 201, 1011
Hsp92II	CATG	9 cut(s)	17, 187, 413, 547, 657, 687, 754, 872, 1088
HspAI	GCGC	1 cut(s)	1096
Ksp22I	TGATCA	1 cut(s)	540
Kzo9I	GATC	2 cut(s)	540, 757
LmnI	GCTCC	1 cut(s)	830
LweI	GCATC	3 cut(s)	163, 472, 495
MaeI	CTAG	2 cut(s)	36, 132
MaeIII	GTNAC	4 cut(s)	31, 179, 520, 628
MalI	GATC	2 cut(s)	542, 759
MboI	GATC	2 cut(s)	540, 757
MhlI	GDGCHC	2 cut(s)	435, 741
MlsI	TGGCCA	1 cut(s)	873
MluCI	AATT	6 cut(s)	62, 77, 711, 914, 1015, 1135
MluNI	TGGCCA	1 cut(s)	873
MlyI	GAGTC	2 cut(s)	332, 997
MmeI	TCCRAC	2 cut(s)	107, 619
MnlI	CCTC	7 cut(s)	306, 367, 601, 781, 933, 994, 1152
Mox20I	TGGCCA	1 cut(s)	873
MscI	TGGCCA	1 cut(s)	873
MseI	TTAA	4 cut(s)	345, 477, 852, 1089
MslI	CAYNNNNRTG	1 cut(s)	18
Msp20I	TGGCCA	1 cut(s)	873
MspI	CCGG	1 cut(s)	888
MspR9I	CCNGG	1 cut(s)	941
Mva1269I	GAATGC	2 cut(s)	256, 368
MvaI	CCWGG	1 cut(s)	941
MvnI	CGCG	1 cut(s)	511
NcoI	CCATGG	1 cut(s)	409
NdeII	GATC	2 cut(s)	540, 757
NlaIII	CATG	9 cut(s)	17, 187, 413, 547, 657, 687, 754, 872, 1088
NlaIV	GGNNCC	2 cut(s)	612, 822
NmuCI	GTSAC	2 cut(s)	179, 628
NsbI	TGCGCA	1 cut(s)	1097
NspI	RCATGY	3 cut(s)	187, 657, 1088
PaeR7I	CTCGAG	1 cut(s)	985
PciI	ACATGT	2 cut(s)	183, 1084
PctI	GAATGC	2 cut(s)	256, 368
PfeI	GAWTC	2 cut(s)	388, 471
PkrI	GCNGC	1 cut(s)	510
PleI	GAGTC	2 cut(s)	331, 996
PpsI	GAGTC	2 cut(s)	331, 996
PpuMI	RGGWCCY	1 cut(s)	611
PscI	ACATGT	2 cut(s)	183, 1084
Psp124BI	GAGCTC	1 cut(s)	435
Psp5II	RGGWCCY	1 cut(s)	611
Psp6I	CCWGG	1 cut(s)	939
PspFI	CCCAGC	2 cut(s)	83, 773
PspGI	CCWGG	1 cut(s)	939
PspN4I	GGNNCC	2 cut(s)	612, 822
PspPI	GGNCC	1 cut(s)	611
PspPPI	RGGWCCY	1 cut(s)	611
PspXI	VCTCGAGB	1 cut(s)	985
RsaI	GTAC	2 cut(s)	56, 439
RsaNI	GTAC	2 cut(s)	55, 438
RseI	CAYNNNNRTG	1 cut(s)	18
SacI	GAGCTC	1 cut(s)	435
SaqAI	TTAA	4 cut(s)	345, 477, 852, 1089
SatI	GCNGC	1 cut(s)	509
Sau3AI	GATC	2 cut(s)	540, 757
Sau96I	GGNCC	1 cut(s)	611
SchI	GAGTC	2 cut(s)	332, 997
ScrFI	CCNGG	1 cut(s)	941
SduI	GDGCHC	2 cut(s)	435, 741
SfaNI	GCATC	3 cut(s)	163, 472, 495
Sfr274I	CTCGAG	1 cut(s)	985
SinI	GGWCC	1 cut(s)	611
SlaI	CTCGAG	1 cut(s)	985
SmiMI	CAYNNNNRTG	1 cut(s)	18
SmlI	CTYRAG	2 cut(s)	428, 985
SmoI	CTYRAG	2 cut(s)	428, 985
SpeI	ACTAGT	1 cut(s)	131
Sse9I	AATT	6 cut(s)	62, 77, 711, 914, 1015, 1135
SsiI	CCGC	1 cut(s)	509
SspMI	CTAG	2 cut(s)	36, 132
SstI	GAGCTC	1 cut(s)	435
StyD4I	CCNGG	1 cut(s)	939
StyI	CCWWGG	2 cut(s)	409, 1003
TaaI	ACNGT	3 cut(s)	59, 1051, 1118
TaqI	TCGA	4 cut(s)	189, 372, 986, 1126
TasI	AATT	6 cut(s)	62, 77, 711, 914, 1015, 1135
TatI	WGTACW	1 cut(s)	54
TauI	GCSGC	1 cut(s)	511
TfiI	GAWTC	2 cut(s)	388, 471
Tru1I	TTAA	4 cut(s)	345, 477, 852, 1089
Tru9I	TTAA	4 cut(s)	345, 477, 852, 1089
TscAI	CASTG	2 cut(s)	655, 1121
TseFI	GTSAC	2 cut(s)	179, 628
Tsp45I	GTSAC	2 cut(s)	179, 628
TspDTI	ATGAA	7 cut(s)	17, 114, 463, 693, 1019, 1059, 1148
TspGWI	ACGGA	1 cut(s)	843
TspRI	CASTG	2 cut(s)	655, 1121
VpaK11BI	GGWCC	1 cut(s)	611
XapI	RAATTY	2 cut(s)	77, 711
XceI	RCATGY	3 cut(s)	187, 657, 1088
XhoI	CTCGAG	1 cut(s)	985
XspI	CTAG	2 cut(s)	36, 132

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