Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3C

Orthogroup ID

OG0007077

Physical Location & Seq

Genomic Coordinates Reverse (-)

22262968 .. 22264320

Gene Structure 1353 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3CG235000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1353 bp

ATGCGAGGCTTATCCACCAAATTACAGTCCTTGTGTTGGAGCTCAACCTCTAAAACCCTTAATTTCCGATTCTCAAAATTTCGTAAGATTGATAACTTTCCGACGCTCACTAAGCCATCTACTACGCCCAACAAAGCCCACTTGAAACAACAACAAGAACCGAGTTCGTTTGGATCGCTGTTCAGTGAAATAACTGAGATTTTAGGGGCTGAACACGTCACTCTGGATAAAACCCCATCTGGGTTTTTTATTTGCAAGGAAACCCATCTTGGGGTTGGTGAGGTTGGCCAAGAGATTGCTAAGGTGAATGCACTGGGAGAAAAGGAAGATATAACTGTTGTGGAGGAAACCAGATTCGAAAGCGTAGCTGAAACTGATGTTAGTCCAGTAGTTCATGAGGTTACGAAGATTGTCAGGGCGGAAAATGGTTTGGTTTTGATGGAGGAGCGGTTAGACGAGTTGGGTTTTCAGTTAGATTCAGAGATTGTTGACAAAGTTCTGAAGAGGTGCTTTAAAGTGCCACATTTGGCTTTAAGGTTCTTTGACTGGGTGAAACTGAAAGAAGGGTTCTGTCACACGACTAACACTTATAATACCGTGCTGTGTATAGCTGGGGAGGCAAGAGAGTTTGGGCTGGTGGAGAAGTTGGTGGAGGAGATGGAAAGGAACTCGTGCGAGAAAGATGTTAAGACCTGGACCATTCTTATCCAGATGTATGGGAAGGCTAAGTTAGTTGGAAGAGCCTTGTTAGTCTATGAGAAGATGAAGAAATGCGGTTTTGAACCAGACTCCGTGGTTTTCAGAATGATGATACGTGCACTTTGTGCTGCTGGAAAAGCTGACGTGGCAATGGAATTTTACAAGGAAATGGTACAGAAGGACATTGGACTTGATATCAATATGTATAAGCTGTTATTGAATGGCATAGCTAGCTACGGAGATACTGCTGCTGTGGGCTTGGTTTCAGATGACATGATGAGAGTCTCACAGATTCCTGAACATGCGGTTTATGGTTGTGTCCTAAAGTCTTTCTGTATCTCTGGTAGAATCAGAGAAGCTTTGGAATATATTCGTGAGCTCAAGAATAAAGATGTTATGCTTCTCTCTGAATATTTTGAGACTTTGGTGAAAGGACTGTGCAGGGCTGATAAAATTGCAGATGCTTTGGAGATTTTGGATATTTTGAAGAAAAGAGATATTGTTGATGGAAATGTGTATGGGATTATCATCAATGGATACTTGAGAAAAAATGATGTTTCTAGAGCACTTGATCTGTTTCGTAGTATGAAAGAATGTGGATATTTGCCTACTACTTCTACCTACACTGAACTGATGCAGCACCTCTTCAATTAG

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_2 PPR_3

Protein Analysis

450

Amino Acids

50.96

Weight (kDa)

6.16

Isoelectric Point (pI)

24.36

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	194 - 240	1.2e-06	PPR repeat family
PPR_2	PF13041	227 - 275	5.7e-12	PPR repeat family
PPR_1	PF12854	259 - 291	6.2e-07	PPR repeat
PPR_2	PF13041	262 - 310	4.7e-07	PPR repeat family
PPR_2	PF13041	405 - 449	1.8e-09	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: OG0007077)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G06400
fragaria_vesca	FvH4_6g20810 FvH4_6g20810 FvH4_6g20810
malus_domestica	MD12G1044100.v1.1
prunus_persica	Prupe.7G091000_v2.0.a1
pyrus_communis	pycom12g03800
rosa_chinensis	RchiOBHm_Chr3g0476881
rosa_laevigata	RLG00000023746
rosa_multiflora	Rmu_sc0000288.1_g000033
rosa_roxburghii	Rroxscaffold_6G00403680 Rroxscaffold_6G00404930
rosa_rugosa	Rorug03G0157400
rosa_samantha	Rh3AG207600 Rh3AG229900 Rh3BG240200 Rh3BG241300 Rh3CG233900 Rh3CG235000 Rh3CG235700 Rh3CG259900 Rh3DG233900
rosa_wichuraiana	Rw0G011140 Rw3G018900 Rw3G020670

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	591
AccBSI	CCGCTC	1 cut(s)	448
AciI	CCGC	4 cut(s)	419, 448, 774, 1004
AclWI	GGATC	1 cut(s)	181
AcoI	YGGCCR	1 cut(s)	286
AcsI	RAATTY	2 cut(s)	77, 854
AcuI	CTGAAG	1 cut(s)	521
AdeI	CACNNNGTG	1 cut(s)	824
AfaI	GTAC	1 cut(s)	873
AfiI	CCNNNNNNNGG	4 cut(s)	36, 240, 270, 271
AflIII	ACRYGT	1 cut(s)	214
AgsI	TTSAA	5 cut(s)	145, 782, 919, 1186, 1348
AjiI	CACGTC	2 cut(s)	217, 844
AjnI	CCWGG	1 cut(s)	692
AjuI	GAANNNNNNNTTGG	2 cut(s)	252, 284
AluBI	AGCT	9 cut(s)	42, 368, 611, 839, 910, 929, 933, 1058, 1078
AluI	AGCT	9 cut(s)	42, 368, 611, 839, 910, 929, 933, 1058, 1078
Alw21I	GWGCWC	4 cut(s)	44, 820, 1080, 1267
Alw26I	GTCTC	2 cut(s)	988, 1112
Alw44I	GTGCAC	1 cut(s)	816
AlwI	GGATC	1 cut(s)	181
AoxI	GGCC	1 cut(s)	286
ApaLI	GTGCAC	1 cut(s)	816
ApeKI	GCWGC	3 cut(s)	827, 947, 1336
ApoI	RAATTY	2 cut(s)	77, 854
Asp700I	GAANNNNTTC	1 cut(s)	1068
AspS9I	GGNCC	1 cut(s)	696
AsuHPI	GGTGA	4 cut(s)	290, 316, 562, 1138
AsuII	TTCGAA	1 cut(s)	357
AsuNHI	GCTAGC	1 cut(s)	929
AvaII	GGWCC	1 cut(s)	696
BaeGI	GKGCMC	1 cut(s)	820
BalI	TGGCCA	1 cut(s)	288
BanII	GRGCYC	2 cut(s)	44, 1080
BauI	CACGAG	1 cut(s)	670
Bbv12I	GWGCWC	4 cut(s)	44, 820, 1080, 1267
BbvI	GCAGC	3 cut(s)	814, 934, 1348
BccI	CCATC	6 cut(s)	124, 244, 273, 433, 652, 1199
BciT130I	CCWGG	1 cut(s)	694
BciVI	GTATCC	1 cut(s)	1229
BcoDI	GTCTC	2 cut(s)	988, 1112
BfaI	CTAG	2 cut(s)	930, 1260
BfuI	GTATCC	1 cut(s)	1229
BisI	GCNGC	3 cut(s)	828, 948, 1337
BlsI	GCNGC	3 cut(s)	829, 949, 1338
Bme1390I	CCNGG	1 cut(s)	694
Bme18I	GGWCC	1 cut(s)	696
BmgBI	CACGTC	2 cut(s)	217, 844
BmgT120I	GGNCC	1 cut(s)	696
BmrFI	CCNGG	1 cut(s)	694
BmrI	ACTGGG	2 cut(s)	323, 556
BmsI	GCATC	2 cut(s)	1150, 1323
BmtI	GCTAGC	1 cut(s)	933
BmuI	ACTGGG	2 cut(s)	323, 556
Bpu10I	CCTNAGC	1 cut(s)	300
Bpu14I	TTCGAA	1 cut(s)	357
BpuEI	CTTGAG	2 cut(s)	1064, 1261
BsaAI	YACGTR	1 cut(s)	815
BsaBI	GATNNNNATC	1 cut(s)	1226
BsaJI	CCNNGG	1 cut(s)	792
BsaXI	ACNNNNNCTCC	2 cut(s)	434, 464
Bsc4I	CCNNNNNNNGG	4 cut(s)	36, 240, 270, 271
Bse1I	ACTGG	3 cut(s)	318, 386, 551
Bse3DI	GCAATG	1 cut(s)	855
Bse8I	GATNNNNATC	1 cut(s)	1226
BseBI	CCWGG	1 cut(s)	694
BseDI	CCNNGG	1 cut(s)	792
BseJI	GATNNNNATC	1 cut(s)	1226
BseLI	CCNNNNNNNGG	4 cut(s)	36, 240, 270, 271
BseMI	GCAATG	1 cut(s)	855
BseMII	CTCAG	1 cut(s)	186
BseNI	ACTGG	3 cut(s)	318, 386, 551
BseRI	GAGGAG	2 cut(s)	458, 668
BseSI	GKGCMC	1 cut(s)	820
BseXI	GCAGC	3 cut(s)	814, 934, 1348
BseYI	CCCAGC	1 cut(s)	611
BsgI	GTGCAG	1 cut(s)	1159
BshFI	GGCC	1 cut(s)	288
BsiHKAI	GWGCWC	4 cut(s)	44, 820, 1080, 1267
BslI	CCNNNNNNNGG	4 cut(s)	36, 240, 270, 271
BsmAI	GTCTC	2 cut(s)	988, 1112
BsmI	GAATGC	1 cut(s)	313
BsnI	GGCC	1 cut(s)	288
Bsp119I	TTCGAA	1 cut(s)	357
Bsp1286I	GDGCHC	4 cut(s)	44, 820, 1080, 1267
Bsp143I	GATC	2 cut(s)	173, 1270
BspACI	CCGC	4 cut(s)	419, 448, 774, 1004
BspANI	GGCC	1 cut(s)	288
BspCNI	CTCAG	1 cut(s)	187
BspHI	TCATGA	1 cut(s)	394
BspOI	GCTAGC	1 cut(s)	933
BspPI	GGATC	1 cut(s)	181
BspQI	GCTCTTC	1 cut(s)	733
BspT104I	TTCGAA	1 cut(s)	357
BsrBI	CCGCTC	1 cut(s)	448
BsrDI	GCAATG	1 cut(s)	855
BsrI	ACTGG	3 cut(s)	318, 386, 551
BssECI	CCNNGG	1 cut(s)	792
BssMI	GATC	2 cut(s)	173, 1270
BssSI	CACGAG	1 cut(s)	670
Bst2BI	CACGAG	1 cut(s)	670
Bst2UI	CCWGG	1 cut(s)	694
Bst4CI	ACNGT	4 cut(s)	27, 337, 598, 1137
Bst6I	CTCTTC	3 cut(s)	497, 733, 1349
BstAPI	GCANNNNNTGC	1 cut(s)	824
BstBAI	YACGTR	1 cut(s)	815
BstBI	TTCGAA	1 cut(s)	357
BstC8I	GCNNGC	1 cut(s)	931
BstDEI	CTNAG	4 cut(s)	111, 195, 300, 726
BstDSI	CCRYGG	1 cut(s)	792
BstKTI	GATC	2 cut(s)	176, 1273
BstMAI	GTCTC	2 cut(s)	988, 1112
BstMBI	GATC	2 cut(s)	173, 1270
BstMWI	GCNNNNNNNGC	6 cut(s)	112, 617, 824, 836, 845, 930
BstNI	CCWGG	1 cut(s)	694
BstNSI	RCATGY	1 cut(s)	1004
BstSCI	CCNGG	1 cut(s)	692
BstSLI	GKGCMC	1 cut(s)	820
BstV1I	GCAGC	3 cut(s)	814, 934, 1348
BstXI	CCANNNNNNTGG	1 cut(s)	716
BsuI	GTATCC	1 cut(s)	1229
BsuRI	GGCC	1 cut(s)	288
BtgI	CCRYGG	1 cut(s)	792
BtrI	CACGTC	2 cut(s)	217, 844
BtsIMutI	CAGTG	3 cut(s)	190, 311, 1323
Cac8I	GCNNGC	1 cut(s)	931
CciI	TCATGA	1 cut(s)	394
Cfr13I	GGNCC	1 cut(s)	696
CseI	GACGC	1 cut(s)	112
Csp6I	GTAC	1 cut(s)	872
CviAII	CATG	3 cut(s)	395, 973, 1001
CviQI	GTAC	1 cut(s)	872
DdeI	CTNAG	4 cut(s)	111, 195, 300, 726
DpnI	GATC	2 cut(s)	175, 1272
DpnII	GATC	2 cut(s)	173, 1270
DraI	TTTAAA	1 cut(s)	514
DraIII	CACNNNGTG	1 cut(s)	824
EaeI	YGGCCR	1 cut(s)	286
Eam1104I	CTCTTC	3 cut(s)	497, 733, 1349
EarI	CTCTTC	3 cut(s)	497, 733, 1349
EciI	GGCGGA	1 cut(s)	434
Ecl136II	GAGCTC	2 cut(s)	42, 1078
Eco24I	GRGCYC	2 cut(s)	44, 1080
Eco32I	GATATC	1 cut(s)	895
Eco47I	GGWCC	1 cut(s)	696
Eco53kI	GAGCTC	2 cut(s)	42, 1078
Eco57I	CTGAAG	1 cut(s)	521
EcoICRI	GAGCTC	2 cut(s)	42, 1078
EcoRII	CCWGG	1 cut(s)	692
EcoRV	GATATC	1 cut(s)	895
EcoT38I	GRGCYC	2 cut(s)	44, 1080
FaeI	CATG	3 cut(s)	398, 976, 1004
FalI	AAGNNNNNCTT	2 cut(s)	494, 526
FatI	CATG	3 cut(s)	394, 972, 1000
Fnu4HI	GCNGC	3 cut(s)	828, 948, 1337
FriOI	GRGCYC	2 cut(s)	44, 1080
Fsp4HI	GCNGC	3 cut(s)	828, 948, 1337
FspBI	CTAG	2 cut(s)	930, 1260
GluI	GCNGC	3 cut(s)	828, 948, 1337
GsaI	CCCAGC	1 cut(s)	615
HaeIII	GGCC	1 cut(s)	288
HgaI	GACGC	1 cut(s)	112
Hin1II	CATG	3 cut(s)	398, 976, 1004
HincII	GTYRAC	1 cut(s)	490
HindII	GTYRAC	1 cut(s)	490
HindIII	AAGCTT	1 cut(s)	1056
HinfI	GANTC	7 cut(s)	69, 354, 476, 788, 981, 991, 1047
HphI	GGTGA	4 cut(s)	290, 316, 562, 1138
Hpy166II	GTNNAC	2 cut(s)	490, 818
Hpy188I	TCNGA	8 cut(s)	68, 102, 481, 501, 803, 967, 1052, 1108
Hpy188III	TCNNGA	7 cut(s)	224, 395, 709, 995, 1073, 1081, 1260
Hpy8I	GTNNAC	2 cut(s)	490, 818
Hpy99I	CGWCG	1 cut(s)	106
HpyAV	CCTTC	3 cut(s)	557, 715, 871
HpyCH4III	ACNGT	4 cut(s)	27, 337, 598, 1137
HpyCH4IV	ACGT	3 cut(s)	216, 814, 843
HpyCH4V	TGCA	6 cut(s)	255, 311, 818, 1140, 1157, 1336
HpyF10VI	GCNNNNNNNGC	6 cut(s)	112, 617, 824, 836, 845, 930
HpyF3I	CTNAG	4 cut(s)	111, 195, 300, 726
HpySE526I	ACGT	3 cut(s)	216, 814, 843
Hsp92II	CATG	3 cut(s)	398, 976, 1004
Kzo9I	GATC	2 cut(s)	173, 1270
LguI	GCTCTTC	1 cut(s)	733
LmnI	GCTCC	2 cut(s)	39, 445
Lsp1109I	GCAGC	3 cut(s)	814, 934, 1348
LweI	GCATC	2 cut(s)	1150, 1323
MaeI	CTAG	2 cut(s)	930, 1260
MaeII	ACGT	3 cut(s)	216, 814, 843
MaeIII	GTNAC	3 cut(s)	217, 400, 572
MalI	GATC	2 cut(s)	175, 1272
MbiI	CCGCTC	1 cut(s)	448
MboI	GATC	2 cut(s)	173, 1270
MboII	GAAGA	8 cut(s)	338, 418, 514, 750, 772, 778, 1198, 1336
MhlI	GDGCHC	4 cut(s)	44, 820, 1080, 1267
MlsI	TGGCCA	1 cut(s)	288
MluCI	AATT	6 cut(s)	20, 61, 77, 854, 1152, 1348
MluNI	TGGCCA	1 cut(s)	288
MlyI	GAGTC	2 cut(s)	782, 990
MmeI	TCCRAC	3 cut(s)	17, 125, 715
MnlI	CCTC	9 cut(s)	58, 274, 337, 391, 436, 498, 610, 646, 1352
Mox20I	TGGCCA	1 cut(s)	288
MroXI	GAANNNNTTC	1 cut(s)	1068
MscI	TGGCCA	1 cut(s)	288
MseI	TTAA	4 cut(s)	60, 513, 533, 687
Msp20I	TGGCCA	1 cut(s)	288
MspR9I	CCNGG	1 cut(s)	694
Mva1269I	GAATGC	1 cut(s)	313
MvaI	CCWGG	1 cut(s)	694
MwoI	GCNNNNNNNGC	6 cut(s)	112, 617, 824, 836, 845, 930
NdeII	GATC	2 cut(s)	173, 1270
NheI	GCTAGC	1 cut(s)	929
NlaIII	CATG	3 cut(s)	398, 976, 1004
NmuCI	GTSAC	2 cut(s)	217, 572
NspI	RCATGY	1 cut(s)	1004
NspV	TTCGAA	1 cut(s)	357
PagI	TCATGA	1 cut(s)	394
PciSI	GCTCTTC	1 cut(s)	733
PctI	GAATGC	1 cut(s)	313
PdmI	GAANNNNTTC	1 cut(s)	1068
PfeI	GAWTC	5 cut(s)	69, 354, 476, 991, 1047
PkrI	GCNGC	3 cut(s)	829, 949, 1338
PleI	GAGTC	2 cut(s)	782, 989
PpsI	GAGTC	2 cut(s)	782, 989
Ppu21I	YACGTR	1 cut(s)	815
PsiI	TTATAA	1 cut(s)	591
Psp124BI	GAGCTC	2 cut(s)	44, 1080
Psp6I	CCWGG	1 cut(s)	692
PspFI	CCCAGC	1 cut(s)	611
PspGI	CCWGG	1 cut(s)	692
PspPI	GGNCC	1 cut(s)	696
RsaI	GTAC	1 cut(s)	873
RsaNI	GTAC	1 cut(s)	872
SacI	GAGCTC	2 cut(s)	44, 1080
SapI	GCTCTTC	1 cut(s)	733
SaqAI	TTAA	4 cut(s)	60, 513, 533, 687
SatI	GCNGC	3 cut(s)	828, 948, 1337
Sau3AI	GATC	2 cut(s)	173, 1270
Sau96I	GGNCC	1 cut(s)	696
SchI	GAGTC	2 cut(s)	782, 990
ScrFI	CCNGG	1 cut(s)	694
SduI	GDGCHC	4 cut(s)	44, 820, 1080, 1267
SfaNI	GCATC	2 cut(s)	1150, 1323
SfuI	TTCGAA	1 cut(s)	357
SinI	GGWCC	1 cut(s)	696
SmlI	CTYRAG	2 cut(s)	1079, 1240
SmoI	CTYRAG	2 cut(s)	1079, 1240
Sse9I	AATT	6 cut(s)	20, 61, 77, 854, 1152, 1348
SsiI	CCGC	4 cut(s)	419, 448, 774, 1004
SspI	AATATT	1 cut(s)	1112
SspMI	CTAG	2 cut(s)	930, 1260
SstI	GAGCTC	2 cut(s)	44, 1080
StyD4I	CCNGG	1 cut(s)	692
TaaI	ACNGT	4 cut(s)	27, 337, 598, 1137
TaiI	ACGT	3 cut(s)	219, 817, 846
TaqI	TCGA	1 cut(s)	357
TasI	AATT	6 cut(s)	20, 61, 77, 854, 1152, 1348
TfiI	GAWTC	5 cut(s)	69, 354, 476, 991, 1047
Tru1I	TTAA	4 cut(s)	60, 513, 533, 687
Tru9I	TTAA	4 cut(s)	60, 513, 533, 687
TscAI	CASTG	3 cut(s)	190, 318, 1330
TseFI	GTSAC	2 cut(s)	217, 572
TseI	GCWGC	3 cut(s)	827, 947, 1336
Tsp45I	GTSAC	2 cut(s)	217, 572
TspDTI	ATGAA	3 cut(s)	383, 779, 1301
TspGWI	ACGGA	2 cut(s)	781, 951
TspRI	CASTG	3 cut(s)	190, 318, 1330
VneI	GTGCAC	1 cut(s)	816
VpaK11BI	GGWCC	1 cut(s)	696
XapI	RAATTY	2 cut(s)	77, 854
XbaI	TCTAGA	1 cut(s)	1259
XceI	RCATGY	1 cut(s)	1004
XcmI	CCANNNNNNNNNTGG	1 cut(s)	272
XmnI	GAANNNNTTC	1 cut(s)	1068
XspI	CTAG	2 cut(s)	930, 1260

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