Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6A

Orthogroup ID

OG0011432

Physical Location & Seq

Genomic Coordinates Reverse (-)

40292497 .. 40295941

Gene Structure 3445 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6AG223600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1101 bp

ATGATTTCAAGCTATGCAAGGCATGGTTGTGCGGAGAATTCCATGCTGCTTTTTGTGCTGACCTTGAGAAAGAATCTCAGGCCAACTGAGTTTACTCTTAGCAGTGCACTGAGCTGTATGTCCGCTTTTCTTCCAGTTGAGCAGGGTTTCCAAATCCATTCTTGGGTTATTAAGTTAGGCTTTGAGTCAGATGCTATTGTCGCTAGTTCACTTGTTGATTTTTACACTAAACTTGGATTAATAAATCATGCCATGAAAATATTTGCGAGTATGGGGGTGAAAGATTTGATATCTTGGAACACCATGATTATGGGTTTGGCTCACAATGGTAAATTATTTGAGACCCTGGACACATTCAAGGAATTAGTTAGTGAAGGTATGCCGGCAGATAATGTAACATTAGCTGGAGTTTTATTAGCTTGCAACTTTGGGAGCTTTGTGGATGAGGGTATGTCAATATTTAGGTCCATGGAGAAGGAATATGGGATCAAACCTGCGGAAGAGCATTATACGTGCATAATAGAGTTGTTGACTCGTGTAGGTAAACTCAAAGCAGCAATGGATATAGTAGCAGAAATGCCTTATGAACCTAGTTCTGTGATATGGGAATCAATGCTTCGTGCTTGTGCGATTCAGCAAGACATCAAAATTACTGAAAGAGTTGCACAACTGATGATGAAGTCAGAACCACAGTCATCTCTTCCTTATTTGGTGCTAGCTCGAGCATATGAAATGAGAGGAAGATGGGAAAGCATGATTCGAGTTACAAAAGAGATGAAACATAAAGGCGTAAAGAATGTTGTCGGATGTAGTTGGATTGAGATACAGAAACATGTATATACTTTTAAGGCAGACCAATTGCAGCATCATAGAGGTCAGGAATCTCATAAGCCTATTGTATTCTCGCTGGGTTCTGAGATCTTTCTCTGTCATGCCTTTGTAGCTGCAACGAAAGGTAACAGCTTGGGACACTTCGACTGCTGGAGTGAAATTGTCACACCGTCACACAGCACCAACCAGCTCAACCTCAAAGAGTTTCATTCTTCAACCATTGACGGGCCACGAGTGACTACTGAAAGCATATCTTTGCTAATGGGATGA

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

Protein Analysis

366

Amino Acids

41.03

Weight (kDa)

6.54

Isoelectric Point (pI)

41.1

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR	PF01535	97 - 126	9.4e-06	PPR repeat
E_motif	PF20431	214 - 274	1.1e-07	E motif

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: OG0011432)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G43980
fragaria_vesca	FvH4_2g15270 FvH4_2g15270
malus_domestica	MD10G1008600.v1.1
prunus_persica	Prupe.8G012400_v2.0.a1 Prupe.8G012400_v2.0.a1
rosa_chinensis	RchiOBHm_Chr6g0277991 RchiOBHm_Chr6g0278001
rosa_laevigata	RLG00000013249
rosa_multiflora	Rmu_co8471873.1_g000001
rosa_roxburghii	Rroxscaffold_7G00190600
rosa_rugosa	Rorug06G0113900 Rorug06G0114000
rosa_samantha	Rh2CG626400 Rh6AG223600 Rh6AG223700 Rh6BG227800 Rh6CG230300 Rh6DG221100
rosa_wichuraiana	Rw6G019540

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	502
AciI	CCGC	3 cut(s)	32, 123, 497
AclWI	GGATC	1 cut(s)	494
AcsI	RAATTY	1 cut(s)	37
AfiI	CCNNNNNNNGG	2 cut(s)	163, 1056
AflIII	ACRYGT	1 cut(s)	832
AgsI	TTSAA	3 cut(s)	9, 358, 1047
AjnI	CCWGG	1 cut(s)	345
AluBI	AGCT	9 cut(s)	12, 114, 404, 419, 435, 719, 944, 963, 1021
AluI	AGCT	9 cut(s)	12, 114, 404, 419, 435, 719, 944, 963, 1021
Alw21I	GWGCWC	1 cut(s)	109
Alw26I	GTCTC	1 cut(s)	335
Alw44I	GTGCAC	1 cut(s)	105
AlwI	GGATC	1 cut(s)	494
Ama87I	CYCGRG	1 cut(s)	720
AoxI	GGCC	2 cut(s)	80, 1058
ApaLI	GTGCAC	1 cut(s)	105
ApeKI	GCWGC	4 cut(s)	46, 554, 862, 944
ApoI	RAATTY	1 cut(s)	37
AseI	ATTAAT	1 cut(s)	239
AspS9I	GGNCC	2 cut(s)	465, 1058
AsuHPI	GGTGA	1 cut(s)	289
AsuNHI	GCTAGC	1 cut(s)	715
AvaI	CYCGRG	1 cut(s)	720
AvaII	GGWCC	1 cut(s)	465
BaeGI	GKGCMC	1 cut(s)	109
BauI	CACGAG	2 cut(s)	534, 1062
Bbv12I	GWGCWC	1 cut(s)	109
BbvI	GCAGC	4 cut(s)	33, 566, 874, 931
BccI	CCATC	1 cut(s)	738
BciT130I	CCWGG	1 cut(s)	347
BcoDI	GTCTC	1 cut(s)	335
BfaI	CTAG	3 cut(s)	204, 591, 716
BfuAI	ACCTGC	1 cut(s)	502
BglII	AGATCT	1 cut(s)	918
BisI	GCNGC	4 cut(s)	47, 555, 863, 945
BlsI	GCNGC	4 cut(s)	48, 556, 864, 946
Bme1390I	CCNGG	1 cut(s)	347
Bme18I	GGWCC	1 cut(s)	465
BmeT110I	CYCGRG	1 cut(s)	720
BmgT120I	GGNCC	2 cut(s)	465, 1058
BmrFI	CCNGG	1 cut(s)	347
BmsI	GCATC	2 cut(s)	181, 874
BmtI	GCTAGC	1 cut(s)	719
BpmI	CTGGAG	2 cut(s)	426, 1003
BpuEI	CTTGAG	1 cut(s)	85
BsaAI	YACGTR	1 cut(s)	513
BsaI	GGTCTC	1 cut(s)	335
BsaJI	CCNNGG	2 cut(s)	345, 468
Bsc4I	CCNNNNNNNGG	2 cut(s)	163, 1056
Bse118I	RCCGGY	1 cut(s)	382
Bse1I	ACTGG	1 cut(s)	134
Bse3DI	GCAATG	1 cut(s)	564
BseBI	CCWGG	1 cut(s)	347
BseDI	CCNNGG	2 cut(s)	345, 468
BseGI	GGATG	2 cut(s)	448, 812
BseLI	CCNNNNNNNGG	2 cut(s)	163, 1056
BseMI	GCAATG	1 cut(s)	564
BseMII	CTCAG	4 cut(s)	78, 91, 101, 906
BseNI	ACTGG	1 cut(s)	134
BseSI	GKGCMC	1 cut(s)	109
BseXI	GCAGC	4 cut(s)	33, 566, 874, 931
BseYI	CCCAGC	1 cut(s)	907
BshFI	GGCC	2 cut(s)	82, 1060
BsiHKAI	GWGCWC	1 cut(s)	109
BsiHKCI	CYCGRG	1 cut(s)	720
BsiSI	CCGG	1 cut(s)	383
BslFI	GGGAC	1 cut(s)	981
BslI	CCNNNNNNNGG	2 cut(s)	163, 1056
BsmAI	GTCTC	1 cut(s)	335
BsmFI	GGGAC	1 cut(s)	981
BsnI	GGCC	2 cut(s)	82, 1060
Bso31I	GGTCTC	1 cut(s)	335
BsoBI	CYCGRG	1 cut(s)	720
Bsp1286I	GDGCHC	1 cut(s)	109
Bsp143I	GATC	2 cut(s)	486, 918
Bsp19I	CCATGG	1 cut(s)	468
BspACI	CCGC	3 cut(s)	32, 123, 497
BspANI	GGCC	2 cut(s)	82, 1060
BspCNI	CTCAG	4 cut(s)	79, 90, 102, 907
BspMI	ACCTGC	1 cut(s)	502
BspOI	GCTAGC	1 cut(s)	719
BspPI	GGATC	1 cut(s)	494
BspQI	GCTCTTC	1 cut(s)	495
BspTNI	GGTCTC	1 cut(s)	335
BsrDI	GCAATG	1 cut(s)	564
BsrFI	RCCGGY	1 cut(s)	382
BsrI	ACTGG	1 cut(s)	134
BssAI	RCCGGY	1 cut(s)	382
BssECI	CCNNGG	2 cut(s)	345, 468
BssMI	GATC	2 cut(s)	486, 918
BssSI	CACGAG	2 cut(s)	534, 1062
BssT1I	CCWWGG	1 cut(s)	468
Bst2BI	CACGAG	2 cut(s)	534, 1062
Bst2UI	CCWGG	1 cut(s)	347
Bst4CI	ACNGT	2 cut(s)	693, 1002
Bst6I	CTCTTC	2 cut(s)	495, 705
BstBAI	YACGTR	1 cut(s)	513
BstC8I	GCNNGC	3 cut(s)	384, 421, 717
BstDEI	CTNAG	5 cut(s)	77, 87, 98, 110, 915
BstDSI	CCRYGG	1 cut(s)	468
BstF5I	GGATG	2 cut(s)	448, 812
BstKTI	GATC	2 cut(s)	489, 921
BstMAI	GTCTC	1 cut(s)	335
BstMBI	GATC	2 cut(s)	486, 918
BstMWI	GCNNNNNNNGC	3 cut(s)	55, 200, 941
BstNI	CCWGG	1 cut(s)	347
BstNSI	RCATGY	1 cut(s)	836
BstSCI	CCNGG	1 cut(s)	345
BstSLI	GKGCMC	1 cut(s)	109
BstV1I	GCAGC	4 cut(s)	33, 566, 874, 931
BstX2I	RGATCY	1 cut(s)	918
BstXI	CCANNNNNNTGG	1 cut(s)	310
BstYI	RGATCY	1 cut(s)	918
BsuRI	GGCC	2 cut(s)	82, 1060
BtgI	CCRYGG	1 cut(s)	468
BtsCI	GGATG	2 cut(s)	448, 812
BtsI	GCAGTG	1 cut(s)	109
BtsIMutI	CAGTG	2 cut(s)	107, 109
BveI	ACCTGC	1 cut(s)	502
Cac8I	GCNNGC	3 cut(s)	384, 421, 717
Cfr10I	RCCGGY	1 cut(s)	382
Cfr13I	GGNCC	2 cut(s)	465, 1058
CviAII	CATG	9 cut(s)	23, 43, 248, 253, 304, 469, 754, 833, 932
DdeI	CTNAG	5 cut(s)	77, 87, 98, 110, 915
DpnI	GATC	2 cut(s)	488, 920
DpnII	GATC	2 cut(s)	486, 918
Eam1104I	CTCTTC	2 cut(s)	495, 705
EarI	CTCTTC	2 cut(s)	495, 705
Eco130I	CCWWGG	1 cut(s)	468
Eco31I	GGTCTC	1 cut(s)	335
Eco32I	GATATC	1 cut(s)	291
Eco47I	GGWCC	1 cut(s)	465
Eco88I	CYCGRG	1 cut(s)	720
EcoRI	GAATTC	1 cut(s)	37
EcoRII	CCWGG	1 cut(s)	345
EcoRV	GATATC	1 cut(s)	291
EcoT14I	CCWWGG	1 cut(s)	468
ErhI	CCWWGG	1 cut(s)	468
FaeI	CATG	9 cut(s)	26, 46, 251, 256, 307, 472, 757, 836, 935
FalI	AAGNNNNNCTT	4 cut(s)	164, 196, 1069, 1101
FaqI	GGGAC	1 cut(s)	981
FatI	CATG	9 cut(s)	22, 42, 247, 252, 303, 468, 753, 832, 931
FauNDI	CATATG	1 cut(s)	727
Fnu4HI	GCNGC	4 cut(s)	47, 555, 863, 945
FokI	GGATG	2 cut(s)	455, 819
Fsp4HI	GCNGC	4 cut(s)	47, 555, 863, 945
FspBI	CTAG	3 cut(s)	204, 591, 716
GluI	GCNGC	4 cut(s)	47, 555, 863, 945
GsaI	CCCAGC	1 cut(s)	911
GsuI	CTGGAG	2 cut(s)	426, 1003
HaeIII	GGCC	2 cut(s)	82, 1060
HapII	CCGG	1 cut(s)	383
Hin1II	CATG	9 cut(s)	26, 46, 251, 256, 307, 472, 757, 836, 935
HincII	GTYRAC	1 cut(s)	531
HindII	GTYRAC	1 cut(s)	531
HinfI	GANTC	7 cut(s)	73, 185, 532, 608, 631, 757, 881
HpaII	CCGG	1 cut(s)	383
HphI	GGTGA	1 cut(s)	289
Hpy166II	GTNNAC	5 cut(s)	93, 107, 209, 531, 545
Hpy188I	TCNGA	4 cut(s)	190, 685, 806, 916
Hpy188III	TCNNGA	1 cut(s)	878
Hpy8I	GTNNAC	5 cut(s)	93, 107, 209, 531, 545
HpyAV	CCTTC	2 cut(s)	368, 469
HpyCH4III	ACNGT	2 cut(s)	693, 1002
HpyCH4IV	ACGT	1 cut(s)	512
HpyCH4V	TGCA	7 cut(s)	17, 107, 423, 516, 665, 862, 947
HpyF10VI	GCNNNNNNNGC	3 cut(s)	55, 200, 941
HpyF3I	CTNAG	5 cut(s)	77, 87, 98, 110, 915
HpySE526I	ACGT	1 cut(s)	512
Hsp92II	CATG	9 cut(s)	26, 46, 251, 256, 307, 472, 757, 836, 935
KroI	GCCGGC	1 cut(s)	382
KroNI	GCCGGC	1 cut(s)	384
Kzo9I	GATC	2 cut(s)	486, 918
LguI	GCTCTTC	1 cut(s)	495
LmnI	GCTCC	1 cut(s)	432
Lsp1109I	GCAGC	4 cut(s)	33, 566, 874, 931
LweI	GCATC	2 cut(s)	181, 874
MaeI	CTAG	3 cut(s)	204, 591, 716
MaeII	ACGT	1 cut(s)	512
MaeIII	GTNAC	6 cut(s)	394, 763, 956, 994, 1002, 1066
MalI	GATC	2 cut(s)	488, 920
MboI	GATC	2 cut(s)	486, 918
MboII	GAAGA	5 cut(s)	122, 512, 692, 753, 1035
MfeI	CAATTG	1 cut(s)	857
MflI	RGATCY	1 cut(s)	918
MhlI	GDGCHC	1 cut(s)	109
MluCI	AATT	6 cut(s)	37, 332, 362, 648, 857, 990
MlyI	GAGTC	2 cut(s)	194, 526
MmeI	TCCRAC	2 cut(s)	784, 794
MnlI	CCTC	4 cut(s)	439, 731, 866, 1037
MroNI	GCCGGC	1 cut(s)	382
MseI	TTAA	3 cut(s)	171, 239, 846
MslI	CAYNNNNRTG	2 cut(s)	27, 308
MspI	CCGG	1 cut(s)	383
MspR9I	CCNGG	1 cut(s)	347
MunI	CAATTG	1 cut(s)	857
MvaI	CCWGG	1 cut(s)	347
MwoI	GCNNNNNNNGC	3 cut(s)	55, 200, 941
NaeI	GCCGGC	1 cut(s)	384
NcoI	CCATGG	1 cut(s)	468
NdeI	CATATG	1 cut(s)	727
NdeII	GATC	2 cut(s)	486, 918
NgoMIV	GCCGGC	1 cut(s)	382
NheI	GCTAGC	1 cut(s)	715
NlaIII	CATG	9 cut(s)	26, 46, 251, 256, 307, 472, 757, 836, 935
NmuCI	GTSAC	3 cut(s)	994, 1002, 1066
NspI	RCATGY	1 cut(s)	836
PaeR7I	CTCGAG	1 cut(s)	720
PciI	ACATGT	1 cut(s)	832
PciSI	GCTCTTC	1 cut(s)	495
PdiI	GCCGGC	1 cut(s)	384
PfeI	GAWTC	5 cut(s)	73, 608, 631, 757, 881
PkrI	GCNGC	4 cut(s)	48, 556, 864, 946
PleI	GAGTC	2 cut(s)	193, 526
PpsI	GAGTC	2 cut(s)	193, 526
Ppu21I	YACGTR	1 cut(s)	513
PscI	ACATGT	1 cut(s)	832
PshBI	ATTAAT	1 cut(s)	239
Psp6I	CCWGG	1 cut(s)	345
PspFI	CCCAGC	1 cut(s)	907
PspGI	CCWGG	1 cut(s)	345
PspPI	GGNCC	2 cut(s)	465, 1058
PspXI	VCTCGAGB	1 cut(s)	720
PsuI	RGATCY	1 cut(s)	918
RseI	CAYNNNNRTG	2 cut(s)	27, 308
SapI	GCTCTTC	1 cut(s)	495
SaqAI	TTAA	3 cut(s)	171, 239, 846
SatI	GCNGC	4 cut(s)	47, 555, 863, 945
Sau3AI	GATC	2 cut(s)	486, 918
Sau96I	GGNCC	2 cut(s)	465, 1058
SchI	GAGTC	2 cut(s)	194, 526
ScrFI	CCNGG	1 cut(s)	347
SduI	GDGCHC	1 cut(s)	109
SfaNI	GCATC	2 cut(s)	181, 874
Sfr274I	CTCGAG	1 cut(s)	720
SinI	GGWCC	1 cut(s)	465
SlaI	CTCGAG	1 cut(s)	720
SmiMI	CAYNNNNRTG	2 cut(s)	27, 308
SmlI	CTYRAG	2 cut(s)	64, 720
SmoI	CTYRAG	2 cut(s)	64, 720
Sse9I	AATT	6 cut(s)	37, 332, 362, 648, 857, 990
SsiI	CCGC	3 cut(s)	32, 123, 497
SspI	AATATT	2 cut(s)	261, 459
SspMI	CTAG	3 cut(s)	204, 591, 716
StyD4I	CCNGG	1 cut(s)	345
StyI	CCWWGG	1 cut(s)	468
TaaI	ACNGT	2 cut(s)	693, 1002
TaiI	ACGT	1 cut(s)	515
TaqI	TCGA	3 cut(s)	721, 760, 975
TasI	AATT	6 cut(s)	37, 332, 362, 648, 857, 990
TfiI	GAWTC	5 cut(s)	73, 608, 631, 757, 881
Tru1I	TTAA	3 cut(s)	171, 239, 846
Tru9I	TTAA	3 cut(s)	171, 239, 846
TscAI	CASTG	2 cut(s)	109, 114
TseFI	GTSAC	3 cut(s)	994, 1002, 1066
TseI	GCWGC	4 cut(s)	46, 554, 862, 944
Tsp45I	GTSAC	3 cut(s)	994, 1002, 1066
TspDTI	ATGAA	6 cut(s)	269, 600, 692, 744, 791, 1028
TspRI	CASTG	2 cut(s)	109, 114
VneI	GTGCAC	1 cut(s)	105
VpaK11BI	GGWCC	1 cut(s)	465
VspI	ATTAAT	1 cut(s)	239
XapI	RAATTY	1 cut(s)	37
XceI	RCATGY	1 cut(s)	836
XhoI	CTCGAG	1 cut(s)	720
XspI	CTAG	3 cut(s)	204, 591, 716

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