Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr7C

Orthogroup ID

OG0006434

Physical Location & Seq

Genomic Coordinates Reverse (-)

29432287 .. 29443569

Gene Structure 11283 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh7CG289200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 738 bp

ATGCCGAAGATGTTCCTCAGTGCATTAATAGTTGTTGCTGGGCATGCTGGAAAGCTAGATGCTGCCTTTGAAATCATACATGAAGCCAGAATTCAAGGAATACAAGTTGGAACTGTATCATATAGCTCATTGATGGGCGCATGTAGCAATGCCAAAAATTGGCAGAAAGCACTGGAGCTCTATGAGGATCTTAAGTCAGCTAAAATTGAGCAGACTGTTTCAACTGTCAATGCTTTTATTACTGCCCTATGTGATGGGGATCAACTACAGAAGGCTATGGCAGTTCTGTCGGAAATGAAGAGTATAGGACTGCGTCCAAACAGTATAACATACTCCATACTTGTAGTGGCAAGTGAAAAGAAGGATGATCTAGAAGCTGGCCTACTGGTCCTTTCTCAAGCTGAAAAGGATAAAGTTGTTCCAAATCTTGTCATGTGTAGATGCATTATAGGTTCTGGACTGGCTTTTTTGGCTGAGGTGTCTATGGTTGGACATTTGGACAGAAATTGCAAACCACTCACTTCAACTTTAAAGAGAGGTTCTTCTCCCCCCAAAAGAGATAGAAGCTACAAACGCACTTCCCGAGCTGAGTTTTGGAATAGAGAAGAGTCTTTTCAACCTTTCTCTGAGTTTGAGGCCCTTGTCACTATTGGTCGAGTTCTTCGATTTGAAAAAGGAGCGAGTCCGAAGAATTCATTCATTGTTGTTCATTGTCTAGGTGCGGGGACTAGGCATTAG

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:0005737 GO:0006139 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009451 GO:0009507 GO:0009536 GO:0009892 GO:0009893 GO:0009894 GO:0009895 GO:0009987 GO:0010468 GO:0010604 GO:0010605 GO:0010608 GO:0010628 GO:0016070 GO:0016787 GO:0016788 GO:0019219 GO:0019222 GO:0031323 GO:0031324 GO:0031329 GO:0031330 GO:0034641 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043412 GO:0043487 GO:0043488 GO:0043489 GO:0044237 GO:0044238 GO:0044424 GO:0044444 GO:0044464 GO:0045934 GO:0046483 GO:0048255 GO:0048518 GO:0048519 GO:0048523 GO:0050789 GO:0050794 GO:0051171 GO:0051172 GO:0051252 GO:0051253 GO:0060255 GO:0061013 GO:0065007 GO:0065008 GO:0071704 GO:0080090 GO:0090304 GO:0090305 GO:0097159 GO:1901360 GO:1901363 GO:1902369 GO:1902373 GO:1903311 GO:1903312

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

PPR PPR_2 PPR_3

Protein Analysis

245

Amino Acids

26.84

Weight (kDa)

9.0

Isoelectric Point (pI)

39.0

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_long	PF17177	14 - 121	1.1e-08	Pentacotripeptide-repeat region of PRORP
PPR_3	PF13812	25 - 83	1.2e-07	Pentatricopeptide repeat domain
PPR_2	PF13041	37 - 85	1.6e-08	PPR repeat family
PPR_2	PF13041	72 - 115	9.8e-11	PPR repeat family

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Align Labels (Cladogram)

Image

Tree File

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Orthologous Genes (Group: OG0006434)

Species	Orthologous Gene IDs
rosa_laevigata	RLG00000010047 RLG00000020064 RLG00000028774
rosa_multiflora	Rmu_sc0001306.1_g000022 Rmu_sc0001438.1_g000035
rosa_roxburghii	Rroxscaffold_2G00101450 Rroxscaffold_7G00192090
rosa_rugosa	Rorug05G0119200 Rorug05G0119300 Rorug05G0119400 Rorug05G0119500 Rorug05G0119600 Rorug05G0119600 Rorug05G0119700 Rorug05G0119800 Rorug05G0119900 Rorug05G0120000
rosa_samantha	Rh2AG339800 Rh2AG437400 Rh2CG423700 Rh2DG357000 Rh2DG455400 Rh3CG365400 Rh6BG318500 Rh6CG026900 Rh7AG270000 Rh7CG289200

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB7I	CCANNNNNTGG	1 cut(s)	159
AciI	CCGC	1 cut(s)	722
AclWI	GGATC	2 cut(s)	195, 267
AcsI	RAATTY	2 cut(s)	90, 691
AfiI	CCNNNNNNNGG	1 cut(s)	159
AflII	CTTAAG	1 cut(s)	191
AgsI	TTSAA	6 cut(s)	71, 95, 222, 525, 617, 671
AluBI	AGCT	8 cut(s)	55, 126, 178, 200, 377, 401, 567, 587
AluI	AGCT	8 cut(s)	55, 126, 178, 200, 377, 401, 567, 587
Alw21I	GWGCWC	1 cut(s)	180
AlwI	GGATC	2 cut(s)	195, 267
Ama87I	CYCGRG	1 cut(s)	582
AoxI	GGCC	2 cut(s)	379, 636
ApeKI	GCWGC	1 cut(s)	62
ApoI	RAATTY	2 cut(s)	90, 691
AseI	ATTAAT	1 cut(s)	26
Asp700I	GAANNNNTTC	2 cut(s)	11, 695
AspLEI	GCGC	1 cut(s)	140
AspS9I	GGNCC	2 cut(s)	388, 637
AvaI	CYCGRG	1 cut(s)	582
AvaII	GGWCC	1 cut(s)	388
BanII	GRGCYC	1 cut(s)	180
BarI	GAAGNNNNNNTAC	2 cut(s)	366, 398
Bbv12I	GWGCWC	1 cut(s)	180
BbvCI	CCTCAGC	1 cut(s)	474
BbvI	GCAGC	1 cut(s)	49
BccI	CCATC	2 cut(s)	127, 248
BcgI	CGANNNNNNTGC	2 cut(s)	270, 304
BfaI	CTAG	4 cut(s)	56, 371, 716, 729
BfmI	CTRYAG	1 cut(s)	266
BfrI	CTTAAG	1 cut(s)	191
BisI	GCNGC	1 cut(s)	63
BlsI	GCNGC	1 cut(s)	64
Bme18I	GGWCC	1 cut(s)	388
BmeT110I	CYCGRG	1 cut(s)	582
BmgT120I	GGNCC	2 cut(s)	388, 637
BmsI	GCATC	2 cut(s)	49, 431
BpmI	CTGGAG	1 cut(s)	194
Bpu10I	CCTNAGC	1 cut(s)	474
BpuEI	CTTGAG	1 cut(s)	381
BsaBI	GATNNNNATC	1 cut(s)	258
Bsc4I	CCNNNNNNNGG	1 cut(s)	159
Bse1I	ACTGG	3 cut(s)	177, 390, 465
Bse3DI	GCAATG	1 cut(s)	154
Bse8I	GATNNNNATC	1 cut(s)	258
BseGI	GGATG	1 cut(s)	370
BseJI	GATNNNNATC	1 cut(s)	258
BseLI	CCNNNNNNNGG	1 cut(s)	159
BseMI	GCAATG	1 cut(s)	154
BseMII	CTCAG	4 cut(s)	31, 465, 579, 618
BseNI	ACTGG	3 cut(s)	177, 390, 465
BseXI	GCAGC	1 cut(s)	49
BseYI	CCCAGC	1 cut(s)	38
BshFI	GGCC	2 cut(s)	381, 638
BsiHKAI	GWGCWC	1 cut(s)	180
BsiHKCI	CYCGRG	1 cut(s)	582
BslI	CCNNNNNNNGG	1 cut(s)	159
BsnI	GGCC	2 cut(s)	381, 638
BsoBI	CYCGRG	1 cut(s)	582
Bsp1286I	GDGCHC	1 cut(s)	180
Bsp143I	GATC	3 cut(s)	187, 259, 367
BspACI	CCGC	1 cut(s)	722
BspANI	GGCC	2 cut(s)	381, 638
BspCNI	CTCAG	4 cut(s)	30, 466, 580, 619
BspPI	GGATC	2 cut(s)	195, 267
BspTI	CTTAAG	1 cut(s)	191
BsrDI	GCAATG	1 cut(s)	154
BsrI	ACTGG	3 cut(s)	177, 390, 465
BssMI	GATC	3 cut(s)	187, 259, 367
Bst4CI	ACNGT	4 cut(s)	115, 217, 226, 323
Bst6I	CTCTTC	2 cut(s)	293, 600
BstAFI	CTTAAG	1 cut(s)	191
BstC8I	GCNNGC	2 cut(s)	45, 379
BstDEI	CTNAG	4 cut(s)	17, 474, 588, 627
BstF5I	GGATG	1 cut(s)	370
BstHHI	GCGC	1 cut(s)	140
BstKTI	GATC	3 cut(s)	190, 262, 370
BstMBI	GATC	3 cut(s)	187, 259, 367
BstMWI	GCNNNNNNNGC	4 cut(s)	44, 144, 470, 573
BstNSI	RCATGY	2 cut(s)	47, 144
BstSFI	CTRYAG	1 cut(s)	266
BstV1I	GCAGC	1 cut(s)	49
BstX2I	RGATCY	1 cut(s)	187
BstYI	RGATCY	1 cut(s)	187
BsuRI	GGCC	2 cut(s)	381, 638
BtsCI	GGATG	1 cut(s)	370
BtsIMutI	CAGTG	2 cut(s)	25, 170
Cac8I	GCNNGC	2 cut(s)	45, 379
CfoI	GCGC	1 cut(s)	140
Cfr13I	GGNCC	2 cut(s)	388, 637
CseI	GACGC	1 cut(s)	302
CviAII	CATG	4 cut(s)	44, 80, 141, 433
DdeI	CTNAG	4 cut(s)	17, 474, 588, 627
DpnI	GATC	3 cut(s)	189, 261, 369
DpnII	GATC	3 cut(s)	187, 259, 367
DraI	TTTAAA	1 cut(s)	531
Eam1104I	CTCTTC	2 cut(s)	293, 600
EarI	CTCTTC	2 cut(s)	293, 600
Ecl136II	GAGCTC	1 cut(s)	178
Eco24I	GRGCYC	1 cut(s)	180
Eco47I	GGWCC	1 cut(s)	388
Eco53kI	GAGCTC	1 cut(s)	178
Eco88I	CYCGRG	1 cut(s)	582
EcoICRI	GAGCTC	1 cut(s)	178
EcoO109I	RGGNCCY	1 cut(s)	637
EcoRI	GAATTC	2 cut(s)	90, 691
EcoT22I	ATGCAT	1 cut(s)	446
EcoT38I	GRGCYC	1 cut(s)	180
FaeI	CATG	4 cut(s)	47, 83, 144, 436
FatI	CATG	4 cut(s)	43, 79, 140, 432
FauI	CCCGC	1 cut(s)	715
Fnu4HI	GCNGC	1 cut(s)	63
FokI	GGATG	1 cut(s)	377
FriOI	GRGCYC	1 cut(s)	180
Fsp4HI	GCNGC	1 cut(s)	63
FspBI	CTAG	4 cut(s)	56, 371, 716, 729
GlaI	GCGC	1 cut(s)	139
GluI	GCNGC	1 cut(s)	63
GsaI	CCCAGC	1 cut(s)	42
GsuI	CTGGAG	1 cut(s)	194
HaeIII	GGCC	2 cut(s)	381, 638
HgaI	GACGC	1 cut(s)	302
HhaI	GCGC	1 cut(s)	140
Hin1II	CATG	4 cut(s)	47, 83, 144, 436
Hin6I	GCGC	1 cut(s)	138
HinP1I	GCGC	1 cut(s)	138
HinfI	GANTC	2 cut(s)	608, 682
Hpy188I	TCNGA	3 cut(s)	292, 628, 687
Hpy188III	TCNNGA	3 cut(s)	371, 456, 582
HpyAV	CCTTC	2 cut(s)	265, 355
HpyCH4III	ACNGT	4 cut(s)	115, 217, 226, 323
HpyCH4V	TGCA	3 cut(s)	23, 444, 510
HpyF10VI	GCNNNNNNNGC	4 cut(s)	44, 144, 470, 573
HpyF3I	CTNAG	4 cut(s)	17, 474, 588, 627
Hsp92II	CATG	4 cut(s)	47, 83, 144, 436
HspAI	GCGC	1 cut(s)	138
Kzo9I	GATC	3 cut(s)	187, 259, 367
LmnI	GCTCC	2 cut(s)	175, 677
LpnPI	CCDG	8 cut(s)	24, 33, 100, 158, 363, 371, 441, 446
Lsp1109I	GCAGC	1 cut(s)	49
LweI	GCATC	2 cut(s)	49, 431
MaeI	CTAG	4 cut(s)	56, 371, 716, 729
MaeIII	GTNAC	1 cut(s)	643
MalI	GATC	3 cut(s)	189, 261, 369
MboI	GATC	3 cut(s)	187, 259, 367
MboII	GAAGA	6 cut(s)	19, 310, 534, 617, 653, 700
MflI	RGATCY	1 cut(s)	187
MhlI	GDGCHC	1 cut(s)	180
MluCI	AATT	5 cut(s)	90, 157, 204, 505, 691
MlyI	GAGTC	2 cut(s)	617, 691
MmeI	TCCRAC	3 cut(s)	88, 270, 469
MnlI	CCTC	5 cut(s)	26, 178, 469, 530, 628
Mph1103I	ATGCAT	1 cut(s)	446
MroXI	GAANNNNTTC	2 cut(s)	11, 695
MseI	TTAA	3 cut(s)	26, 192, 530
MspCI	CTTAAG	1 cut(s)	191
MwoI	GCNNNNNNNGC	4 cut(s)	44, 144, 470, 573
NdeII	GATC	3 cut(s)	187, 259, 367
NlaIII	CATG	4 cut(s)	47, 83, 144, 436
NmuCI	GTSAC	1 cut(s)	643
NsiI	ATGCAT	1 cut(s)	446
NspI	RCATGY	2 cut(s)	47, 144
PaeI	GCATGC	1 cut(s)	47
PcsI	WCGNNNNNNNCGW	2 cut(s)	580, 661
PdmI	GAANNNNTTC	2 cut(s)	11, 695
PflFI	GACNNNGTC	1 cut(s)	312
PflMI	CCANNNNNTGG	1 cut(s)	159
PkrI	GCNGC	1 cut(s)	64
PleI	GAGTC	2 cut(s)	616, 690
PpsI	GAGTC	2 cut(s)	616, 690
PshBI	ATTAAT	1 cut(s)	26
Psp124BI	GAGCTC	1 cut(s)	180
PspFI	CCCAGC	1 cut(s)	38
PspPI	GGNCC	2 cut(s)	388, 637
PsuI	RGATCY	1 cut(s)	187
PsyI	GACNNNGTC	1 cut(s)	312
SacI	GAGCTC	1 cut(s)	180
SaqAI	TTAA	3 cut(s)	26, 192, 530
SatI	GCNGC	1 cut(s)	63
Sau3AI	GATC	3 cut(s)	187, 259, 367
Sau96I	GGNCC	2 cut(s)	388, 637
SchI	GAGTC	2 cut(s)	617, 691
SduI	GDGCHC	1 cut(s)	180
SfaNI	GCATC	2 cut(s)	49, 431
SfcI	CTRYAG	1 cut(s)	266
SinI	GGWCC	1 cut(s)	388
SmlI	CTYRAG	2 cut(s)	191, 396
SmoI	CTYRAG	2 cut(s)	191, 396
SphI	GCATGC	1 cut(s)	47
Sse9I	AATT	5 cut(s)	90, 157, 204, 505, 691
SsiI	CCGC	1 cut(s)	722
SspMI	CTAG	4 cut(s)	56, 371, 716, 729
SstI	GAGCTC	1 cut(s)	180
TaaI	ACNGT	4 cut(s)	115, 217, 226, 323
TaqI	TCGA	2 cut(s)	655, 664
TasI	AATT	5 cut(s)	90, 157, 204, 505, 691
Tru1I	TTAA	3 cut(s)	26, 192, 530
Tru9I	TTAA	3 cut(s)	26, 192, 530
TscAI	CASTG	2 cut(s)	25, 177
TseFI	GTSAC	1 cut(s)	643
TseI	GCWGC	1 cut(s)	62
Tsp45I	GTSAC	1 cut(s)	643
TspDTI	ATGAA	5 cut(s)	96, 311, 684, 688, 698
TspRI	CASTG	2 cut(s)	25, 177
Tth111I	GACNNNGTC	1 cut(s)	312
Van91I	CCANNNNNTGG	1 cut(s)	159
Vha464I	CTTAAG	1 cut(s)	191
VpaK11BI	GGWCC	1 cut(s)	388
VspI	ATTAAT	1 cut(s)	26
XapI	RAATTY	2 cut(s)	90, 691
XbaI	TCTAGA	1 cut(s)	370
XceI	RCATGY	2 cut(s)	47, 144
XcmI	CCANNNNNNNNNTGG	1 cut(s)	343
XmnI	GAANNNNTTC	2 cut(s)	11, 695
XspI	CTAG	4 cut(s)	56, 371, 716, 729
Zsp2I	ATGCAT	1 cut(s)	446

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