Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000005

Orthogroup ID

OG0005423

Physical Location & Seq

Genomic Coordinates Forward (+)

60339009 .. 60339951

Gene Structure 943 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug05G0434700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 864 bp

ATGGTGAGTAGGAATATATTTCCAAATGTGCTCACCTTCGGTGTCTTGGTTGATGCACTTTGCAAGAAGGGGAGGGTTCTGGAGGCAGAAAGTGTGATTCAAAGAGATATTGAACCTGACACAATAACATACAATTCACTTATGGATGGTTACTGTTTGCGAGGAGAAATGGACAAGGCAAAAGTAGTCTTTGATCGGATGGTTATCAACGGCTTCATGGTTGATGTTTATAGTTATAACATAATGATAAATGGGTATTGCAAGCACAAAAAGATCGATGAGGCAGCGAATCTGTTTCAGGAAATGTCTCACAACGGAGTGGTTCCAAATGCTGTTTCTTATAACACTCTTATGGATGGTTTTTGCAAAGTGGGCAGGATACAAGGTGCAAAGAAGTTGTTCTCTGATATGCAAGCTCGTGGTGGACTTCCAAATGTTCGAACTTATGCTGTTTTACTGGATGGCCTATTGTATAATATTCTTATTGAGGGTTTCTGCATAGCAGGAGAATTTGAATCTGCAAGAGATCTCTTCTTTGGTTTAACATCAAAACGACTCCAACCTAATATGAGGATGTATAATACTATGATTAGTGGATTTTGTTATGGAGGCCTATTAAGTGAAGCAGAAAAGTTGCTTAAGGAAATGGAAGAGAAAGGCTATCCTCCAGATGGTTGTACTTGTAACATAATTATTCGAGGATTGATTAATAAAAATGAGACACTGCAGGCAATGGAACTAGTTCAACAAATGGTGGAGAAGGGTTTCTCTGCAGATGCATCAACTGTGGAATTGATAGTTGGATTATTGTCTATAGAGAAAGTAGATCCTGCTTTGTTGCCATTGTTGAAAAGTTCATTATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005783 GO:0005789 GO:0006810 GO:0006869 GO:0008150 GO:0009987 GO:0010876 GO:0012505 GO:0016020 GO:0016043 GO:0031984 GO:0033036 GO:0034203 GO:0034204 GO:0042175 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044422 GO:0044424 GO:0044425 GO:0044432 GO:0044444 GO:0044446 GO:0044464 GO:0046836 GO:0051179 GO:0051234 GO:0061024 GO:0065007 GO:0065008 GO:0071702 GO:0071840 GO:0097035 GO:0098827 GO:1901264

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Rft-1

Protein Analysis

287

Amino Acids

31.97

Weight (kDa)

5.42

Isoelectric Point (pI)

33.22

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_1	PF12854	4 - 32	3.9e-07	PPR repeat
PPR_1	PF12854	36 - 68	2.8e-12	PPR repeat
PPR_2	PF13041	39 - 88	4.4e-17	PPR repeat family
PPR	PF01535	42 - 72	2.6e-08	PPR repeat
PPR_long	PF17177	58 - 154	1e-05	Pentacotripeptide-repeat region of PRORP
PPR_3	PF13812	63 - 119	1.3e-10	Pentatricopeptide repeat domain
PPR_1	PF12854	71 - 103	9e-12	PPR repeat
PPR_2	PF13041	75 - 123	4.6e-20	PPR repeat family
PPR	PF01535	77 - 107	4.4e-10	PPR repeat
PPR_3	PF13812	98 - 153	4.4e-07	Pentatricopeptide repeat domain
PPR_1	PF12854	105 - 138	7.9e-12	PPR repeat
PPR_2	PF13041	109 - 156	7.2e-17	PPR repeat family
PPR	PF01535	112 - 141	2.3e-08	PPR repeat
PPR_2	PF13041	158 - 201	1.9e-08	PPR repeat family
PPR_1	PF12854	185 - 217	5.3e-11	PPR repeat
PPR_2	PF13041	188 - 236	2.9e-13	PPR repeat family
PPR	PF01535	192 - 220	5.3e-09	PPR repeat
PPR_2	PF13041	223 - 263	1.1e-06	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)

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Publication-ready

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Orthologous Genes (Group: OG0005423)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G07630 AT5G07630
fragaria_vesca	FvH4_3g41750 FvH4_3g41750 FvH4_3g41750 FvH4_3g41750 FvH4_3g41750 FvH4_3g41750 FvH4_3g41750
malus_domestica	MD11G1042200.v1.1
prunus_persica	Prupe.6G033300_v2.0.a1 Prupe.6G033300_v2.0.a1 Prupe.6G033300_v2.0.a1 Prupe.6G033300_v2.0.a1 Prupe.6G033300_v2.0.a1
pyrus_communis	pycom11g03630
rosa_chinensis	RchiOBHm_Chr5g0074831
rosa_laevigata	RLG00000036509
rosa_multiflora	Rmu_sc0000909.1_g000001 Rmu_sc0003945.1_g000001 Rmu_sc0005365.1_g000010
rosa_roxburghii	Rroxscaffold_1G00006740
rosa_rugosa	Rorug05G0434700 Rorug05G0434800
rosa_samantha	Rh5AG492100 Rh5BG513500 Rh5CG537200 Rh5DG525600
rosa_wichuraiana	Rw5G045590

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	2 cut(s)	237, 342
AclWI	GGATC	1 cut(s)	821
AcsI	RAATTY	1 cut(s)	509
AfaI	GTAC	1 cut(s)	679
AfiI	CCNNNNNNNGG	1 cut(s)	671
AflII	CTTAAG	1 cut(s)	638
AgsI	TTSAA	5 cut(s)	101, 113, 515, 746, 850
AhlI	ACTAGT	1 cut(s)	739
AjuI	GAANNNNNNNTTGG	4 cut(s)	319, 351, 783, 815
AluBI	AGCT	1 cut(s)	416
AluI	AGCT	1 cut(s)	416
Alw21I	GWGCWC	1 cut(s)	33
Alw26I	GTCTC	2 cut(s)	312, 713
AlwI	GGATC	1 cut(s)	821
AoxI	GGCC	2 cut(s)	463, 610
ApeKI	GCWGC	1 cut(s)	284
ApoI	RAATTY	1 cut(s)	509
AseI	ATTAAT	1 cut(s)	708
Asp700I	GAANNNNTTC	3 cut(s)	398, 741, 764
AsuHPI	GGTGA	2 cut(s)	16, 25
AsuII	TTCGAA	1 cut(s)	439
BauI	CACGAG	1 cut(s)	417
Bbv12I	GWGCWC	1 cut(s)	33
BbvI	GCAGC	1 cut(s)	296
BccI	CCATC	5 cut(s)	140, 193, 350, 455, 665
BceAI	ACGGC	1 cut(s)	226
BciVI	GTATCC	1 cut(s)	372
BcoDI	GTCTC	2 cut(s)	312, 713
BcuI	ACTAGT	1 cut(s)	739
BfaI	CTAG	1 cut(s)	740
BfmI	CTRYAG	3 cut(s)	725, 771, 813
BfrI	CTTAAG	1 cut(s)	638
BfuI	GTATCC	1 cut(s)	372
BglII	AGATCT	1 cut(s)	526
BisI	GCNGC	1 cut(s)	285
BlsI	GCNGC	1 cut(s)	286
BmiI	GGNNCC	1 cut(s)	324
BmsI	GCATC	3 cut(s)	43, 766, 788
BpmI	CTGGAG	2 cut(s)	101, 651
Bpu14I	TTCGAA	1 cut(s)	439
Bsa29I	ATCGAT	1 cut(s)	276
BsaBI	GATNNNNATC	1 cut(s)	203
Bsc4I	CCNNNNNNNGG	1 cut(s)	671
Bse1I	ACTGG	1 cut(s)	462
Bse3DI	GCAATG	1 cut(s)	738
Bse8I	GATNNNNATC	1 cut(s)	203
BseCI	ATCGAT	1 cut(s)	276
BseGI	GGATG	5 cut(s)	151, 204, 361, 466, 579
BseJI	GATNNNNATC	1 cut(s)	203
BseLI	CCNNNNNNNGG	1 cut(s)	671
BseMI	GCAATG	1 cut(s)	738
BseNI	ACTGG	1 cut(s)	462
BseRI	GAGGAG	1 cut(s)	177
BseXI	GCAGC	1 cut(s)	296
BshFI	GGCC	2 cut(s)	465, 612
BshVI	ATCGAT	1 cut(s)	276
BsiHKAI	GWGCWC	1 cut(s)	33
BslI	CCNNNNNNNGG	1 cut(s)	671
BsmAI	GTCTC	2 cut(s)	312, 713
BsnI	GGCC	2 cut(s)	465, 612
Bsp119I	TTCGAA	1 cut(s)	439
Bsp1286I	GDGCHC	1 cut(s)	33
Bsp143I	GATC	4 cut(s)	193, 273, 526, 826
BspANI	GGCC	2 cut(s)	465, 612
BspDI	ATCGAT	1 cut(s)	276
BspLI	GGNNCC	1 cut(s)	324
BspMAI	CTGCAG	2 cut(s)	729, 775
BspPI	GGATC	1 cut(s)	821
BspT104I	TTCGAA	1 cut(s)	439
BspTI	CTTAAG	1 cut(s)	638
BsrDI	GCAATG	1 cut(s)	738
BsrI	ACTGG	1 cut(s)	462
BssMI	GATC	4 cut(s)	193, 273, 526, 826
BssSI	CACGAG	1 cut(s)	417
Bst2BI	CACGAG	1 cut(s)	417
Bst4CI	ACNGT	2 cut(s)	155, 787
Bst6I	CTCTTC	2 cut(s)	536, 645
BstAFI	CTTAAG	1 cut(s)	638
BstBI	TTCGAA	1 cut(s)	439
BstC8I	GCNNGC	3 cut(s)	263, 414, 729
BstF5I	GGATG	5 cut(s)	151, 204, 361, 466, 579
BstKTI	GATC	4 cut(s)	196, 276, 529, 829
BstMAI	GTCTC	2 cut(s)	312, 713
BstMBI	GATC	4 cut(s)	193, 273, 526, 826
BstMWI	GCNNNNNNNGC	1 cut(s)	372
BstSFI	CTRYAG	3 cut(s)	725, 771, 813
BstV1I	GCAGC	1 cut(s)	296
BstX2I	RGATCY	2 cut(s)	526, 826
BstYI	RGATCY	2 cut(s)	526, 826
Bsu15I	ATCGAT	1 cut(s)	276
BsuI	GTATCC	1 cut(s)	372
BsuRI	GGCC	2 cut(s)	465, 612
BsuTUI	ATCGAT	1 cut(s)	276
BtsCI	GGATG	5 cut(s)	151, 204, 361, 466, 579
BtsI	GCAGTG	1 cut(s)	722
BtsIMutI	CAGTG	1 cut(s)	722
Cac8I	GCNNGC	3 cut(s)	263, 414, 729
ClaI	ATCGAT	1 cut(s)	276
Csp6I	GTAC	1 cut(s)	678
CviAII	CATG	1 cut(s)	217
CviJI	RGCY	5 cut(s)	213, 416, 465, 612, 660
CviKI_1	RGCY	5 cut(s)	213, 416, 465, 612, 660
CviQI	GTAC	1 cut(s)	678
DpnI	GATC	4 cut(s)	195, 275, 528, 828
DpnII	GATC	4 cut(s)	193, 273, 526, 826
Eam1104I	CTCTTC	2 cut(s)	536, 645
EarI	CTCTTC	2 cut(s)	536, 645
Eco147I	AGGCCT	1 cut(s)	612
EcoT22I	ATGCAT	1 cut(s)	781
FaeI	CATG	1 cut(s)	220
FatI	CATG	1 cut(s)	216
Fnu4HI	GCNGC	1 cut(s)	285
FokI	GGATG	5 cut(s)	158, 211, 368, 473, 586
Fsp4HI	GCNGC	1 cut(s)	285
FspBI	CTAG	1 cut(s)	740
GluI	GCNGC	1 cut(s)	285
GsuI	CTGGAG	2 cut(s)	101, 651
HaeIII	GGCC	2 cut(s)	465, 612
Hin1II	CATG	1 cut(s)	220
HinfI	GANTC	4 cut(s)	97, 289, 515, 555
HphI	GGTGA	2 cut(s)	16, 25
Hpy166II	GTNNAC	1 cut(s)	425
Hpy188I	TCNGA	2 cut(s)	198, 406
Hpy188III	TCNNGA	3 cut(s)	80, 299, 668
Hpy8I	GTNNAC	1 cut(s)	425
HpyAV	CCTTC	3 cut(s)	46, 61, 754
HpyCH4III	ACNGT	2 cut(s)	155, 787
HpyF10VI	GCNNNNNNNGC	1 cut(s)	372
Hsp92II	CATG	1 cut(s)	220
Kzo9I	GATC	4 cut(s)	193, 273, 526, 826
LpnPI	CCDG	9 cut(s)	65, 129, 284, 361, 443, 489, 681, 713, 843
Lsp1109I	GCAGC	1 cut(s)	296
LweI	GCATC	3 cut(s)	43, 766, 788
MaeI	CTAG	1 cut(s)	740
MaeIII	GTNAC	2 cut(s)	149, 683
MalI	GATC	4 cut(s)	195, 275, 528, 828
MboI	GATC	4 cut(s)	193, 273, 526, 826
MboII	GAAGA	2 cut(s)	523, 662
MflI	RGATCY	2 cut(s)	526, 826
MhlI	GDGCHC	1 cut(s)	33
MluCI	AATT	4 cut(s)	133, 509, 690, 791
MlyI	GAGTC	1 cut(s)	549
MmeI	TCCRAC	2 cut(s)	583, 781
MnlI	CCTC	9 cut(s)	66, 76, 155, 274, 481, 564, 602, 675, 692
Mph1103I	ATGCAT	1 cut(s)	781
MroXI	GAANNNNTTC	3 cut(s)	398, 741, 764
MseI	TTAA	4 cut(s)	542, 617, 639, 708
MslI	CAYNNNNRTG	1 cut(s)	350
MspCI	CTTAAG	1 cut(s)	638
MwoI	GCNNNNNNNGC	1 cut(s)	372
NdeII	GATC	4 cut(s)	193, 273, 526, 826
NlaIII	CATG	1 cut(s)	220
NlaIV	GGNNCC	1 cut(s)	324
NsiI	ATGCAT	1 cut(s)	781
NspV	TTCGAA	1 cut(s)	439
PceI	AGGCCT	1 cut(s)	612
PdmI	GAANNNNTTC	3 cut(s)	398, 741, 764
PfeI	GAWTC	3 cut(s)	97, 289, 515
PkrI	GCNGC	1 cut(s)	286
PleI	GAGTC	1 cut(s)	549
PpsI	GAGTC	1 cut(s)	549
PshBI	ATTAAT	1 cut(s)	708
PsiI	TTATAA	2 cut(s)	237, 342
PspN4I	GGNNCC	1 cut(s)	324
PstI	CTGCAG	2 cut(s)	729, 775
PsuI	RGATCY	2 cut(s)	526, 826
RsaI	GTAC	1 cut(s)	679
RsaNI	GTAC	1 cut(s)	678
RseI	CAYNNNNRTG	1 cut(s)	350
SaqAI	TTAA	4 cut(s)	542, 617, 639, 708
SatI	GCNGC	1 cut(s)	285
Sau3AI	GATC	4 cut(s)	193, 273, 526, 826
SchI	GAGTC	1 cut(s)	549
SduI	GDGCHC	1 cut(s)	33
SetI	ASST	5 cut(s)	38, 118, 388, 418, 565
SfaNI	GCATC	3 cut(s)	43, 766, 788
SfcI	CTRYAG	3 cut(s)	725, 771, 813
SfuI	TTCGAA	1 cut(s)	439
SmiMI	CAYNNNNRTG	1 cut(s)	350
SmlI	CTYRAG	1 cut(s)	638
SmoI	CTYRAG	1 cut(s)	638
SpeI	ACTAGT	1 cut(s)	739
Sse9I	AATT	4 cut(s)	133, 509, 690, 791
SseBI	AGGCCT	1 cut(s)	612
SspI	AATATT	1 cut(s)	478
SspMI	CTAG	1 cut(s)	740
StuI	AGGCCT	1 cut(s)	612
TaaI	ACNGT	2 cut(s)	155, 787
TaqI	TCGA	3 cut(s)	276, 439, 697
TasI	AATT	4 cut(s)	133, 509, 690, 791
TatI	WGTACW	1 cut(s)	677
TfiI	GAWTC	3 cut(s)	97, 289, 515
Tru1I	TTAA	4 cut(s)	542, 617, 639, 708
Tru9I	TTAA	4 cut(s)	542, 617, 639, 708
TscAI	CASTG	1 cut(s)	729
TseI	GCWGC	1 cut(s)	284
TspDTI	ATGAA	2 cut(s)	205, 846
TspGWI	ACGGA	1 cut(s)	330
TspRI	CASTG	1 cut(s)	729
Vha464I	CTTAAG	1 cut(s)	638
VspI	ATTAAT	1 cut(s)	708
XapI	RAATTY	1 cut(s)	509
XmnI	GAANNNNTTC	3 cut(s)	398, 741, 764
XspI	CTAG	1 cut(s)	740
Zsp2I	ATGCAT	1 cut(s)	781

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