Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000004

Orthogroup ID

OG0003353

Physical Location & Seq

Genomic Coordinates Reverse (-)

61174035 .. 61179271

Gene Structure 5237 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_4G00328280.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 558 bp

ATGGAGGACAGGAACGCTGTTTTGTGGAATGCCATGATTTCTGGGTTTTCTAGACATGCTTGCTCCCTAGAGGTGATGATATTATTTGAGAAAATGCAGCAGGCAGGTATGCTCCCAAGTGAAGTAGCGTATATATCTGTATTAACTGCTTGTAGTCATATGGGATTGGTTGAAAGTGGAAGGAAATATTTCAACCTCATGATAACAGAACACAATTTGTCCCCAAATGTTGTTCACTATGCATGCATGGTTGATATTTTTGGTCGGTCAGGGTTGATTCTTGAAGCCCATAATTTGATTGAGAATATGCCATTTGATGCTACTGCTTCTATGTGGGGTTCACTGTTAGCTTCTTGTAGGATCCATGGAAAGTTTCATTTAGCTGAGATAGCAGCTAAGCATTTGTCTGAGATAGAACCGAACAATGCAGGGAACCTCATTTTGTTGTCAAATATTTATGCAGCAAATAATAAGTGGGAGGAGGTTGCAAGAACAAGGAAGCTTCTTAAAGAAAGTGAGTTGAAGAAGGAAAGAGGAAAGAGGGAAGAGTTGGATTGA

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: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:0044444 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

DYW_deaminase PPR PPR_2

Protein Analysis

185

Amino Acids

20.83

Weight (kDa)

6.24

Isoelectric Point (pI)

67.57

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	5 - 52	1.2e-07	PPR repeat family
E_motif	PF20431	125 - 179	4.1e-17	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

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Publication-ready

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Orthologous Genes (Group: OG0003353)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G04780
fragaria_vesca	FvH4_7g02270
malus_domestica	MD05G1362900.v1.1 MD05G1363000.v1.1 MD10G1340500.v1.1
prunus_persica	Prupe.2G071000_v2.0.a1 Prupe.2G073400_v2.0.a1
pyrus_communis	pycom05g32940 pycom10g29030
rosa_chinensis	RchiOBHm_Chr1g0319571 RchiOBHm_Chr6g0267541 RchiOBHm_Chr7g0197341
rosa_laevigata	RLG00000030470
rosa_multiflora	Rmu_sc0001522.1_g000010 Rmu_sc0002539.1_g000062 Rmu_sc0031493.1_g000001
rosa_roxburghii	Rroxscaffold_4G00284250 Rroxscaffold_4G00328280 Rroxscaffold_7G00200640
rosa_rugosa	Rorug01G0028300 Rorug01G0028400 Rorug01G0028500 Rorug01G0028600 Rorug06G0033600 Rorug06G0033600
rosa_samantha	Rh1AG040400 Rh1BG037600 Rh1CG041600 Rh1DG028300 Rh6AG155100 Rh6BG155700 Rh6CG150900 Rh6DG141000
rosa_wichuraiana	Rw0G012790 Rw1G003340 Rw6G013310

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	95
AclWI	GGATC	2 cut(s)	355, 368
AgsI	TTSAA	4 cut(s)	173, 193, 284, 523
AluBI	AGCT	4 cut(s)	350, 383, 395, 502
AluI	AGCT	4 cut(s)	350, 383, 395, 502
AlwI	GGATC	2 cut(s)	355, 368
ApeKI	GCWGC	3 cut(s)	97, 392, 461
Asp700I	GAANNNNTTC	1 cut(s)	188
AsuHPI	GGTGA	1 cut(s)	85
BamHI	GGATCC	1 cut(s)	360
BbvI	GCAGC	3 cut(s)	109, 404, 473
BfaI	CTAG	2 cut(s)	51, 68
BfuAI	ACCTGC	1 cut(s)	95
BisI	GCNGC	3 cut(s)	98, 393, 462
BlpI	GCTNAGC	1 cut(s)	396
BlsI	GCNGC	3 cut(s)	99, 394, 463
BmiI	GGNNCC	2 cut(s)	362, 434
BmsI	GCATC	1 cut(s)	307
Bpu1102I	GCTNAGC	1 cut(s)	396
BsaJI	CCNNGG	1 cut(s)	364
BseDI	CCNNGG	1 cut(s)	364
BseMII	CTCAG	2 cut(s)	375, 399
BseRI	GAGGAG	1 cut(s)	494
BseXI	GCAGC	3 cut(s)	109, 404, 473
BslFI	GGGAC	1 cut(s)	205
BsmFI	GGGAC	1 cut(s)	205
BsmI	GAATGC	1 cut(s)	34
Bsp143I	GATC	1 cut(s)	360
Bsp1720I	GCTNAGC	1 cut(s)	396
Bsp19I	CCATGG	1 cut(s)	364
BspCNI	CTCAG	2 cut(s)	376, 400
BspHI	TCATGA	1 cut(s)	198
BspLI	GGNNCC	2 cut(s)	362, 434
BspMI	ACCTGC	1 cut(s)	95
BspPI	GGATC	2 cut(s)	355, 368
BssECI	CCNNGG	1 cut(s)	364
BssMI	GATC	1 cut(s)	360
BssT1I	CCWWGG	1 cut(s)	364
Bst4CI	ACNGT	1 cut(s)	345
Bst6I	CTCTTC	1 cut(s)	540
BstC8I	GCNNGC	3 cut(s)	61, 102, 244
BstDEI	CTNAG	3 cut(s)	384, 396, 408
BstDSI	CCRYGG	1 cut(s)	364
BstKTI	GATC	1 cut(s)	363
BstMBI	GATC	1 cut(s)	360
BstMWI	GCNNNNNNNGC	1 cut(s)	389
BstNSI	RCATGY	2 cut(s)	59, 246
BstV1I	GCAGC	3 cut(s)	109, 404, 473
BstX2I	RGATCY	1 cut(s)	360
BstYI	RGATCY	1 cut(s)	360
BtgI	CCRYGG	1 cut(s)	364
BtsIMutI	CAGTG	1 cut(s)	341
BveI	ACCTGC	1 cut(s)	95
Cac8I	GCNNGC	3 cut(s)	61, 102, 244
CciI	TCATGA	1 cut(s)	198
CviAII	CATG	6 cut(s)	34, 56, 199, 243, 247, 365
CviJI	RGCY	5 cut(s)	287, 350, 383, 395, 502
CviKI_1	RGCY	5 cut(s)	287, 350, 383, 395, 502
DdeI	CTNAG	3 cut(s)	384, 396, 408
DpnI	GATC	1 cut(s)	362
DpnII	GATC	1 cut(s)	360
Eam1104I	CTCTTC	1 cut(s)	540
EarI	CTCTTC	1 cut(s)	540
Eco130I	CCWWGG	1 cut(s)	364
EcoT14I	CCWWGG	1 cut(s)	364
EcoT22I	ATGCAT	2 cut(s)	244, 248
ErhI	CCWWGG	1 cut(s)	364
FaeI	CATG	6 cut(s)	37, 59, 202, 246, 250, 368
FaqI	GGGAC	1 cut(s)	205
FatI	CATG	6 cut(s)	33, 55, 198, 242, 246, 364
FauNDI	CATATG	1 cut(s)	159
Fnu4HI	GCNGC	3 cut(s)	98, 393, 462
Fsp4HI	GCNGC	3 cut(s)	98, 393, 462
FspBI	CTAG	2 cut(s)	51, 68
GluI	GCNGC	3 cut(s)	98, 393, 462
Hin1II	CATG	6 cut(s)	37, 59, 202, 246, 250, 368
HindIII	AAGCTT	1 cut(s)	500
HinfI	GANTC	1 cut(s)	277
HphI	GGTGA	1 cut(s)	85
Hpy166II	GTNNAC	2 cut(s)	235, 341
Hpy188I	TCNGA	1 cut(s)	409
Hpy188III	TCNNGA	3 cut(s)	51, 199, 281
Hpy8I	GTNNAC	2 cut(s)	235, 341
HpyAV	CCTTC	2 cut(s)	174, 520
HpyCH4III	ACNGT	1 cut(s)	345
HpyCH4V	TGCA	6 cut(s)	97, 242, 246, 428, 461, 488
HpyF10VI	GCNNNNNNNGC	1 cut(s)	389
HpyF3I	CTNAG	3 cut(s)	384, 396, 408
Hsp92II	CATG	6 cut(s)	37, 59, 202, 246, 250, 368
Kzo9I	GATC	1 cut(s)	360
LmnI	GCTCC	2 cut(s)	68, 117
LpnPI	CCDG	5 cut(s)	27, 86, 90, 255, 414
Lsp1109I	GCAGC	3 cut(s)	109, 404, 473
LweI	GCATC	1 cut(s)	307
MaeI	CTAG	2 cut(s)	51, 68
MalI	GATC	1 cut(s)	362
MboI	GATC	1 cut(s)	360
MboII	GAAGA	2 cut(s)	535, 557
MflI	RGATCY	1 cut(s)	360
MluCI	AATT	2 cut(s)	214, 292
MmeI	TCCRAC	1 cut(s)	531
MnlI	CCTC	7 cut(s)	64, 206, 446, 472, 475, 527, 534
Mph1103I	ATGCAT	2 cut(s)	244, 248
MroXI	GAANNNNTTC	1 cut(s)	188
MseI	TTAA	2 cut(s)	143, 507
Mva1269I	GAATGC	1 cut(s)	34
MwoI	GCNNNNNNNGC	1 cut(s)	389
NcoI	CCATGG	1 cut(s)	364
NdeI	CATATG	1 cut(s)	159
NdeII	GATC	1 cut(s)	360
NlaIII	CATG	6 cut(s)	37, 59, 202, 246, 250, 368
NlaIV	GGNNCC	2 cut(s)	362, 434
NsiI	ATGCAT	2 cut(s)	244, 248
NspI	RCATGY	2 cut(s)	59, 246
PaeI	GCATGC	1 cut(s)	246
PagI	TCATGA	1 cut(s)	198
PctI	GAATGC	1 cut(s)	34
PdmI	GAANNNNTTC	1 cut(s)	188
PfeI	GAWTC	1 cut(s)	277
PkrI	GCNGC	3 cut(s)	99, 394, 463
PspN4I	GGNNCC	2 cut(s)	362, 434
PsuI	RGATCY	1 cut(s)	360
SaqAI	TTAA	2 cut(s)	143, 507
SatI	GCNGC	3 cut(s)	98, 393, 462
Sau3AI	GATC	1 cut(s)	360
SetI	ASST	9 cut(s)	75, 109, 198, 352, 385, 397, 438, 486, 504
SfaNI	GCATC	1 cut(s)	307
SphI	GCATGC	1 cut(s)	246
Sse9I	AATT	2 cut(s)	214, 292
SspI	AATATT	2 cut(s)	188, 454
SspMI	CTAG	2 cut(s)	51, 68
StyI	CCWWGG	1 cut(s)	364
TaaI	ACNGT	1 cut(s)	345
TaqII	GACCGA	1 cut(s)	255
TasI	AATT	2 cut(s)	214, 292
TfiI	GAWTC	1 cut(s)	277
Tru1I	TTAA	2 cut(s)	143, 507
Tru9I	TTAA	2 cut(s)	143, 507
TscAI	CASTG	1 cut(s)	348
TseI	GCWGC	3 cut(s)	97, 392, 461
TspDTI	ATGAA	1 cut(s)	365
TspRI	CASTG	1 cut(s)	348
XbaI	TCTAGA	1 cut(s)	50
XceI	RCATGY	2 cut(s)	59, 246
XmnI	GAANNNNTTC	1 cut(s)	188
XspI	CTAG	2 cut(s)	51, 68
Zsp2I	ATGCAT	2 cut(s)	244, 248

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