Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4D

Orthogroup ID

OG0007941

Physical Location & Seq

Genomic Coordinates Reverse (-)

41814175 .. 41814645

Gene Structure 471 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4DG217700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 471 bp

ATGAACATATTCGGAGAGTTCCTCACTCAAGGCTTACGGCCATCAGCTCAATCTTACGCCCCACTTATTGAAGCACTTTGTCAGGTGGGAAGAGTAGAAGAAGTAAAAAGTTTGTGGAATGATATGAAGAATAAAGGTCTTCAACCAATTTCCAGCACTCATGATTATATCATTAATGGATTGTGTGATCAAGGAGATGTTGCTGAGGGAATGGATCGGTTGGTTGCAATGCTAACAGATAAGCTAAAACCAAAGCAGAGAACCTTTTCAAACTTGCTTTGTTGTCTCTCACAAAGAGATAGGTTGGATGATTCTTTACTTGTTTTGGACTTTTTGTTTACGTTAGGTTATGGACTCAGGAAAGATATATGTTATAGTTTGGTCAATAATCTTTGCCCAAAGAATGCCCATTTTGTTGAAACATGTCTAGGGAAGATCTTGGAAGGCAGTGATATTTCAACCTGTTTGTGA

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

156

Amino Acids

17.44

Weight (kDa)

5.34

Isoelectric Point (pI)

37.61

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	14 - 63	8.4e-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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Publication-ready

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Orthologous Genes (Group: OG0007941)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G18950
fragaria_vesca	FvH4_4g14110 FvH4_4g14110
malus_domestica	MD02G1277500.v1.1
prunus_persica	Prupe.1G570100_v2.0.a1 Prupe.3G113000_v2.0.a1 Prupe.3G113000_v2.0.a1
pyrus_communis	pycom12g09540
rosa_chinensis	RchiOBHm_Chr4g0419111 RchiOBHm_Chr4g0419121
rosa_laevigata	RLG00000007826
rosa_multiflora	Rmu_sc0000913.1_g000015 Rmu_sc0011831.1_g000001
rosa_roxburghii	Rroxscaffold_5G00362180
rosa_rugosa	Rorug04G0157100
rosa_samantha	Rh4AG218700 Rh4AG218800 Rh4BG220200 Rh4BG220300 Rh4CG230900 Rh4CG231000 Rh4DG217700 Rh4DG217800
rosa_wichuraiana	Rw4G018690

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AclWI	GGATC	1 cut(s)	222
AcoI	YGGCCR	1 cut(s)	38
AflIII	ACRYGT	1 cut(s)	422
AgsI	TTSAA	5 cut(s)	71, 143, 270, 419, 459
AluBI	AGCT	2 cut(s)	47, 244
AluI	AGCT	2 cut(s)	47, 244
Alw26I	GTCTC	1 cut(s)	290
AlwI	GGATC	1 cut(s)	222
AoxI	GGCC	1 cut(s)	38
AseI	ATTAAT	1 cut(s)	174
Asp700I	GAANNNNTTC	2 cut(s)	8, 265
BbsI	GAAGAC	1 cut(s)	131
BbvCI	CCTCAGC	1 cut(s)	204
BccI	CCATC	1 cut(s)	49
BceAI	ACGGC	1 cut(s)	53
BclI	TGATCA	1 cut(s)	187
BcoDI	GTCTC	1 cut(s)	290
BfaI	CTAG	1 cut(s)	428
BglII	AGATCT	1 cut(s)	435
BpiI	GAAGAC	1 cut(s)	131
BplI	GAGNNNNNCTC	1 cut(s)	38
Bpu10I	CCTNAGC	1 cut(s)	204
BpuEI	CTTGAG	1 cut(s)	12
Bse3DI	GCAATG	1 cut(s)	234
BseGI	GGATG	1 cut(s)	313
BseMI	GCAATG	1 cut(s)	234
BseMII	CTCAG	2 cut(s)	195, 370
BshFI	GGCC	1 cut(s)	40
BsmAI	GTCTC	1 cut(s)	290
BsmI	GAATGC	1 cut(s)	409
BsnI	GGCC	1 cut(s)	40
Bsp143I	GATC	3 cut(s)	187, 214, 435
BspANI	GGCC	1 cut(s)	40
BspCNI	CTCAG	2 cut(s)	196, 369
BspHI	TCATGA	1 cut(s)	160
BspPI	GGATC	1 cut(s)	222
BsrDI	GCAATG	1 cut(s)	234
BssMI	GATC	3 cut(s)	187, 214, 435
Bst6I	CTCTTC	1 cut(s)	85
BstDEI	CTNAG	2 cut(s)	204, 356
BstF5I	GGATG	1 cut(s)	313
BstKTI	GATC	3 cut(s)	190, 217, 438
BstMAI	GTCTC	1 cut(s)	290
BstMBI	GATC	3 cut(s)	187, 214, 435
BstNSI	RCATGY	1 cut(s)	426
BstV2I	GAAGAC	1 cut(s)	131
BstX2I	RGATCY	1 cut(s)	435
BstYI	RGATCY	1 cut(s)	435
BsuRI	GGCC	1 cut(s)	40
BtsCI	GGATG	1 cut(s)	313
BtsI	GCAGTG	1 cut(s)	454
BtsIMutI	CAGTG	1 cut(s)	454
CciI	TCATGA	1 cut(s)	160
CviAII	CATG	2 cut(s)	161, 423
CviJI	RGCY	4 cut(s)	33, 40, 47, 244
CviKI_1	RGCY	4 cut(s)	33, 40, 47, 244
DdeI	CTNAG	2 cut(s)	204, 356
DpnI	GATC	3 cut(s)	189, 216, 437
DpnII	GATC	3 cut(s)	187, 214, 435
EaeI	YGGCCR	1 cut(s)	38
Eam1104I	CTCTTC	1 cut(s)	85
EarI	CTCTTC	1 cut(s)	85
FaeI	CATG	2 cut(s)	164, 426
FaiI	YATR	9 cut(s)	8, 125, 162, 168, 351, 368, 370, 375, 424
FatI	CATG	2 cut(s)	160, 422
FbaI	TGATCA	1 cut(s)	187
FokI	GGATG	1 cut(s)	320
FspBI	CTAG	1 cut(s)	428
HaeIII	GGCC	1 cut(s)	40
Hin1II	CATG	2 cut(s)	164, 426
HinfI	GANTC	2 cut(s)	311, 354
Hpy166II	GTNNAC	1 cut(s)	339
Hpy188I	TCNGA	1 cut(s)	14
Hpy188III	TCNNGA	2 cut(s)	161, 358
Hpy8I	GTNNAC	1 cut(s)	339
HpyAV	CCTTC	1 cut(s)	437
HpyCH4IV	ACGT	1 cut(s)	341
HpyCH4V	TGCA	1 cut(s)	227
HpyF3I	CTNAG	2 cut(s)	204, 356
HpySE526I	ACGT	1 cut(s)	341
Hsp92II	CATG	2 cut(s)	164, 426
Ksp22I	TGATCA	1 cut(s)	187
Kzo9I	GATC	3 cut(s)	187, 214, 435
LpnPI	CCDG	3 cut(s)	68, 166, 343
MaeI	CTAG	1 cut(s)	428
MaeII	ACGT	1 cut(s)	341
MalI	GATC	3 cut(s)	189, 216, 437
MboI	GATC	3 cut(s)	187, 214, 435
MboII	GAAGA	5 cut(s)	102, 110, 131, 139, 445
MflI	RGATCY	1 cut(s)	435
MluCI	AATT	1 cut(s)	147
MlyI	GAGTC	1 cut(s)	348
MmeI	TCCRAC	1 cut(s)	285
MnlI	CCTC	2 cut(s)	32, 199
MroXI	GAANNNNTTC	2 cut(s)	8, 265
MseI	TTAA	1 cut(s)	174
Mva1269I	GAATGC	1 cut(s)	409
NdeII	GATC	3 cut(s)	187, 214, 435
NlaIII	CATG	2 cut(s)	164, 426
NspI	RCATGY	1 cut(s)	426
PagI	TCATGA	1 cut(s)	160
PciI	ACATGT	1 cut(s)	422
PctI	GAATGC	1 cut(s)	409
PdmI	GAANNNNTTC	2 cut(s)	8, 265
PfeI	GAWTC	1 cut(s)	311
PleI	GAGTC	1 cut(s)	348
PpsI	GAGTC	1 cut(s)	348
PscI	ACATGT	1 cut(s)	422
PshBI	ATTAAT	1 cut(s)	174
PsuI	RGATCY	1 cut(s)	435
SaqAI	TTAA	1 cut(s)	174
Sau3AI	GATC	3 cut(s)	187, 214, 435
SchI	GAGTC	1 cut(s)	348
SetI	ASST	9 cut(s)	49, 87, 139, 246, 266, 305, 344, 349, 464
SmlI	CTYRAG	1 cut(s)	27
SmoI	CTYRAG	1 cut(s)	27
Sse9I	AATT	1 cut(s)	147
SspMI	CTAG	1 cut(s)	428
TaiI	ACGT	1 cut(s)	344
TasI	AATT	1 cut(s)	147
TfiI	GAWTC	1 cut(s)	311
Tru1I	TTAA	1 cut(s)	174
Tru9I	TTAA	1 cut(s)	174
TscAI	CASTG	1 cut(s)	454
TspDTI	ATGAA	2 cut(s)	17, 140
TspRI	CASTG	1 cut(s)	454
VspI	ATTAAT	1 cut(s)	174
XceI	RCATGY	1 cut(s)	426
XmnI	GAANNNNTTC	2 cut(s)	8, 265
XspI	CTAG	1 cut(s)	428

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