Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5C

Orthogroup ID

OG0003267

Physical Location & Seq

Genomic Coordinates Reverse (-)

15884456 .. 15885019

Gene Structure 564 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5CG170300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 564 bp

ATGCAAGAGAAGAATGTGATGGCTTGGACCGCATTGATTTGTGGATCGGCACAACATGGATACAGCAAAGAAGCATTGTGTTTGTTTGAGATGATGCAAAACAGCGGCGTAAGACCTAATGAACTGACTTTTACAGGAGTTCTCAGTGCTTGTGTGAACACGAGACTAGTTGAGGAGGGTCGAACATATTTCAATTTGATTGAAGAAAGTGGCTTGGAGCTTCGGATTCAGCATTATGGATGCATGGTCGATTTGTATGGCAAGGCGGGGCTGTTAGAGGAAGCCTATGATTTTATTAAGAACATGAGACTTGAACCCAATATTGCTGTCTGGGGAGCTTTTTTGTCGGCTTGCAAGGAGCATAAACAGTTTGAGATGGCCGAAAGAGTTGTTGAGGAGGTCATGAAGATGGTGAAACCAGAGAATGATAGTGGTTACTCTCTTATCGCCGATTTGTATGTTTTGGGTGGAAAGTGGGATGATGCTGAAAGAGTGAGGAAATTAATGGTGAACCACAAGGTGAGGAAGGTTAGGGGCTCTAGTTTTGTTCAAGTGGATAGTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

PPR PPR_2

Protein Analysis

187

Amino Acids

21.26

Weight (kDa)

5.65

Isoelectric Point (pI)

35.79

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	4 - 53	1.9e-11	PPR repeat family
PPR_3	PF13812	5 - 53	3.2e-06	Pentatricopeptide repeat domain
E_motif	PF20431	121 - 184	1.8e-09	E motif

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: OG0003267)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_3g13211 FvH4_3g13220
malus_domestica	MD10G1225900.v1.1
prunus_persica	Prupe.4G119500_v2.0.a1 Prupe.4G119600_v2.0.a1
pyrus_communis	pycom10g18980
rosa_chinensis	RchiOBHm_Chr5g0021561 RchiOBHm_Chr5g0021571 RchiOBHm_Chr7g0219451
rosa_laevigata	RLG00000032615
rosa_multiflora	Rmu_co8317561.1_g000001 Rmu_co8317561.1_g000002 Rmu_co8347725.1_g000001 Rmu_sc0002052.1_g000015 Rmu_sc0002052.1_g000016 Rmu_sc0002052.1_g000017 Rmu_sc0003767.1_g000012 Rmu_sc0023070.1_g000006 Rmu_sc0023070.1_g000007 Rmu_sc0023070.1_g000008
rosa_roxburghii	Rroxscaffold_1G00057070 Rroxscaffold_1G00057080 Rroxscaffold_1G00057090
rosa_rugosa	Rorug05G0067400 Rorug05G0067400 Rorug07G0185200
rosa_samantha	Rh5AG156800 Rh5BG156000 Rh5BG156100 Rh5BG156200 Rh5CG170300 Rh5CG170400 Rh5DG156600 Rh7AG328000 Rh7BG318000 Rh7CG345400
rosa_wichuraiana	Rw7G027710

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	3 cut(s)	30, 105, 266
AclWI	GGATC	1 cut(s)	52
AcoI	YGGCCR	1 cut(s)	378
AdeI	CACNNNGTG	1 cut(s)	520
AgsI	TTSAA	4 cut(s)	193, 203, 314, 551
AhlI	ACTAGT	1 cut(s)	166
AluBI	AGCT	2 cut(s)	220, 338
AluI	AGCT	2 cut(s)	220, 338
Alw26I	GTCTC	2 cut(s)	157, 301
AlwI	GGATC	1 cut(s)	52
AoxI	GGCC	1 cut(s)	378
AseI	ATTAAT	1 cut(s)	503
AspS9I	GGNCC	1 cut(s)	27
AsuHPI	GGTGA	3 cut(s)	424, 520, 532
AvaII	GGWCC	1 cut(s)	27
BanII	GRGCYC	1 cut(s)	539
BauI	CACGAG	1 cut(s)	160
BccI	CCATC	3 cut(s)	13, 370, 403
BciVI	GTATCC	1 cut(s)	53
BcoDI	GTCTC	2 cut(s)	157, 301
BcuI	ACTAGT	1 cut(s)	166
BfaI	CTAG	2 cut(s)	167, 540
BfuI	GTATCC	1 cut(s)	53
BisI	GCNGC	1 cut(s)	106
BlsI	GCNGC	1 cut(s)	107
Bme18I	GGWCC	1 cut(s)	27
BmgT120I	GGNCC	1 cut(s)	27
BmsI	GCATC	3 cut(s)	84, 230, 472
BseGI	GGATG	2 cut(s)	245, 484
BseMII	CTCAG	1 cut(s)	157
BseRI	GAGGAG	2 cut(s)	188, 410
BshFI	GGCC	1 cut(s)	380
BsmAI	GTCTC	2 cut(s)	157, 301
BsnI	GGCC	1 cut(s)	380
Bsp1286I	GDGCHC	1 cut(s)	539
Bsp143I	GATC	1 cut(s)	44
BspACI	CCGC	3 cut(s)	30, 105, 266
BspANI	GGCC	1 cut(s)	380
BspCNI	CTCAG	1 cut(s)	156
BspHI	TCATGA	1 cut(s)	402
BspPI	GGATC	1 cut(s)	52
BssMI	GATC	1 cut(s)	44
BssSI	CACGAG	1 cut(s)	160
Bst2BI	CACGAG	1 cut(s)	160
Bst4CI	ACNGT	1 cut(s)	369
BstC8I	GCNNGC	1 cut(s)	352
BstDEI	CTNAG	1 cut(s)	143
BstF5I	GGATG	2 cut(s)	245, 484
BstKTI	GATC	1 cut(s)	47
BstMAI	GTCTC	2 cut(s)	157, 301
BstMBI	GATC	1 cut(s)	44
BstMWI	GCNNNNNNNGC	1 cut(s)	29
BsuI	GTATCC	1 cut(s)	53
BsuRI	GGCC	1 cut(s)	380
BtsCI	GGATG	2 cut(s)	245, 484
BtsIMutI	CAGTG	1 cut(s)	151
Cac8I	GCNNGC	1 cut(s)	352
CciI	TCATGA	1 cut(s)	402
Cfr13I	GGNCC	1 cut(s)	27
CviAII	CATG	4 cut(s)	56, 244, 304, 403
CviJI	RGCY	9 cut(s)	23, 213, 220, 271, 284, 338, 350, 380, 537
CviKI_1	RGCY	9 cut(s)	23, 213, 220, 271, 284, 338, 350, 380, 537
DdeI	CTNAG	1 cut(s)	143
DpnI	GATC	1 cut(s)	46
DpnII	GATC	1 cut(s)	44
DraIII	CACNNNGTG	1 cut(s)	520
EaeI	YGGCCR	1 cut(s)	378
Eco24I	GRGCYC	1 cut(s)	539
Eco47I	GGWCC	1 cut(s)	27
EcoT22I	ATGCAT	1 cut(s)	245
EcoT38I	GRGCYC	1 cut(s)	539
FaeI	CATG	4 cut(s)	59, 247, 307, 406
FatI	CATG	4 cut(s)	55, 243, 303, 402
FauI	CCCGC	1 cut(s)	259
Fnu4HI	GCNGC	1 cut(s)	106
FokI	GGATG	2 cut(s)	252, 491
FriOI	GRGCYC	1 cut(s)	539
Fsp4HI	GCNGC	1 cut(s)	106
FspBI	CTAG	2 cut(s)	167, 540
GluI	GCNGC	1 cut(s)	106
HaeIII	GGCC	1 cut(s)	380
Hin1II	CATG	4 cut(s)	59, 247, 307, 406
HinfI	GANTC	1 cut(s)	226
HphI	GGTGA	3 cut(s)	424, 520, 532
Hpy166II	GTNNAC	2 cut(s)	157, 511
Hpy188I	TCNGA	1 cut(s)	225
Hpy188III	TCNNGA	1 cut(s)	403
Hpy8I	GTNNAC	2 cut(s)	157, 511
HpyAV	CCTTC	1 cut(s)	520
HpyCH4III	ACNGT	1 cut(s)	369
HpyCH4V	TGCA	4 cut(s)	4, 97, 243, 354
HpyF10VI	GCNNNNNNNGC	1 cut(s)	29
HpyF3I	CTNAG	1 cut(s)	143
Hsp92II	CATG	4 cut(s)	59, 247, 307, 406
Kzo9I	GATC	1 cut(s)	44
LmnI	GCTCC	3 cut(s)	217, 335, 358
LpnPI	CCDG	3 cut(s)	120, 316, 432
LweI	GCATC	3 cut(s)	84, 230, 472
MaeI	CTAG	2 cut(s)	167, 540
MaeIII	GTNAC	1 cut(s)	434
MalI	GATC	1 cut(s)	46
MboI	GATC	1 cut(s)	44
MboII	GAAGA	3 cut(s)	22, 215, 418
MhlI	GDGCHC	1 cut(s)	539
MluCI	AATT	2 cut(s)	193, 500
MnlI	CCTC	7 cut(s)	166, 169, 271, 388, 391, 489, 516
Mph1103I	ATGCAT	1 cut(s)	245
MseI	TTAA	2 cut(s)	297, 503
MslI	CAYNNNNRTG	1 cut(s)	407
MspA1I	CMGCKG	1 cut(s)	105
MwoI	GCNNNNNNNGC	1 cut(s)	29
NdeII	GATC	1 cut(s)	44
NlaIII	CATG	4 cut(s)	59, 247, 307, 406
NsiI	ATGCAT	1 cut(s)	245
PagI	TCATGA	1 cut(s)	402
PfeI	GAWTC	1 cut(s)	226
PkrI	GCNGC	1 cut(s)	107
PshBI	ATTAAT	1 cut(s)	503
PspPI	GGNCC	1 cut(s)	27
RseI	CAYNNNNRTG	1 cut(s)	407
SaqAI	TTAA	2 cut(s)	297, 503
SatI	GCNGC	1 cut(s)	106
Sau3AI	GATC	1 cut(s)	44
Sau96I	GGNCC	1 cut(s)	27
SduI	GDGCHC	1 cut(s)	539
SetI	ASST	6 cut(s)	118, 222, 340, 402, 522, 531
SfaNI	GCATC	3 cut(s)	84, 230, 472
SinI	GGWCC	1 cut(s)	27
SmiMI	CAYNNNNRTG	1 cut(s)	407
SpeI	ACTAGT	1 cut(s)	166
Sse9I	AATT	2 cut(s)	193, 500
SsiI	CCGC	3 cut(s)	30, 105, 266
SspI	AATATT	1 cut(s)	322
SspMI	CTAG	2 cut(s)	167, 540
TaaI	ACNGT	1 cut(s)	369
TaqI	TCGA	2 cut(s)	181, 249
TasI	AATT	2 cut(s)	193, 500
TauI	GCSGC	1 cut(s)	108
TfiI	GAWTC	1 cut(s)	226
Tru1I	TTAA	2 cut(s)	297, 503
Tru9I	TTAA	2 cut(s)	297, 503
TscAI	CASTG	1 cut(s)	151
TspDTI	ATGAA	2 cut(s)	135, 419
TspRI	CASTG	1 cut(s)	151
VpaK11BI	GGWCC	1 cut(s)	27
VspI	ATTAAT	1 cut(s)	503
XspI	CTAG	2 cut(s)	167, 540
Zsp2I	ATGCAT	1 cut(s)	245

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