Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6D

Orthogroup ID

OG0008353

Physical Location & Seq

Genomic Coordinates Reverse (-)

57309580 .. 57312317

Gene Structure 2738 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6DG379100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 474 bp

ATGTGCATGATGTTTGGTTCGCTGGTTTTTGATCTGGATGGTATAATGGCATGTTTCTCACATCGAATGTTTTTTTCGAAGGATGGGAAGTACCGCGAAGCATTGGGCAAATGGGAGTCTGCTCTTATGTTGATGCCCAAAAGTGCAGTTTTACACGAGCAGAAGGCACAAGTTTTGATAGAAATTGGGGATGCCTGGAATGCAATAAAGGCAGCAACTCGAGCTACAGAGTTGGAGCCTTTATGGGCTGAGGCATGGGTTACCCTTGGCAGAGCTCAGTTAAACTTTGGGGAACCTGATAGTGCCGTTCAAAGCTTTGACAAAGCATTAGCCATCAAGCCTGATTCAGAGGAGGCTCGAGATGACAGACATACTGCAATGAATCTCATGAAAAGACGAAAGCAGCTCCATTCATCAGGCTTAAGTCCTACAAGAAACCGTTATGCAGTGGGTGATAGCACTGATAGGACATGA

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

PC4 TPR_11 TPR_14 TPR_16 TPR_19 TPR_2 TPR_8

Protein Analysis

157

Amino Acids

17.67

Weight (kDa)

6.91

Isoelectric Point (pI)

44.62

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
TPR_16	PF13432	55 - 116	4.2e-07	Tetratricopeptide repeat
TPR_CcmH_CycH	PF23914	83 - 120	4.9e-06	Cytochrome c-type biogenesis protein H TPR domain

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

Tree File

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Publication-ready

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0008353)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G77230
fragaria_vesca	FvH4_2g28060 FvH4_2g28060 FvH4_2g28060 FvH4_2g28060
malus_domestica	MD15G1131600.v1.1
prunus_persica	Prupe.1G487500_v2.0.a1 Prupe.1G487500_v2.0.a1 Prupe.1G487500_v2.0.a1
pyrus_communis	pycom15g11880
rosa_chinensis	RchiOBHm_Chr6g0296961 RchiOBHm_Chr6g0297021
rosa_laevigata	RLG00000011645
rosa_multiflora	Rmu_sc0004718.1_g000019 Rmu_sc0007272.1_g000005
rosa_roxburghii	Rroxscaffold_7G00171020
rosa_rugosa	Rorug06G0267800
rosa_samantha	Rh6AG378400 Rh6BG386400 Rh6CG392200 Rh6CG392400 Rh6DG379100
rosa_wichuraiana	Rw6G033080

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccII	CGCG	1 cut(s)	96
AciI	CCGC	1 cut(s)	94
AfaI	GTAC	1 cut(s)	92
AflII	CTTAAG	1 cut(s)	421
AgsI	TTSAA	1 cut(s)	311
AjnI	CCWGG	1 cut(s)	194
AluBI	AGCT	4 cut(s)	224, 275, 315, 406
AluI	AGCT	4 cut(s)	224, 275, 315, 406
Alw21I	GWGCWC	1 cut(s)	277
Ama87I	CYCGRG	2 cut(s)	219, 357
ApeKI	GCWGC	2 cut(s)	212, 403
AsuHPI	GGTGA	1 cut(s)	464
AsuII	TTCGAA	1 cut(s)	77
AvaI	CYCGRG	2 cut(s)	219, 357
BanII	GRGCYC	1 cut(s)	277
BauI	CACGAG	1 cut(s)	155
Bbv12I	GWGCWC	1 cut(s)	277
BbvCI	CCTCAGC	1 cut(s)	249
BbvI	GCAGC	2 cut(s)	224, 415
BccI	CCATC	3 cut(s)	32, 77, 341
BceAI	ACGGC	1 cut(s)	290
BciT130I	CCWGG	1 cut(s)	196
BfmI	CTRYAG	1 cut(s)	225
BfrI	CTTAAG	1 cut(s)	421
BisI	GCNGC	2 cut(s)	213, 404
BlsI	GCNGC	2 cut(s)	214, 405
Bme1390I	CCNGG	1 cut(s)	196
BmeT110I	CYCGRG	2 cut(s)	219, 357
BmiI	GGNNCC	2 cut(s)	237, 294
BmrFI	CCNGG	1 cut(s)	196
BmsI	GCATC	2 cut(s)	123, 181
Bpu10I	CCTNAGC	1 cut(s)	249
Bpu14I	TTCGAA	1 cut(s)	77
BsaJI	CCNNGG	1 cut(s)	265
Bse3DI	GCAATG	1 cut(s)	384
BseBI	CCWGG	1 cut(s)	196
BseDI	CCNNGG	1 cut(s)	265
BseGI	GGATG	3 cut(s)	43, 88, 196
BseMI	GCAATG	1 cut(s)	384
BseMII	CTCAG	2 cut(s)	240, 290
BseRI	GAGGAG	1 cut(s)	365
BseXI	GCAGC	2 cut(s)	224, 415
BsgI	GTGCAG	1 cut(s)	165
Bsh1236I	CGCG	1 cut(s)	96
BsiHKAI	GWGCWC	1 cut(s)	277
BsiHKCI	CYCGRG	2 cut(s)	219, 357
BsmI	GAATGC	1 cut(s)	205
BsoBI	CYCGRG	2 cut(s)	219, 357
Bsp119I	TTCGAA	1 cut(s)	77
Bsp1286I	GDGCHC	1 cut(s)	277
Bsp143I	GATC	1 cut(s)	31
BspACI	CCGC	1 cut(s)	94
BspCNI	CTCAG	2 cut(s)	241, 289
BspFNI	CGCG	1 cut(s)	96
BspHI	TCATGA	1 cut(s)	387
BspLI	GGNNCC	2 cut(s)	237, 294
BspT104I	TTCGAA	1 cut(s)	77
BspTI	CTTAAG	1 cut(s)	421
BsrDI	GCAATG	1 cut(s)	384
BssECI	CCNNGG	1 cut(s)	265
BssMI	GATC	1 cut(s)	31
BssSI	CACGAG	1 cut(s)	155
BssT1I	CCWWGG	1 cut(s)	265
Bst2BI	CACGAG	1 cut(s)	155
Bst2UI	CCWGG	1 cut(s)	196
Bst4CI	ACNGT	1 cut(s)	440
BstAFI	CTTAAG	1 cut(s)	421
BstBI	TTCGAA	1 cut(s)	77
BstDEI	CTNAG	2 cut(s)	249, 276
BstEII	GGTNACC	1 cut(s)	259
BstF5I	GGATG	3 cut(s)	43, 88, 196
BstFNI	CGCG	1 cut(s)	96
BstKTI	GATC	1 cut(s)	34
BstMBI	GATC	1 cut(s)	31
BstMWI	GCNNNNNNNGC	3 cut(s)	200, 209, 221
BstNI	CCWGG	1 cut(s)	196
BstNSI	RCATGY	1 cut(s)	54
BstPI	GGTNACC	1 cut(s)	259
BstSCI	CCNGG	1 cut(s)	194
BstSFI	CTRYAG	1 cut(s)	225
BstUI	CGCG	1 cut(s)	96
BstV1I	GCAGC	2 cut(s)	224, 415
BtsCI	GGATG	3 cut(s)	43, 88, 196
BtsI	GCAGTG	1 cut(s)	453
BtsIMutI	CAGTG	2 cut(s)	453, 459
CciI	TCATGA	1 cut(s)	387
Csp6I	GTAC	1 cut(s)	91
CviAII	CATG	5 cut(s)	7, 51, 255, 388, 471
CviQI	GTAC	1 cut(s)	91
DdeI	CTNAG	2 cut(s)	249, 276
DpnI	GATC	1 cut(s)	33
DpnII	GATC	1 cut(s)	31
Ecl136II	GAGCTC	1 cut(s)	275
Eco130I	CCWWGG	1 cut(s)	265
Eco24I	GRGCYC	1 cut(s)	277
Eco53kI	GAGCTC	1 cut(s)	275
Eco88I	CYCGRG	2 cut(s)	219, 357
Eco91I	GGTNACC	1 cut(s)	259
EcoICRI	GAGCTC	1 cut(s)	275
EcoO65I	GGTNACC	1 cut(s)	259
EcoRII	CCWGG	1 cut(s)	194
EcoT14I	CCWWGG	1 cut(s)	265
EcoT38I	GRGCYC	1 cut(s)	277
ErhI	CCWWGG	1 cut(s)	265
FaeI	CATG	5 cut(s)	10, 54, 258, 391, 474
FatI	CATG	5 cut(s)	6, 50, 254, 387, 470
Fnu4HI	GCNGC	2 cut(s)	213, 404
FokI	GGATG	3 cut(s)	50, 95, 203
FriOI	GRGCYC	1 cut(s)	277
Fsp4HI	GCNGC	2 cut(s)	213, 404
GluI	GCNGC	2 cut(s)	213, 404
Hin1II	CATG	5 cut(s)	10, 54, 258, 391, 474
HindIII	AAGCTT	1 cut(s)	313
HinfI	GANTC	3 cut(s)	116, 344, 382
HphI	GGTGA	1 cut(s)	464
Hpy188I	TCNGA	1 cut(s)	349
Hpy188III	TCNNGA	3 cut(s)	35, 359, 388
HpyAV	CCTTC	2 cut(s)	73, 157
HpyCH4III	ACNGT	1 cut(s)	440
HpyCH4V	TGCA	5 cut(s)	6, 146, 203, 377, 446
HpyF10VI	GCNNNNNNNGC	3 cut(s)	200, 209, 221
HpyF3I	CTNAG	2 cut(s)	249, 276
Hsp92II	CATG	5 cut(s)	10, 54, 258, 391, 474
Kzo9I	GATC	1 cut(s)	31
LmnI	GCTCC	2 cut(s)	235, 411
LpnPI	CCDG	7 cut(s)	8, 20, 181, 208, 309, 354, 402
Lsp1109I	GCAGC	2 cut(s)	224, 415
LweI	GCATC	2 cut(s)	123, 181
MaeIII	GTNAC	1 cut(s)	259
MalI	GATC	1 cut(s)	33
MboI	GATC	1 cut(s)	31
MhlI	GDGCHC	1 cut(s)	277
MluCI	AATT	1 cut(s)	183
MlyI	GAGTC	1 cut(s)	125
MmeI	TCCRAC	1 cut(s)	213
MnlI	CCTC	3 cut(s)	244, 343, 346
MseI	TTAA	2 cut(s)	281, 422
MspCI	CTTAAG	1 cut(s)	421
MspR9I	CCNGG	1 cut(s)	196
Mva1269I	GAATGC	1 cut(s)	205
MvaI	CCWGG	1 cut(s)	196
MvnI	CGCG	1 cut(s)	96
MwoI	GCNNNNNNNGC	3 cut(s)	200, 209, 221
NdeII	GATC	1 cut(s)	31
NlaIII	CATG	5 cut(s)	10, 54, 258, 391, 474
NlaIV	GGNNCC	2 cut(s)	237, 294
NspI	RCATGY	1 cut(s)	54
NspV	TTCGAA	1 cut(s)	77
PaeR7I	CTCGAG	2 cut(s)	219, 357
PagI	TCATGA	1 cut(s)	387
PctI	GAATGC	1 cut(s)	205
PfeI	GAWTC	2 cut(s)	344, 382
PkrI	GCNGC	2 cut(s)	214, 405
PleI	GAGTC	1 cut(s)	124
PpsI	GAGTC	1 cut(s)	124
Psp124BI	GAGCTC	1 cut(s)	277
Psp6I	CCWGG	1 cut(s)	194
PspEI	GGTNACC	1 cut(s)	259
PspGI	CCWGG	1 cut(s)	194
PspN4I	GGNNCC	2 cut(s)	237, 294
PspXI	VCTCGAGB	1 cut(s)	219
RsaI	GTAC	1 cut(s)	92
RsaNI	GTAC	1 cut(s)	91
SacI	GAGCTC	1 cut(s)	277
SaqAI	TTAA	2 cut(s)	281, 422
SatI	GCNGC	2 cut(s)	213, 404
Sau3AI	GATC	1 cut(s)	31
SchI	GAGTC	1 cut(s)	125
ScrFI	CCNGG	1 cut(s)	196
SduI	GDGCHC	1 cut(s)	277
SetI	ASST	5 cut(s)	226, 277, 298, 317, 408
SfaNI	GCATC	2 cut(s)	123, 181
SfcI	CTRYAG	1 cut(s)	225
Sfr274I	CTCGAG	2 cut(s)	219, 357
SfuI	TTCGAA	1 cut(s)	77
SlaI	CTCGAG	2 cut(s)	219, 357
SmlI	CTYRAG	3 cut(s)	219, 357, 421
SmoI	CTYRAG	3 cut(s)	219, 357, 421
Sse9I	AATT	1 cut(s)	183
SsiI	CCGC	1 cut(s)	94
SstI	GAGCTC	1 cut(s)	277
StyD4I	CCNGG	1 cut(s)	194
StyI	CCWWGG	1 cut(s)	265
TaaI	ACNGT	1 cut(s)	440
TaqI	TCGA	4 cut(s)	64, 77, 220, 358
TasI	AATT	1 cut(s)	183
TfiI	GAWTC	2 cut(s)	344, 382
Tru1I	TTAA	2 cut(s)	281, 422
Tru9I	TTAA	2 cut(s)	281, 422
TscAI	CASTG	2 cut(s)	453, 466
TseI	GCWGC	2 cut(s)	212, 403
TspDTI	ATGAA	3 cut(s)	395, 402, 404
TspRI	CASTG	2 cut(s)	453, 466
Vha464I	CTTAAG	1 cut(s)	421
XceI	RCATGY	1 cut(s)	54
XhoI	CTCGAG	2 cut(s)	219, 357

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