Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6D

Orthogroup ID

OG0004233

Physical Location & Seq

Genomic Coordinates Reverse (-)

5999102 .. 5999494

Gene Structure 393 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6DG058400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 393 bp

ATGTATTGGGATCCCATGTTGCCCAATCTTGTTCTTCAAAAGCCACCAATCTTGCAAAACCCTCCCTACCATCAAAACACTAATCCCAACTTTGATCATCTTCTTTTTCCCGGAAACAGTACCAACAATCTTATCAACAACAATGATAATGGGTTTTCGACAGTGGGATTTAACAGTAACAATGAGTTTTCGACATTGGGATTTGGAACAGGTGGGGGAGGTCCTCATGATTTTGCTGCTGATCAGACTCATGATCAACTCGCAGCTTCTTTGAATTGGCTGAGCATATCCAATAATGGCAGTTCAGGCAATCAAAGAATACCCAACAACTATATGTCTAGCTCTACAATCCTAGGCAATGGTGGGTTCAGTACTCTAGAGCAGGAATATTAG

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

PUF zf-CCCH

Protein Analysis

130

Amino Acids

14.16

Weight (kDa)

4.49

Isoelectric Point (pI)

29.72

Instability Index

Protein Domains (Pfam)

No Pfam domains detected for this protein.

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

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

Orthologous Genes (Group: OG0004233)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_5g30780 FvH4_5g30780
malus_domestica	MD05G1093500.v1.1
prunus_persica	Prupe.8G138200_v2.0.a1 Prupe.8G138200_v2.0.a1
pyrus_communis	pycom15g06920
rosa_chinensis	RchiOBHm_Chr6g0254321 RchiOBHm_Chr6g0254351
rosa_laevigata	RLG00000014133 RLG00000014918 RLG00000014919 RLG00000014923 RLG00000014926
rosa_multiflora	Rmu_sc0006565.1_g000002 Rmu_sc0007138.1_g000009 Rmu_sc0027609.1_g000002
rosa_roxburghii	Rroxscaffold_7G00210870 Rroxscaffold_7G00210910 Rroxscaffold_7G00210930
rosa_rugosa	Rorug05G0552000
rosa_samantha	Rh6AG068500 Rh6AG068800 Rh6AG068900 Rh6BG061200 Rh6CG061000 Rh6CG061100 Rh6CG061500 Rh6DG058000 Rh6DG058300 Rh6DG058400 Rh6DG058700
rosa_wichuraiana	Rw6G006000 Rw6G006040

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AclWI	GGATC	2 cut(s)	5, 18
AfaI	GTAC	2 cut(s)	121, 373
AgsI	TTSAA	2 cut(s)	38, 274
AluBI	AGCT	2 cut(s)	266, 342
AluI	AGCT	2 cut(s)	266, 342
AlwI	GGATC	2 cut(s)	5, 18
ApeKI	GCWGC	2 cut(s)	236, 263
AspA2I	CCTAGG	1 cut(s)	352
AspS9I	GGNCC	1 cut(s)	221
AsuC2I	CCSGG	1 cut(s)	111
AvaII	GGWCC	1 cut(s)	221
AvrII	CCTAGG	1 cut(s)	352
BamHI	GGATCC	1 cut(s)	10
BbvI	GCAGC	2 cut(s)	223, 275
BccI	CCATC	1 cut(s)	78
BclI	TGATCA	3 cut(s)	94, 241, 253
BcnI	CCSGG	1 cut(s)	111
BfaI	CTAG	3 cut(s)	339, 353, 377
BisI	GCNGC	2 cut(s)	237, 264
BlnI	CCTAGG	1 cut(s)	352
BlpI	GCTNAGC	1 cut(s)	281
BlsI	GCNGC	2 cut(s)	238, 265
BmcAI	AGTACT	1 cut(s)	373
Bme1390I	CCNGG	1 cut(s)	111
Bme18I	GGWCC	1 cut(s)	221
BmgT120I	GGNCC	1 cut(s)	221
BmiI	GGNNCC	1 cut(s)	12
BmrFI	CCNGG	1 cut(s)	111
Bpu1102I	GCTNAGC	1 cut(s)	281
BpuMI	CCSGG	1 cut(s)	111
BsaJI	CCNNGG	1 cut(s)	352
Bse3DI	GCAATG	1 cut(s)	364
BseDI	CCNNGG	1 cut(s)	352
BseMI	GCAATG	1 cut(s)	364
BseMII	CTCAG	1 cut(s)	272
BseXI	GCAGC	2 cut(s)	223, 275
BsiSI	CCGG	1 cut(s)	111
Bsp143I	GATC	4 cut(s)	10, 94, 241, 253
Bsp1720I	GCTNAGC	1 cut(s)	281
BspCNI	CTCAG	1 cut(s)	273
BspHI	TCATGA	2 cut(s)	226, 250
BspLI	GGNNCC	1 cut(s)	12
BspPI	GGATC	2 cut(s)	5, 18
BsrDI	GCAATG	1 cut(s)	364
BssECI	CCNNGG	1 cut(s)	352
BssMI	GATC	4 cut(s)	10, 94, 241, 253
BssT1I	CCWWGG	1 cut(s)	352
Bst4CI	ACNGT	3 cut(s)	119, 163, 176
BstDEI	CTNAG	1 cut(s)	281
BstKTI	GATC	4 cut(s)	13, 97, 244, 256
BstMBI	GATC	4 cut(s)	10, 94, 241, 253
BstMWI	GCNNNNNNNGC	1 cut(s)	306
BstSCI	CCNGG	1 cut(s)	109
BstV1I	GCAGC	2 cut(s)	223, 275
BstX2I	RGATCY	1 cut(s)	10
BstYI	RGATCY	1 cut(s)	10
BtsIMutI	CAGTG	1 cut(s)	168
CciI	TCATGA	2 cut(s)	226, 250
Cfr13I	GGNCC	1 cut(s)	221
Csp6I	GTAC	2 cut(s)	120, 372
CspCI	CAANNNNNGTGG	2 cut(s)	33, 68
CviAII	CATG	3 cut(s)	16, 227, 251
CviJI	RGCY	4 cut(s)	43, 266, 280, 342
CviKI_1	RGCY	4 cut(s)	43, 266, 280, 342
CviQI	GTAC	2 cut(s)	120, 372
DdeI	CTNAG	1 cut(s)	281
DpnI	GATC	4 cut(s)	12, 96, 243, 255
DpnII	GATC	4 cut(s)	10, 94, 241, 253
Eco130I	CCWWGG	1 cut(s)	352
Eco47I	GGWCC	1 cut(s)	221
EcoO109I	RGGNCCY	1 cut(s)	221
EcoT14I	CCWWGG	1 cut(s)	352
ErhI	CCWWGG	1 cut(s)	352
FaeI	CATG	3 cut(s)	19, 230, 254
FaiI	YATR	6 cut(s)	17, 228, 252, 287, 333, 335
FatI	CATG	3 cut(s)	15, 226, 250
FbaI	TGATCA	3 cut(s)	94, 241, 253
Fnu4HI	GCNGC	2 cut(s)	237, 264
Fsp4HI	GCNGC	2 cut(s)	237, 264
FspBI	CTAG	3 cut(s)	339, 353, 377
GluI	GCNGC	2 cut(s)	237, 264
HapII	CCGG	1 cut(s)	111
Hin1II	CATG	3 cut(s)	19, 230, 254
HinfI	GANTC	1 cut(s)	247
HpaII	CCGG	1 cut(s)	111
Hpy188I	TCNGA	1 cut(s)	246
Hpy188III	TCNNGA	3 cut(s)	227, 251, 377
HpyCH4III	ACNGT	3 cut(s)	119, 163, 176
HpyCH4V	TGCA	1 cut(s)	55
HpyF10VI	GCNNNNNNNGC	1 cut(s)	306
HpyF3I	CTNAG	1 cut(s)	281
Hsp92II	CATG	3 cut(s)	19, 230, 254
Ksp22I	TGATCA	3 cut(s)	94, 241, 253
Kzo9I	GATC	4 cut(s)	10, 94, 241, 253
LpnPI	CCDG	4 cut(s)	124, 195, 291, 368
Lsp1109I	GCAGC	2 cut(s)	223, 275
MaeI	CTAG	3 cut(s)	339, 353, 377
MaeIII	GTNAC	1 cut(s)	176
MalI	GATC	4 cut(s)	12, 96, 243, 255
MboI	GATC	4 cut(s)	10, 94, 241, 253
MboII	GAAGA	2 cut(s)	26, 92
MflI	RGATCY	1 cut(s)	10
MluCI	AATT	1 cut(s)	274
MlyI	GAGTC	1 cut(s)	241
MnlI	CCTC	3 cut(s)	72, 212, 234
MseI	TTAA	1 cut(s)	171
MspI	CCGG	1 cut(s)	111
MspR9I	CCNGG	1 cut(s)	111
MwoI	GCNNNNNNNGC	1 cut(s)	306
NciI	CCSGG	1 cut(s)	111
NdeII	GATC	4 cut(s)	10, 94, 241, 253
NlaIII	CATG	3 cut(s)	19, 230, 254
NlaIV	GGNNCC	1 cut(s)	12
PagI	TCATGA	2 cut(s)	226, 250
PfoI	TCCNGGA	1 cut(s)	109
PkrI	GCNGC	2 cut(s)	238, 265
PleI	GAGTC	1 cut(s)	241
PpsI	GAGTC	1 cut(s)	241
PpuMI	RGGWCCY	1 cut(s)	221
Psp5II	RGGWCCY	1 cut(s)	221
PspN4I	GGNNCC	1 cut(s)	12
PspPI	GGNCC	1 cut(s)	221
PspPPI	RGGWCCY	1 cut(s)	221
PsuI	RGATCY	1 cut(s)	10
RsaI	GTAC	2 cut(s)	121, 373
RsaNI	GTAC	2 cut(s)	120, 372
SaqAI	TTAA	1 cut(s)	171
SatI	GCNGC	2 cut(s)	237, 264
Sau3AI	GATC	4 cut(s)	10, 94, 241, 253
Sau96I	GGNCC	1 cut(s)	221
ScaI	AGTACT	1 cut(s)	373
SchI	GAGTC	1 cut(s)	241
ScrFI	CCNGG	1 cut(s)	111
SetI	ASST	4 cut(s)	214, 223, 268, 344
SinI	GGWCC	1 cut(s)	221
Sse9I	AATT	1 cut(s)	274
SspI	AATATT	1 cut(s)	389
SspMI	CTAG	3 cut(s)	339, 353, 377
StyD4I	CCNGG	1 cut(s)	109
StyI	CCWWGG	1 cut(s)	352
TaaI	ACNGT	3 cut(s)	119, 163, 176
TaqI	TCGA	2 cut(s)	158, 191
TasI	AATT	1 cut(s)	274
TatI	WGTACW	1 cut(s)	371
Tru1I	TTAA	1 cut(s)	171
Tru9I	TTAA	1 cut(s)	171
TscAI	CASTG	1 cut(s)	168
TseI	GCWGC	2 cut(s)	236, 263
TspRI	CASTG	1 cut(s)	168
VpaK11BI	GGWCC	1 cut(s)	221
XbaI	TCTAGA	1 cut(s)	376
XmaJI	CCTAGG	1 cut(s)	352
XspI	CTAG	3 cut(s)	339, 353, 377
ZrmI	AGTACT	1 cut(s)	373

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