Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2D

Orthogroup ID

OG0001779

Physical Location & Seq

Genomic Coordinates Reverse (-)

3062194 .. 3062741

Gene Structure 548 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2DG044200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 366 bp

ATGAAGGCGAAAAGTGCTTGTGCCGAGAATCCAATTCAGAGAGCACCACTGAGGTCTGAGGCCCGGAAGTTGATAGGGGACACTGGTTTGGTGGACCATTTGTTAAAGCATATGGCTGGGAAGGTAGCTCCGGGTGGCGCTGATCGGTTTCGGAGAAGGCATAATGCTGATGGAGCACTTATGTATTGGCTGGAGAGTGCTGAGTTGATGAGTCTAAGGAAGGAGGCTGGGGTTGAGGATCCTTATTGGACTCCACCCCCCGGGTGGAAGGTTGGGGATAACCAAACTCAGGACCCTACTTGTGTGAGGATGTTCAAGGAGATTTGGAAAGAGATAGCCAATGTGAAAAGGAAGAGGGAATTTTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005694 GO:0007049 GO:0008150 GO:0009987 GO:0022414 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0044424 GO:0044464 GO:0051321

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

No domains found.

Protein Analysis

121

Amino Acids

13.77

Weight (kDa)

9.55

Isoelectric Point (pI)

46.98

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
WHD_plant_repro	PF25874	6 - 66	5.2e-18	Winged helix-turn-helix domain in plant reproductive proteins

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: OG0001779)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G51330 AT5G51330
fragaria_vesca	FvH4_1g24020 FvH4_1g24020 FvH4_7g27150 FvH4_7g27150 FvH4_7g27150 FvH4_7g27150
malus_domestica	MD01G1180700.v1.1 MD07G1251100.v1.1
prunus_persica	Prupe.2G133400_v2.0.a1 Prupe.2G133400_v2.0.a1 Prupe.2G274700_v2.0.a1
pyrus_communis	pycom01g19090
rosa_chinensis	RchiOBHm_Chr1g0373991 RchiOBHm_Chr2g0120161
rosa_laevigata	RLG00000016013 RLG00000018527 RLG00000026788
rosa_multiflora	Rmu_co8084184.1_g000001 Rmu_co8202680.1_g000001 Rmu_co8293435.1_g000001 Rmu_co8298741.1_g000001 Rmu_sc0005304.1_g000004 Rmu_sc0008322.1_g000013 Rmu_sc0015468.1_g000001 Rmu_sc0015469.1_g000002 Rmu_sc0020978.1_g000001 Rmu_sc0020979.1_g000001
rosa_roxburghii	Rroxscaffold_2G00123660 Rroxscaffold_4G00283840 Rroxscaffold_4G00283860
rosa_rugosa	Rorug01G0380000 Rorug01G0380100 Rorug02G0227300
rosa_samantha	Rh1AG390500 Rh1BG354600 Rh1CG367700 Rh1DG385300 Rh2AG283900 Rh2BG295200 Rh2CG272600 Rh2DG044200 Rh2DG308900
rosa_wichuraiana	Rw1G034470 Rw2G003810 Rw2G022740

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AclWI	GGATC	2 cut(s)	233, 246
AcsI	RAATTY	1 cut(s)	359
AfiI	CCNNNNNNNGG	3 cut(s)	260, 264, 289
AgsI	TTSAA	1 cut(s)	316
AluBI	AGCT	1 cut(s)	128
AluI	AGCT	1 cut(s)	128
Alw21I	GWGCWC	2 cut(s)	46, 178
AlwI	GGATC	2 cut(s)	233, 246
Ama87I	CYCGRG	1 cut(s)	260
AoxI	GGCC	1 cut(s)	60
ApoI	RAATTY	1 cut(s)	359
AspLEI	GCGC	1 cut(s)	140
AspS9I	GGNCC	3 cut(s)	61, 94, 292
AsuC2I	CCSGG	4 cut(s)	64, 132, 261, 262
AvaI	CYCGRG	1 cut(s)	260
AvaII	GGWCC	2 cut(s)	94, 292
BamHI	GGATCC	1 cut(s)	238
Bbv12I	GWGCWC	2 cut(s)	46, 178
BccI	CCATC	1 cut(s)	164
BcnI	CCSGG	4 cut(s)	64, 132, 261, 262
BfoI	RGCGCY	1 cut(s)	141
Bme1390I	CCNGG	4 cut(s)	64, 132, 261, 262
Bme18I	GGWCC	2 cut(s)	94, 292
BmeT110I	CYCGRG	1 cut(s)	260
BmgT120I	GGNCC	3 cut(s)	61, 94, 292
BmiI	GGNNCC	2 cut(s)	240, 294
BmrFI	CCNGG	4 cut(s)	64, 132, 261, 262
BpmI	CTGGAG	1 cut(s)	212
BpuMI	CCSGG	4 cut(s)	64, 132, 261, 262
BsaJI	CCNNGG	2 cut(s)	259, 260
Bsc4I	CCNNNNNNNGG	3 cut(s)	260, 264, 289
Bse1I	ACTGG	1 cut(s)	88
BseDI	CCNNGG	2 cut(s)	259, 260
BseGI	GGATG	1 cut(s)	315
BseLI	CCNNNNNNNGG	3 cut(s)	260, 264, 289
BseMII	CTCAG	4 cut(s)	41, 48, 192, 302
BseNI	ACTGG	1 cut(s)	88
BseYI	CCCAGC	2 cut(s)	116, 227
BshFI	GGCC	1 cut(s)	62
BsiHKAI	GWGCWC	2 cut(s)	46, 178
BsiHKCI	CYCGRG	1 cut(s)	260
BsiSI	CCGG	3 cut(s)	64, 131, 261
BslFI	GGGAC	1 cut(s)	92
BslI	CCNNNNNNNGG	3 cut(s)	260, 264, 289
BsmFI	GGGAC	1 cut(s)	92
BsnI	GGCC	1 cut(s)	62
BsoBI	CYCGRG	1 cut(s)	260
Bsp1286I	GDGCHC	2 cut(s)	46, 178
Bsp143I	GATC	2 cut(s)	142, 238
BspANI	GGCC	1 cut(s)	62
BspCNI	CTCAG	4 cut(s)	42, 49, 193, 301
BspLI	GGNNCC	2 cut(s)	240, 294
BspPI	GGATC	2 cut(s)	233, 246
BsrI	ACTGG	1 cut(s)	88
BssECI	CCNNGG	2 cut(s)	259, 260
BssMI	GATC	2 cut(s)	142, 238
Bst6I	CTCTTC	1 cut(s)	347
BstDEI	CTNAG	5 cut(s)	50, 57, 201, 215, 288
BstF5I	GGATG	1 cut(s)	315
BstH2I	RGCGCY	1 cut(s)	141
BstHHI	GCGC	1 cut(s)	140
BstKTI	GATC	2 cut(s)	145, 241
BstMBI	GATC	2 cut(s)	142, 238
BstMWI	GCNNNNNNNGC	2 cut(s)	14, 173
BstSCI	CCNGG	4 cut(s)	62, 130, 259, 260
BstX2I	RGATCY	1 cut(s)	238
BstYI	RGATCY	1 cut(s)	238
BsuRI	GGCC	1 cut(s)	62
BtsCI	GGATG	1 cut(s)	315
BtsIMutI	CAGTG	2 cut(s)	47, 81
CfoI	GCGC	1 cut(s)	140
Cfr13I	GGNCC	3 cut(s)	61, 94, 292
Cfr9I	CCCGGG	1 cut(s)	260
CviJI	RGCY	6 cut(s)	62, 116, 128, 190, 227, 338
CviKI_1	RGCY	6 cut(s)	62, 116, 128, 190, 227, 338
DdeI	CTNAG	5 cut(s)	50, 57, 201, 215, 288
DpnI	GATC	2 cut(s)	144, 240
DpnII	GATC	2 cut(s)	142, 238
Eam1104I	CTCTTC	1 cut(s)	347
EarI	CTCTTC	1 cut(s)	347
Eco47I	GGWCC	2 cut(s)	94, 292
Eco88I	CYCGRG	1 cut(s)	260
EcoO109I	RGGNCCY	1 cut(s)	292
FaiI	YATR	4 cut(s)	111, 113, 162, 182
FaqI	GGGAC	1 cut(s)	92
FauNDI	CATATG	1 cut(s)	111
FokI	GGATG	1 cut(s)	322
GlaI	GCGC	1 cut(s)	139
GsaI	CCCAGC	2 cut(s)	120, 231
GsuI	CTGGAG	1 cut(s)	212
HaeII	RGCGCY	1 cut(s)	141
HaeIII	GGCC	1 cut(s)	62
HapII	CCGG	3 cut(s)	64, 131, 261
HhaI	GCGC	1 cut(s)	140
Hin6I	GCGC	1 cut(s)	138
HinP1I	GCGC	1 cut(s)	138
HinfI	GANTC	3 cut(s)	28, 211, 250
HpaII	CCGG	3 cut(s)	64, 131, 261
Hpy166II	GTNNAC	1 cut(s)	94
Hpy188I	TCNGA	3 cut(s)	39, 58, 153
Hpy188III	TCNNGA	1 cut(s)	290
Hpy8I	GTNNAC	1 cut(s)	94
HpyAV	CCTTC	4 cut(s)	115, 150, 214, 262
HpyF10VI	GCNNNNNNNGC	2 cut(s)	14, 173
HpyF3I	CTNAG	5 cut(s)	50, 57, 201, 215, 288
HspAI	GCGC	1 cut(s)	138
Kzo9I	GATC	2 cut(s)	142, 238
LmnI	GCTCC	2 cut(s)	133, 173
LpnPI	CCDG	8 cut(s)	69, 77, 102, 144, 176, 213, 274, 275
MalI	GATC	2 cut(s)	144, 240
MboI	GATC	2 cut(s)	142, 238
MboII	GAAGA	1 cut(s)	364
MflI	RGATCY	1 cut(s)	238
MhlI	GDGCHC	2 cut(s)	46, 178
MluCI	AATT	2 cut(s)	33, 359
MlyI	GAGTC	2 cut(s)	220, 244
MnlI	CCTC	6 cut(s)	45, 52, 217, 229, 300, 348
MseI	TTAA	1 cut(s)	104
MspI	CCGG	3 cut(s)	64, 131, 261
MspR9I	CCNGG	4 cut(s)	64, 132, 261, 262
MwoI	GCNNNNNNNGC	2 cut(s)	14, 173
NciI	CCSGG	4 cut(s)	64, 132, 261, 262
NdeI	CATATG	1 cut(s)	111
NdeII	GATC	2 cut(s)	142, 238
NlaIV	GGNNCC	2 cut(s)	240, 294
NmeAIII	GCCGAG	1 cut(s)	49
PfeI	GAWTC	1 cut(s)	28
PleI	GAGTC	2 cut(s)	219, 244
PpsI	GAGTC	2 cut(s)	219, 244
PpuMI	RGGWCCY	1 cut(s)	292
Psp5II	RGGWCCY	1 cut(s)	292
PspFI	CCCAGC	2 cut(s)	116, 227
PspN4I	GGNNCC	2 cut(s)	240, 294
PspPI	GGNCC	3 cut(s)	61, 94, 292
PspPPI	RGGWCCY	1 cut(s)	292
PsuI	RGATCY	1 cut(s)	238
SaqAI	TTAA	1 cut(s)	104
Sau3AI	GATC	2 cut(s)	142, 238
Sau96I	GGNCC	3 cut(s)	61, 94, 292
SchI	GAGTC	2 cut(s)	220, 244
ScrFI	CCNGG	4 cut(s)	64, 132, 261, 262
SduI	GDGCHC	2 cut(s)	46, 178
SetI	ASST	4 cut(s)	56, 126, 130, 273
SinI	GGWCC	2 cut(s)	94, 292
SmaI	CCCGGG	1 cut(s)	262
Sse9I	AATT	2 cut(s)	33, 359
StyD4I	CCNGG	4 cut(s)	62, 130, 259, 260
TasI	AATT	2 cut(s)	33, 359
TfiI	GAWTC	1 cut(s)	28
Tru1I	TTAA	1 cut(s)	104
Tru9I	TTAA	1 cut(s)	104
TscAI	CASTG	2 cut(s)	54, 88
TspDTI	ATGAA	1 cut(s)	17
TspMI	CCCGGG	1 cut(s)	260
TspRI	CASTG	2 cut(s)	54, 88
VpaK11BI	GGWCC	2 cut(s)	94, 292
XapI	RAATTY	1 cut(s)	359
XcmI	CCANNNNNNNNNTGG	1 cut(s)	261
XmaI	CCCGGG	1 cut(s)	260

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