Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1D

Orthogroup ID

OG0001409

Physical Location & Seq

Genomic Coordinates Reverse (-)

27641266 .. 27644803

Gene Structure 3538 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1DG132500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 423 bp

ATGTGGAGGCTGAAGGTTTCAGAAGGAGGAAGACATGGTAATCCATGGCTCACAAGTATGAATAATCACATCGGGAGACAATTCTGGGAGTTTGACCTGAATCTCGGAACTCCGGAAGAGCGAGCTCAAGTGGAAAAAGCACGTCTTGAGTTTCATAAGAATCGTTTTCGATCCAAACATAGTTCTGATCTATTAATGAGACTTCAGTTTGCAAAGGAGAAAGAAAGTGATCGAATGAAGCTACCAGCTCAGGTGAAAATAAAAAGTGAAGAAGAAATTAATGAAGAAGTAGTAACAACCACATTGAGGAAGGGGTTGAGATTTTACTCGACTCTTCAGGCTGAGGATGGTTTCTGGCCTGGTGACTGTGGTGGTCCTTTGTTTCTTCTACCTGGCTTGCCAGTGTCGAAAAGATTTGCTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000250 GO:0003674 GO:0003824 GO:0016853 GO:0016866 GO:0031559

KEGG Pathways

Metabolic & Signaling

ko00100 ko01100 ko01110 ko01130 map00100 map01100 map01110 map01130

Pfam Domains

Protein Families

SQHop_cyclase_C SQHop_cyclase_N

Protein Analysis

140

Amino Acids

16.29

Weight (kDa)

9.37

Isoelectric Point (pI)

51.88

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

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: OG0001409)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_7g10860 FvH4_7g10860 FvH4_7g10860
malus_domestica	MD17G1158900.v1.1 MD17G1160000.v1.1 MD17G1246000.v1.1 MD17G1246100.v1.1 MD17G1246500.v1.1 MD17G1246700.v1.1
prunus_persica	Prupe.1G002600_v2.0.a1 Prupe.1G002600_v2.0.a1 Prupe.7G043400_v2.0.a1
pyrus_communis	pycom16g19870 pycom16g24410
rosa_chinensis	RchiOBHm_Chr1g0332711 RchiOBHm_Chr2g0148781 RchiOBHm_Chr4g0385071 RchiOBHm_Chr4g0385101
rosa_laevigata	RLG00000010257
rosa_multiflora	Rmu_co8015556.1_g000001 Rmu_co8308753.1_g000001 Rmu_co8434809.1_g000001 Rmu_sc0000824.1_g000004 Rmu_sc0001548.1_g000031 Rmu_sc0001548.1_g000053 Rmu_sc0002070.1_g000040 Rmu_sc0002116.1_g000014 Rmu_sc0003929.1_g000004 Rmu_sc0008546.1_g000012 Rmu_sc0008678.1_g000005 Rmu_ssc0000158.1_g000036
rosa_roxburghii	Rroxscaffold_5G00333010 Rroxscaffold_5G00342310
rosa_rugosa	Rorug03G0113700 Rorug03G0225800 Rorug03G0298900
rosa_samantha	Rh1CG121300 Rh1DG132500 Rh2AG466900 Rh2CG453300 Rh2CG453700 Rh4AG002600 Rh4AG078200 Rh4AG078500 Rh4BG002100 Rh4BG073600 Rh4BG073800 Rh4BG075600 Rh4BG076300 Rh4DG002100 Rh4DG071700 Rh7BG219000
rosa_wichuraiana	Rw4G000670

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccIII	TCCGGA	1 cut(s)	112
AclWI	GGATC	1 cut(s)	165
AcuI	CTGAAG	3 cut(s)	32, 188, 320
AfiI	CCNNNNNNNGG	1 cut(s)	306
AjiI	CACGTC	1 cut(s)	143
AjnI	CCWGG	2 cut(s)	358, 391
AluBI	AGCT	3 cut(s)	125, 241, 248
AluI	AGCT	3 cut(s)	125, 241, 248
Alw21I	GWGCWC	1 cut(s)	127
Alw26I	GTCTC	2 cut(s)	70, 193
AlwI	GGATC	1 cut(s)	165
Aor13HI	TCCGGA	1 cut(s)	112
AoxI	GGCC	1 cut(s)	356
AseI	ATTAAT	2 cut(s)	194, 279
AspS9I	GGNCC	1 cut(s)	374
AsuHPI	GGTGA	2 cut(s)	265, 374
AvaII	GGWCC	1 cut(s)	374
BanII	GRGCYC	1 cut(s)	127
BbsI	GAAGAC	1 cut(s)	37
Bbv12I	GWGCWC	1 cut(s)	127
BbvCI	CCTCAGC	1 cut(s)	342
BccI	CCATC	1 cut(s)	341
BciT130I	CCWGG	2 cut(s)	360, 393
BcoDI	GTCTC	2 cut(s)	70, 193
Bme1390I	CCNGG	2 cut(s)	360, 393
Bme18I	GGWCC	1 cut(s)	374
BmgBI	CACGTC	1 cut(s)	143
BmgT120I	GGNCC	1 cut(s)	374
BmrFI	CCNGG	2 cut(s)	360, 393
BpiI	GAAGAC	1 cut(s)	37
Bpu10I	CCTNAGC	2 cut(s)	249, 342
BpuEI	CTTGAG	2 cut(s)	111, 167
BsaJI	CCNNGG	1 cut(s)	44
BsaWI	WCCGGW	1 cut(s)	112
Bsc4I	CCNNNNNNNGG	1 cut(s)	306
Bse1I	ACTGG	1 cut(s)	401
BseAI	TCCGGA	1 cut(s)	112
BseBI	CCWGG	2 cut(s)	360, 393
BseDI	CCNNGG	1 cut(s)	44
BseGI	GGATG	1 cut(s)	352
BseLI	CCNNNNNNNGG	1 cut(s)	306
BseMII	CTCAG	2 cut(s)	263, 333
BseNI	ACTGG	1 cut(s)	401
BshFI	GGCC	1 cut(s)	358
BsiHKAI	GWGCWC	1 cut(s)	127
BsiSI	CCGG	1 cut(s)	113
BslI	CCNNNNNNNGG	1 cut(s)	306
BsmAI	GTCTC	2 cut(s)	70, 193
BsnI	GGCC	1 cut(s)	358
Bsp1286I	GDGCHC	1 cut(s)	127
Bsp13I	TCCGGA	1 cut(s)	112
Bsp143I	GATC	3 cut(s)	170, 187, 229
Bsp19I	CCATGG	1 cut(s)	44
BspANI	GGCC	1 cut(s)	358
BspCNI	CTCAG	2 cut(s)	262, 334
BspEI	TCCGGA	1 cut(s)	112
BspPI	GGATC	1 cut(s)	165
BspQI	GCTCTTC	1 cut(s)	111
BsrI	ACTGG	1 cut(s)	401
BssECI	CCNNGG	1 cut(s)	44
BssMI	GATC	3 cut(s)	170, 187, 229
BssT1I	CCWWGG	1 cut(s)	44
Bst2UI	CCWGG	2 cut(s)	360, 393
Bst4CI	ACNGT	1 cut(s)	368
Bst6I	CTCTTC	2 cut(s)	111, 339
BstC8I	GCNNGC	2 cut(s)	123, 398
BstDEI	CTNAG	2 cut(s)	249, 342
BstDSI	CCRYGG	1 cut(s)	44
BstF5I	GGATG	1 cut(s)	352
BstKTI	GATC	3 cut(s)	173, 190, 232
BstMAI	GTCTC	2 cut(s)	70, 193
BstMBI	GATC	3 cut(s)	170, 187, 229
BstNI	CCWGG	2 cut(s)	360, 393
BstSCI	CCNGG	2 cut(s)	358, 391
BstV2I	GAAGAC	1 cut(s)	37
BsuRI	GGCC	1 cut(s)	358
BtgI	CCRYGG	1 cut(s)	44
BtrI	CACGTC	1 cut(s)	143
BtsCI	GGATG	1 cut(s)	352
BtsIMutI	CAGTG	1 cut(s)	408
Cac8I	GCNNGC	2 cut(s)	123, 398
Cfr13I	GGNCC	1 cut(s)	374
CviAII	CATG	2 cut(s)	35, 45
CviJI	RGCY	8 cut(s)	10, 49, 125, 241, 248, 341, 358, 396
CviKI_1	RGCY	8 cut(s)	10, 49, 125, 241, 248, 341, 358, 396
DdeI	CTNAG	2 cut(s)	249, 342
DpnI	GATC	3 cut(s)	172, 189, 231
DpnII	GATC	3 cut(s)	170, 187, 229
Eam1104I	CTCTTC	2 cut(s)	111, 339
EarI	CTCTTC	2 cut(s)	111, 339
Ecl136II	GAGCTC	1 cut(s)	125
Eco130I	CCWWGG	1 cut(s)	44
Eco24I	GRGCYC	1 cut(s)	127
Eco47I	GGWCC	1 cut(s)	374
Eco53kI	GAGCTC	1 cut(s)	125
Eco57I	CTGAAG	3 cut(s)	32, 188, 320
EcoICRI	GAGCTC	1 cut(s)	125
EcoRII	CCWGG	2 cut(s)	358, 391
EcoT14I	CCWWGG	1 cut(s)	44
EcoT38I	GRGCYC	1 cut(s)	127
ErhI	CCWWGG	1 cut(s)	44
FaeI	CATG	2 cut(s)	38, 48
FaiI	YATR	5 cut(s)	36, 46, 59, 156, 180
FalI	AAGNNNNNCTT	3 cut(s)	129, 161, 403
FatI	CATG	2 cut(s)	34, 44
FokI	GGATG	1 cut(s)	359
FriOI	GRGCYC	1 cut(s)	127
HaeIII	GGCC	1 cut(s)	358
HapII	CCGG	1 cut(s)	113
Hin1II	CATG	2 cut(s)	38, 48
HinfI	GANTC	3 cut(s)	100, 160, 331
HpaII	CCGG	1 cut(s)	113
HphI	GGTGA	2 cut(s)	265, 374
Hpy188I	TCNGA	3 cut(s)	22, 107, 187
Hpy188III	TCNNGA	3 cut(s)	73, 113, 146
HpyAV	CCTTC	3 cut(s)	7, 17, 304
HpyCH4III	ACNGT	1 cut(s)	368
HpyCH4IV	ACGT	1 cut(s)	142
HpyCH4V	TGCA	1 cut(s)	212
HpyF3I	CTNAG	2 cut(s)	249, 342
HpySE526I	ACGT	1 cut(s)	142
Hsp92II	CATG	2 cut(s)	38, 48
Kpn2I	TCCGGA	1 cut(s)	112
Kzo9I	GATC	3 cut(s)	170, 187, 229
LguI	GCTCTTC	1 cut(s)	111
MaeII	ACGT	1 cut(s)	142
MaeIII	GTNAC	2 cut(s)	292, 362
MalI	GATC	3 cut(s)	172, 189, 231
MboI	GATC	3 cut(s)	170, 187, 229
MboII	GAAGA	7 cut(s)	42, 128, 281, 284, 296, 326, 377
MhlI	GDGCHC	1 cut(s)	127
MluCI	AATT	2 cut(s)	80, 276
MlyI	GAGTC	1 cut(s)	325
MnlI	CCTC	3 cut(s)	20, 300, 337
MroI	TCCGGA	1 cut(s)	112
MseI	TTAA	2 cut(s)	194, 279
MslI	CAYNNNNRTG	1 cut(s)	56
MspI	CCGG	1 cut(s)	113
MspR9I	CCNGG	2 cut(s)	360, 393
MvaI	CCWGG	2 cut(s)	360, 393
NcoI	CCATGG	1 cut(s)	44
NdeII	GATC	3 cut(s)	170, 187, 229
NlaIII	CATG	2 cut(s)	38, 48
NmuCI	GTSAC	1 cut(s)	362
PciSI	GCTCTTC	1 cut(s)	111
PfeI	GAWTC	2 cut(s)	100, 160
PleI	GAGTC	1 cut(s)	325
PpsI	GAGTC	1 cut(s)	325
PshBI	ATTAAT	2 cut(s)	194, 279
Psp124BI	GAGCTC	1 cut(s)	127
Psp6I	CCWGG	2 cut(s)	358, 391
PspGI	CCWGG	2 cut(s)	358, 391
PspPI	GGNCC	1 cut(s)	374
RseI	CAYNNNNRTG	1 cut(s)	56
SacI	GAGCTC	1 cut(s)	127
SapI	GCTCTTC	1 cut(s)	111
SaqAI	TTAA	2 cut(s)	194, 279
Sau3AI	GATC	3 cut(s)	170, 187, 229
Sau96I	GGNCC	1 cut(s)	374
SchI	GAGTC	1 cut(s)	325
ScrFI	CCNGG	2 cut(s)	360, 393
SduI	GDGCHC	1 cut(s)	127
SetI	ASST	8 cut(s)	18, 99, 127, 145, 243, 250, 255, 394
SinI	GGWCC	1 cut(s)	374
SmiMI	CAYNNNNRTG	1 cut(s)	56
SmlI	CTYRAG	2 cut(s)	126, 146
SmoI	CTYRAG	2 cut(s)	126, 146
Sse9I	AATT	2 cut(s)	80, 276
SstI	GAGCTC	1 cut(s)	127
StyD4I	CCNGG	2 cut(s)	358, 391
StyI	CCWWGG	1 cut(s)	44
TaaI	ACNGT	1 cut(s)	368
TaiI	ACGT	1 cut(s)	145
TaqI	TCGA	4 cut(s)	169, 232, 329, 407
TasI	AATT	2 cut(s)	80, 276
TfiI	GAWTC	2 cut(s)	100, 160
Tru1I	TTAA	2 cut(s)	194, 279
Tru9I	TTAA	2 cut(s)	194, 279
TscAI	CASTG	1 cut(s)	408
TseFI	GTSAC	1 cut(s)	362
Tsp45I	GTSAC	1 cut(s)	362
TspDTI	ATGAA	4 cut(s)	74, 143, 251, 297
TspRI	CASTG	1 cut(s)	408
VpaK11BI	GGWCC	1 cut(s)	374
VspI	ATTAAT	2 cut(s)	194, 279

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