Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4B

Orthogroup ID

OG0001409

Physical Location & Seq

Genomic Coordinates Forward (+)

13373028 .. 13378059

Gene Structure 5032 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4BG075600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 507 bp

ATGTGGAGGCTGAAGGTTTCAGAAGGAGGAAGAGATGGTAATCCATGGCTCACAAGTGTGAATAATCACATCGGGAGACAATTCTGGGAGTTCGACCCGAATCTCGGAACACTGGAAGAGCGAGCTCAAGTGGAAAAAGCACGTCTTGAGTTTCATAACAATCGTTTTCGATCCAAACATAGTTCTGATCTATTAATGAGACTTCAATTTGCCAAGGAGAAAGAAAGTGATCGAATGGAGCTACCAGCTCAGGTGAAAATAAAAAGTGAAGAAGAAATTAATGAAGAAGTAGTAACAACCACATTGAGGAGGGGGTTGAGATTTTACTCAACTTTTCAGGCTGAGGATGGTTTCTGGCCTGGTGACTGTGGCGGTCCTTTGTTTCTTCTACCTGGCTTGGTTATTGGATTATGTGTAACAGGGGCCCTTGATGCAATCTTGCCACACGAGCATTCAAAGGAGATCCGCCGCTATCTTTATAACCATCAGTACGTTCATTCTGAATGA

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

168

Amino Acids

19.54

Weight (kDa)

6.18

Isoelectric Point (pI)

46.5

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)
AanI	TTATAA	1 cut(s)	480
AciI	CCGC	3 cut(s)	372, 466, 469
AclWI	GGATC	2 cut(s)	165, 457
AcuI	CTGAAG	1 cut(s)	32
AfaI	GTAC	1 cut(s)	491
AfiI	CCNNNNNNNGG	2 cut(s)	104, 306
AgsI	TTSAA	2 cut(s)	206, 456
AjiI	CACGTC	1 cut(s)	143
AjnI	CCWGG	2 cut(s)	358, 391
AleI	CACNNNNGTG	1 cut(s)	56
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	2 cut(s)	165, 457
AoxI	GGCC	2 cut(s)	356, 423
ApaI	GGGCCC	1 cut(s)	427
AseI	ATTAAT	2 cut(s)	194, 279
AspS9I	GGNCC	3 cut(s)	374, 423, 424
AsuHPI	GGTGA	2 cut(s)	265, 374
AvaII	GGWCC	1 cut(s)	374
BaeGI	GKGCMC	1 cut(s)	427
BanII	GRGCYC	2 cut(s)	127, 427
BauI	CACGAG	1 cut(s)	446
Bbv12I	GWGCWC	1 cut(s)	127
BbvCI	CCTCAGC	1 cut(s)	342
BccI	CCATC	3 cut(s)	29, 341, 492
BciT130I	CCWGG	2 cut(s)	360, 393
BcoDI	GTCTC	2 cut(s)	70, 193
BisI	GCNGC	1 cut(s)	469
BlsI	GCNGC	1 cut(s)	470
Bme1390I	CCNGG	2 cut(s)	360, 393
Bme18I	GGWCC	1 cut(s)	374
BmgBI	CACGTC	1 cut(s)	143
BmgT120I	GGNCC	3 cut(s)	374, 423, 424
BmiI	GGNNCC	2 cut(s)	424, 425
BmrFI	CCNGG	2 cut(s)	360, 393
BmsI	GCATC	1 cut(s)	421
Bpu10I	CCTNAGC	2 cut(s)	249, 342
BpuEI	CTTGAG	2 cut(s)	111, 167
BsaBI	GATNNNNATC	1 cut(s)	39
BsaJI	CCNNGG	2 cut(s)	44, 213
Bsc4I	CCNNNNNNNGG	2 cut(s)	104, 306
Bse1I	ACTGG	1 cut(s)	117
Bse8I	GATNNNNATC	1 cut(s)	39
BseBI	CCWGG	2 cut(s)	360, 393
BseDI	CCNNGG	2 cut(s)	44, 213
BseGI	GGATG	1 cut(s)	352
BseJI	GATNNNNATC	1 cut(s)	39
BseLI	CCNNNNNNNGG	2 cut(s)	104, 306
BseMII	CTCAG	2 cut(s)	263, 333
BseNI	ACTGG	1 cut(s)	117
BseRI	GAGGAG	1 cut(s)	322
BseSI	GKGCMC	1 cut(s)	427
BshFI	GGCC	2 cut(s)	358, 425
BsiHKAI	GWGCWC	1 cut(s)	127
BslI	CCNNNNNNNGG	2 cut(s)	104, 306
BsmAI	GTCTC	2 cut(s)	70, 193
BsmI	GAATGC	1 cut(s)	451
BsnI	GGCC	2 cut(s)	358, 425
Bsp120I	GGGCCC	1 cut(s)	423
Bsp1286I	GDGCHC	2 cut(s)	127, 427
Bsp143I	GATC	4 cut(s)	170, 187, 229, 462
Bsp19I	CCATGG	1 cut(s)	44
BspACI	CCGC	3 cut(s)	372, 466, 469
BspANI	GGCC	2 cut(s)	358, 425
BspCNI	CTCAG	2 cut(s)	262, 334
BspLI	GGNNCC	2 cut(s)	424, 425
BspPI	GGATC	2 cut(s)	165, 457
BspQI	GCTCTTC	1 cut(s)	111
BsrI	ACTGG	1 cut(s)	117
BssECI	CCNNGG	2 cut(s)	44, 213
BssMI	GATC	4 cut(s)	170, 187, 229, 462
BssSI	CACGAG	1 cut(s)	446
BssT1I	CCWWGG	2 cut(s)	44, 213
Bst2BI	CACGAG	1 cut(s)	446
Bst2UI	CCWGG	2 cut(s)	360, 393
Bst4CI	ACNGT	1 cut(s)	368
Bst6I	CTCTTC	2 cut(s)	25, 111
BstC8I	GCNNGC	1 cut(s)	123
BstDEI	CTNAG	2 cut(s)	249, 342
BstDSI	CCRYGG	1 cut(s)	44
BstF5I	GGATG	1 cut(s)	352
BstKTI	GATC	4 cut(s)	173, 190, 232, 465
BstMAI	GTCTC	2 cut(s)	70, 193
BstMBI	GATC	4 cut(s)	170, 187, 229, 462
BstMWI	GCNNNNNNNGC	2 cut(s)	431, 448
BstNI	CCWGG	2 cut(s)	360, 393
BstSCI	CCNGG	2 cut(s)	358, 391
BstSLI	GKGCMC	1 cut(s)	427
BstX2I	RGATCY	1 cut(s)	462
BstYI	RGATCY	1 cut(s)	462
BsuRI	GGCC	2 cut(s)	358, 425
BtgI	CCRYGG	1 cut(s)	44
BtrI	CACGTC	1 cut(s)	143
BtsCI	GGATG	1 cut(s)	352
BtsIMutI	CAGTG	1 cut(s)	110
Cac8I	GCNNGC	1 cut(s)	123
Cfr13I	GGNCC	3 cut(s)	374, 423, 424
Csp6I	GTAC	1 cut(s)	490
CviAII	CATG	1 cut(s)	45
CviJI	RGCY	9 cut(s)	10, 49, 125, 241, 248, 341, 358, 396, 425
CviKI_1	RGCY	9 cut(s)	10, 49, 125, 241, 248, 341, 358, 396, 425
CviQI	GTAC	1 cut(s)	490
DdeI	CTNAG	2 cut(s)	249, 342
DpnI	GATC	4 cut(s)	172, 189, 231, 464
DpnII	GATC	4 cut(s)	170, 187, 229, 462
Eam1104I	CTCTTC	2 cut(s)	25, 111
EarI	CTCTTC	2 cut(s)	25, 111
EciI	GGCGGA	1 cut(s)	455
Ecl136II	GAGCTC	1 cut(s)	125
Eco130I	CCWWGG	2 cut(s)	44, 213
Eco24I	GRGCYC	2 cut(s)	127, 427
Eco47I	GGWCC	1 cut(s)	374
Eco53kI	GAGCTC	1 cut(s)	125
Eco57I	CTGAAG	1 cut(s)	32
EcoICRI	GAGCTC	1 cut(s)	125
EcoO109I	RGGNCCY	2 cut(s)	423, 424
EcoRII	CCWGG	2 cut(s)	358, 391
EcoT14I	CCWWGG	2 cut(s)	44, 213
EcoT38I	GRGCYC	2 cut(s)	127, 427
ErhI	CCWWGG	2 cut(s)	44, 213
FaeI	CATG	1 cut(s)	48
FaiI	YATR	5 cut(s)	46, 156, 180, 412, 480
FalI	AAGNNNNNCTT	2 cut(s)	129, 161
FatI	CATG	1 cut(s)	44
Fnu4HI	GCNGC	1 cut(s)	469
FokI	GGATG	1 cut(s)	359
FriOI	GRGCYC	2 cut(s)	127, 427
Fsp4HI	GCNGC	1 cut(s)	469
GluI	GCNGC	1 cut(s)	469
HaeIII	GGCC	2 cut(s)	358, 425
Hin1II	CATG	1 cut(s)	48
HinfI	GANTC	1 cut(s)	100
HphI	GGTGA	2 cut(s)	265, 374
Hpy188I	TCNGA	4 cut(s)	22, 107, 187, 502
Hpy188III	TCNNGA	2 cut(s)	73, 146
HpyAV	CCTTC	2 cut(s)	7, 17
HpyCH4III	ACNGT	1 cut(s)	368
HpyCH4IV	ACGT	2 cut(s)	142, 492
HpyCH4V	TGCA	1 cut(s)	434
HpyF10VI	GCNNNNNNNGC	2 cut(s)	431, 448
HpyF3I	CTNAG	2 cut(s)	249, 342
HpySE526I	ACGT	2 cut(s)	142, 492
Hsp92II	CATG	1 cut(s)	48
Kzo9I	GATC	4 cut(s)	170, 187, 229, 462
LguI	GCTCTTC	1 cut(s)	111
LmnI	GCTCC	1 cut(s)	238
LweI	GCATC	1 cut(s)	421
MaeII	ACGT	2 cut(s)	142, 492
MaeIII	GTNAC	3 cut(s)	292, 362, 415
MalI	GATC	4 cut(s)	172, 189, 231, 464
MboI	GATC	4 cut(s)	170, 187, 229, 462
MboII	GAAGA	6 cut(s)	42, 128, 281, 284, 296, 377
MflI	RGATCY	1 cut(s)	462
MhlI	GDGCHC	2 cut(s)	127, 427
MluCI	AATT	3 cut(s)	80, 206, 276
MnlI	CCTC	4 cut(s)	20, 300, 303, 337
MseI	TTAA	2 cut(s)	194, 279
MslI	CAYNNNNRTG	1 cut(s)	56
MspR9I	CCNGG	2 cut(s)	360, 393
Mva1269I	GAATGC	1 cut(s)	451
MvaI	CCWGG	2 cut(s)	360, 393
MwoI	GCNNNNNNNGC	2 cut(s)	431, 448
NcoI	CCATGG	1 cut(s)	44
NdeII	GATC	4 cut(s)	170, 187, 229, 462
NlaIII	CATG	1 cut(s)	48
NlaIV	GGNNCC	2 cut(s)	424, 425
NmuCI	GTSAC	1 cut(s)	362
OliI	CACNNNNGTG	1 cut(s)	56
PciSI	GCTCTTC	1 cut(s)	111
PctI	GAATGC	1 cut(s)	451
PfeI	GAWTC	1 cut(s)	100
PkrI	GCNGC	1 cut(s)	470
PshBI	ATTAAT	2 cut(s)	194, 279
PsiI	TTATAA	1 cut(s)	480
Psp124BI	GAGCTC	1 cut(s)	127
Psp6I	CCWGG	2 cut(s)	358, 391
PspGI	CCWGG	2 cut(s)	358, 391
PspN4I	GGNNCC	2 cut(s)	424, 425
PspOMI	GGGCCC	1 cut(s)	423
PspPI	GGNCC	3 cut(s)	374, 423, 424
PsuI	RGATCY	1 cut(s)	462
RsaI	GTAC	1 cut(s)	491
RsaNI	GTAC	1 cut(s)	490
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
SatI	GCNGC	1 cut(s)	469
Sau3AI	GATC	4 cut(s)	170, 187, 229, 462
Sau96I	GGNCC	3 cut(s)	374, 423, 424
ScrFI	CCNGG	2 cut(s)	360, 393
SduI	GDGCHC	2 cut(s)	127, 427
SetI	ASST	8 cut(s)	18, 127, 145, 243, 250, 255, 394, 495
SfaNI	GCATC	1 cut(s)	421
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	3 cut(s)	80, 206, 276
SsiI	CCGC	3 cut(s)	372, 466, 469
SstI	GAGCTC	1 cut(s)	127
StyD4I	CCNGG	2 cut(s)	358, 391
StyI	CCWWGG	2 cut(s)	44, 213
TaaI	ACNGT	1 cut(s)	368
TaiI	ACGT	2 cut(s)	145, 495
TaqI	TCGA	3 cut(s)	93, 169, 232
TasI	AATT	3 cut(s)	80, 206, 276
TauI	GCSGC	1 cut(s)	471
TfiI	GAWTC	1 cut(s)	100
Tru1I	TTAA	2 cut(s)	194, 279
Tru9I	TTAA	2 cut(s)	194, 279
TscAI	CASTG	1 cut(s)	117
TseFI	GTSAC	1 cut(s)	362
Tsp45I	GTSAC	1 cut(s)	362
TspDTI	ATGAA	3 cut(s)	143, 297, 485
TspRI	CASTG	1 cut(s)	117
VpaK11BI	GGWCC	1 cut(s)	374
VspI	ATTAAT	2 cut(s)	194, 279

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