Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4A

Orthogroup ID

OG0001409

Physical Location & Seq

Genomic Coordinates Forward (+)

15915008 .. 15925378

Gene Structure 10371 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4AG078200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 570 bp

ATGTGGACGCTGAAGGTTTCAGAAGGAGGAAGAGATGGTAACCCATGGCTCACAAGTGTGAATAATCACATCGGGAGACAATTTTGGGAGTTTGACCCAAATCTCGGAACACCGGAAGAGCGAGCTCACGTGGAAAAAACACGTCTTGAGTTTCGTAACAATCGTTTTCAATCCAAACATAGTTCTGATCTATTAATGAGACTTCAGTTTGCAAAGGAGAAAGAAAGTGATCGAATGGAGCTACCAGCTCAGGTGAAAATAAAAAGTGAAGAAGAAATTAATGAAGAAGTAGTAGCAACCACATTGAGGAGGGGGTTGAGATTTTACTCGACTCTTCAGGCTAAGGATGGTTTCTGGCCTGGTGATTATGGCGGTCCTTTGTTTCTTCTGCCTGGCTTGGTTATTGGATTATCCGTAACAGGGGCCCTTGATGCAATCTTGCCACACGAGCATTCAAAGGAGATCCGCCGCTATCTTTATAACCATCAGAACAGCAATGGAGGGTTTGCATCATATGAACTCACAAGATCCTATGCCTGGTTGGAGGTGATGAGAAATCTTCAATGTTAG

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

189

Amino Acids

21.86

Weight (kDa)

6.6

Isoelectric Point (pI)

47.02

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)	457, 522
AcuI	CTGAAG	3 cut(s)	32, 188, 320
AcvI	CACGTG	1 cut(s)	130
AfiI	CCNNNNNNNGG	4 cut(s)	104, 306, 420, 537
AflIII	ACRYGT	1 cut(s)	140
AgsI	TTSAA	3 cut(s)	170, 456, 563
AjiI	CACGTC	1 cut(s)	143
AjnI	CCWGG	3 cut(s)	358, 391, 536
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)	457, 522
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	3 cut(s)	265, 374, 559
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
BbrPI	CACGTG	1 cut(s)	130
Bbv12I	GWGCWC	1 cut(s)	127
BccI	CCATC	3 cut(s)	29, 341, 492
BciT130I	CCWGG	3 cut(s)	360, 393, 538
BcoDI	GTCTC	2 cut(s)	70, 193
BisI	GCNGC	1 cut(s)	469
BlsI	GCNGC	1 cut(s)	470
Bme1390I	CCNGG	3 cut(s)	360, 393, 538
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	3 cut(s)	360, 393, 538
BmsI	GCATC	2 cut(s)	421, 518
Bpu10I	CCTNAGC	2 cut(s)	249, 342
BpuEI	CTTGAG	1 cut(s)	167
BsaAI	YACGTR	1 cut(s)	130
BsaJI	CCNNGG	1 cut(s)	44
BsaWI	WCCGGW	1 cut(s)	112
Bsc4I	CCNNNNNNNGG	4 cut(s)	104, 306, 420, 537
Bse3DI	GCAATG	1 cut(s)	502
BseBI	CCWGG	3 cut(s)	360, 393, 538
BseDI	CCNNGG	1 cut(s)	44
BseGI	GGATG	1 cut(s)	352
BseLI	CCNNNNNNNGG	4 cut(s)	104, 306, 420, 537
BseMI	GCAATG	1 cut(s)	502
BseMII	CTCAG	1 cut(s)	263
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
BsiSI	CCGG	1 cut(s)	113
BslI	CCNNNNNNNGG	4 cut(s)	104, 306, 420, 537
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)	187, 229, 462, 527
Bsp19I	CCATGG	1 cut(s)	44
BspACI	CCGC	3 cut(s)	372, 466, 469
BspANI	GGCC	2 cut(s)	358, 425
BspCNI	CTCAG	1 cut(s)	262
BspLI	GGNNCC	2 cut(s)	424, 425
BspPI	GGATC	2 cut(s)	457, 522
BspQI	GCTCTTC	1 cut(s)	111
BsrDI	GCAATG	1 cut(s)	502
BssECI	CCNNGG	1 cut(s)	44
BssMI	GATC	4 cut(s)	187, 229, 462, 527
BssSI	CACGAG	1 cut(s)	446
BssT1I	CCWWGG	1 cut(s)	44
Bst2BI	CACGAG	1 cut(s)	446
Bst2UI	CCWGG	3 cut(s)	360, 393, 538
Bst6I	CTCTTC	3 cut(s)	25, 111, 339
BstBAI	YACGTR	1 cut(s)	130
BstC8I	GCNNGC	1 cut(s)	123
BstDEI	CTNAG	2 cut(s)	249, 342
BstDSI	CCRYGG	1 cut(s)	44
BstEII	GGTNACC	1 cut(s)	38
BstF5I	GGATG	1 cut(s)	352
BstKTI	GATC	4 cut(s)	190, 232, 465, 530
BstMAI	GTCTC	2 cut(s)	70, 193
BstMBI	GATC	4 cut(s)	187, 229, 462, 527
BstMWI	GCNNNNNNNGC	2 cut(s)	431, 448
BstNI	CCWGG	3 cut(s)	360, 393, 538
BstPI	GGTNACC	1 cut(s)	38
BstSCI	CCNGG	3 cut(s)	358, 391, 536
BstSLI	GKGCMC	1 cut(s)	427
BstX2I	RGATCY	2 cut(s)	462, 527
BstYI	RGATCY	2 cut(s)	462, 527
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
Cac8I	GCNNGC	1 cut(s)	123
Cfr13I	GGNCC	3 cut(s)	374, 423, 424
CseI	GACGC	1 cut(s)	16
CviAII	CATG	1 cut(s)	45
CviJI	RGCY	8 cut(s)	49, 125, 241, 248, 341, 358, 396, 425
CviKI_1	RGCY	8 cut(s)	49, 125, 241, 248, 341, 358, 396, 425
DdeI	CTNAG	2 cut(s)	249, 342
DpnI	GATC	4 cut(s)	189, 231, 464, 529
DpnII	GATC	4 cut(s)	187, 229, 462, 527
Eam1104I	CTCTTC	3 cut(s)	25, 111, 339
EarI	CTCTTC	3 cut(s)	25, 111, 339
EciI	GGCGGA	1 cut(s)	455
Ecl136II	GAGCTC	1 cut(s)	125
Eco130I	CCWWGG	1 cut(s)	44
Eco24I	GRGCYC	2 cut(s)	127, 427
Eco47I	GGWCC	1 cut(s)	374
Eco53kI	GAGCTC	1 cut(s)	125
Eco57I	CTGAAG	3 cut(s)	32, 188, 320
Eco72I	CACGTG	1 cut(s)	130
Eco91I	GGTNACC	1 cut(s)	38
EcoICRI	GAGCTC	1 cut(s)	125
EcoO109I	RGGNCCY	2 cut(s)	423, 424
EcoO65I	GGTNACC	1 cut(s)	38
EcoRII	CCWGG	3 cut(s)	358, 391, 536
EcoT14I	CCWWGG	1 cut(s)	44
EcoT38I	GRGCYC	2 cut(s)	127, 427
ErhI	CCWWGG	1 cut(s)	44
FaeI	CATG	1 cut(s)	48
FaiI	YATR	7 cut(s)	46, 180, 369, 480, 514, 516, 534
FatI	CATG	1 cut(s)	44
FauNDI	CATATG	1 cut(s)	514
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
HapII	CCGG	1 cut(s)	113
HgaI	GACGC	1 cut(s)	16
Hin1II	CATG	1 cut(s)	48
HinfI	GANTC	1 cut(s)	331
HpaII	CCGG	1 cut(s)	113
HphI	GGTGA	3 cut(s)	265, 374, 559
Hpy166II	GTNNAC	1 cut(s)	6
Hpy188I	TCNGA	4 cut(s)	22, 107, 187, 489
Hpy188III	TCNNGA	2 cut(s)	73, 146
Hpy8I	GTNNAC	1 cut(s)	6
HpyAV	CCTTC	2 cut(s)	7, 17
HpyCH4IV	ACGT	2 cut(s)	129, 142
HpyCH4V	TGCA	3 cut(s)	212, 434, 509
HpyF10VI	GCNNNNNNNGC	2 cut(s)	431, 448
HpyF3I	CTNAG	2 cut(s)	249, 342
HpySE526I	ACGT	2 cut(s)	129, 142
Hsp92II	CATG	1 cut(s)	48
Kzo9I	GATC	4 cut(s)	187, 229, 462, 527
LguI	GCTCTTC	1 cut(s)	111
LmnI	GCTCC	1 cut(s)	238
LweI	GCATC	2 cut(s)	421, 518
MaeII	ACGT	2 cut(s)	129, 142
MaeIII	GTNAC	3 cut(s)	38, 155, 415
MalI	GATC	4 cut(s)	189, 231, 464, 529
MboI	GATC	4 cut(s)	187, 229, 462, 527
MboII	GAAGA	8 cut(s)	42, 128, 281, 284, 296, 326, 377, 551
MflI	RGATCY	2 cut(s)	462, 527
MhlI	GDGCHC	2 cut(s)	127, 427
MluCI	AATT	2 cut(s)	80, 276
MlyI	GAGTC	1 cut(s)	325
MmeI	TCCRAC	1 cut(s)	522
MnlI	CCTC	5 cut(s)	20, 300, 303, 494, 538
MseI	TTAA	2 cut(s)	194, 279
MslI	CAYNNNNRTG	1 cut(s)	56
MspI	CCGG	1 cut(s)	113
MspR9I	CCNGG	3 cut(s)	360, 393, 538
Mva1269I	GAATGC	1 cut(s)	451
MvaI	CCWGG	3 cut(s)	360, 393, 538
MwoI	GCNNNNNNNGC	2 cut(s)	431, 448
NcoI	CCATGG	1 cut(s)	44
NdeI	CATATG	1 cut(s)	514
NdeII	GATC	4 cut(s)	187, 229, 462, 527
NlaIII	CATG	1 cut(s)	48
NlaIV	GGNNCC	2 cut(s)	424, 425
OliI	CACNNNNGTG	1 cut(s)	56
PciSI	GCTCTTC	1 cut(s)	111
PcsI	WCGNNNNNNNCGW	1 cut(s)	160
PctI	GAATGC	1 cut(s)	451
PkrI	GCNGC	1 cut(s)	470
PleI	GAGTC	1 cut(s)	325
PmaCI	CACGTG	1 cut(s)	130
PmlI	CACGTG	1 cut(s)	130
PpsI	GAGTC	1 cut(s)	325
Ppu21I	YACGTR	1 cut(s)	130
PshBI	ATTAAT	2 cut(s)	194, 279
PsiI	TTATAA	1 cut(s)	480
Psp124BI	GAGCTC	1 cut(s)	127
Psp6I	CCWGG	3 cut(s)	358, 391, 536
PspCI	CACGTG	1 cut(s)	130
PspEI	GGTNACC	1 cut(s)	38
PspGI	CCWGG	3 cut(s)	358, 391, 536
PspN4I	GGNNCC	2 cut(s)	424, 425
PspOMI	GGGCCC	1 cut(s)	423
PspPI	GGNCC	3 cut(s)	374, 423, 424
PsuI	RGATCY	2 cut(s)	462, 527
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)	187, 229, 462, 527
Sau96I	GGNCC	3 cut(s)	374, 423, 424
SchI	GAGTC	1 cut(s)	325
ScrFI	CCNGG	3 cut(s)	360, 393, 538
SduI	GDGCHC	2 cut(s)	127, 427
SetI	ASST	8 cut(s)	18, 127, 132, 145, 243, 250, 255, 549
SfaNI	GCATC	2 cut(s)	421, 518
SinI	GGWCC	1 cut(s)	374
SmiMI	CAYNNNNRTG	1 cut(s)	56
SmlI	CTYRAG	1 cut(s)	146
SmoI	CTYRAG	1 cut(s)	146
Sse9I	AATT	2 cut(s)	80, 276
SsiI	CCGC	3 cut(s)	372, 466, 469
SstI	GAGCTC	1 cut(s)	127
StyD4I	CCNGG	3 cut(s)	358, 391, 536
StyI	CCWWGG	1 cut(s)	44
TaiI	ACGT	2 cut(s)	132, 145
TaqI	TCGA	2 cut(s)	232, 329
TasI	AATT	2 cut(s)	80, 276
TauI	GCSGC	1 cut(s)	471
Tru1I	TTAA	2 cut(s)	194, 279
Tru9I	TTAA	2 cut(s)	194, 279
TspDTI	ATGAA	2 cut(s)	297, 531
TspGWI	ACGGA	1 cut(s)	403
VpaK11BI	GGWCC	1 cut(s)	374
VspI	ATTAAT	2 cut(s)	194, 279

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