Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000005

Orthogroup ID

OG0001409

Physical Location & Seq

Genomic Coordinates Forward (+)

11119953 .. 11124560

Gene Structure 4608 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_5G00342310.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 708 bp

ATGTGGAGGCTGAAGGTTTCAGAAGGAGAAAGAGATGGTAATTCATGGCTCACAAGTGTGAATAATCACATCGGGAGACAATTTTGGGAGTTCGACCCAAATCTCGGAACACCGGAAGAGCGAGCCCAGGTGGAAAAAGCACGTCTTGAGTTTCGTAACAATCGTTTTCGATCCGAACATAGTTCTGATCTATTAATGAGACTTCAGTTTGCAAAGGAGAAAGAAAGTGATCGAATGGAGCTACCAACTCAGGTGAAAATAAAAAGTGAAAAAGAAATTAATGAAGAAGTAGTAACAACTACATTGAGGAGGGGGTTGAGATTTTACTCGACTCTTCAGCCGAGGATGGTTTTTGGCCTGGTGACAATGGCGGTCCTCTGTTTCTTCTACCGGCTTGGTACGTACGTTATTGGATTATCTGTAACTGGGGCCCTTGATGCAATCTTGCCACACGAGCATTCAAAGGAGATCCGCCGCTATCTTTATAACCATCAGAACAAAGATGGAGGTTGGGGACTGCATATAGAAGGGCCAAGTACAATGTTTTGTACAGCTCTCTCCTATGTGAGTCTGAGATTGCTCGGAGAGGAGATGGACGGCGGTGATGGCGCCATGGAGAAGGCAAGAAAATGGATTCTTCACCGTGGAGGAGTTACCACCATCCCATCATGGGGAAAGATGTGGCTCTCAGTAAGCTTCACCACCTAA

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

235

Amino Acids

27.15

Weight (kDa)

8.85

Isoelectric Point (pI)

43.86

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
SQHop_cyclase_N	PF13249	150 - 230	7.9e-19	Squalene-hopene cyclase N-terminal domain

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)

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)	486
AccB1I	GGYRCC	1 cut(s)	608
AciI	CCGC	4 cut(s)	371, 472, 475, 600
AclWI	GGATC	2 cut(s)	165, 463
AcuI	CTGAAG	3 cut(s)	32, 188, 320
AcyI	GRCGYC	1 cut(s)	609
AfaI	GTAC	4 cut(s)	400, 404, 538, 550
AfiI	CCNNNNNNNGG	3 cut(s)	104, 670, 671
AgsI	TTSAA	1 cut(s)	462
AjiI	CACGTC	1 cut(s)	143
AjnI	CCWGG	2 cut(s)	126, 357
AleI	CACNNNNGTG	1 cut(s)	56
AluBI	AGCT	3 cut(s)	241, 554, 696
AluI	AGCT	3 cut(s)	241, 554, 696
Alw26I	GTCTC	2 cut(s)	70, 193
AlwI	GGATC	2 cut(s)	165, 463
AoxI	GGCC	3 cut(s)	355, 429, 530
ApaI	GGGCCC	1 cut(s)	433
AseI	ATTAAT	2 cut(s)	194, 279
AspLEI	GCGC	1 cut(s)	611
AspS9I	GGNCC	4 cut(s)	373, 429, 430, 530
AsuHPI	GGTGA	5 cut(s)	265, 373, 614, 632, 691
AvaII	GGWCC	1 cut(s)	373
BaeGI	GKGCMC	1 cut(s)	433
BaeI	ACNNNNGTAYC	2 cut(s)	390, 423
BanI	GGYRCC	1 cut(s)	608
BanII	GRGCYC	2 cut(s)	127, 433
BauI	CACGAG	1 cut(s)	452
BccI	CCATC	8 cut(s)	29, 340, 497, 498, 586, 599, 668, 673
BceAI	ACGGC	1 cut(s)	613
BciT130I	CCWGG	2 cut(s)	128, 359
BcoDI	GTCTC	2 cut(s)	70, 193
BfoI	RGCGCY	1 cut(s)	612
BisI	GCNGC	1 cut(s)	475
BlsI	GCNGC	1 cut(s)	476
Bme1390I	CCNGG	2 cut(s)	128, 359
Bme18I	GGWCC	1 cut(s)	373
BmgBI	CACGTC	1 cut(s)	143
BmgT120I	GGNCC	4 cut(s)	373, 429, 430, 530
BmiI	GGNNCC	3 cut(s)	430, 431, 610
BmrFI	CCNGG	2 cut(s)	128, 359
BmrI	ACTGGG	1 cut(s)	435
BmsI	GCATC	1 cut(s)	427
BmuI	ACTGGG	1 cut(s)	435
BpuEI	CTTGAG	1 cut(s)	167
BsaAI	YACGTR	1 cut(s)	402
BsaHI	GRCGYC	1 cut(s)	609
BsaJI	CCNNGG	4 cut(s)	126, 341, 612, 643
BsaWI	WCCGGW	1 cut(s)	112
Bsc4I	CCNNNNNNNGG	3 cut(s)	104, 670, 671
Bse118I	RCCGGY	1 cut(s)	390
Bse1I	ACTGG	1 cut(s)	430
BseBI	CCWGG	2 cut(s)	128, 359
BseDI	CCNNGG	4 cut(s)	126, 341, 612, 643
BseGI	GGATG	2 cut(s)	351, 660
BseLI	CCNNNNNNNGG	3 cut(s)	104, 670, 671
BseMII	CTCAG	3 cut(s)	263, 563, 702
BseNI	ACTGG	1 cut(s)	430
BseRI	GAGGAG	3 cut(s)	322, 602, 663
BseSI	GKGCMC	1 cut(s)	433
BshFI	GGCC	3 cut(s)	357, 431, 532
BshNI	GGYRCC	1 cut(s)	608
BsiSI	CCGG	2 cut(s)	113, 391
BsiWI	CGTACG	1 cut(s)	402
BslFI	GGGAC	1 cut(s)	528
BslI	CCNNNNNNNGG	3 cut(s)	104, 670, 671
BsmAI	GTCTC	2 cut(s)	70, 193
BsmFI	GGGAC	1 cut(s)	528
BsmI	GAATGC	1 cut(s)	457
BsnI	GGCC	3 cut(s)	357, 431, 532
Bsp120I	GGGCCC	1 cut(s)	429
Bsp1286I	GDGCHC	2 cut(s)	127, 433
Bsp1407I	TGTACA	1 cut(s)	548
Bsp143I	GATC	4 cut(s)	170, 187, 229, 468
Bsp19I	CCATGG	1 cut(s)	612
BspACI	CCGC	4 cut(s)	371, 472, 475, 600
BspANI	GGCC	3 cut(s)	357, 431, 532
BspCNI	CTCAG	3 cut(s)	262, 564, 701
BspLI	GGNNCC	3 cut(s)	430, 431, 610
BspPI	GGATC	2 cut(s)	165, 463
BspQI	GCTCTTC	1 cut(s)	111
BspT107I	GGYRCC	1 cut(s)	608
BsrFI	RCCGGY	1 cut(s)	390
BsrGI	TGTACA	1 cut(s)	548
BsrI	ACTGG	1 cut(s)	430
BssAI	RCCGGY	1 cut(s)	390
BssECI	CCNNGG	4 cut(s)	126, 341, 612, 643
BssMI	GATC	4 cut(s)	170, 187, 229, 468
BssNI	GRCGYC	1 cut(s)	609
BssSI	CACGAG	1 cut(s)	452
BssT1I	CCWWGG	1 cut(s)	612
Bst2BI	CACGAG	1 cut(s)	452
Bst2UI	CCWGG	2 cut(s)	128, 359
Bst4CI	ACNGT	1 cut(s)	644
Bst6I	CTCTTC	2 cut(s)	111, 339
BstACI	GRCGYC	1 cut(s)	609
BstAUI	TGTACA	1 cut(s)	548
BstBAI	YACGTR	1 cut(s)	402
BstC8I	GCNNGC	1 cut(s)	123
BstDEI	CTNAG	3 cut(s)	249, 572, 688
BstDSI	CCRYGG	2 cut(s)	612, 643
BstF5I	GGATG	2 cut(s)	351, 660
BstH2I	RGCGCY	1 cut(s)	612
BstHHI	GCGC	1 cut(s)	611
BstKTI	GATC	4 cut(s)	173, 190, 232, 471
BstMAI	GTCTC	2 cut(s)	70, 193
BstMBI	GATC	4 cut(s)	170, 187, 229, 468
BstMWI	GCNNNNNNNGC	3 cut(s)	437, 454, 606
BstNI	CCWGG	2 cut(s)	128, 359
BstSCI	CCNGG	2 cut(s)	126, 357
BstSLI	GKGCMC	1 cut(s)	433
BstSNI	TACGTA	1 cut(s)	402
BstX2I	RGATCY	1 cut(s)	468
BstYI	RGATCY	1 cut(s)	468
BsuRI	GGCC	3 cut(s)	357, 431, 532
BtgI	CCRYGG	2 cut(s)	612, 643
BtrI	CACGTC	1 cut(s)	143
BtsCI	GGATG	2 cut(s)	351, 660
Cac8I	GCNNGC	1 cut(s)	123
CfoI	GCGC	1 cut(s)	611
Cfr10I	RCCGGY	1 cut(s)	390
Cfr13I	GGNCC	4 cut(s)	373, 429, 430, 530
Csp6I	GTAC	4 cut(s)	399, 403, 537, 549
CviAII	CATG	3 cut(s)	45, 613, 669
CviQI	GTAC	4 cut(s)	399, 403, 537, 549
DdeI	CTNAG	3 cut(s)	249, 572, 688
DinI	GGCGCC	1 cut(s)	610
DpnI	GATC	4 cut(s)	172, 189, 231, 470
DpnII	GATC	4 cut(s)	170, 187, 229, 468
Eam1104I	CTCTTC	2 cut(s)	111, 339
EarI	CTCTTC	2 cut(s)	111, 339
EciI	GGCGGA	1 cut(s)	461
Eco105I	TACGTA	1 cut(s)	402
Eco130I	CCWWGG	1 cut(s)	612
Eco24I	GRGCYC	2 cut(s)	127, 433
Eco47I	GGWCC	1 cut(s)	373
Eco57I	CTGAAG	3 cut(s)	32, 188, 320
EcoO109I	RGGNCCY	2 cut(s)	429, 430
EcoRII	CCWGG	2 cut(s)	126, 357
EcoT14I	CCWWGG	1 cut(s)	612
EcoT38I	GRGCYC	2 cut(s)	127, 433
EgeI	GGCGCC	1 cut(s)	610
EheI	GGCGCC	1 cut(s)	610
ErhI	CCWWGG	1 cut(s)	612
FaeI	CATG	3 cut(s)	48, 616, 672
FaiI	YATR	8 cut(s)	46, 180, 486, 522, 524, 564, 614, 670
FalI	AAGNNNNNCTT	2 cut(s)	129, 161
FaqI	GGGAC	1 cut(s)	528
FatI	CATG	3 cut(s)	44, 612, 668
Fnu4HI	GCNGC	1 cut(s)	475
FokI	GGATG	2 cut(s)	358, 647
FriOI	GRGCYC	2 cut(s)	127, 433
Fsp4HI	GCNGC	1 cut(s)	475
GlaI	GCGC	1 cut(s)	610
GluI	GCNGC	1 cut(s)	475
HaeII	RGCGCY	1 cut(s)	612
HaeIII	GGCC	3 cut(s)	357, 431, 532
HapII	CCGG	2 cut(s)	113, 391
HhaI	GCGC	1 cut(s)	611
Hin1I	GRCGYC	1 cut(s)	609
Hin1II	CATG	3 cut(s)	48, 616, 672
Hin6I	GCGC	1 cut(s)	609
HinP1I	GCGC	1 cut(s)	609
HindIII	AAGCTT	1 cut(s)	694
HinfI	GANTC	3 cut(s)	331, 568, 634
HpaII	CCGG	2 cut(s)	113, 391
HphI	GGTGA	5 cut(s)	265, 373, 614, 632, 691
Hpy188I	TCNGA	7 cut(s)	22, 107, 175, 187, 495, 573, 584
Hpy188III	TCNNGA	2 cut(s)	73, 146
HpyAV	CCTTC	4 cut(s)	7, 17, 521, 613
HpyCH4III	ACNGT	1 cut(s)	644
HpyCH4IV	ACGT	3 cut(s)	142, 401, 405
HpyCH4V	TGCA	3 cut(s)	212, 440, 520
HpyF10VI	GCNNNNNNNGC	3 cut(s)	437, 454, 606
HpyF3I	CTNAG	3 cut(s)	249, 572, 688
HpySE526I	ACGT	3 cut(s)	142, 401, 405
Hsp92I	GRCGYC	1 cut(s)	609
Hsp92II	CATG	3 cut(s)	48, 616, 672
HspAI	GCGC	1 cut(s)	609
KasI	GGCGCC	1 cut(s)	608
Kzo9I	GATC	4 cut(s)	170, 187, 229, 468
LguI	GCTCTTC	1 cut(s)	111
LmnI	GCTCC	1 cut(s)	238
LpnPI	CCDG	8 cut(s)	113, 126, 140, 236, 344, 371, 404, 411
LweI	GCATC	1 cut(s)	427
MaeII	ACGT	3 cut(s)	142, 401, 405
MaeIII	GTNAC	5 cut(s)	155, 292, 361, 421, 652
MalI	GATC	4 cut(s)	172, 189, 231, 470
MboI	GATC	4 cut(s)	170, 187, 229, 468
MboII	GAAGA	5 cut(s)	128, 296, 326, 376, 629
MflI	RGATCY	1 cut(s)	468
MhlI	GDGCHC	2 cut(s)	127, 433
MluCI	AATT	3 cut(s)	40, 80, 276
Mly113I	GGCGCC	1 cut(s)	609
MlyI	GAGTC	2 cut(s)	325, 577
MnlI	CCTC	7 cut(s)	300, 303, 336, 386, 500, 580, 641
MseI	TTAA	2 cut(s)	194, 279
MslI	CAYNNNNRTG	1 cut(s)	56
MspI	CCGG	2 cut(s)	113, 391
MspR9I	CCNGG	2 cut(s)	128, 359
Mva1269I	GAATGC	1 cut(s)	457
MvaI	CCWGG	2 cut(s)	128, 359
MwoI	GCNNNNNNNGC	3 cut(s)	437, 454, 606
NarI	GGCGCC	1 cut(s)	609
NcoI	CCATGG	1 cut(s)	612
NdeII	GATC	4 cut(s)	170, 187, 229, 468
NlaIII	CATG	3 cut(s)	48, 616, 672
NlaIV	GGNNCC	3 cut(s)	430, 431, 610
NmeAIII	GCCGAG	1 cut(s)	366
NmuCI	GTSAC	1 cut(s)	361
OliI	CACNNNNGTG	1 cut(s)	56
PciSI	GCTCTTC	1 cut(s)	111
PcsI	WCGNNNNNNNCGW	1 cut(s)	160
PctI	GAATGC	1 cut(s)	457
PfeI	GAWTC	1 cut(s)	634
Pfl23II	CGTACG	1 cut(s)	402
PkrI	GCNGC	1 cut(s)	476
PleI	GAGTC	2 cut(s)	325, 576
PluTI	GGCGCC	1 cut(s)	612
PpsI	GAGTC	2 cut(s)	325, 576
Ppu21I	YACGTR	1 cut(s)	402
PshBI	ATTAAT	2 cut(s)	194, 279
PsiI	TTATAA	1 cut(s)	486
Psp6I	CCWGG	2 cut(s)	126, 357
PspGI	CCWGG	2 cut(s)	126, 357
PspLI	CGTACG	1 cut(s)	402
PspN4I	GGNNCC	3 cut(s)	430, 431, 610
PspOMI	GGGCCC	1 cut(s)	429
PspPI	GGNCC	4 cut(s)	373, 429, 430, 530
PsuI	RGATCY	1 cut(s)	468
RsaI	GTAC	4 cut(s)	400, 404, 538, 550
RsaNI	GTAC	4 cut(s)	399, 403, 537, 549
RseI	CAYNNNNRTG	1 cut(s)	56
SapI	GCTCTTC	1 cut(s)	111
SaqAI	TTAA	2 cut(s)	194, 279
SatI	GCNGC	1 cut(s)	475
Sau3AI	GATC	4 cut(s)	170, 187, 229, 468
Sau96I	GGNCC	4 cut(s)	373, 429, 430, 530
SchI	GAGTC	2 cut(s)	325, 577
ScrFI	CCNGG	2 cut(s)	128, 359
SduI	GDGCHC	2 cut(s)	127, 433
SfaNI	GCATC	1 cut(s)	427
SfoI	GGCGCC	1 cut(s)	610
SinI	GGWCC	1 cut(s)	373
SmiMI	CAYNNNNRTG	1 cut(s)	56
SmlI	CTYRAG	1 cut(s)	146
SmoI	CTYRAG	1 cut(s)	146
SnaBI	TACGTA	1 cut(s)	402
Sse9I	AATT	3 cut(s)	40, 80, 276
SsiI	CCGC	4 cut(s)	371, 472, 475, 600
SspDI	GGCGCC	1 cut(s)	608
StyD4I	CCNGG	2 cut(s)	126, 357
StyI	CCWWGG	1 cut(s)	612
TaaI	ACNGT	1 cut(s)	644
TaiI	ACGT	3 cut(s)	145, 404, 408
TaqI	TCGA	4 cut(s)	93, 169, 232, 329
TasI	AATT	3 cut(s)	40, 80, 276
TatI	WGTACW	2 cut(s)	536, 548
TauI	GCSGC	1 cut(s)	477
TfiI	GAWTC	1 cut(s)	634
Tru1I	TTAA	2 cut(s)	194, 279
Tru9I	TTAA	2 cut(s)	194, 279
TseFI	GTSAC	1 cut(s)	361
Tsp45I	GTSAC	1 cut(s)	361
TspDTI	ATGAA	2 cut(s)	33, 297
VpaK11BI	GGWCC	1 cut(s)	373
VspI	ATTAAT	2 cut(s)	194, 279

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