Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000003

Orthogroup ID

OG0000689

Physical Location & Seq

Genomic Coordinates Forward (+)

9176142 .. 9180699

Gene Structure 4558 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_3G00225850.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 690 bp

ATGCCTTTAGGATACAATGAAGCCCAGTACAATGCTGTTGTTGATCGGCGTCTTGCACTTACGAAGATCAACCTAAACACTCATAAGAAGGTTTTACAAGATGGCTCAAGGTACGTACACCCTGGACACGGGAAGAAAGAGACTGAACATTTCATCACCAATGCTATACACTACCTTGGAAATATACAAATGCTGGATGGTTCATGGTATGGAAACTGGGGAGTTTGCTTCACATATGGTACCTGGTTTGCAGTAGGAGGATTGGCAGCAGCCGGCAAGACTTTCAGCACTTGTGTAGCCATGCCCAAAGCGGTTAGTTTTCTCCTCACAACGCAAAGAGAGAATGGTGGTTGGGGAGAGAGCTATCTTTCATGTCCGCGAAAGATATACATTCCTCTCAAAGGAAATCGATCCAATTTAGTACATACTGCTTGGGCTATGATGGGTCTCATTCATGCGGGACACGCAGAAATAGACCCAACACCTCTTCATCGTGCAGTAAAGTTTATAATTAATTCTCAACTGGAAAATGGTGATTTTCCCCAGCAGGAAATCACTGGAGTCTTCATGAAGAACTGCATGCTACATTATGCAGATTATAGAAATATATACCCACTCTGGGCTCTTGCAGAATACCGCAACCGGGTTCCATTGCCTTCCAAGGCCAGAATTGTTCACCCTATTATGTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003824 GO:0006629 GO:0006720 GO:0006721 GO:0006722 GO:0008150 GO:0008152 GO:0008299 GO:0008610 GO:0009058 GO:0009987 GO:0016104 GO:0016114 GO:0016853 GO:0016866 GO:0019742 GO:0019745 GO:0031559 GO:0042300 GO:0044237 GO:0044238 GO:0044249 GO:0044255 GO:0071704 GO:1901360 GO:1901362 GO:1901576

KEGG Pathways

Metabolic & Signaling

ko00909 ko01110 map00909 map01110

Pfam Domains

Protein Families

SQHop_cyclase_C SQHop_cyclase_N

Protein Analysis

229

Amino Acids

25.85

Weight (kDa)

9.33

Isoelectric Point (pI)

31.3

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
SQHop_cyclase_C	PF13243	43 - 214	7e-37	Squalene-hopene cyclase C-terminal domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0000689)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_2g08040
malus_domestica	MD09G1245800.v1.1 MD11G1098500.v1.1 MD16G1237300.v1.1
pyrus_communis	pycom03g07090 pycom03g07100 pycom09g08560 pycom13g20460 pycom16g19890
rosa_chinensis	RchiOBHm_Chr2g0118961 RchiOBHm_Chr2g0148671 RchiOBHm_Chr2g0150531 RchiOBHm_Chr2g0171301 RchiOBHm_Chr3g0455021 RchiOBHm_Chr6g0249451
rosa_laevigata	RLG00000001225 RLG00000001972 RLG00000008936 RLG00000009011 RLG00000009032 RLG00000015372 RLG00000019992 RLG00000020680 RLG00000026543
rosa_multiflora	Rmu_co8272705.1_g000001 Rmu_co8286409.1_g000001 Rmu_sc0000048.1_g000034 Rmu_sc0000824.1_g000002 Rmu_sc0001839.1_g000023 Rmu_sc0002070.1_g000050 Rmu_sc0002349.1_g000005 Rmu_sc0002453.1_g000019 Rmu_sc0006431.1_g000026 Rmu_sc0006758.1_g000001 Rmu_sc0006758.1_g000013 Rmu_sc0006997.1_g000015 Rmu_sc0008411.1_g000007 Rmu_sc0008411.1_g000019 Rmu_sc0008411.1_g000028 Rmu_sc0008678.1_g000001
rosa_roxburghii	Rroxscaffold_3G00225850 Rroxscaffold_3G00225860 Rroxscaffold_3G00233460 Rroxscaffold_3G00234260 Rroxscaffold_3G00236880 Rroxscaffold_3G00236890 Rroxscaffold_4G00294300 Rroxscaffold_4G00297380 Rroxscaffold_4G00324650 Rroxscaffold_5G00352840 Rroxscaffold_5G00354640 Rroxscaffold_5G00361500 Rroxscaffold_7G00156410 Rroxscaffold_7G00156420 Rroxscaffold_7G00198110 Rroxscaffold_7G00198120
rosa_samantha	Rh1CG014400 Rh1DG009900 Rh2AG465900 Rh2BG342900 Rh2CG452400 Rh2DG488000 Rh3DG303300 Rh4AG118000 Rh4DG159500 Rh5AG246100 Rh6AG232100 Rh6BG178700 Rh6DG174100 Rh7BG231200 Rh7DG380300
rosa_wichuraiana	Rw2G027640 Rw2G038070 Rw6G005920 Rw7G034430

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	509
Acc65I	GGTACC	1 cut(s)	239
AccB1I	GGYRCC	1 cut(s)	239
AccII	CGCG	1 cut(s)	379
AciI	CCGC	4 cut(s)	311, 377, 458, 637
AclWI	GGATC	1 cut(s)	405
AcyI	GRCGYC	1 cut(s)	49
AfaI	GTAC	5 cut(s)	29, 113, 117, 241, 423
AfiI	CCNNNNNNNGG	4 cut(s)	128, 401, 619, 643
AjnI	CCWGG	2 cut(s)	121, 242
AluBI	AGCT	1 cut(s)	363
AluI	AGCT	1 cut(s)	363
Alw26I	GTCTC	2 cut(s)	134, 452
AlwI	GGATC	1 cut(s)	405
AoxI	GGCC	1 cut(s)	663
ApeKI	GCWGC	2 cut(s)	266, 269
AseI	ATTAAT	1 cut(s)	513
Asp718I	GGTACC	1 cut(s)	239
AsuC2I	CCSGG	1 cut(s)	644
AsuHPI	GGTGA	3 cut(s)	148, 545, 668
BanI	GGYRCC	1 cut(s)	239
BanII	GRGCYC	1 cut(s)	625
BbsI	GAAGAC	1 cut(s)	556
BbvI	GCAGC	2 cut(s)	278, 281
BccI	CCATC	3 cut(s)	95, 191, 436
BciT130I	CCWGG	2 cut(s)	123, 244
BciVI	GTATCC	1 cut(s)	5
BcnI	CCSGG	1 cut(s)	644
BcoDI	GTCTC	2 cut(s)	134, 452
BfuI	GTATCC	1 cut(s)	5
BisI	GCNGC	2 cut(s)	267, 270
BlsI	GCNGC	2 cut(s)	268, 271
Bme1390I	CCNGG	3 cut(s)	123, 244, 644
BmiI	GGNNCC	2 cut(s)	241, 648
BmrFI	CCNGG	3 cut(s)	123, 244, 644
BmrI	ACTGGG	2 cut(s)	19, 226
BmuI	ACTGGG	2 cut(s)	19, 226
BpiI	GAAGAC	1 cut(s)	556
BpmI	CTGGAG	1 cut(s)	579
BpuEI	CTTGAG	1 cut(s)	91
BpuMI	CCSGG	1 cut(s)	644
Bsa29I	ATCGAT	1 cut(s)	409
BsaAI	YACGTR	1 cut(s)	115
BsaHI	GRCGYC	1 cut(s)	49
BsaI	GGTCTC	1 cut(s)	452
BsaJI	CCNNGG	3 cut(s)	121, 175, 660
Bsc4I	CCNNNNNNNGG	4 cut(s)	128, 401, 619, 643
Bse118I	RCCGGY	1 cut(s)	272
Bse1I	ACTGG	4 cut(s)	25, 221, 528, 562
Bse3DI	GCAATG	1 cut(s)	650
BseBI	CCWGG	2 cut(s)	123, 244
BseCI	ATCGAT	1 cut(s)	409
BseDI	CCNNGG	3 cut(s)	121, 175, 660
BseGI	GGATG	1 cut(s)	202
BseLI	CCNNNNNNNGG	4 cut(s)	128, 401, 619, 643
BseMI	GCAATG	1 cut(s)	650
BseNI	ACTGG	4 cut(s)	25, 221, 528, 562
BseRI	GAGGAG	1 cut(s)	314
BseXI	GCAGC	2 cut(s)	278, 281
BseYI	CCCAGC	1 cut(s)	543
BsgI	GTGCAG	1 cut(s)	516
Bsh1236I	CGCG	1 cut(s)	379
BshFI	GGCC	1 cut(s)	665
BshNI	GGYRCC	1 cut(s)	239
BshVI	ATCGAT	1 cut(s)	409
BsiSI	CCGG	2 cut(s)	273, 643
BslFI	GGGAC	1 cut(s)	474
BslI	CCNNNNNNNGG	4 cut(s)	128, 401, 619, 643
BsmAI	GTCTC	2 cut(s)	134, 452
BsmFI	GGGAC	1 cut(s)	474
BsnI	GGCC	1 cut(s)	665
Bso31I	GGTCTC	1 cut(s)	452
Bsp1286I	GDGCHC	1 cut(s)	625
Bsp143I	GATC	3 cut(s)	43, 66, 410
BspACI	CCGC	4 cut(s)	311, 377, 458, 637
BspANI	GGCC	1 cut(s)	665
BspDI	ATCGAT	1 cut(s)	409
BspFNI	CGCG	1 cut(s)	379
BspHI	TCATGA	1 cut(s)	567
BspLI	GGNNCC	2 cut(s)	241, 648
BspPI	GGATC	1 cut(s)	405
BspT107I	GGYRCC	1 cut(s)	239
BspTNI	GGTCTC	1 cut(s)	452
BsrDI	GCAATG	1 cut(s)	650
BsrFI	RCCGGY	1 cut(s)	272
BsrI	ACTGG	4 cut(s)	25, 221, 528, 562
BssAI	RCCGGY	1 cut(s)	272
BssECI	CCNNGG	3 cut(s)	121, 175, 660
BssMI	GATC	3 cut(s)	43, 66, 410
BssNI	GRCGYC	1 cut(s)	49
BssT1I	CCWWGG	2 cut(s)	175, 660
Bst2UI	CCWGG	2 cut(s)	123, 244
Bst6I	CTCTTC	1 cut(s)	492
BstACI	GRCGYC	1 cut(s)	49
BstBAI	YACGTR	1 cut(s)	115
BstC8I	GCNNGC	2 cut(s)	274, 581
BstENI	CCTNNNNNAGG	1 cut(s)	399
BstF5I	GGATG	1 cut(s)	202
BstFNI	CGCG	1 cut(s)	379
BstKTI	GATC	3 cut(s)	46, 69, 413
BstMAI	GTCTC	2 cut(s)	134, 452
BstMBI	GATC	3 cut(s)	43, 66, 410
BstMWI	GCNNNNNNNGC	1 cut(s)	464
BstNI	CCWGG	2 cut(s)	123, 244
BstNSI	RCATGY	1 cut(s)	583
BstSCI	CCNGG	3 cut(s)	121, 242, 642
BstSNI	TACGTA	1 cut(s)	115
BstUI	CGCG	1 cut(s)	379
BstV1I	GCAGC	2 cut(s)	278, 281
BstV2I	GAAGAC	1 cut(s)	556
Bsu15I	ATCGAT	1 cut(s)	409
BsuI	GTATCC	1 cut(s)	5
BsuRI	GGCC	1 cut(s)	665
BsuTUI	ATCGAT	1 cut(s)	409
BtsCI	GGATG	1 cut(s)	202
BtsIMutI	CAGTG	1 cut(s)	555
Cac8I	GCNNGC	2 cut(s)	274, 581
CciI	TCATGA	1 cut(s)	567
Cfr10I	RCCGGY	1 cut(s)	272
ClaI	ATCGAT	1 cut(s)	409
CseI	GACGC	1 cut(s)	38
CsiI	ACCWGGT	1 cut(s)	242
Csp6I	GTAC	5 cut(s)	28, 112, 116, 240, 422
CviAII	CATG	6 cut(s)	204, 301, 372, 455, 568, 580
CviJI	RGCY	8 cut(s)	23, 105, 272, 299, 363, 437, 623, 665
CviKI_1	RGCY	8 cut(s)	23, 105, 272, 299, 363, 437, 623, 665
CviQI	GTAC	5 cut(s)	28, 112, 116, 240, 422
DpnI	GATC	3 cut(s)	45, 68, 412
DpnII	GATC	3 cut(s)	43, 66, 410
Eam1104I	CTCTTC	1 cut(s)	492
EarI	CTCTTC	1 cut(s)	492
Eco105I	TACGTA	1 cut(s)	115
Eco130I	CCWWGG	2 cut(s)	175, 660
Eco24I	GRGCYC	1 cut(s)	625
Eco31I	GGTCTC	1 cut(s)	452
EcoNI	CCTNNNNNAGG	1 cut(s)	399
EcoRII	CCWGG	2 cut(s)	121, 242
EcoT14I	CCWWGG	2 cut(s)	175, 660
EcoT38I	GRGCYC	1 cut(s)	625
ErhI	CCWWGG	2 cut(s)	175, 660
FaeI	CATG	6 cut(s)	207, 304, 375, 458, 571, 583
FaqI	GGGAC	1 cut(s)	474
FatI	CATG	6 cut(s)	203, 300, 371, 454, 567, 579
FauI	CCCGC	1 cut(s)	451
FauNDI	CATATG	1 cut(s)	235
Fnu4HI	GCNGC	2 cut(s)	267, 270
FokI	GGATG	1 cut(s)	209
FriOI	GRGCYC	1 cut(s)	625
Fsp4HI	GCNGC	2 cut(s)	267, 270
GluI	GCNGC	2 cut(s)	267, 270
GsaI	CCCAGC	1 cut(s)	547
GsuI	CTGGAG	1 cut(s)	579
HaeIII	GGCC	1 cut(s)	665
HapII	CCGG	2 cut(s)	273, 643
HgaI	GACGC	1 cut(s)	38
Hin1I	GRCGYC	1 cut(s)	49
Hin1II	CATG	6 cut(s)	207, 304, 375, 458, 571, 583
HinfI	GANTC	1 cut(s)	561
HpaII	CCGG	2 cut(s)	273, 643
HphI	GGTGA	3 cut(s)	148, 545, 668
Hpy166II	GTNNAC	2 cut(s)	118, 676
Hpy188III	TCNNGA	1 cut(s)	568
Hpy8I	GTNNAC	2 cut(s)	118, 676
HpyAV	CCTTC	2 cut(s)	82, 666
HpyCH4IV	ACGT	1 cut(s)	114
HpyCH4V	TGCA	6 cut(s)	56, 251, 497, 579, 593, 629
HpyF10VI	GCNNNNNNNGC	1 cut(s)	464
HpySE526I	ACGT	1 cut(s)	114
Hsp92I	GRCGYC	1 cut(s)	49
Hsp92II	CATG	6 cut(s)	207, 304, 375, 458, 571, 583
KpnI	GGTACC	1 cut(s)	243
KroI	GCCGGC	1 cut(s)	272
KroNI	GCCGGC	1 cut(s)	274
Kzo9I	GATC	3 cut(s)	43, 66, 410
Lsp1109I	GCAGC	2 cut(s)	278, 281
MabI	ACCWGGT	1 cut(s)	242
MaeII	ACGT	1 cut(s)	114
MalI	GATC	3 cut(s)	45, 68, 412
MboI	GATC	3 cut(s)	43, 66, 410
MboII	GAAGA	5 cut(s)	76, 145, 479, 556, 583
MhlI	GDGCHC	1 cut(s)	625
MluCI	AATT	4 cut(s)	415, 510, 514, 669
MlyI	GAGTC	1 cut(s)	570
MnlI	CCTC	4 cut(s)	251, 335, 405, 495
MroNI	GCCGGC	1 cut(s)	272
MseI	TTAA	1 cut(s)	513
MspI	CCGG	2 cut(s)	273, 643
MspR9I	CCNGG	3 cut(s)	123, 244, 644
MvaI	CCWGG	2 cut(s)	123, 244
MvnI	CGCG	1 cut(s)	379
MwoI	GCNNNNNNNGC	1 cut(s)	464
NaeI	GCCGGC	1 cut(s)	274
NciI	CCSGG	1 cut(s)	644
NdeI	CATATG	1 cut(s)	235
NdeII	GATC	3 cut(s)	43, 66, 410
NgoMIV	GCCGGC	1 cut(s)	272
NlaIII	CATG	6 cut(s)	207, 304, 375, 458, 571, 583
NlaIV	GGNNCC	2 cut(s)	241, 648
NspI	RCATGY	1 cut(s)	583
PaeI	GCATGC	1 cut(s)	583
PagI	TCATGA	1 cut(s)	567
PdiI	GCCGGC	1 cut(s)	274
PkrI	GCNGC	2 cut(s)	268, 271
PleI	GAGTC	1 cut(s)	569
PpsI	GAGTC	1 cut(s)	569
Ppu21I	YACGTR	1 cut(s)	115
PshBI	ATTAAT	1 cut(s)	513
PsiI	TTATAA	1 cut(s)	509
Psp6I	CCWGG	2 cut(s)	121, 242
PspFI	CCCAGC	1 cut(s)	543
PspGI	CCWGG	2 cut(s)	121, 242
PspN4I	GGNNCC	2 cut(s)	241, 648
RsaI	GTAC	5 cut(s)	29, 113, 117, 241, 423
RsaNI	GTAC	5 cut(s)	28, 112, 116, 240, 422
SaqAI	TTAA	1 cut(s)	513
SatI	GCNGC	2 cut(s)	267, 270
Sau3AI	GATC	3 cut(s)	43, 66, 410
SchI	GAGTC	1 cut(s)	570
ScrFI	CCNGG	3 cut(s)	123, 244, 644
SduI	GDGCHC	1 cut(s)	625
SetI	ASST	8 cut(s)	75, 93, 113, 117, 177, 245, 365, 487
SexAI	ACCWGGT	1 cut(s)	242
SmlI	CTYRAG	1 cut(s)	106
SmoI	CTYRAG	1 cut(s)	106
SnaBI	TACGTA	1 cut(s)	115
SphI	GCATGC	1 cut(s)	583
Sse9I	AATT	4 cut(s)	415, 510, 514, 669
SsiI	CCGC	4 cut(s)	311, 377, 458, 637
StyD4I	CCNGG	3 cut(s)	121, 242, 642
StyI	CCWWGG	2 cut(s)	175, 660
TaiI	ACGT	1 cut(s)	117
TaqI	TCGA	1 cut(s)	409
TasI	AATT	4 cut(s)	415, 510, 514, 669
TatI	WGTACW	2 cut(s)	27, 421
Tru1I	TTAA	1 cut(s)	513
Tru9I	TTAA	1 cut(s)	513
TscAI	CASTG	1 cut(s)	562
TseI	GCWGC	2 cut(s)	266, 269
TspDTI	ATGAA	8 cut(s)	33, 142, 192, 360, 443, 479, 556, 584
TspRI	CASTG	1 cut(s)	562
VspI	ATTAAT	1 cut(s)	513
XagI	CCTNNNNNAGG	1 cut(s)	399
XceI	RCATGY	1 cut(s)	583

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