Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000001

Orthogroup ID

OG0013119

Physical Location & Seq

Genomic Coordinates Reverse (-)

8906835 .. 8910874

Gene Structure 4040 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug01G0054100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 867 bp

ATGCTAGAGCTTGCTGAGGTTGAAGCGGCTCGTCTTCATTTCTACAACAACCGCTATCAGGTTAAGCCCAGTGGCGACCTTCTTTGGCGGATGCAGTTCCTGAGAGAGAAAAAGTTCATTCAGACAATTCCTCCGGTAAAAGTTGAAGATGGCGAGGTTATAACCTATGAAAAAATCACAGATGCACTGAGAAGGTCTGTCCACTTCTTCTCAGCATTGCAGGCAAGCGATGGCCATTGGCCTGCAGAAAATGCTGGCCCTTTGTTTTTCCTTCCTCCTTTGGTCATATGTATGTATATTACGGGACATCTTAACAGTGTATTCCCCGAGGAGCATCGGAAAGAAATTCTGCGTTACCTATACTATCATCAGAATGACGATGGTGGCTGGGGACTACACATCGAAGGTCACAGCACCATGTTCAGCACAGCTCTCAGCTATATTTGTATGCGTATTCTCGAAGAAGGACCTGATGATGGGGGCCAAGACAATGCTTGTCCAAGAGCTAGAAAGTGGATTCTTGATCATGATGGTGTCACACACATGCCCTCTTGGGGAAAGACTTGGCTTTCGATACTTGGTTTGTTTGATTGGTCTGGAAGCAACCCTATGCCCCCAGAGTTTTGGATTCTTCCTTCATTTCTTCCTATGCATCCAGATACTTTTCACGAACAGAAAAGCAAACGTGAAAGAAGAAAAGAAAACAAAGCTTTGACTATGGAATTGTTGGCTGTGGCATATTCGTCCCTTGTAGCCAAAATGGAGGAGATTATATATAGGTTGGTCATGCTGGAATTTTCAGCCACACAGAAGTATTCTCTTGCATCTAATTCAACTTACAATGTGGAAGAGGCTGGTGATCTGTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0002682 GO:0002683 GO:0003674 GO:0003824 GO:0004791 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0006950 GO:0006979 GO:0006996 GO:0008150 GO:0008152 GO:0008219 GO:0009295 GO:0009507 GO:0009536 GO:0009579 GO:0009636 GO:0009657 GO:0009987 GO:0010363 GO:0010941 GO:0015035 GO:0015036 GO:0016043 GO:0016209 GO:0016491 GO:0016651 GO:0016667 GO:0016668 GO:0016671 GO:0019725 GO:0031347 GO:0031348 GO:0033554 GO:0034051 GO:0034599 GO:0042221 GO:0042592 GO:0043067 GO:0043069 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044444 GO:0044464 GO:0045088 GO:0045454 GO:0045824 GO:0047134 GO:0048519 GO:0048523 GO:0048583 GO:0048585 GO:0050776 GO:0050777 GO:0050789 GO:0050794 GO:0050896 GO:0051716 GO:0055114 GO:0060548 GO:0065007 GO:0065008 GO:0070887 GO:0071840 GO:0080134 GO:0080135 GO:0097237 GO:0098754 GO:0098869 GO:1990748

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Thioredoxin

Protein Analysis

288

Amino Acids

33.29

Weight (kDa)

5.74

Isoelectric Point (pI)

52.23

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
SQHop_cyclase_N	PF13249	64 - 222	3.3e-24	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

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Orthologous Genes (Group: OG0013119)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G06730
fragaria_vesca	FvH4_7g03410
malus_domestica	MD02G1283300.v1.1 MD05G1114000.v1.1 MD07G1048800.v1.1
prunus_persica	Prupe.2G039200_v2.0.a1
pyrus_communis	pycom02g24140 pycom07g03540
rosa_chinensis	RchiOBHm_Chr1g0325731
rosa_laevigata	RLG00000030110
rosa_multiflora	Rmu_sc0000703.1_g000005
rosa_roxburghii	Rroxscaffold_4G00324440
rosa_rugosa	Rorug01G0054000 Rorug01G0054100
rosa_samantha	Rh1BG057000 Rh1CG070200 Rh1DG074800
rosa_wichuraiana	Rw1G005760

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	161
AciI	CCGC	3 cut(s)	26, 52, 88
AcoI	YGGCCR	1 cut(s)	232
AcsI	RAATTY	2 cut(s)	345, 794
AfiI	CCNNNNNNNGG	3 cut(s)	58, 476, 554
AgsI	TTSAA	3 cut(s)	23, 146, 834
AluBI	AGCT	5 cut(s)	10, 431, 438, 506, 710
AluI	AGCT	5 cut(s)	10, 431, 438, 506, 710
AlwNI	CAGNNNCTG	1 cut(s)	100
Ama87I	CYCGRG	1 cut(s)	326
AoxI	GGCC	4 cut(s)	232, 239, 256, 481
ApoI	RAATTY	2 cut(s)	345, 794
ArsI	GACNNNNNNTTYG	2 cut(s)	553, 585
Asp700I	GAANNNNTTC	1 cut(s)	113
AspS9I	GGNCC	3 cut(s)	257, 467, 481
AvaI	CYCGRG	1 cut(s)	326
AvaII	GGWCC	1 cut(s)	467
BalI	TGGCCA	1 cut(s)	234
BbsI	GAAGAC	1 cut(s)	26
BbvCI	CCTCAGC	1 cut(s)	15
BccI	CCATC	5 cut(s)	143, 224, 374, 470, 524
BclI	TGATCA	1 cut(s)	523
BfaI	CTAG	2 cut(s)	5, 507
BfmI	CTRYAG	1 cut(s)	243
BisI	GCNGC	1 cut(s)	27
BlsI	GCNGC	1 cut(s)	28
Bme18I	GGWCC	1 cut(s)	467
BmeT110I	CYCGRG	1 cut(s)	326
BmgT120I	GGNCC	3 cut(s)	257, 467, 481
BmiI	GGNNCC	1 cut(s)	482
BmrI	ACTGGG	1 cut(s)	63
BmsI	GCATC	5 cut(s)	81, 172, 343, 661, 833
BmuI	ACTGGG	1 cut(s)	63
BpiI	GAAGAC	1 cut(s)	26
Bpu10I	CCTNAGC	1 cut(s)	15
BsaJI	CCNNGG	1 cut(s)	327
BsaWI	WCCGGW	1 cut(s)	133
BsaXI	ACNNNNNCTCC	2 cut(s)	115, 145
Bsc4I	CCNNNNNNNGG	3 cut(s)	58, 476, 554
Bse1I	ACTGG	1 cut(s)	69
Bse3DI	GCAATG	1 cut(s)	215
BseDI	CCNNGG	1 cut(s)	327
BseGI	GGATG	2 cut(s)	96, 652
BseLI	CCNNNNNNNGG	3 cut(s)	58, 476, 554
BseMI	GCAATG	1 cut(s)	215
BseMII	CTCAG	5 cut(s)	6, 92, 179, 225, 448
BseNI	ACTGG	1 cut(s)	69
BseRI	GAGGAG	2 cut(s)	344, 779
BseYI	CCCAGC	1 cut(s)	387
BshFI	GGCC	4 cut(s)	234, 241, 258, 483
BsiHKCI	CYCGRG	1 cut(s)	326
BsiSI	CCGG	1 cut(s)	134
BslFI	GGGAC	3 cut(s)	318, 405, 730
BslI	CCNNNNNNNGG	3 cut(s)	58, 476, 554
BsmFI	GGGAC	3 cut(s)	318, 405, 730
BsnI	GGCC	4 cut(s)	234, 241, 258, 483
BsoBI	CYCGRG	1 cut(s)	326
Bsp143I	GATC	2 cut(s)	523, 859
BspACI	CCGC	3 cut(s)	26, 52, 88
BspANI	GGCC	4 cut(s)	234, 241, 258, 483
BspCNI	CTCAG	5 cut(s)	7, 93, 180, 224, 447
BspHI	TCATGA	1 cut(s)	526
BspLI	GGNNCC	1 cut(s)	482
BspMAI	CTGCAG	1 cut(s)	247
BsrDI	GCAATG	1 cut(s)	215
BsrI	ACTGG	1 cut(s)	69
BssECI	CCNNGG	1 cut(s)	327
BssMI	GATC	2 cut(s)	523, 859
Bst4CI	ACNGT	1 cut(s)	317
Bst6I	CTCTTC	1 cut(s)	843
BstAPI	GCANNNNNTGC	1 cut(s)	251
BstC8I	GCNNGC	5 cut(s)	12, 222, 226, 243, 256
BstDEI	CTNAG	5 cut(s)	15, 101, 188, 211, 434
BstF5I	GGATG	2 cut(s)	96, 652
BstKTI	GATC	2 cut(s)	526, 862
BstMBI	GATC	2 cut(s)	523, 859
BstMWI	GCNNNNNNNGC	2 cut(s)	221, 251
BstNSI	RCATGY	1 cut(s)	547
BstSFI	CTRYAG	1 cut(s)	243
BstV2I	GAAGAC	1 cut(s)	26
BstXI	CCANNNNNNTGG	1 cut(s)	624
BsuRI	GGCC	4 cut(s)	234, 241, 258, 483
BtgZI	GCGATG	1 cut(s)	243
BtsCI	GGATG	2 cut(s)	96, 652
BtsIMutI	CAGTG	3 cut(s)	76, 185, 322
Cac8I	GCNNGC	5 cut(s)	12, 222, 226, 243, 256
CaiI	CAGNNNCTG	1 cut(s)	100
CciI	TCATGA	1 cut(s)	526
Cfr13I	GGNCC	3 cut(s)	257, 467, 481
CviAII	CATG	4 cut(s)	418, 527, 544, 787
DdeI	CTNAG	5 cut(s)	15, 101, 188, 211, 434
DpnI	GATC	2 cut(s)	525, 861
DpnII	GATC	2 cut(s)	523, 859
EaeI	YGGCCR	1 cut(s)	232
Eam1104I	CTCTTC	1 cut(s)	843
EarI	CTCTTC	1 cut(s)	843
EciI	GGCGGA	1 cut(s)	103
Eco47I	GGWCC	1 cut(s)	467
Eco88I	CYCGRG	1 cut(s)	326
EcoO109I	RGGNCCY	1 cut(s)	467
EcoT22I	ATGCAT	1 cut(s)	654
FaeI	CATG	4 cut(s)	421, 530, 547, 790
FaqI	GGGAC	3 cut(s)	318, 405, 730
FatI	CATG	4 cut(s)	417, 526, 543, 786
FauNDI	CATATG	1 cut(s)	287
FbaI	TGATCA	1 cut(s)	523
Fnu4HI	GCNGC	1 cut(s)	27
FokI	GGATG	2 cut(s)	103, 639
Fsp4HI	GCNGC	1 cut(s)	27
FspBI	CTAG	2 cut(s)	5, 507
GluI	GCNGC	1 cut(s)	27
GsaI	CCCAGC	1 cut(s)	391
HaeIII	GGCC	4 cut(s)	234, 241, 258, 483
HapII	CCGG	1 cut(s)	134
Hin1II	CATG	4 cut(s)	421, 530, 547, 790
HindIII	AAGCTT	1 cut(s)	708
HinfI	GANTC	2 cut(s)	517, 628
HpaII	CCGG	1 cut(s)	134
Hpy166II	GTNNAC	1 cut(s)	202
Hpy188I	TCNGA	3 cut(s)	123, 339, 372
Hpy188III	TCNNGA	7 cut(s)	100, 458, 521, 527, 597, 656, 668
Hpy8I	GTNNAC	1 cut(s)	202
HpyAV	CCTTC	6 cut(s)	89, 186, 281, 398, 458, 645
HpyCH4III	ACNGT	1 cut(s)	317
HpyCH4IV	ACGT	1 cut(s)	685
HpyCH4V	TGCA	6 cut(s)	94, 185, 220, 245, 652, 824
HpyF10VI	GCNNNNNNNGC	2 cut(s)	221, 251
HpyF3I	CTNAG	5 cut(s)	15, 101, 188, 211, 434
HpySE526I	ACGT	1 cut(s)	685
Hsp92II	CATG	4 cut(s)	421, 530, 547, 790
Ksp22I	TGATCA	1 cut(s)	523
Kzo9I	GATC	2 cut(s)	523, 859
LmnI	GCTCC	1 cut(s)	331
LweI	GCATC	5 cut(s)	81, 172, 343, 661, 833
MaeI	CTAG	2 cut(s)	5, 507
MaeII	ACGT	1 cut(s)	685
MaeIII	GTNAC	3 cut(s)	353, 407, 535
MalI	GATC	2 cut(s)	525, 861
MboI	GATC	2 cut(s)	523, 859
MboII	GAAGA	8 cut(s)	26, 158, 199, 473, 623, 635, 705, 860
MlsI	TGGCCA	1 cut(s)	234
MluCI	AATT	5 cut(s)	126, 345, 722, 794, 829
MluNI	TGGCCA	1 cut(s)	234
MnlI	CCTC	8 cut(s)	10, 141, 148, 285, 322, 559, 757, 844
Mox20I	TGGCCA	1 cut(s)	234
Mph1103I	ATGCAT	1 cut(s)	654
MroXI	GAANNNNTTC	1 cut(s)	113
MscI	TGGCCA	1 cut(s)	234
MseI	TTAA	2 cut(s)	63, 312
MslI	CAYNNNNRTG	4 cut(s)	290, 372, 531, 542
Msp20I	TGGCCA	1 cut(s)	234
MspI	CCGG	1 cut(s)	134
MwoI	GCNNNNNNNGC	2 cut(s)	221, 251
NdeI	CATATG	1 cut(s)	287
NdeII	GATC	2 cut(s)	523, 859
NlaIII	CATG	4 cut(s)	421, 530, 547, 790
NlaIV	GGNNCC	1 cut(s)	482
NmuCI	GTSAC	2 cut(s)	407, 535
NsiI	ATGCAT	1 cut(s)	654
NspI	RCATGY	1 cut(s)	547
PagI	TCATGA	1 cut(s)	526
PdmI	GAANNNNTTC	1 cut(s)	113
PfeI	GAWTC	2 cut(s)	517, 628
PkrI	GCNGC	1 cut(s)	28
PpuMI	RGGWCCY	1 cut(s)	467
PsiI	TTATAA	1 cut(s)	161
Psp5II	RGGWCCY	1 cut(s)	467
PspFI	CCCAGC	1 cut(s)	387
PspN4I	GGNNCC	1 cut(s)	482
PspPI	GGNCC	3 cut(s)	257, 467, 481
PspPPI	RGGWCCY	1 cut(s)	467
PstI	CTGCAG	1 cut(s)	247
PstNI	CAGNNNCTG	1 cut(s)	100
RseI	CAYNNNNRTG	4 cut(s)	290, 372, 531, 542
SaqAI	TTAA	2 cut(s)	63, 312
SatI	GCNGC	1 cut(s)	27
Sau3AI	GATC	2 cut(s)	523, 859
Sau96I	GGNCC	3 cut(s)	257, 467, 481
SfaNI	GCATC	5 cut(s)	81, 172, 343, 661, 833
SfcI	CTRYAG	1 cut(s)	243
SinI	GGWCC	1 cut(s)	467
SmiMI	CAYNNNNRTG	4 cut(s)	290, 372, 531, 542
Sse9I	AATT	5 cut(s)	126, 345, 722, 794, 829
SsiI	CCGC	3 cut(s)	26, 52, 88
SspMI	CTAG	2 cut(s)	5, 507
TaaI	ACNGT	1 cut(s)	317
TaiI	ACGT	1 cut(s)	688
TaqI	TCGA	3 cut(s)	402, 459, 572
TasI	AATT	5 cut(s)	126, 345, 722, 794, 829
TauI	GCSGC	1 cut(s)	29
TfiI	GAWTC	2 cut(s)	517, 628
Tru1I	TTAA	2 cut(s)	63, 312
Tru9I	TTAA	2 cut(s)	63, 312
TscAI	CASTG	3 cut(s)	76, 192, 322
TseFI	GTSAC	2 cut(s)	407, 535
Tsp45I	GTSAC	2 cut(s)	407, 535
TspDTI	ATGAA	4 cut(s)	26, 106, 183, 627
TspRI	CASTG	3 cut(s)	76, 192, 322
VpaK11BI	GGWCC	1 cut(s)	467
XapI	RAATTY	2 cut(s)	345, 794
XceI	RCATGY	1 cut(s)	547
XmnI	GAANNNNTTC	1 cut(s)	113
XspI	CTAG	2 cut(s)	5, 507
Zsp2I	ATGCAT	1 cut(s)	654

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