Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000002

Orthogroup ID

OG0006381

Physical Location & Seq

Genomic Coordinates Reverse (-)

85289550 .. 85291106

Gene Structure 1557 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_2G00147460.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 708 bp

ATGGGAAGAAGAAAGAAGACTCCCTCCATTTCCACCATACCAGAAGACAAGAGCTGCCTGGATTCCGATTCCAATTCCATTTCCAATTCCGGTGAAGCAAAATCGAAGAGCTCCATAGAGCAATTGAAATCTCAGATCCATGAGCTTCAGATCTCCACACTCTCCATATCCACCAAGCAAACCGAGCTCCAGACCTCACAGTCTCACCTCCACAAGCTCATCGCCCTCGACAACCTCCCCGTCTTCCACGGCCGCGCCGGCAACCAGAACGCCGTCGACTGGCTCACCGCCACCGAGCGCCACTTCGCCTACCTCGACATCCCCGCCGCCGACCGAGTCAAGATCGCCGCGACTCGCTTGCGCTGCGACGCGAGCCCCTGGATGTGCTGGTACGAGTCTCGGTACCCGGAGAGTGCGCCGTGGTCGATTTTCCGGCACGAGTTTCTGAGGTTTTTCCGGCCGGAGACGCTCATCGCCGCCGTGTGTAATTTGGAGCAGAAGAGGTCGGTGAAGGAGTATGAGGTGGAGTTTCTGAGGCTGGCTGCCGGAGGTGGGGATCCGTCGCCGGAGTGGAGCGATGAGGAGTTGACGAGGCATTTTGTTGGTGGATTGAAGGAGGAGATACGGCGGAAGGTGGAGTCGTTCCGGCCCAAAACCCTAGCTGACGCCATGGATTTTGCTCGCAATGTGGAGGCTGAAAGTGCATAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

RVP_2 RVT_1 Retrotrans_gag rve

Protein Analysis

235

Amino Acids

26.67

Weight (kDa)

6.4

Isoelectric Point (pI)

60.2

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Ty3_capsid	PF19259	94 - 229	8.9e-09	Ty3 transposon capsid-like protein
Retrotrans_gag	PF03732	114 - 206	9.1e-08	Retrotransposon gag 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: OG0006381)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_1g06201 FvH4_1g08061 FvH4_1g08061 FvH4_5g27691 FvH4_6g16962 FvH4_7g30611
rosa_chinensis	RchiOBHm_Chr2g0094121 RchiOBHm_Chr6g0296601
rosa_laevigata	RLG00000008247 RLG00000016457
rosa_roxburghii	Rroxscaffold_2G00076380 Rroxscaffold_2G00132740 Rroxscaffold_2G00147460 Rroxscaffold_3G00257090 Rroxscaffold_7G00171340
rosa_rugosa	Rorug03G0253300 Rorug03G0304200
rosa_samantha	Rh1DG093900 Rh2AG088700 Rh2AG365300 Rh2BG088800 Rh2BG325600 Rh2CG091200 Rh2DG087800 Rh4AG227300 Rh4CG009100
rosa_wichuraiana	Rw4G001570

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	199
Acc65I	GGTACC	1 cut(s)	402
AccB1I	GGYRCC	1 cut(s)	402
AccI	GTMKAC	1 cut(s)	276
AccII	CGCG	3 cut(s)	255, 350, 371
AciI	CCGC	7 cut(s)	253, 288, 324, 327, 348, 477, 628
AclWI	GGATC	3 cut(s)	130, 551, 564
AcoI	YGGCCR	2 cut(s)	250, 458
AcuI	CTGAAG	1 cut(s)	131
AcyI	GRCGYC	1 cut(s)	666
AfaI	GTAC	2 cut(s)	392, 404
AfiI	CCNNNNNNNGG	2 cut(s)	279, 552
AgsI	TTSAA	2 cut(s)	127, 613
AjnI	CCWGG	2 cut(s)	57, 377
AluBI	AGCT	6 cut(s)	54, 111, 145, 187, 217, 662
AluI	AGCT	6 cut(s)	54, 111, 145, 187, 217, 662
Alw21I	GWGCWC	2 cut(s)	113, 189
Alw26I	GTCTC	3 cut(s)	207, 402, 458
AlwI	GGATC	3 cut(s)	130, 551, 564
AoxI	GGCC	3 cut(s)	250, 458, 647
ApeKI	GCWGC	3 cut(s)	54, 363, 542
Asp718I	GGTACC	1 cut(s)	402
AspLEI	GCGC	4 cut(s)	257, 300, 363, 418
AspS9I	GGNCC	1 cut(s)	648
AsuC2I	CCSGG	1 cut(s)	407
AsuHPI	GGTGA	4 cut(s)	104, 197, 277, 520
BamHI	GGATCC	1 cut(s)	556
BanI	GGYRCC	1 cut(s)	402
BanII	GRGCYC	3 cut(s)	113, 189, 377
BauI	CACGAG	1 cut(s)	437
BbsI	GAAGAC	3 cut(s)	23, 51, 235
Bbv12I	GWGCWC	2 cut(s)	113, 189
BbvI	GCAGC	3 cut(s)	41, 350, 529
BceAI	ACGGC	5 cut(s)	257, 265, 403, 464, 641
BcgI	CGANNNNNNTGC	2 cut(s)	340, 374
BciT130I	CCWGG	2 cut(s)	59, 379
BcnI	CCSGG	1 cut(s)	407
BcoDI	GTCTC	3 cut(s)	207, 402, 458
BfaI	CTAG	1 cut(s)	659
BfoI	RGCGCY	1 cut(s)	301
BglI	GCCNNNNNGGC	1 cut(s)	258
BglII	AGATCT	1 cut(s)	150
BisI	GCNGC	7 cut(s)	55, 253, 327, 348, 364, 477, 543
BlsI	GCNGC	7 cut(s)	56, 254, 328, 349, 365, 478, 544
Bme1390I	CCNGG	3 cut(s)	59, 379, 407
BmgT120I	GGNCC	1 cut(s)	648
BmiI	GGNNCC	2 cut(s)	404, 558
BmrFI	CCNGG	3 cut(s)	59, 379, 407
BpiI	GAAGAC	3 cut(s)	23, 51, 235
BpmI	CTGGAG	1 cut(s)	173
BpuMI	CCSGG	1 cut(s)	407
BsaHI	GRCGYC	1 cut(s)	666
BsaJI	CCNNGG	4 cut(s)	247, 377, 419, 669
BsaWI	WCCGGW	1 cut(s)	89
Bsc4I	CCNNNNNNNGG	2 cut(s)	279, 552
Bse118I	RCCGGY	1 cut(s)	257
Bse1I	ACTGG	1 cut(s)	284
Bse3DI	GCAATG	1 cut(s)	691
BseBI	CCWGG	2 cut(s)	59, 379
BseDI	CCNNGG	4 cut(s)	247, 377, 419, 669
BseGI	GGATG	2 cut(s)	318, 387
BseLI	CCNNNNNNNGG	2 cut(s)	279, 552
BseMI	GCAATG	1 cut(s)	691
BseMII	CTCAG	3 cut(s)	146, 437, 524
BseNI	ACTGG	1 cut(s)	284
BseRI	GAGGAG	2 cut(s)	596, 632
BseX3I	CGGCCG	2 cut(s)	250, 458
BseXI	GCAGC	3 cut(s)	41, 350, 529
Bsh1236I	CGCG	3 cut(s)	255, 350, 371
Bsh1285I	CGRYCG	3 cut(s)	253, 334, 461
BshFI	GGCC	3 cut(s)	252, 460, 649
BshNI	GGYRCC	1 cut(s)	402
BsiEI	CGRYCG	3 cut(s)	253, 334, 461
BsiHKAI	GWGCWC	2 cut(s)	113, 189
BsiSI	CCGG	9 cut(s)	90, 258, 407, 433, 457, 461, 546, 566, 646
BslI	CCNNNNNNNGG	2 cut(s)	279, 552
BsmAI	GTCTC	3 cut(s)	207, 402, 458
BsmBI	CGTCTC	1 cut(s)	458
BsnI	GGCC	3 cut(s)	252, 460, 649
Bsp1286I	GDGCHC	3 cut(s)	113, 189, 377
Bsp143I	GATC	4 cut(s)	135, 150, 342, 556
Bsp19I	CCATGG	1 cut(s)	669
BspACI	CCGC	7 cut(s)	253, 288, 324, 327, 348, 477, 628
BspANI	GGCC	3 cut(s)	252, 460, 649
BspCNI	CTCAG	3 cut(s)	145, 438, 525
BspFNI	CGCG	3 cut(s)	255, 350, 371
BspLI	GGNNCC	2 cut(s)	404, 558
BspPI	GGATC	3 cut(s)	130, 551, 564
BspQI	GCTCTTC	1 cut(s)	101
BspT107I	GGYRCC	1 cut(s)	402
BsrDI	GCAATG	1 cut(s)	691
BsrFI	RCCGGY	1 cut(s)	257
BsrI	ACTGG	1 cut(s)	284
BssAI	RCCGGY	1 cut(s)	257
BssECI	CCNNGG	4 cut(s)	247, 377, 419, 669
BssMI	GATC	4 cut(s)	135, 150, 342, 556
BssNI	GRCGYC	1 cut(s)	666
BssSI	CACGAG	1 cut(s)	437
BssT1I	CCWWGG	1 cut(s)	669
Bst2BI	CACGAG	1 cut(s)	437
Bst2UI	CCWGG	2 cut(s)	59, 379
Bst4CI	ACNGT	1 cut(s)	201
Bst6I	CTCTTC	2 cut(s)	101, 494
BstACI	GRCGYC	1 cut(s)	666
BstC8I	GCNNGC	5 cut(s)	259, 359, 373, 540, 682
BstDEI	CTNAG	3 cut(s)	132, 446, 533
BstDSI	CCRYGG	3 cut(s)	247, 419, 669
BstF5I	GGATG	2 cut(s)	318, 387
BstFNI	CGCG	3 cut(s)	255, 350, 371
BstH2I	RGCGCY	1 cut(s)	301
BstHHI	GCGC	4 cut(s)	257, 300, 363, 418
BstKTI	GATC	4 cut(s)	138, 153, 345, 559
BstMAI	GTCTC	3 cut(s)	207, 402, 458
BstMBI	GATC	4 cut(s)	135, 150, 342, 556
BstMCI	CGRYCG	3 cut(s)	253, 334, 461
BstMWI	GCNNNNNNNGC	6 cut(s)	184, 258, 363, 372, 466, 701
BstNI	CCWGG	2 cut(s)	59, 379
BstSCI	CCNGG	3 cut(s)	57, 377, 405
BstUI	CGCG	3 cut(s)	255, 350, 371
BstV1I	GCAGC	3 cut(s)	41, 350, 529
BstV2I	GAAGAC	3 cut(s)	23, 51, 235
BstX2I	RGATCY	3 cut(s)	135, 150, 556
BstYI	RGATCY	3 cut(s)	135, 150, 556
BstZI	CGGCCG	2 cut(s)	250, 458
BsuRI	GGCC	3 cut(s)	252, 460, 649
BtgI	CCRYGG	3 cut(s)	247, 419, 669
BtgZI	GCGATG	3 cut(s)	205, 457, 591
BtsCI	GGATG	2 cut(s)	318, 387
Cac8I	GCNNGC	5 cut(s)	259, 359, 373, 540, 682
CfoI	GCGC	4 cut(s)	257, 300, 363, 418
Cfr10I	RCCGGY	1 cut(s)	257
Cfr13I	GGNCC	1 cut(s)	648
CseI	GACGC	3 cut(s)	377, 475, 674
Csp6I	GTAC	2 cut(s)	391, 403
CviAII	CATG	2 cut(s)	140, 670
CviQI	GTAC	2 cut(s)	391, 403
DdeI	CTNAG	3 cut(s)	132, 446, 533
DpnI	GATC	4 cut(s)	137, 152, 344, 558
DpnII	GATC	4 cut(s)	135, 150, 342, 556
DrdI	GACNNNNNNGTC	1 cut(s)	199
DseDI	GACNNNNNNGTC	1 cut(s)	199
EaeI	YGGCCR	2 cut(s)	250, 458
EagI	CGGCCG	2 cut(s)	250, 458
Eam1104I	CTCTTC	2 cut(s)	101, 494
EarI	CTCTTC	2 cut(s)	101, 494
EciI	GGCGGA	1 cut(s)	643
Ecl136II	GAGCTC	2 cut(s)	111, 187
EclXI	CGGCCG	2 cut(s)	250, 458
Eco130I	CCWWGG	1 cut(s)	669
Eco24I	GRGCYC	3 cut(s)	113, 189, 377
Eco52I	CGGCCG	2 cut(s)	250, 458
Eco53kI	GAGCTC	2 cut(s)	111, 187
Eco57I	CTGAAG	1 cut(s)	131
EcoICRI	GAGCTC	2 cut(s)	111, 187
EcoRII	CCWGG	2 cut(s)	57, 377
EcoT14I	CCWWGG	1 cut(s)	669
EcoT38I	GRGCYC	3 cut(s)	113, 189, 377
ErhI	CCWWGG	1 cut(s)	669
Esp3I	CGTCTC	1 cut(s)	458
FaeI	CATG	2 cut(s)	143, 673
FaiI	YATR	7 cut(s)	38, 116, 141, 167, 519, 671, 706
FatI	CATG	2 cut(s)	139, 669
FauI	CCCGC	1 cut(s)	331
FblI	GTMKAC	1 cut(s)	276
Fnu4HI	GCNGC	7 cut(s)	55, 253, 327, 348, 364, 477, 543
FokI	GGATG	2 cut(s)	305, 394
FriOI	GRGCYC	3 cut(s)	113, 189, 377
Fsp4HI	GCNGC	7 cut(s)	55, 253, 327, 348, 364, 477, 543
FspBI	CTAG	1 cut(s)	659
GlaI	GCGC	4 cut(s)	256, 299, 362, 417
GluI	GCNGC	7 cut(s)	55, 253, 327, 348, 364, 477, 543
GsuI	CTGGAG	1 cut(s)	173
HaeII	RGCGCY	1 cut(s)	301
HaeIII	GGCC	3 cut(s)	252, 460, 649
HapII	CCGG	9 cut(s)	90, 258, 407, 433, 457, 461, 546, 566, 646
HgaI	GACGC	3 cut(s)	377, 475, 674
HhaI	GCGC	4 cut(s)	257, 300, 363, 418
Hin1I	GRCGYC	1 cut(s)	666
Hin1II	CATG	2 cut(s)	143, 673
Hin6I	GCGC	4 cut(s)	255, 298, 361, 416
HinP1I	GCGC	4 cut(s)	255, 298, 361, 416
HincII	GTYRAC	2 cut(s)	277, 588
HindII	GTYRAC	2 cut(s)	277, 588
HinfI	GANTC	7 cut(s)	19, 62, 68, 336, 352, 395, 638
HpaII	CCGG	9 cut(s)	90, 258, 407, 433, 457, 461, 546, 566, 646
HphI	GGTGA	4 cut(s)	104, 197, 277, 520
Hpy166II	GTNNAC	2 cut(s)	277, 588
Hpy188I	TCNGA	5 cut(s)	67, 135, 150, 447, 534
Hpy188III	TCNNGA	2 cut(s)	190, 340
Hpy8I	GTNNAC	2 cut(s)	277, 588
Hpy99I	CGWCG	3 cut(s)	278, 371, 565
HpyAV	CCTTC	3 cut(s)	505, 607, 625
HpyCH4III	ACNGT	1 cut(s)	201
HpyCH4V	TGCA	1 cut(s)	704
HpyF10VI	GCNNNNNNNGC	6 cut(s)	184, 258, 363, 372, 466, 701
HpyF3I	CTNAG	3 cut(s)	132, 446, 533
Hsp92I	GRCGYC	1 cut(s)	666
Hsp92II	CATG	2 cut(s)	143, 673
HspAI	GCGC	4 cut(s)	255, 298, 361, 416
KpnI	GGTACC	1 cut(s)	406
KroI	GCCGGC	1 cut(s)	257
KroNI	GCCGGC	1 cut(s)	259
Kzo9I	GATC	4 cut(s)	135, 150, 342, 556
LguI	GCTCTTC	1 cut(s)	101
LmnI	GCTCC	4 cut(s)	116, 192, 493, 573
Lsp1109I	GCAGC	3 cut(s)	41, 350, 529
MaeI	CTAG	1 cut(s)	659
MalI	GATC	4 cut(s)	137, 152, 344, 558
MboI	GATC	4 cut(s)	135, 150, 342, 556
MboII	GAAGA	7 cut(s)	18, 21, 28, 56, 118, 235, 511
MfeI	CAATTG	1 cut(s)	122
MflI	RGATCY	3 cut(s)	135, 150, 556
MhlI	GDGCHC	3 cut(s)	113, 189, 377
MluCI	AATT	4 cut(s)	73, 85, 122, 487
MlyI	GAGTC	5 cut(s)	13, 345, 346, 404, 647
MroNI	GCCGGC	1 cut(s)	257
MspI	CCGG	9 cut(s)	90, 258, 407, 433, 457, 461, 546, 566, 646
MspR9I	CCNGG	3 cut(s)	59, 379, 407
MunI	CAATTG	1 cut(s)	122
MvaI	CCWGG	2 cut(s)	59, 379
MvnI	CGCG	3 cut(s)	255, 350, 371
MwoI	GCNNNNNNNGC	6 cut(s)	184, 258, 363, 372, 466, 701
NaeI	GCCGGC	1 cut(s)	259
NciI	CCSGG	1 cut(s)	407
NcoI	CCATGG	1 cut(s)	669
NdeII	GATC	4 cut(s)	135, 150, 342, 556
NgoMIV	GCCGGC	1 cut(s)	257
NlaIII	CATG	2 cut(s)	143, 673
NlaIV	GGNNCC	2 cut(s)	404, 558
PciSI	GCTCTTC	1 cut(s)	101
PcsI	WCGNNNNNNNCGW	1 cut(s)	312
PdiI	GCCGGC	1 cut(s)	259
PfeI	GAWTC	2 cut(s)	62, 68
PflFI	GACNNNGTC	1 cut(s)	335
PkrI	GCNGC	7 cut(s)	56, 254, 328, 349, 365, 478, 544
PleI	GAGTC	5 cut(s)	13, 344, 346, 403, 646
PpsI	GAGTC	5 cut(s)	13, 344, 346, 403, 646
Psp124BI	GAGCTC	2 cut(s)	113, 189
Psp6I	CCWGG	2 cut(s)	57, 377
PspGI	CCWGG	2 cut(s)	57, 377
PspN4I	GGNNCC	2 cut(s)	404, 558
PspPI	GGNCC	1 cut(s)	648
PsuI	RGATCY	3 cut(s)	135, 150, 556
PsyI	GACNNNGTC	1 cut(s)	335
RsaI	GTAC	2 cut(s)	392, 404
RsaNI	GTAC	2 cut(s)	391, 403
SacI	GAGCTC	2 cut(s)	113, 189
SalI	GTCGAC	1 cut(s)	275
SapI	GCTCTTC	1 cut(s)	101
SatI	GCNGC	7 cut(s)	55, 253, 327, 348, 364, 477, 543
Sau3AI	GATC	4 cut(s)	135, 150, 342, 556
Sau96I	GGNCC	1 cut(s)	648
SchI	GAGTC	5 cut(s)	13, 345, 346, 404, 647
ScrFI	CCNGG	3 cut(s)	59, 379, 407
SduI	GDGCHC	3 cut(s)	113, 189, 377
Sse9I	AATT	4 cut(s)	73, 85, 122, 487
SsiI	CCGC	7 cut(s)	253, 288, 324, 327, 348, 477, 628
SspMI	CTAG	1 cut(s)	659
SstI	GAGCTC	2 cut(s)	113, 189
StyD4I	CCNGG	3 cut(s)	57, 377, 405
StyI	CCWWGG	1 cut(s)	669
TaaI	ACNGT	1 cut(s)	201
TaqI	TCGA	5 cut(s)	104, 228, 276, 315, 425
TaqII	GACCGA	1 cut(s)	348
TasI	AATT	4 cut(s)	73, 85, 122, 487
TauI	GCSGC	4 cut(s)	255, 329, 350, 479
TfiI	GAWTC	2 cut(s)	62, 68
TseI	GCWGC	3 cut(s)	54, 363, 542
TspGWI	ACGGA	1 cut(s)	549
Tth111I	GACNNNGTC	1 cut(s)	335
XmiI	GTMKAC	1 cut(s)	276
XspI	CTAG	1 cut(s)	659

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