Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000003

Orthogroup ID

OG0004224

Physical Location & Seq

Genomic Coordinates Reverse (-)

20620734 .. 20621450

Gene Structure 717 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug03G0224700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 717 bp

ATGAGGAAAGTGTCTGAAGGAGAAATCAACCTTGAAGGAACAGATGATGTTCTGACTTTGGCTTTGGGAAATCCTACGTATCCTGGTAGGGTACGCGGTGTTGGTGGCTTCGTCAAGCCTTCTGCATATTTTCATCTACCTAAACGCCAAAAGCTAAATGTAGAAGATACTGTTAGGGTAAGTGTTAAGAAGATACTAGCAGAAGAGAAAGAAAATATCATTGCTCAGGAAAGAGCCAAATGGGAGTTGGAGATGGAGCAACAAATTGCTAGGGAAAGAGTCGCTTGGGAGGAAAGGTTTCAGAAGTTAGAAGCGAAGCTTGATGGGAAAGAGATGCCAGCTGACTCACCCAAACTTGTGACGCCGCTAAATGATTTAGAGTCTGGCCAGGGCAGCTGTTCTAGGCTTAATTTAGTCTCAGGTCTGACGGTCCAGCTTTTCACTTTGGTTGGGTTCGAAGTCACAACGAGTGTAGACTTGGTCGATCAAAGGCAGGTCAGGAGGACTCTGGGTGACGAGTTAGTGTTGACAAAGTTATGTGTCAAGGATTCACTGCTCCTGCGCATGTTGTTTTTGCCTGTTAATTGTAGTGCAAGTTTTAAGTTTGTAGTTGAGTCGGGGCTTTTTTGGCTCTGTCAGTCAGTCATGTTGGAGTTCCAGTGGCCATTTCTATGTATGAGATGTTGCCAAAACTCATTGTATCCAGTTCATTATTAA

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

RVT_1 Retrotrans_gag rve zf-H2C2

Protein Analysis

238

Amino Acids

27.07

Weight (kDa)

6.22

Isoelectric Point (pI)

36.95

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

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0004224)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_3g10610
malus_domestica	MD05G1270300.v1.1 MD05G1270700.v1.1
rosa_chinensis	RchiOBHm_Chr1g0329511 RchiOBHm_Chr1g0336171 RchiOBHm_Chr5g0016711 RchiOBHm_Chr5g0016781 RchiOBHm_Chr5g0016821 RchiOBHm_Chr5g0017081 RchiOBHm_Chr5g0017111 RchiOBHm_Chr5g0017281 RchiOBHm_Chr5g0017311 RchiOBHm_Chr5g0054731
rosa_laevigata	RLG00000002400 RLG00000023080 RLG00000029879 RLG00000029880
rosa_multiflora	Rmu_sc0000441.1_g000086 Rmu_sc0001235.1_g000006 Rmu_sc0001423.1_g000044 Rmu_sc0003630.1_g000003 Rmu_sc0003801.1_g000025 Rmu_sc0005319.1_g000021 Rmu_sc0005418.1_g000011 Rmu_sc0008053.1_g000024
rosa_roxburghii	Rroxscaffold_1G00012580 Rroxscaffold_1G00013300 Rroxscaffold_4G00321010 Rroxscaffold_6G00395830 Rroxscaffold_6G00395840
rosa_rugosa	Rorug03G0224700
rosa_wichuraiana	Rw3G024380 Rw3G024480

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc16I	TGCGCA	1 cut(s)	563
Acc36I	ACCTGC	1 cut(s)	484
AccI	GTMKAC	1 cut(s)	474
AccII	CGCG	1 cut(s)	96
AciI	CCGC	2 cut(s)	96, 365
AcoI	YGGCCR	2 cut(s)	385, 662
AcuI	CTGAAG	1 cut(s)	36
AcyI	GRCGYC	1 cut(s)	362
AfaI	GTAC	1 cut(s)	93
AgsI	TTSAA	1 cut(s)	35
AjnI	CCWGG	2 cut(s)	82, 387
AluBI	AGCT	5 cut(s)	154, 319, 341, 396, 436
AluI	AGCT	5 cut(s)	154, 319, 341, 396, 436
Alw26I	GTCTC	1 cut(s)	421
AoxI	GGCC	2 cut(s)	385, 662
ApeKI	GCWGC	1 cut(s)	393
ArsI	GACNNNNNNTTYG	2 cut(s)	46, 78
Asp700I	GAANNNNTTC	1 cut(s)	297
AspLEI	GCGC	1 cut(s)	564
AspS9I	GGNCC	1 cut(s)	430
AsuHPI	GGTGA	2 cut(s)	339, 524
AsuII	TTCGAA	1 cut(s)	456
AvaII	GGWCC	1 cut(s)	430
BalI	TGGCCA	2 cut(s)	387, 664
BbvI	GCAGC	1 cut(s)	405
BccI	CCATC	2 cut(s)	247, 317
BciT130I	CCWGG	2 cut(s)	84, 389
BciVI	GTATCC	2 cut(s)	90, 711
BcoDI	GTCTC	1 cut(s)	421
BfaI	CTAG	3 cut(s)	197, 270, 402
BfuAI	ACCTGC	1 cut(s)	484
BfuI	GTATCC	2 cut(s)	90, 711
BisI	GCNGC	2 cut(s)	365, 394
BlsI	GCNGC	2 cut(s)	366, 395
Bme1390I	CCNGG	2 cut(s)	84, 389
Bme18I	GGWCC	1 cut(s)	430
BmgT120I	GGNCC	1 cut(s)	430
BmrFI	CCNGG	2 cut(s)	84, 389
BmsI	GCATC	1 cut(s)	324
Bpu10I	CCTNAGC	1 cut(s)	225
Bpu14I	TTCGAA	1 cut(s)	456
BsaAI	YACGTR	1 cut(s)	78
BsaHI	GRCGYC	1 cut(s)	362
BsaJI	CCNNGG	1 cut(s)	388
BsaXI	ACNNNNNCTCC	4 cut(s)	281, 311, 644, 674
Bse1I	ACTGG	2 cut(s)	658, 704
Bse3DI	GCAATG	1 cut(s)	219
BseBI	CCWGG	2 cut(s)	84, 389
BseDI	CCNNGG	1 cut(s)	388
BseMI	GCAATG	1 cut(s)	219
BseMII	CTCAG	2 cut(s)	239, 432
BseNI	ACTGG	2 cut(s)	658, 704
BseXI	GCAGC	1 cut(s)	405
Bsh1236I	CGCG	1 cut(s)	96
BshFI	GGCC	2 cut(s)	387, 664
BsmAI	GTCTC	1 cut(s)	421
BsnI	GGCC	2 cut(s)	387, 664
Bsp119I	TTCGAA	1 cut(s)	456
Bsp143I	GATC	1 cut(s)	484
BspACI	CCGC	2 cut(s)	96, 365
BspANI	GGCC	2 cut(s)	387, 664
BspCNI	CTCAG	2 cut(s)	238, 431
BspFNI	CGCG	1 cut(s)	96
BspMI	ACCTGC	1 cut(s)	484
BspT104I	TTCGAA	1 cut(s)	456
BsrDI	GCAATG	1 cut(s)	219
BsrI	ACTGG	2 cut(s)	658, 704
BssECI	CCNNGG	1 cut(s)	388
BssMI	GATC	1 cut(s)	484
BssNI	GRCGYC	1 cut(s)	362
Bst2UI	CCWGG	2 cut(s)	84, 389
Bst4CI	ACNGT	2 cut(s)	172, 430
Bst6I	CTCTTC	1 cut(s)	198
BstACI	GRCGYC	1 cut(s)	362
BstBAI	YACGTR	1 cut(s)	78
BstBI	TTCGAA	1 cut(s)	456
BstC8I	GCNNGC	1 cut(s)	339
BstDEI	CTNAG	2 cut(s)	225, 418
BstFNI	CGCG	1 cut(s)	96
BstHHI	GCGC	1 cut(s)	564
BstKTI	GATC	1 cut(s)	487
BstMAI	GTCTC	1 cut(s)	421
BstMBI	GATC	1 cut(s)	484
BstMWI	GCNNNNNNNGC	2 cut(s)	393, 628
BstNI	CCWGG	2 cut(s)	84, 389
BstNSI	RCATGY	1 cut(s)	568
BstSCI	CCNGG	2 cut(s)	82, 387
BstSNI	TACGTA	1 cut(s)	78
BstUI	CGCG	1 cut(s)	96
BstV1I	GCAGC	1 cut(s)	405
BsuI	GTATCC	2 cut(s)	90, 711
BsuRI	GGCC	2 cut(s)	387, 664
BtsI	GCAGTG	1 cut(s)	551
BtsIMutI	CAGTG	2 cut(s)	551, 665
BveI	ACCTGC	1 cut(s)	484
Cac8I	GCNNGC	1 cut(s)	339
CfoI	GCGC	1 cut(s)	564
Cfr13I	GGNCC	1 cut(s)	430
CseI	GACGC	1 cut(s)	370
Csp6I	GTAC	1 cut(s)	92
CviAII	CATG	2 cut(s)	565, 646
CviQI	GTAC	1 cut(s)	92
DdeI	CTNAG	2 cut(s)	225, 418
DpnI	GATC	1 cut(s)	486
DpnII	GATC	1 cut(s)	484
EaeI	YGGCCR	2 cut(s)	385, 662
Eam1104I	CTCTTC	1 cut(s)	198
EarI	CTCTTC	1 cut(s)	198
Eco105I	TACGTA	1 cut(s)	78
Eco47I	GGWCC	1 cut(s)	430
Eco57I	CTGAAG	1 cut(s)	36
EcoRII	CCWGG	2 cut(s)	82, 387
FaeI	CATG	2 cut(s)	568, 649
FaiI	YATR	6 cut(s)	127, 538, 566, 647, 673, 677
FalI	AAGNNNNNCTT	4 cut(s)	268, 300, 303, 335
FatI	CATG	2 cut(s)	564, 645
FblI	GTMKAC	1 cut(s)	474
Fnu4HI	GCNGC	2 cut(s)	365, 394
Fsp4HI	GCNGC	2 cut(s)	365, 394
FspBI	CTAG	3 cut(s)	197, 270, 402
FspI	TGCGCA	1 cut(s)	563
GlaI	GCGC	1 cut(s)	563
GluI	GCNGC	2 cut(s)	365, 394
HaeIII	GGCC	2 cut(s)	387, 664
HgaI	GACGC	1 cut(s)	370
HhaI	GCGC	1 cut(s)	564
Hin1I	GRCGYC	1 cut(s)	362
Hin1II	CATG	2 cut(s)	568, 649
Hin6I	GCGC	1 cut(s)	562
HinP1I	GCGC	1 cut(s)	562
HincII	GTYRAC	1 cut(s)	528
HindII	GTYRAC	1 cut(s)	528
HindIII	AAGCTT	1 cut(s)	317
HinfI	GANTC	6 cut(s)	279, 344, 380, 505, 548, 614
HphI	GGTGA	2 cut(s)	339, 524
Hpy166II	GTNNAC	2 cut(s)	475, 528
Hpy188I	TCNGA	4 cut(s)	16, 54, 303, 426
Hpy188III	TCNNGA	2 cut(s)	227, 499
Hpy8I	GTNNAC	2 cut(s)	475, 528
HpyAV	CCTTC	3 cut(s)	11, 29, 129
HpyCH4III	ACNGT	2 cut(s)	172, 430
HpyCH4IV	ACGT	1 cut(s)	77
HpyCH4V	TGCA	2 cut(s)	125, 593
HpyF10VI	GCNNNNNNNGC	2 cut(s)	393, 628
HpyF3I	CTNAG	2 cut(s)	225, 418
HpySE526I	ACGT	1 cut(s)	77
Hsp92I	GRCGYC	1 cut(s)	362
Hsp92II	CATG	2 cut(s)	568, 649
HspAI	GCGC	1 cut(s)	562
Kzo9I	GATC	1 cut(s)	484
LmnI	GCTCC	2 cut(s)	256, 561
Lsp1109I	GCAGC	1 cut(s)	405
LweI	GCATC	1 cut(s)	324
MaeI	CTAG	3 cut(s)	197, 270, 402
MaeII	ACGT	1 cut(s)	77
MaeIII	GTNAC	3 cut(s)	358, 460, 512
MalI	GATC	1 cut(s)	486
MboI	GATC	1 cut(s)	484
MboII	GAAGA	3 cut(s)	176, 202, 215
MlsI	TGGCCA	2 cut(s)	387, 664
MluCI	AATT	3 cut(s)	264, 409, 583
MluNI	TGGCCA	2 cut(s)	387, 664
MlyI	GAGTC	5 cut(s)	288, 338, 389, 499, 623
MmeI	TCCRAC	2 cut(s)	228, 630
MnlI	CCTC	2 cut(s)	283, 495
Mox20I	TGGCCA	2 cut(s)	387, 664
MroXI	GAANNNNTTC	1 cut(s)	297
MscI	TGGCCA	2 cut(s)	387, 664
MseI	TTAA	5 cut(s)	186, 408, 582, 600, 715
MslI	CAYNNNNRTG	1 cut(s)	670
Msp20I	TGGCCA	2 cut(s)	387, 664
MspA1I	CMGCKG	2 cut(s)	341, 396
MspR9I	CCNGG	2 cut(s)	84, 389
MvaI	CCWGG	2 cut(s)	84, 389
MvnI	CGCG	1 cut(s)	96
MwoI	GCNNNNNNNGC	2 cut(s)	393, 628
NdeII	GATC	1 cut(s)	484
NlaIII	CATG	2 cut(s)	568, 649
NmuCI	GTSAC	3 cut(s)	358, 460, 512
NsbI	TGCGCA	1 cut(s)	563
NspI	RCATGY	1 cut(s)	568
NspV	TTCGAA	1 cut(s)	456
PdmI	GAANNNNTTC	1 cut(s)	297
PfeI	GAWTC	1 cut(s)	548
PflFI	GACNNNGTC	1 cut(s)	479
PkrI	GCNGC	2 cut(s)	366, 395
PleI	GAGTC	5 cut(s)	287, 338, 388, 499, 622
PpsI	GAGTC	5 cut(s)	287, 338, 388, 499, 622
Ppu21I	YACGTR	1 cut(s)	78
Psp6I	CCWGG	2 cut(s)	82, 387
PspGI	CCWGG	2 cut(s)	82, 387
PspPI	GGNCC	1 cut(s)	430
PsyI	GACNNNGTC	1 cut(s)	479
PvuII	CAGCTG	2 cut(s)	341, 396
RsaI	GTAC	1 cut(s)	93
RsaNI	GTAC	1 cut(s)	92
RseI	CAYNNNNRTG	1 cut(s)	670
SaqAI	TTAA	5 cut(s)	186, 408, 582, 600, 715
SatI	GCNGC	2 cut(s)	365, 394
Sau3AI	GATC	1 cut(s)	484
Sau96I	GGNCC	1 cut(s)	430
SchI	GAGTC	5 cut(s)	288, 338, 389, 499, 623
ScrFI	CCNGG	2 cut(s)	84, 389
SfaNI	GCATC	1 cut(s)	324
SfuI	TTCGAA	1 cut(s)	456
SinI	GGWCC	1 cut(s)	430
SmiMI	CAYNNNNRTG	1 cut(s)	670
SnaBI	TACGTA	1 cut(s)	78
Sse9I	AATT	3 cut(s)	264, 409, 583
SsiI	CCGC	2 cut(s)	96, 365
SspMI	CTAG	3 cut(s)	197, 270, 402
StyD4I	CCNGG	2 cut(s)	82, 387
TaaI	ACNGT	2 cut(s)	172, 430
TaiI	ACGT	1 cut(s)	80
TaqI	TCGA	2 cut(s)	456, 483
TasI	AATT	3 cut(s)	264, 409, 583
TauI	GCSGC	1 cut(s)	367
TfiI	GAWTC	1 cut(s)	548
Tru1I	TTAA	5 cut(s)	186, 408, 582, 600, 715
Tru9I	TTAA	5 cut(s)	186, 408, 582, 600, 715
TscAI	CASTG	2 cut(s)	558, 665
TseFI	GTSAC	3 cut(s)	358, 460, 512
TseI	GCWGC	1 cut(s)	393
Tsp45I	GTSAC	3 cut(s)	358, 460, 512
TspDTI	ATGAA	2 cut(s)	122, 698
TspRI	CASTG	2 cut(s)	558, 665
Tth111I	GACNNNGTC	1 cut(s)	479
VpaK11BI	GGWCC	1 cut(s)	430
XceI	RCATGY	1 cut(s)	568
XcmI	CCANNNNNNNNNTGG	1 cut(s)	244
XmiI	GTMKAC	1 cut(s)	474
XmnI	GAANNNNTTC	1 cut(s)	297
XspI	CTAG	3 cut(s)	197, 270, 402

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