Basic Information

Type: gene

Biological Identity

Species

rosa_wichuraiana

Chromosome

Chr4

Orthogroup ID

OG0007480

Physical Location & Seq

Genomic Coordinates Forward (+)

35534163 .. 35535077

Gene Structure 915 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rw4G015470.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 855 bp

ATGGGGAGAGGAACAAGAGAAAAGTTTTGCTTTGATCAAGGAAAACTTTGTACTGCACCAGTTCTTGCTCTTCCTAATTTTGACAAGATATTCGAGGTTGAATGTGATGCTAGTGGCGTGGGAGTAGGTGCTGTGTTGTCACAAGAGAAGAAACCAGTAGCATTCTTTAGTGAAAAGCTAAGTGAAGCTCGTCAGAAGTGGAGTACTTATGACCAAGAATTTTATGCAGTGTTCCGGGCATTGAGGCAATGGGAGCACTACCTGATTCAGAGGGAGTTCGTACTGTTCACCGATCACCAAGCCTTGAAGTACCTCAATAGCCAGAAAACTGTGAATAAAATGCATGCAAGGTGGGTGAGTTTTCTGCAGAAATTTCCTTTTGTGATTCAACATAAATCTGGTACTCTTAACCGGGTCGCAGATGCTTTGACTCAGGAGATTGTGGGGTTTGATCTCTTGAAGGAGTTGTATGAGGAAGATGTTGATTTCAAAGCAATTTGGGCCAAGTGCAGCAATAACAATGCAGTCGCAGATTTTTATGAGAATGAAGGATATTTATTCAAGGGCAACAGACTTTGTATCCCTAGTTCTTCATTGAGGGAAAAACTTATCAGAGATCTGCATGGAGGAGGATTGAGTGGGCACTTGGGCAGAGACAAGACTATTGCTAGTCTTGAGGAGAGGTATTTCTGGCCACAGTTGAAGAAGGATGCAGGAACTATTGTGAGAAATCCCAAAATACAGGTCTTTATCTACCTTTACCTGTTCCTGATGACATTTGGCAGGACCTTGCTATGGATTTTGTGTTGGGCTTACCCCGTACCCAAAGGGGAGTGGATTCAGTGTTTGTGGTAG

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-CCHC zf-H2C2

Protein Analysis

284

Amino Acids

33.02

Weight (kDa)

8.72

Isoelectric Point (pI)

37.76

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RT_RNaseH_2	PF17919	14 - 94	1.1e-25	RNase H-like domain found in reverse transcriptase
RT_RNaseH	PF17917	26 - 125	7.1e-34	RNase H-like domain found in reverse transcriptase
Integrase_H2C2	PF17921	197 - 244	1.9e-12	Integrase zinc binding domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

Font Size (px)

Line Width

Align Labels (Cladogram)

Image

Tree File

Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0007480)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_1g20082 FvH4_1g29103 FvH4_1g29431 FvH4_1g29732 FvH4_1g29761 FvH4_2g03391 FvH4_2g05501 FvH4_2g12792 FvH4_2g19253 FvH4_3g31261 FvH4_4g12741 FvH4_4g33447 FvH4_5g39021 FvH4_6g15231 FvH4_6g15232 FvH4_7g32351
malus_domestica	MD07G1221100.v1.1
prunus_persica	Prupe.8G084500_v2.0.a1
rosa_chinensis	RchiOBHm_Chr2g0097291 RchiOBHm_Chr3g0497281 RchiOBHm_Chr5g0015161 RchiOBHm_Chr7g0243211 RchiOBHm_Chr7g0243231
rosa_roxburghii	Rroxscaffold_7G00175870
rosa_wichuraiana	Rw4G015470

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AcoI	YGGCCR	1 cut(s)	692
AcsI	RAATTY	2 cut(s)	218, 371
AfaI	GTAC	6 cut(s)	52, 205, 282, 311, 403, 822
AfiI	CCNNNNNNNGG	1 cut(s)	795
AgsI	TTSAA	7 cut(s)	101, 307, 389, 460, 490, 562, 703
AluBI	AGCT	2 cut(s)	178, 188
AluI	AGCT	2 cut(s)	178, 188
Alw21I	GWGCWC	1 cut(s)	258
Alw26I	GTCTC	1 cut(s)	648
AoxI	GGCC	2 cut(s)	501, 692
ApeKI	GCWGC	1 cut(s)	510
ApoI	RAATTY	2 cut(s)	218, 371
ArsI	GACNNNNNNTTYG	4 cut(s)	74, 106, 729, 761
AspS9I	GGNCC	2 cut(s)	501, 786
AsuC2I	CCSGG	2 cut(s)	236, 413
AsuHPI	GGTGA	3 cut(s)	280, 287, 367
AvaII	GGWCC	1 cut(s)	786
BaeGI	GKGCMC	1 cut(s)	645
BalI	TGGCCA	1 cut(s)	694
Bbv12I	GWGCWC	1 cut(s)	258
BbvI	GCAGC	1 cut(s)	522
BciVI	GTATCC	1 cut(s)	590
BclI	TGATCA	1 cut(s)	34
BcnI	CCSGG	2 cut(s)	236, 413
BcoDI	GTCTC	1 cut(s)	648
BfaI	CTAG	3 cut(s)	111, 585, 669
BfmI	CTRYAG	1 cut(s)	365
BfuI	GTATCC	1 cut(s)	590
BglII	AGATCT	1 cut(s)	616
BisI	GCNGC	1 cut(s)	511
BlsI	GCNGC	1 cut(s)	512
BmcAI	AGTACT	1 cut(s)	205
Bme1390I	CCNGG	2 cut(s)	236, 413
Bme18I	GGWCC	1 cut(s)	786
BmgT120I	GGNCC	2 cut(s)	501, 786
BmrFI	CCNGG	2 cut(s)	236, 413
BmsI	GCATC	3 cut(s)	97, 412, 700
BpuEI	CTTGAG	1 cut(s)	695
BpuMI	CCSGG	2 cut(s)	236, 413
Bsc4I	CCNNNNNNNGG	1 cut(s)	795
Bse1I	ACTGG	2 cut(s)	59, 155
Bse3DI	GCAATG	1 cut(s)	254
BseGI	GGATG	1 cut(s)	715
BseLI	CCNNNNNNNGG	1 cut(s)	795
BseMI	GCAATG	1 cut(s)	254
BseMII	CTCAG	1 cut(s)	446
BseNI	ACTGG	2 cut(s)	59, 155
BseRI	GAGGAG	2 cut(s)	642, 692
BseSI	GKGCMC	1 cut(s)	645
BseXI	GCAGC	1 cut(s)	522
BsgI	GTGCAG	2 cut(s)	39, 529
BshFI	GGCC	2 cut(s)	503, 694
BsiHKAI	GWGCWC	1 cut(s)	258
BsiSI	CCGG	2 cut(s)	235, 412
BslI	CCNNNNNNNGG	1 cut(s)	795
BsmAI	GTCTC	1 cut(s)	648
BsmI	GAATGC	1 cut(s)	161
BsnI	GGCC	2 cut(s)	503, 694
Bsp1286I	GDGCHC	2 cut(s)	258, 645
Bsp143I	GATC	4 cut(s)	34, 292, 451, 616
BspANI	GGCC	2 cut(s)	503, 694
BspCNI	CTCAG	1 cut(s)	445
BspMAI	CTGCAG	1 cut(s)	369
BspQI	GCTCTTC	1 cut(s)	75
BsrDI	GCAATG	1 cut(s)	254
BsrI	ACTGG	2 cut(s)	59, 155
BssMI	GATC	4 cut(s)	34, 292, 451, 616
Bst4CI	ACNGT	3 cut(s)	285, 331, 699
Bst6I	CTCTTC	1 cut(s)	75
BstC8I	GCNNGC	1 cut(s)	345
BstDEI	CTNAG	2 cut(s)	179, 432
BstF5I	GGATG	1 cut(s)	715
BstKTI	GATC	4 cut(s)	37, 295, 454, 619
BstMAI	GTCTC	1 cut(s)	648
BstMBI	GATC	4 cut(s)	34, 292, 451, 616
BstMWI	GCNNNNNNNGC	2 cut(s)	253, 500
BstNSI	RCATGY	1 cut(s)	347
BstSCI	CCNGG	2 cut(s)	234, 411
BstSFI	CTRYAG	1 cut(s)	365
BstSLI	GKGCMC	1 cut(s)	645
BstV1I	GCAGC	1 cut(s)	522
BstX2I	RGATCY	1 cut(s)	616
BstYI	RGATCY	1 cut(s)	616
BsuI	GTATCC	1 cut(s)	590
BsuRI	GGCC	2 cut(s)	503, 694
BtsCI	GGATG	1 cut(s)	715
BtsI	GCAGTG	1 cut(s)	234
BtsIMutI	CAGTG	2 cut(s)	234, 848
Cac8I	GCNNGC	1 cut(s)	345
Cfr13I	GGNCC	2 cut(s)	501, 786
Csp6I	GTAC	6 cut(s)	51, 204, 281, 310, 402, 821
CviAII	CATG	2 cut(s)	344, 623
CviJI	RGCY	7 cut(s)	178, 188, 302, 321, 503, 694, 812
CviKI_1	RGCY	7 cut(s)	178, 188, 302, 321, 503, 694, 812
CviQI	GTAC	6 cut(s)	51, 204, 281, 310, 402, 821
DdeI	CTNAG	2 cut(s)	179, 432
DpnI	GATC	4 cut(s)	36, 294, 453, 618
DpnII	GATC	4 cut(s)	34, 292, 451, 616
EaeI	YGGCCR	1 cut(s)	692
Eam1104I	CTCTTC	1 cut(s)	75
EarI	CTCTTC	1 cut(s)	75
Eco47I	GGWCC	1 cut(s)	786
EcoO109I	RGGNCCY	1 cut(s)	786
EcoT22I	ATGCAT	1 cut(s)	345
FaeI	CATG	2 cut(s)	347, 626
FaiI	YATR	8 cut(s)	210, 225, 345, 393, 471, 540, 624, 796
FalI	AAGNNNNNCTT	4 cut(s)	14, 46, 30, 62
FatI	CATG	2 cut(s)	343, 622
FbaI	TGATCA	1 cut(s)	34
Fnu4HI	GCNGC	1 cut(s)	511
FokI	GGATG	1 cut(s)	722
Fsp4HI	GCNGC	1 cut(s)	511
FspBI	CTAG	3 cut(s)	111, 585, 669
GluI	GCNGC	1 cut(s)	511
HaeIII	GGCC	2 cut(s)	503, 694
HapII	CCGG	2 cut(s)	235, 412
Hin1II	CATG	2 cut(s)	347, 626
HinfI	GANTC	4 cut(s)	265, 385, 430, 838
HpaII	CCGG	2 cut(s)	235, 412
HphI	GGTGA	3 cut(s)	280, 287, 367
Hpy166II	GTNNAC	1 cut(s)	288
Hpy188I	TCNGA	3 cut(s)	195, 270, 614
Hpy188III	TCNNGA	4 cut(s)	434, 457, 674, 769
Hpy8I	GTNNAC	1 cut(s)	288
HpyAV	CCTTC	3 cut(s)	454, 542, 700
HpyCH4III	ACNGT	3 cut(s)	285, 331, 699
HpyCH4V	TGCA	9 cut(s)	56, 227, 343, 347, 367, 510, 524, 622, 713
HpyF10VI	GCNNNNNNNGC	2 cut(s)	253, 500
HpyF3I	CTNAG	2 cut(s)	179, 432
Hsp92II	CATG	2 cut(s)	347, 626
Ksp22I	TGATCA	1 cut(s)	34
Kzo9I	GATC	4 cut(s)	34, 292, 451, 616
LguI	GCTCTTC	1 cut(s)	75
LmnI	GCTCC	1 cut(s)	253
Lsp1109I	GCAGC	1 cut(s)	522
LweI	GCATC	3 cut(s)	97, 412, 700
MaeI	CTAG	3 cut(s)	111, 585, 669
MaeIII	GTNAC	1 cut(s)	138
MalI	GATC	4 cut(s)	36, 294, 453, 618
MboI	GATC	4 cut(s)	34, 292, 451, 616
MboII	GAAGA	5 cut(s)	62, 160, 488, 582, 715
MflI	RGATCY	1 cut(s)	616
MhlI	GDGCHC	2 cut(s)	258, 645
MlsI	TGGCCA	1 cut(s)	694
MluCI	AATT	4 cut(s)	76, 218, 371, 495
MluNI	TGGCCA	1 cut(s)	694
MlyI	GAGTC	1 cut(s)	424
Mox20I	TGGCCA	1 cut(s)	694
Mph1103I	ATGCAT	1 cut(s)	345
MscI	TGGCCA	1 cut(s)	694
MseI	TTAA	1 cut(s)	408
Msp20I	TGGCCA	1 cut(s)	694
MspI	CCGG	2 cut(s)	235, 412
MspR9I	CCNGG	2 cut(s)	236, 413
Mva1269I	GAATGC	1 cut(s)	161
MwoI	GCNNNNNNNGC	2 cut(s)	253, 500
NciI	CCSGG	2 cut(s)	236, 413
NdeII	GATC	4 cut(s)	34, 292, 451, 616
NlaIII	CATG	2 cut(s)	347, 626
NmuCI	GTSAC	1 cut(s)	138
NsiI	ATGCAT	1 cut(s)	345
NspI	RCATGY	1 cut(s)	347
PaeI	GCATGC	1 cut(s)	347
PciSI	GCTCTTC	1 cut(s)	75
PctI	GAATGC	1 cut(s)	161
PfeI	GAWTC	3 cut(s)	265, 385, 838
PkrI	GCNGC	1 cut(s)	512
PleI	GAGTC	1 cut(s)	424
PpsI	GAGTC	1 cut(s)	424
PpuMI	RGGWCCY	1 cut(s)	786
Psp5II	RGGWCCY	1 cut(s)	786
PspPI	GGNCC	2 cut(s)	501, 786
PspPPI	RGGWCCY	1 cut(s)	786
PsrI	GAACNNNNNNTAC	2 cut(s)	571, 603
PstI	CTGCAG	1 cut(s)	369
PsuI	RGATCY	1 cut(s)	616
RsaI	GTAC	6 cut(s)	52, 205, 282, 311, 403, 822
RsaNI	GTAC	6 cut(s)	51, 204, 281, 310, 402, 821
SapI	GCTCTTC	1 cut(s)	75
SaqAI	TTAA	1 cut(s)	408
SatI	GCNGC	1 cut(s)	511
Sau3AI	GATC	4 cut(s)	34, 292, 451, 616
Sau96I	GGNCC	2 cut(s)	501, 786
ScaI	AGTACT	1 cut(s)	205
SchI	GAGTC	1 cut(s)	424
ScrFI	CCNGG	2 cut(s)	236, 413
SduI	GDGCHC	2 cut(s)	258, 645
SfaNI	GCATC	3 cut(s)	97, 412, 700
SfcI	CTRYAG	1 cut(s)	365
SinI	GGWCC	1 cut(s)	786
SmlI	CTYRAG	1 cut(s)	674
SmoI	CTYRAG	1 cut(s)	674
SphI	GCATGC	1 cut(s)	347
Sse9I	AATT	4 cut(s)	76, 218, 371, 495
SspMI	CTAG	3 cut(s)	111, 585, 669
StyD4I	CCNGG	2 cut(s)	234, 411
TaaI	ACNGT	3 cut(s)	285, 331, 699
TaqI	TCGA	1 cut(s)	93
TasI	AATT	4 cut(s)	76, 218, 371, 495
TatI	WGTACW	2 cut(s)	50, 203
TfiI	GAWTC	3 cut(s)	265, 385, 838
Tru1I	TTAA	1 cut(s)	408
Tru9I	TTAA	1 cut(s)	408
TscAI	CASTG	2 cut(s)	234, 848
TseFI	GTSAC	1 cut(s)	138
TseI	GCWGC	1 cut(s)	510
Tsp45I	GTSAC	1 cut(s)	138
TspDTI	ATGAA	2 cut(s)	561, 582
TspRI	CASTG	2 cut(s)	234, 848
VpaK11BI	GGWCC	1 cut(s)	786
XapI	RAATTY	2 cut(s)	218, 371
XceI	RCATGY	1 cut(s)	347
XspI	CTAG	3 cut(s)	111, 585, 669
ZrmI	AGTACT	1 cut(s)	205
Zsp2I	ATGCAT	1 cut(s)	345

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