Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000007

Orthogroup ID

OG0008929

Physical Location & Seq

Genomic Coordinates Reverse (-)

66688688 .. 66692083

Gene Structure 3396 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_7G00215990.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 552 bp

ATGAATCGCACTATTGTGGAAAGAATTAGATGCATGTTGTCTCATTCCAAATTGTCAAGAAGGTTTTGGGGAGAAGCAATGAGAACAGCTTGTTATTTGATCAATTTGTCACCATCGGCTCCTTTAAATGGTGATGTTCCCGATCACGTGTGGTCCTCAAAAGATGTTTCTTATGGGCACTTGAAGACCTTTGGCTGTAGAGCTTTTGTGCATGTTCCAAAGGAAGAAAGATGGAAGCTTGAAGACAAAACCAAGCAATGTGTATTCCTTGGGTATGCTGATGAAAAATTTGGCTACCGATTATGGGATCCTCTTAACAAGAAGGTGGTTCGCAGCCGGGATGTAGTGTTCTTTGAAGATCAAACAATTAAAGACATTGAGAAGAGTGAACATGTGGAGGTAGCAGAAACATATGGCGATAATCTCATTGATCTAGACCGTATTATTCCTCCTACAGTTGAAGAAGTTGGTCATGAAGCTGAGCAAGACACCGAAGAAGTTCCTGATGGTGATCAAAGAGATGATGCTGAAAACAACCAAGAAGTTCCATAA

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_2 gag_pre-integrs rve

Protein Analysis

183

Amino Acids

21.24

Weight (kDa)

5.03

Isoelectric Point (pI)

43.65

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
SH3_retrovirus	PF25597	66 - 128	2.3e-25	Retroviral polymerase SH3-like domain

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: OG0008929)

Species	Orthologous Gene IDs
arabidopsis_thaliana	ATMG00300
fragaria_vesca	FvH4_1g10045 FvH4_1g25743 FvH4_2g16991 FvH4_2g31701 FvH4_4g08662 FvH4_6g44103 FvH4_6g48812
malus_domestica	MD04G1222900.v1.1 MD05G1232300.v1.1 MD05G1288100.v1.1 MD12G1229000.v1.1
prunus_persica	Prupe.1G257900_v2.0.a1
pyrus_communis	pycom13g14690
rosa_chinensis	RchiOBHm_Chr2g0123731 RchiOBHm_Chr2g0123741 RchiOBHm_Chr2g0157311 RchiOBHm_Chr7g0200891
rosa_roxburghii	Rroxscaffold_7G00215990
rosa_wichuraiana	Rw1G024090 Rw2G038200 Rw6G012570

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AclWI	GGATC	2 cut(s)	302, 315
AcsI	RAATTY	1 cut(s)	287
AcvI	CACGTG	1 cut(s)	148
AfiI	CCNNNNNNNGG	2 cut(s)	128, 304
AflIII	ACRYGT	2 cut(s)	147, 391
AgsI	TTSAA	4 cut(s)	184, 242, 356, 461
AleI	CACNNNNGTG	1 cut(s)	14
AloI	GAACNNNNNNTCC	2 cut(s)	332, 364
AluBI	AGCT	4 cut(s)	89, 203, 238, 479
AluI	AGCT	4 cut(s)	89, 203, 238, 479
Alw26I	GTCTC	1 cut(s)	45
AlwI	GGATC	2 cut(s)	302, 315
ApeKI	GCWGC	1 cut(s)	333
ApoI	RAATTY	1 cut(s)	287
Asp700I	GAANNNNTTC	1 cut(s)	498
AspS9I	GGNCC	1 cut(s)	153
AsuC2I	CCSGG	1 cut(s)	338
AsuHPI	GGTGA	3 cut(s)	102, 143, 521
AvaII	GGWCC	1 cut(s)	153
BaeGI	GKGCMC	1 cut(s)	180
BamHI	GGATCC	1 cut(s)	307
BbrPI	CACGTG	1 cut(s)	148
BbsI	GAAGAC	2 cut(s)	191, 249
BbvI	GCAGC	1 cut(s)	345
BccI	CCATC	3 cut(s)	121, 225, 500
BclI	TGATCA	2 cut(s)	99, 511
BcnI	CCSGG	1 cut(s)	338
BcoDI	GTCTC	1 cut(s)	45
BfaI	CTAG	1 cut(s)	434
BfmI	CTRYAG	2 cut(s)	196, 453
BisI	GCNGC	1 cut(s)	334
BlpI	GCTNAGC	1 cut(s)	480
BlsI	GCNGC	1 cut(s)	335
Bme1390I	CCNGG	1 cut(s)	338
Bme18I	GGWCC	1 cut(s)	153
BmgT120I	GGNCC	1 cut(s)	153
BmiI	GGNNCC	2 cut(s)	120, 309
BmrFI	CCNGG	1 cut(s)	338
BmsI	GCATC	2 cut(s)	20, 514
BpiI	GAAGAC	2 cut(s)	191, 249
Bpu1102I	GCTNAGC	1 cut(s)	480
BpuMI	CCSGG	1 cut(s)	338
BsaAI	YACGTR	1 cut(s)	148
BsaBI	GATNNNNATC	1 cut(s)	510
BsaJI	CCNNGG	1 cut(s)	268
Bsc4I	CCNNNNNNNGG	2 cut(s)	128, 304
Bse3DI	GCAATG	2 cut(s)	84, 263
Bse8I	GATNNNNATC	1 cut(s)	510
BseDI	CCNNGG	1 cut(s)	268
BseGI	GGATG	1 cut(s)	346
BseJI	GATNNNNATC	1 cut(s)	510
BseLI	CCNNNNNNNGG	2 cut(s)	128, 304
BseMI	GCAATG	2 cut(s)	84, 263
BseMII	CTCAG	1 cut(s)	471
BseSI	GKGCMC	1 cut(s)	180
BseXI	GCAGC	1 cut(s)	345
BsiSI	CCGG	1 cut(s)	337
BslI	CCNNNNNNNGG	2 cut(s)	128, 304
BsmAI	GTCTC	1 cut(s)	45
Bsp1286I	GDGCHC	1 cut(s)	180
Bsp143I	GATC	6 cut(s)	99, 142, 307, 358, 430, 511
Bsp1720I	GCTNAGC	1 cut(s)	480
BspCNI	CTCAG	1 cut(s)	472
BspHI	TCATGA	1 cut(s)	472
BspLI	GGNNCC	2 cut(s)	120, 309
BspPI	GGATC	2 cut(s)	302, 315
BsrDI	GCAATG	2 cut(s)	84, 263
BssECI	CCNNGG	1 cut(s)	268
BssMI	GATC	6 cut(s)	99, 142, 307, 358, 430, 511
BssT1I	CCWWGG	1 cut(s)	268
Bst4CI	ACNGT	2 cut(s)	440, 457
Bst6I	CTCTTC	1 cut(s)	377
BstBAI	YACGTR	1 cut(s)	148
BstDEI	CTNAG	1 cut(s)	480
BstF5I	GGATG	1 cut(s)	346
BstKTI	GATC	6 cut(s)	102, 145, 310, 361, 433, 514
BstMAI	GTCTC	1 cut(s)	45
BstMBI	GATC	6 cut(s)	99, 142, 307, 358, 430, 511
BstNSI	RCATGY	3 cut(s)	37, 215, 395
BstSCI	CCNGG	1 cut(s)	336
BstSFI	CTRYAG	2 cut(s)	196, 453
BstSLI	GKGCMC	1 cut(s)	180
BstV1I	GCAGC	1 cut(s)	345
BstV2I	GAAGAC	2 cut(s)	191, 249
BstX2I	RGATCY	1 cut(s)	307
BstYI	RGATCY	1 cut(s)	307
BtsCI	GGATG	1 cut(s)	346
CciI	TCATGA	1 cut(s)	472
Cfr13I	GGNCC	1 cut(s)	153
CviAII	CATG	4 cut(s)	34, 212, 392, 473
CviJI	RGCY	8 cut(s)	89, 119, 195, 203, 238, 294, 336, 479
CviKI_1	RGCY	8 cut(s)	89, 119, 195, 203, 238, 294, 336, 479
DdeI	CTNAG	1 cut(s)	480
DpnI	GATC	6 cut(s)	101, 144, 309, 360, 432, 513
DpnII	GATC	6 cut(s)	99, 142, 307, 358, 430, 511
DraI	TTTAAA	1 cut(s)	126
Eam1104I	CTCTTC	1 cut(s)	377
EarI	CTCTTC	1 cut(s)	377
Eco130I	CCWWGG	1 cut(s)	268
Eco47I	GGWCC	1 cut(s)	153
Eco72I	CACGTG	1 cut(s)	148
EcoT14I	CCWWGG	1 cut(s)	268
EcoT22I	ATGCAT	1 cut(s)	35
ErhI	CCWWGG	1 cut(s)	268
FaeI	CATG	4 cut(s)	37, 215, 395, 476
FatI	CATG	4 cut(s)	33, 211, 391, 472
FauNDI	CATATG	1 cut(s)	412
FbaI	TGATCA	2 cut(s)	99, 511
Fnu4HI	GCNGC	1 cut(s)	334
FokI	GGATG	1 cut(s)	353
Fsp4HI	GCNGC	1 cut(s)	334
FspBI	CTAG	1 cut(s)	434
GluI	GCNGC	1 cut(s)	334
HapII	CCGG	1 cut(s)	337
Hin1II	CATG	4 cut(s)	37, 215, 395, 476
HindIII	AAGCTT	1 cut(s)	236
HinfI	GANTC	1 cut(s)	4
HpaII	CCGG	1 cut(s)	337
HphI	GGTGA	3 cut(s)	102, 143, 521
Hpy166II	GTNNAC	1 cut(s)	389
Hpy188III	TCNNGA	5 cut(s)	57, 140, 434, 473, 503
Hpy8I	GTNNAC	1 cut(s)	389
HpyAV	CCTTC	2 cut(s)	54, 316
HpyCH4III	ACNGT	2 cut(s)	440, 457
HpyCH4IV	ACGT	1 cut(s)	147
HpyCH4V	TGCA	2 cut(s)	33, 211
HpyF3I	CTNAG	1 cut(s)	480
HpySE526I	ACGT	1 cut(s)	147
Hsp92II	CATG	4 cut(s)	37, 215, 395, 476
Ksp22I	TGATCA	2 cut(s)	99, 511
Kzo9I	GATC	6 cut(s)	99, 142, 307, 358, 430, 511
LmnI	GCTCC	1 cut(s)	124
LpnPI	CCDG	2 cut(s)	350, 516
Lsp1109I	GCAGC	1 cut(s)	345
LweI	GCATC	2 cut(s)	20, 514
MaeI	CTAG	1 cut(s)	434
MaeII	ACGT	1 cut(s)	147
MaeIII	GTNAC	1 cut(s)	108
MalI	GATC	6 cut(s)	101, 144, 309, 360, 432, 513
MboI	GATC	6 cut(s)	99, 142, 307, 358, 430, 511
MboII	GAAGA	7 cut(s)	196, 236, 254, 368, 394, 473, 506
MflI	RGATCY	1 cut(s)	307
MhlI	GDGCHC	1 cut(s)	180
MluCI	AATT	5 cut(s)	24, 50, 103, 287, 366
MnlI	CCTC	4 cut(s)	166, 321, 391, 459
Mph1103I	ATGCAT	1 cut(s)	35
MroXI	GAANNNNTTC	1 cut(s)	498
MseI	TTAA	3 cut(s)	125, 315, 369
MslI	CAYNNNNRTG	1 cut(s)	14
MspI	CCGG	1 cut(s)	337
MspR9I	CCNGG	1 cut(s)	338
NciI	CCSGG	1 cut(s)	338
NdeI	CATATG	1 cut(s)	412
NdeII	GATC	6 cut(s)	99, 142, 307, 358, 430, 511
NlaIII	CATG	4 cut(s)	37, 215, 395, 476
NlaIV	GGNNCC	2 cut(s)	120, 309
NmuCI	GTSAC	1 cut(s)	108
NsiI	ATGCAT	1 cut(s)	35
NspI	RCATGY	3 cut(s)	37, 215, 395
OliI	CACNNNNGTG	1 cut(s)	14
PagI	TCATGA	1 cut(s)	472
PciI	ACATGT	1 cut(s)	391
PdmI	GAANNNNTTC	1 cut(s)	498
PfeI	GAWTC	1 cut(s)	4
PkrI	GCNGC	1 cut(s)	335
PmaCI	CACGTG	1 cut(s)	148
PmlI	CACGTG	1 cut(s)	148
Ppu21I	YACGTR	1 cut(s)	148
PscI	ACATGT	1 cut(s)	391
PspCI	CACGTG	1 cut(s)	148
PspN4I	GGNNCC	2 cut(s)	120, 309
PspPI	GGNCC	1 cut(s)	153
PsuI	RGATCY	1 cut(s)	307
RseI	CAYNNNNRTG	1 cut(s)	14
SaqAI	TTAA	3 cut(s)	125, 315, 369
SatI	GCNGC	1 cut(s)	334
Sau3AI	GATC	6 cut(s)	99, 142, 307, 358, 430, 511
Sau96I	GGNCC	1 cut(s)	153
ScrFI	CCNGG	1 cut(s)	338
SduI	GDGCHC	1 cut(s)	180
SetI	ASST	9 cut(s)	65, 91, 150, 191, 205, 240, 327, 402, 481
SfaNI	GCATC	2 cut(s)	20, 514
SfcI	CTRYAG	2 cut(s)	196, 453
SinI	GGWCC	1 cut(s)	153
SmiMI	CAYNNNNRTG	1 cut(s)	14
Sse9I	AATT	5 cut(s)	24, 50, 103, 287, 366
SspMI	CTAG	1 cut(s)	434
StyD4I	CCNGG	1 cut(s)	336
StyI	CCWWGG	1 cut(s)	268
TaaI	ACNGT	2 cut(s)	440, 457
TaiI	ACGT	1 cut(s)	150
TasI	AATT	5 cut(s)	24, 50, 103, 287, 366
TfiI	GAWTC	1 cut(s)	4
Tru1I	TTAA	3 cut(s)	125, 315, 369
Tru9I	TTAA	3 cut(s)	125, 315, 369
TseFI	GTSAC	1 cut(s)	108
TseI	GCWGC	1 cut(s)	333
Tsp45I	GTSAC	1 cut(s)	108
TspDTI	ATGAA	3 cut(s)	17, 297, 489
VpaK11BI	GGWCC	1 cut(s)	153
XapI	RAATTY	1 cut(s)	287
XbaI	TCTAGA	1 cut(s)	433
XceI	RCATGY	3 cut(s)	37, 215, 395
XmnI	GAANNNNTTC	1 cut(s)	498
XspI	CTAG	1 cut(s)	434
Zsp2I	ATGCAT	1 cut(s)	35

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