Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000003

Orthogroup ID

OG0001157

Physical Location & Seq

Genomic Coordinates Reverse (-)

67713344 .. 67715030

Gene Structure 1687 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_3G00276420.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 642 bp

ATGAATCAATCCACCCACCGGCCTCTTGCACCCACCGCCAATTCCGATCAAACTTGGGAGGACATTTCCATGGACTTCATCGAAGGGTTGCCGAATTCTCAAGGCTACAACGCTATCATGGTTGTCGTTGATCGCCTATCCAAATATGCACACTTTGTGCTCGTGTCTCATCCATTTACAGCCTCCAAAATAGCTGATGCCTTCATGAAGCATATCTTCAAACTCCATGGCATGCCAAAGCGGATTGTTAGTGACCGTGACCCCGTTTTCTTGAGCCATTTTTGGACTGCTTTTTTCAAACTACAAGGCACACAACTCGCCATAGCTCGCATATCACCCATAATCGATGGTCAATCCGAAGTGGTTAATCGTTCTTTGGAACACTTTCTTCGTTGCTTTGTGCCGGACAAGCCATCTACATGGAACGAACTGCTACATCGGGCCGAGTGGTGGAATAACACCACTTTCCATTCCACAATTCGAATGTCCCCCTTTAAGGCACTCTATGGTCATCCCCCACCCTCAATCAAGAAATACCTTCCCGGTTCAACAAAGGTGCATGCCGTGGACTCCACCTTACAAAGCCGAGACCTTCTCCTCCAAAACCTCAAGTCTCACATGGCGAAGCTCAAAACAGAATGA

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

213

Amino Acids

24.38

Weight (kDa)

9.49

Isoelectric Point (pI)

39.54

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
rve	PF00665	22 - 107	1.4e-07	Integrase core 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)

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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: OG0001157)

Species	Orthologous Gene IDs
arabidopsis_thaliana	ATMG00850
fragaria_vesca	FvH4_1g23441 FvH4_2g05351 FvH4_3g42702 FvH4_4g00102 FvH4_4g14286 FvH4_4g15489 FvH4_6g15081 FvH4_6g32371 FvH4_7g29723 FvH4_7g29724
malus_domestica	MD03G1059800.v1.1
pyrus_communis	pycom02g17090 pycom04g00340
rosa_chinensis	RchiOBHm_Chr1g0313301 RchiOBHm_Chr1g0339801 RchiOBHm_Chr1g0384471 RchiOBHm_Chr2g0098581 RchiOBHm_Chr2g0099161 RchiOBHm_Chr2g0174581 RchiOBHm_Chr3g0488331 RchiOBHm_Chr5g0056121 RchiOBHm_Chr5g0056131 RchiOBHm_Chr5g0082941 RchiOBHm_Chr6g0250891 RchiOBHm_Chr6g0258591 RchiOBHm_Chr6g0290351
rosa_laevigata	RLG00000002118 RLG00000010853 RLG00000024377 RLG00000030355
rosa_roxburghii	Rroxscaffold_155G00443850 Rroxscaffold_159G00432700 Rroxscaffold_1G00045030 Rroxscaffold_1G00066280 Rroxscaffold_3G00276420 Rroxscaffold_5G00359430 Rroxscaffold_5G00378120
rosa_rugosa	Rorug06G0154800
rosa_samantha	Rh1AG114400 Rh3BG237700 Rh3CG227400
rosa_wichuraiana	Rw0G004600 Rw0G007090 Rw1G026280 Rw1G036440 Rw2G004680 Rw2G015650 Rw3G000560 Rw3G014520 Rw3G020520 Rw4G027690 Rw5G014430 Rw5G014610 Rw6G001250 Rw7G007160 Rw7G031470

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	2 cut(s)	36, 241
AcsI	RAATTY	1 cut(s)	94
AdeI	CACNNNGTG	1 cut(s)	157
AfiI	CCNNNNNNNGG	3 cut(s)	18, 450, 496
AgsI	TTSAA	3 cut(s)	220, 298, 549
AluBI	AGCT	3 cut(s)	194, 326, 628
AluI	AGCT	3 cut(s)	194, 326, 628
Alw21I	GWGCWC	1 cut(s)	162
Alw26I	GTCTC	3 cut(s)	171, 582, 618
AoxI	GGCC	2 cut(s)	20, 441
ApoI	RAATTY	1 cut(s)	94
Asp700I	GAANNNNTTC	1 cut(s)	384
AspS9I	GGNCC	1 cut(s)	441
AsuC2I	CCSGG	1 cut(s)	543
AsuHPI	GGTGA	1 cut(s)	327
AsuII	TTCGAA	1 cut(s)	481
BauI	CACGAG	1 cut(s)	161
Bbv12I	GWGCWC	1 cut(s)	162
BccI	CCATC	2 cut(s)	341, 421
BceAI	ACGGC	1 cut(s)	548
BcgI	CGANNNNNNTGC	2 cut(s)	298, 332
BcnI	CCSGG	1 cut(s)	543
BcoDI	GTCTC	3 cut(s)	171, 582, 618
Bme1390I	CCNGG	1 cut(s)	543
BmgT120I	GGNCC	1 cut(s)	441
BmrFI	CCNGG	1 cut(s)	543
BmsI	GCATC	1 cut(s)	187
BplI	GAGNNNNNCTC	2 cut(s)	579, 611
Bpu14I	TTCGAA	1 cut(s)	481
BpuEI	CTTGAG	3 cut(s)	84, 292, 593
BpuMI	CCSGG	1 cut(s)	543
Bsa29I	ATCGAT	1 cut(s)	345
BsaI	GGTCTC	1 cut(s)	582
BsaJI	CCNNGG	3 cut(s)	69, 226, 564
Bsc4I	CCNNNNNNNGG	3 cut(s)	18, 450, 496
Bse118I	RCCGGY	1 cut(s)	18
BseCI	ATCGAT	1 cut(s)	345
BseDI	CCNNGG	3 cut(s)	69, 226, 564
BseGI	GGATG	2 cut(s)	169, 511
BseLI	CCNNNNNNNGG	3 cut(s)	18, 450, 496
BseRI	GAGGAG	1 cut(s)	587
BshFI	GGCC	2 cut(s)	22, 443
BshVI	ATCGAT	1 cut(s)	345
BsiHKAI	GWGCWC	1 cut(s)	162
BsiSI	CCGG	3 cut(s)	19, 404, 543
BslFI	GGGAC	1 cut(s)	472
BslI	CCNNNNNNNGG	3 cut(s)	18, 450, 496
BsmAI	GTCTC	3 cut(s)	171, 582, 618
BsmFI	GGGAC	1 cut(s)	472
BsnI	GGCC	2 cut(s)	22, 443
Bso31I	GGTCTC	1 cut(s)	582
Bsp119I	TTCGAA	1 cut(s)	481
Bsp1286I	GDGCHC	1 cut(s)	162
Bsp143I	GATC	2 cut(s)	46, 130
Bsp19I	CCATGG	2 cut(s)	69, 226
BspACI	CCGC	2 cut(s)	36, 241
BspANI	GGCC	2 cut(s)	22, 443
BspDI	ATCGAT	1 cut(s)	345
BspHI	TCATGA	1 cut(s)	204
BspT104I	TTCGAA	1 cut(s)	481
BspTNI	GGTCTC	1 cut(s)	582
BsrFI	RCCGGY	1 cut(s)	18
BssAI	RCCGGY	1 cut(s)	18
BssECI	CCNNGG	3 cut(s)	69, 226, 564
BssMI	GATC	2 cut(s)	46, 130
BssSI	CACGAG	1 cut(s)	161
BssT1I	CCWWGG	2 cut(s)	69, 226
Bst2BI	CACGAG	1 cut(s)	161
Bst4CI	ACNGT	1 cut(s)	257
BstBI	TTCGAA	1 cut(s)	481
BstC8I	GCNNGC	3 cut(s)	233, 328, 561
BstDSI	CCRYGG	3 cut(s)	69, 226, 564
BstF5I	GGATG	2 cut(s)	169, 511
BstKTI	GATC	2 cut(s)	49, 133
BstMAI	GTCTC	3 cut(s)	171, 582, 618
BstMBI	GATC	2 cut(s)	46, 130
BstMWI	GCNNNNNNNGC	2 cut(s)	35, 409
BstNSI	RCATGY	2 cut(s)	235, 563
BstSCI	CCNGG	1 cut(s)	541
BstXI	CCANNNNNNTGG	1 cut(s)	420
Bsu15I	ATCGAT	1 cut(s)	345
BsuRI	GGCC	2 cut(s)	22, 443
BsuTUI	ATCGAT	1 cut(s)	345
BtgI	CCRYGG	3 cut(s)	69, 226, 564
BtsCI	GGATG	2 cut(s)	169, 511
Cac8I	GCNNGC	3 cut(s)	233, 328, 561
CciI	TCATGA	1 cut(s)	204
Cfr10I	RCCGGY	1 cut(s)	18
Cfr13I	GGNCC	1 cut(s)	441
ClaI	ATCGAT	1 cut(s)	345
CviAII	CATG	8 cut(s)	70, 118, 205, 227, 232, 420, 560, 619
DpnI	GATC	2 cut(s)	48, 132
DpnII	GATC	2 cut(s)	46, 130
DraIII	CACNNNGTG	1 cut(s)	157
Eco130I	CCWWGG	2 cut(s)	69, 226
Eco31I	GGTCTC	1 cut(s)	582
EcoRI	GAATTC	1 cut(s)	94
EcoT14I	CCWWGG	2 cut(s)	69, 226
ErhI	CCWWGG	2 cut(s)	69, 226
FaeI	CATG	8 cut(s)	73, 121, 208, 230, 235, 423, 563, 622
FalI	AAGNNNNNCTT	2 cut(s)	200, 232
FaqI	GGGAC	1 cut(s)	472
FatI	CATG	8 cut(s)	69, 117, 204, 226, 231, 419, 559, 618
FokI	GGATG	2 cut(s)	156, 498
HaeIII	GGCC	2 cut(s)	22, 443
HapII	CCGG	3 cut(s)	19, 404, 543
Hin1II	CATG	8 cut(s)	73, 121, 208, 230, 235, 423, 563, 622
HinfI	GANTC	2 cut(s)	4, 569
HpaII	CCGG	3 cut(s)	19, 404, 543
HphI	GGTGA	1 cut(s)	327
Hpy166II	GTNNAC	1 cut(s)	568
Hpy188I	TCNGA	2 cut(s)	46, 358
Hpy188III	TCNNGA	3 cut(s)	205, 271, 529
Hpy8I	GTNNAC	1 cut(s)	568
HpyAV	CCTTC	4 cut(s)	77, 211, 548, 602
HpyCH4III	ACNGT	1 cut(s)	257
HpyCH4V	TGCA	3 cut(s)	29, 149, 559
HpyF10VI	GCNNNNNNNGC	2 cut(s)	35, 409
Hsp92II	CATG	8 cut(s)	73, 121, 208, 230, 235, 423, 563, 622
Kzo9I	GATC	2 cut(s)	46, 130
LpnPI	CCDG	3 cut(s)	32, 417, 556
LweI	GCATC	1 cut(s)	187
MaeIII	GTNAC	2 cut(s)	251, 257
MalI	GATC	2 cut(s)	48, 132
MboI	GATC	2 cut(s)	46, 130
MboII	GAAGA	2 cut(s)	208, 380
MhlI	GDGCHC	1 cut(s)	162
MluCI	AATT	3 cut(s)	40, 94, 477
MlyI	GAGTC	1 cut(s)	563
MnlI	CCTC	6 cut(s)	33, 52, 193, 532, 608, 617
MroXI	GAANNNNTTC	1 cut(s)	384
MseI	TTAA	2 cut(s)	366, 495
MslI	CAYNNNNRTG	2 cut(s)	68, 418
MspI	CCGG	3 cut(s)	19, 404, 543
MspR9I	CCNGG	1 cut(s)	543
MwoI	GCNNNNNNNGC	2 cut(s)	35, 409
NciI	CCSGG	1 cut(s)	543
NcoI	CCATGG	2 cut(s)	69, 226
NdeII	GATC	2 cut(s)	46, 130
NlaIII	CATG	8 cut(s)	73, 121, 208, 230, 235, 423, 563, 622
NmeAIII	GCCGAG	2 cut(s)	469, 611
NmuCI	GTSAC	2 cut(s)	251, 257
NspI	RCATGY	2 cut(s)	235, 563
NspV	TTCGAA	1 cut(s)	481
PaeI	GCATGC	2 cut(s)	235, 563
PagI	TCATGA	1 cut(s)	204
PdmI	GAANNNNTTC	1 cut(s)	384
PfeI	GAWTC	1 cut(s)	4
PleI	GAGTC	1 cut(s)	563
PpsI	GAGTC	1 cut(s)	563
PspPI	GGNCC	1 cut(s)	441
RseI	CAYNNNNRTG	2 cut(s)	68, 418
SaqAI	TTAA	2 cut(s)	366, 495
Sau3AI	GATC	2 cut(s)	46, 130
Sau96I	GGNCC	1 cut(s)	441
SchI	GAGTC	1 cut(s)	563
ScrFI	CCNGG	1 cut(s)	543
SduI	GDGCHC	1 cut(s)	162
SetI	ASST	8 cut(s)	196, 328, 540, 558, 578, 594, 609, 630
SfaNI	GCATC	1 cut(s)	187
SfuI	TTCGAA	1 cut(s)	481
SmiMI	CAYNNNNRTG	2 cut(s)	68, 418
SmlI	CTYRAG	3 cut(s)	99, 271, 608
SmoI	CTYRAG	3 cut(s)	99, 271, 608
SphI	GCATGC	2 cut(s)	235, 563
Sse9I	AATT	3 cut(s)	40, 94, 477
SsiI	CCGC	2 cut(s)	36, 241
StyD4I	CCNGG	1 cut(s)	541
StyI	CCWWGG	2 cut(s)	69, 226
TaaI	ACNGT	1 cut(s)	257
TaqI	TCGA	3 cut(s)	81, 345, 481
TasI	AATT	3 cut(s)	40, 94, 477
TfiI	GAWTC	1 cut(s)	4
Tru1I	TTAA	2 cut(s)	366, 495
Tru9I	TTAA	2 cut(s)	366, 495
TseFI	GTSAC	2 cut(s)	251, 257
Tsp45I	GTSAC	2 cut(s)	251, 257
TspDTI	ATGAA	4 cut(s)	17, 67, 193, 221
XapI	RAATTY	1 cut(s)	94
XceI	RCATGY	2 cut(s)	235, 563
XmnI	GAANNNNTTC	1 cut(s)	384

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