Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2D

Orthogroup ID

OG0000949

Physical Location & Seq

Genomic Coordinates Reverse (-)

62613765 .. 62622629

Gene Structure 8865 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2DG433100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 786 bp

ATGGAGGTTAGCCAAAACCAGAAGGCCCCTAAAGCTCCGAGGGCCCCAATGCCCTCTCATTTCATGGTTGGCACGATCCCTGTTTACCTGCCCACCATAGAGACTGTGATGGTGACTTCTACCAATGGAAGTGATGAAAGTGATTCAAAGGATAAGCGTGAAGCTCGTCCTTCACATGGAAGTTCGCAAAGGTCCGCAGTGCCTTCACAACAAGCAGCATCAGAGGAGACCCAAGATCTGGACCCCAAGAAACTAGTTGAGGAGATAGTGAAGGCCCTCGACACACCACCAAAAGCTCCAGGGAGACCAAAGGGAGCCAAGAACAAAGAGTATCCAATTTATGGAGGTGACTCTTACCCTGGACCGGTTACCCGCAATATGGCTAAAAAGATGACGCCTGGTACATCGTCAACAAGTACCACGTCAGAAGAGGGATATTTGTCACTGAAGGACAGTCCTTTATATGTGTCCTGGAAGGGCTGTGAGTTTTGGTCAAGGAATCCTGGAGCAAAATTCAAGAAAACTCTCTCCTATGTATTGATGAACAATTCCTGGAAACATCACCGAACAGAAGAAGGAAAAATTGGGGCATGTCAATATGAATGTAATACAAATCAATGGCTGCTCAAGTACAAAAGAGACAAGCAAAAGCATACGTTCAAACAAAACAAAGCAGGCCATAAGTCACCAAGCAAGTGCTTCATAATATCAGCTTTGCCCACACTGAACAAAAAACAAGAGAAGGGGGGGCAGGTTATGCCACCACTAGCGAATATGGGAGATTGA

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 RVT_3 Retrotrans_gag rve

Protein Analysis

261

Amino Acids

28.93

Weight (kDa)

9.52

Isoelectric Point (pI)

52.84

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

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: OG0000949)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_2g16861 FvH4_3g30530 FvH4_4g10331
prunus_persica	Prupe.2G142600_v2.0.a1 Prupe.5G153300_v2.0.a1
pyrus_communis	pycom11g20890
rosa_chinensis	RchiOBHm_Chr1g0344221 RchiOBHm_Chr2g0147381 RchiOBHm_Chr2g0154091 RchiOBHm_Chr4g0394431 RchiOBHm_Chr4g0421521 RchiOBHm_Chr6g0274071 RchiOBHm_Chr6g0277071
rosa_laevigata	RLG00000014255
rosa_multiflora	Rmu_co8240637.1_g000001 Rmu_co8485309.1_g000002 Rmu_sc0000455.1_g000055 Rmu_sc0001846.1_g000005 Rmu_sc0002281.1_g000023 Rmu_sc0002772.1_g000021 Rmu_sc0003316.1_g000009 Rmu_sc0004915.1_g000013 Rmu_sc0005465.1_g000001 Rmu_sc0007612.1_g000028 Rmu_sc0009481.1_g000011 Rmu_sc0011709.1_g000004 Rmu_sc0012179.1_g000003 Rmu_sc0014556.1_g000001 Rmu_sc0018308.1_g000001 Rmu_sc0033766.1_g000001
rosa_roxburghii	Rroxscaffold_1G00021100 Rroxscaffold_2G00111780 Rroxscaffold_3G00254520 Rroxscaffold_4G00318760 Rroxscaffold_4G00318770 Rroxscaffold_5G00364750 Rroxscaffold_5G00377430 Rroxscaffold_6G00423030 Rroxscaffold_7G00203610 Rroxscaffold_7G00203960
rosa_rugosa	Rorug01G0056200 Rorug07G0209200
rosa_samantha	Rh1AG072800 Rh1BG059400 Rh1BG092000 Rh1CG071900 Rh2BG331300 Rh2BG512600 Rh2BG515900 Rh2BG517600 Rh2DG120700 Rh2DG420800 Rh2DG433100 Rh2DG524200 Rh2DG529300 Rh4AG003200 Rh4BG121400 Rh4CG032100 Rh4CG052300 Rh5BG244400 Rh5CG363100 Rh6AG117400 Rh7BG296900 Rh7BG452300

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	2 cut(s)	96, 742
AccB7I	CCANNNNNTGG	2 cut(s)	238, 341
AciI	CCGC	2 cut(s)	195, 373
AclWI	GGATC	1 cut(s)	70
AcsI	RAATTY	1 cut(s)	512
AcuI	CTGAAG	1 cut(s)	467
AcyI	GRCGYC	1 cut(s)	395
AfaI	GTAC	3 cut(s)	403, 418, 632
AfiI	CCNNNNNNNGG	5 cut(s)	176, 238, 341, 364, 379
AgeI	ACCGGT	1 cut(s)	364
AgsI	TTSAA	3 cut(s)	147, 517, 661
AhlI	ACTAGT	1 cut(s)	253
AjiI	CACGTC	1 cut(s)	423
AjnI	CCWGG	6 cut(s)	298, 358, 397, 470, 502, 551
AjuI	GAANNNNNNNTTGG	2 cut(s)	567, 599
AluBI	AGCT	4 cut(s)	35, 164, 296, 713
AluI	AGCT	4 cut(s)	35, 164, 296, 713
Alw26I	GTCTC	4 cut(s)	95, 221, 298, 633
AlwI	GGATC	1 cut(s)	70
AoxI	GGCC	4 cut(s)	24, 42, 273, 676
ApaI	GGGCCC	1 cut(s)	46
ApeKI	GCWGC	2 cut(s)	215, 622
ApoI	RAATTY	1 cut(s)	512
AsiGI	ACCGGT	1 cut(s)	364
AspS9I	GGNCC	7 cut(s)	25, 42, 43, 192, 241, 274, 362
AsuHPI	GGTGA	4 cut(s)	124, 359, 554, 678
AvaII	GGWCC	3 cut(s)	192, 241, 362
BaeGI	GKGCMC	1 cut(s)	46
BanII	GRGCYC	1 cut(s)	46
BbvI	GCAGC	2 cut(s)	227, 609
BccI	CCATC	1 cut(s)	103
BciT130I	CCWGG	6 cut(s)	300, 360, 399, 472, 504, 553
BciVI	GTATCC	1 cut(s)	342
BcoDI	GTCTC	4 cut(s)	95, 221, 298, 633
BcuI	ACTAGT	1 cut(s)	253
BfaI	CTAG	2 cut(s)	254, 767
BfuAI	ACCTGC	2 cut(s)	96, 742
BfuI	GTATCC	1 cut(s)	342
BglII	AGATCT	1 cut(s)	235
BisI	GCNGC	2 cut(s)	216, 623
BlsI	GCNGC	2 cut(s)	217, 624
Bme1390I	CCNGG	6 cut(s)	300, 360, 399, 472, 504, 553
Bme18I	GGWCC	3 cut(s)	192, 241, 362
BmgBI	CACGTC	1 cut(s)	423
BmgT120I	GGNCC	7 cut(s)	25, 42, 43, 192, 241, 274, 362
BmiI	GGNNCC	5 cut(s)	27, 44, 45, 243, 316
BmrFI	CCNGG	6 cut(s)	300, 360, 399, 472, 504, 553
BmsI	GCATC	1 cut(s)	227
BpmI	CTGGAG	2 cut(s)	282, 525
BpuEI	CTTGAG	1 cut(s)	611
BsaHI	GRCGYC	1 cut(s)	395
BsaI	GGTCTC	2 cut(s)	221, 298
BsaJI	CCNNGG	3 cut(s)	38, 299, 358
BsaWI	WCCGGW	1 cut(s)	364
Bsc4I	CCNNNNNNNGG	5 cut(s)	176, 238, 341, 364, 379
Bse118I	RCCGGY	1 cut(s)	364
BseBI	CCWGG	6 cut(s)	300, 360, 399, 472, 504, 553
BseDI	CCNNGG	3 cut(s)	38, 299, 358
BseLI	CCNNNNNNNGG	5 cut(s)	176, 238, 341, 364, 379
BseRI	GAGGAG	2 cut(s)	239, 275
BseSI	GKGCMC	1 cut(s)	46
BseXI	GCAGC	2 cut(s)	227, 609
BshFI	GGCC	4 cut(s)	26, 44, 275, 678
BshTI	ACCGGT	1 cut(s)	364
BsiSI	CCGG	1 cut(s)	365
BslI	CCNNNNNNNGG	5 cut(s)	176, 238, 341, 364, 379
BsmAI	GTCTC	4 cut(s)	95, 221, 298, 633
BsnI	GGCC	4 cut(s)	26, 44, 275, 678
Bso31I	GGTCTC	2 cut(s)	221, 298
Bsp120I	GGGCCC	1 cut(s)	42
Bsp1286I	GDGCHC	1 cut(s)	46
Bsp143I	GATC	2 cut(s)	75, 235
BspACI	CCGC	2 cut(s)	195, 373
BspANI	GGCC	4 cut(s)	26, 44, 275, 678
BspLI	GGNNCC	5 cut(s)	27, 44, 45, 243, 316
BspMI	ACCTGC	2 cut(s)	96, 742
BspPI	GGATC	1 cut(s)	70
BspTNI	GGTCTC	2 cut(s)	221, 298
BsrFI	RCCGGY	1 cut(s)	364
BssAI	RCCGGY	1 cut(s)	364
BssECI	CCNNGG	3 cut(s)	38, 299, 358
BssMI	GATC	2 cut(s)	75, 235
BssNI	GRCGYC	1 cut(s)	395
Bst2UI	CCWGG	6 cut(s)	300, 360, 399, 472, 504, 553
Bst4CI	ACNGT	2 cut(s)	106, 455
Bst6I	CTCTTC	1 cut(s)	423
BstACI	GRCGYC	1 cut(s)	395
BstAPI	GCANNNNNTGC	1 cut(s)	757
BstC8I	GCNNGC	1 cut(s)	676
BstEII	GGTNACC	1 cut(s)	367
BstKTI	GATC	2 cut(s)	78, 238
BstMAI	GTCTC	4 cut(s)	95, 221, 298, 633
BstMBI	GATC	2 cut(s)	75, 235
BstMWI	GCNNNNNNNGC	3 cut(s)	32, 41, 757
BstNI	CCWGG	6 cut(s)	300, 360, 399, 472, 504, 553
BstNSI	RCATGY	1 cut(s)	594
BstPI	GGTNACC	1 cut(s)	367
BstSCI	CCNGG	6 cut(s)	298, 358, 397, 470, 502, 551
BstSLI	GKGCMC	1 cut(s)	46
BstV1I	GCAGC	2 cut(s)	227, 609
BstX2I	RGATCY	1 cut(s)	235
BstYI	RGATCY	1 cut(s)	235
BsuI	GTATCC	1 cut(s)	342
BsuRI	GGCC	4 cut(s)	26, 44, 275, 678
BtrI	CACGTC	1 cut(s)	423
BtsI	GCAGTG	1 cut(s)	204
BtsIMutI	CAGTG	3 cut(s)	204, 443, 722
BveI	ACCTGC	2 cut(s)	96, 742
Cac8I	GCNNGC	1 cut(s)	676
Cfr10I	RCCGGY	1 cut(s)	364
Cfr13I	GGNCC	7 cut(s)	25, 42, 43, 192, 241, 274, 362
CseI	GACGC	1 cut(s)	403
Csp6I	GTAC	3 cut(s)	402, 417, 631
CspAI	ACCGGT	1 cut(s)	364
CviAII	CATG	3 cut(s)	64, 176, 591
CviQI	GTAC	3 cut(s)	402, 417, 631
DpnI	GATC	2 cut(s)	77, 237
DpnII	GATC	2 cut(s)	75, 235
Eam1104I	CTCTTC	1 cut(s)	423
EarI	CTCTTC	1 cut(s)	423
Eco24I	GRGCYC	1 cut(s)	46
Eco31I	GGTCTC	2 cut(s)	221, 298
Eco47I	GGWCC	3 cut(s)	192, 241, 362
Eco57I	CTGAAG	1 cut(s)	467
Eco91I	GGTNACC	1 cut(s)	367
EcoO109I	RGGNCCY	4 cut(s)	25, 42, 43, 274
EcoO65I	GGTNACC	1 cut(s)	367
EcoRII	CCWGG	6 cut(s)	298, 358, 397, 470, 502, 551
EcoT38I	GRGCYC	1 cut(s)	46
FaeI	CATG	3 cut(s)	67, 179, 594
FatI	CATG	3 cut(s)	63, 175, 590
FauI	CCCGC	1 cut(s)	380
Fnu4HI	GCNGC	2 cut(s)	216, 623
FriOI	GRGCYC	1 cut(s)	46
Fsp4HI	GCNGC	2 cut(s)	216, 623
FspBI	CTAG	2 cut(s)	254, 767
GluI	GCNGC	2 cut(s)	216, 623
GsuI	CTGGAG	2 cut(s)	282, 525
HaeIII	GGCC	4 cut(s)	26, 44, 275, 678
HapII	CCGG	1 cut(s)	365
HgaI	GACGC	1 cut(s)	403
Hin1I	GRCGYC	1 cut(s)	395
Hin1II	CATG	3 cut(s)	67, 179, 594
HincII	GTYRAC	1 cut(s)	411
HindII	GTYRAC	1 cut(s)	411
HinfI	GANTC	3 cut(s)	143, 350, 499
HpaII	CCGG	1 cut(s)	365
HphI	GGTGA	4 cut(s)	124, 359, 554, 678
Hpy166II	GTNNAC	2 cut(s)	85, 411
Hpy188I	TCNGA	3 cut(s)	39, 223, 427
Hpy188III	TCNNGA	2 cut(s)	239, 517
Hpy8I	GTNNAC	2 cut(s)	85, 411
HpyAV	CCTTC	8 cut(s)	16, 180, 213, 265, 442, 469, 569, 736
HpyCH4III	ACNGT	2 cut(s)	106, 455
HpyCH4IV	ACGT	2 cut(s)	422, 656
HpyF10VI	GCNNNNNNNGC	3 cut(s)	32, 41, 757
HpySE526I	ACGT	2 cut(s)	422, 656
Hsp92I	GRCGYC	1 cut(s)	395
Hsp92II	CATG	3 cut(s)	67, 179, 594
Kzo9I	GATC	2 cut(s)	75, 235
LmnI	GCTCC	4 cut(s)	40, 301, 314, 506
Lsp1109I	GCAGC	2 cut(s)	227, 609
LweI	GCATC	1 cut(s)	227
MaeI	CTAG	2 cut(s)	254, 767
MaeII	ACGT	2 cut(s)	422, 656
MaeIII	GTNAC	5 cut(s)	112, 347, 367, 441, 684
MalI	GATC	2 cut(s)	77, 237
MboI	GATC	2 cut(s)	75, 235
MboII	GAAGA	2 cut(s)	440, 584
MflI	RGATCY	1 cut(s)	235
MhlI	GDGCHC	1 cut(s)	46
MluCI	AATT	4 cut(s)	336, 512, 547, 582
MlyI	GAGTC	1 cut(s)	344
MnlI	CCTC	7 cut(s)	33, 64, 217, 253, 287, 338, 424
MspI	CCGG	1 cut(s)	365
MspR9I	CCNGG	6 cut(s)	300, 360, 399, 472, 504, 553
MvaI	CCWGG	6 cut(s)	300, 360, 399, 472, 504, 553
MwoI	GCNNNNNNNGC	3 cut(s)	32, 41, 757
NdeII	GATC	2 cut(s)	75, 235
NlaIII	CATG	3 cut(s)	67, 179, 594
NlaIV	GGNNCC	5 cut(s)	27, 44, 45, 243, 316
NmuCI	GTSAC	4 cut(s)	112, 347, 441, 684
NspI	RCATGY	1 cut(s)	594
PfeI	GAWTC	2 cut(s)	143, 499
PflMI	CCANNNNNTGG	2 cut(s)	238, 341
PfoI	TCCNGGA	3 cut(s)	470, 502, 551
PinAI	ACCGGT	1 cut(s)	364
PkrI	GCNGC	2 cut(s)	217, 624
PleI	GAGTC	1 cut(s)	344
PpsI	GAGTC	1 cut(s)	344
Psp6I	CCWGG	6 cut(s)	298, 358, 397, 470, 502, 551
PspEI	GGTNACC	1 cut(s)	367
PspGI	CCWGG	6 cut(s)	298, 358, 397, 470, 502, 551
PspN4I	GGNNCC	5 cut(s)	27, 44, 45, 243, 316
PspOMI	GGGCCC	1 cut(s)	42
PspPI	GGNCC	7 cut(s)	25, 42, 43, 192, 241, 274, 362
PsuI	RGATCY	1 cut(s)	235
RsaI	GTAC	3 cut(s)	403, 418, 632
RsaNI	GTAC	3 cut(s)	402, 417, 631
SatI	GCNGC	2 cut(s)	216, 623
Sau3AI	GATC	2 cut(s)	75, 235
Sau96I	GGNCC	7 cut(s)	25, 42, 43, 192, 241, 274, 362
SchI	GAGTC	1 cut(s)	344
ScrFI	CCNGG	6 cut(s)	300, 360, 399, 472, 504, 553
SduI	GDGCHC	1 cut(s)	46
SfaNI	GCATC	1 cut(s)	227
SinI	GGWCC	3 cut(s)	192, 241, 362
SmlI	CTYRAG	1 cut(s)	626
SmoI	CTYRAG	1 cut(s)	626
SpeI	ACTAGT	1 cut(s)	253
Sse9I	AATT	4 cut(s)	336, 512, 547, 582
SsiI	CCGC	2 cut(s)	195, 373
SspMI	CTAG	2 cut(s)	254, 767
StyD4I	CCNGG	6 cut(s)	298, 358, 397, 470, 502, 551
TaaI	ACNGT	2 cut(s)	106, 455
TaiI	ACGT	2 cut(s)	425, 659
TaqI	TCGA	1 cut(s)	279
TasI	AATT	4 cut(s)	336, 512, 547, 582
TatI	WGTACW	1 cut(s)	630
TfiI	GAWTC	2 cut(s)	143, 499
TscAI	CASTG	3 cut(s)	204, 450, 729
TseFI	GTSAC	4 cut(s)	112, 347, 441, 684
TseI	GCWGC	2 cut(s)	215, 622
Tsp45I	GTSAC	4 cut(s)	112, 347, 441, 684
TspDTI	ATGAA	5 cut(s)	52, 150, 557, 615, 691
TspRI	CASTG	3 cut(s)	204, 450, 729
Van91I	CCANNNNNTGG	2 cut(s)	238, 341
VpaK11BI	GGWCC	3 cut(s)	192, 241, 362
XapI	RAATTY	1 cut(s)	512
XceI	RCATGY	1 cut(s)	594
XspI	CTAG	2 cut(s)	254, 767

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