Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4D

Orthogroup ID

OG0007119

Physical Location & Seq

Genomic Coordinates Forward (+)

15777115 .. 15782748

Gene Structure 5634 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4DG102900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 801 bp

ATGAACGTGAGCCAGTTCGACGGAAGCGCCGCCTTCCACGGCGGTGGGTTCATGCCCCCCGCCGCCAACCCAACCCCCGAACACTCTTTCTTTCCTTCCAAGAATCGTGACGTCCAAACACTTCTTCCAGTAACCCTTAAGCAGATTAATGACGCCATTGCCGGCGAAAATGGTAAAAGCGATTTCTCTATTGACGGCGTCGATGTGTCCACTGTTAAGCTTGTGGGAGTAGTGCAGGAGTTTGTTGGAAGATGTACAGATGCTACTTTCACTCTTGATGACGGGACCGGCCGGGTTGAATGCAACAGATGGTGTCAGGAGCAAATAGACACTGCCGAAATCGAAGGAATCTCGAACGGAATGTACGTTCGGGTTCATGGGCGCTTGAAAACCTTTCAGGGGAAGAAGACCATACAAGTGTTCTCTGTTAGGCCTGTGGATGACTATAATGAGATTGCAAGCCACTTTATCGAGTGTATGTACGTACATTTCTTCAACAGCAAGTTACTGAAACCACAGGTTGGTGTAGGTGTCACAACTCAGCCATATATGACAATTCCACCAAATCAGGTATCTGGACAACATAGCCTCTATGGACAGAGGAACATTGAAGAAAGGGTCTTACAAGTTTTGAACCAGCCTTTATACCTTTCAAGGGATGCGGGAGCAAACGCTGAGGATATTGCCCAACAACTGAAAGTACCAGTGAAAGATGTCATACATGCTGCTACTAATCTTGCTAATGTAGGCAGTATTTACGAGATCGATAAGTTGCACTATAAATCTCTTGTCAATGGTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000228 GO:0000278 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005657 GO:0005662 GO:0005694 GO:0006139 GO:0006259 GO:0006260 GO:0006261 GO:0006269 GO:0006281 GO:0006310 GO:0006725 GO:0006807 GO:0006950 GO:0006974 GO:0007049 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009987 GO:0016070 GO:0018130 GO:0019438 GO:0022402 GO:0030894 GO:0031974 GO:0031981 GO:0032774 GO:0032991 GO:0032993 GO:0033260 GO:0033554 GO:0034641 GO:0034645 GO:0034654 GO:0035861 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0043596 GO:0043601 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044271 GO:0044422 GO:0044424 GO:0044427 GO:0044428 GO:0044446 GO:0044454 GO:0044464 GO:0044786 GO:0046483 GO:0050896 GO:0051716 GO:0070013 GO:0071704 GO:0090304 GO:0090734 GO:1901360 GO:1901362 GO:1901576 GO:1902295 GO:1902318 GO:1902969 GO:1902981 GO:1903047

KEGG Pathways

Metabolic & Signaling

ko03030 ko03420 ko03430 ko03440 ko03460 map03030 map03420 map03430 map03440 map03460

Pfam Domains

Protein Families

RPA_C tRNA_anti-codon

Protein Analysis

266

Amino Acids

29.3

Weight (kDa)

5.74

Isoelectric Point (pI)

38.47

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
tRNA_anti-codon	PF01336	72 - 145	4.9e-09	OB-fold nucleic acid binding domain
RPA_C	PF08784	192 - 254	2.7e-08	Replication protein A C terminal

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

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Orthologous Genes (Group: OG0007119)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G02920 AT3G02920 AT3G02920
fragaria_vesca	FvH4_4g08140 FvH4_4g08140 FvH4_4g08140 FvH4_4g08140 FvH4_4g08140
malus_domestica	MD13G1252800.v1.1
prunus_persica	Prupe.1G085000_v2.0.a1 Prupe.1G085000_v2.0.a1 Prupe.1G085000_v2.0.a1
pyrus_communis	pycom13g22520
rosa_chinensis	RchiOBHm_Chr4g0402271
rosa_laevigata	RLG00000009105
rosa_multiflora	Rmu_sc0002324.1_g000023 Rmu_sc0008199.1_g000001
rosa_roxburghii	Rroxscaffold_5G00346990
rosa_rugosa	Rorug04G0034200
rosa_samantha	Rh4AG111500 Rh4BG104200 Rh4CG118500 Rh4DG102900 Rh4DG103400
rosa_wichuraiana	Rw4G008960

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AatII	GACGTC	1 cut(s)	114
AccB7I	CCANNNNNTGG	1 cut(s)	521
AciI	CCGC	5 cut(s)	30, 42, 60, 63, 662
AcoI	YGGCCR	1 cut(s)	289
AcyI	GRCGYC	3 cut(s)	111, 153, 198
AfaI	GTAC	5 cut(s)	256, 365, 482, 486, 702
AfiI	CCNNNNNNNGG	3 cut(s)	399, 521, 655
AflII	CTTAAG	1 cut(s)	137
AgsI	TTSAA	6 cut(s)	299, 388, 496, 611, 634, 654
AjuI	GAANNNNNNNTTGG	2 cut(s)	108, 140
AleI	CACNNNNGTG	1 cut(s)	42
AloI	GAACNNNNNNTCC	2 cut(s)	351, 383
AluBI	AGCT	1 cut(s)	220
AluI	AGCT	1 cut(s)	220
AoxI	GGCC	2 cut(s)	289, 431
ApeKI	GCWGC	1 cut(s)	725
AseI	ATTAAT	1 cut(s)	147
AspLEI	GCGC	2 cut(s)	29, 384
AspS9I	GGNCC	1 cut(s)	285
AsuC2I	CCSGG	1 cut(s)	293
AvaII	GGWCC	1 cut(s)	285
BbsI	GAAGAC	1 cut(s)	413
BbvCI	CCTCAGC	1 cut(s)	675
BbvI	GCAGC	1 cut(s)	712
BccI	CCATC	1 cut(s)	303
BceAI	ACGGC	2 cut(s)	55, 211
BcnI	CCSGG	1 cut(s)	293
BfoI	RGCGCY	2 cut(s)	30, 385
BfrI	CTTAAG	1 cut(s)	137
BisI	GCNGC	3 cut(s)	30, 63, 726
BlsI	GCNGC	3 cut(s)	31, 64, 727
Bme1390I	CCNGG	1 cut(s)	293
Bme18I	GGWCC	1 cut(s)	285
BmgT120I	GGNCC	1 cut(s)	285
BmiI	GGNNCC	1 cut(s)	286
BmrFI	CCNGG	1 cut(s)	293
BmsI	GCATC	2 cut(s)	250, 649
BpiI	GAAGAC	1 cut(s)	413
Bpu10I	CCTNAGC	1 cut(s)	675
BpuMI	CCSGG	1 cut(s)	293
Bsa29I	ATCGAT	1 cut(s)	765
BsaAI	YACGTR	1 cut(s)	484
BsaHI	GRCGYC	3 cut(s)	111, 153, 198
BsaJI	CCNNGG	1 cut(s)	37
Bsc4I	CCNNNNNNNGG	3 cut(s)	399, 521, 655
Bse118I	RCCGGY	2 cut(s)	161, 287
Bse1I	ACTGG	3 cut(s)	13, 128, 704
Bse3DI	GCAATG	1 cut(s)	156
BseCI	ATCGAT	1 cut(s)	765
BseDI	CCNNGG	1 cut(s)	37
BseGI	GGATG	2 cut(s)	445, 664
BseLI	CCNNNNNNNGG	3 cut(s)	399, 521, 655
BseMI	GCAATG	1 cut(s)	156
BseMII	CTCAG	2 cut(s)	554, 666
BseNI	ACTGG	3 cut(s)	13, 128, 704
BseX3I	CGGCCG	1 cut(s)	289
BseXI	GCAGC	1 cut(s)	712
BsgI	GTGCAG	1 cut(s)	254
Bsh1285I	CGRYCG	1 cut(s)	292
BshFI	GGCC	2 cut(s)	291, 433
BshVI	ATCGAT	1 cut(s)	765
BsiEI	CGRYCG	1 cut(s)	292
BsiSI	CCGG	3 cut(s)	162, 288, 292
BslFI	GGGAC	1 cut(s)	298
BslI	CCNNNNNNNGG	3 cut(s)	399, 521, 655
BsmFI	GGGAC	1 cut(s)	298
BsmI	GAATGC	1 cut(s)	305
BsnI	GGCC	2 cut(s)	291, 433
Bsp1407I	TGTACA	1 cut(s)	254
Bsp143I	GATC	1 cut(s)	762
BspACI	CCGC	5 cut(s)	30, 42, 60, 63, 662
BspANI	GGCC	2 cut(s)	291, 433
BspCNI	CTCAG	2 cut(s)	553, 667
BspDI	ATCGAT	1 cut(s)	765
BspLI	GGNNCC	1 cut(s)	286
BspTI	CTTAAG	1 cut(s)	137
BsrDI	GCAATG	1 cut(s)	156
BsrFI	RCCGGY	2 cut(s)	161, 287
BsrGI	TGTACA	1 cut(s)	254
BsrI	ACTGG	3 cut(s)	13, 128, 704
BssAI	RCCGGY	2 cut(s)	161, 287
BssECI	CCNNGG	1 cut(s)	37
BssMI	GATC	1 cut(s)	762
BssNI	GRCGYC	3 cut(s)	111, 153, 198
Bst4CI	ACNGT	1 cut(s)	214
BstACI	GRCGYC	3 cut(s)	111, 153, 198
BstAFI	CTTAAG	1 cut(s)	137
BstAUI	TGTACA	1 cut(s)	254
BstBAI	YACGTR	1 cut(s)	484
BstC8I	GCNNGC	2 cut(s)	163, 460
BstDEI	CTNAG	2 cut(s)	540, 675
BstDSI	CCRYGG	1 cut(s)	37
BstF5I	GGATG	2 cut(s)	445, 664
BstH2I	RGCGCY	2 cut(s)	30, 385
BstHHI	GCGC	2 cut(s)	29, 384
BstKTI	GATC	1 cut(s)	765
BstMBI	GATC	1 cut(s)	762
BstMCI	CGRYCG	1 cut(s)	292
BstNSI	RCATGY	1 cut(s)	725
BstSCI	CCNGG	1 cut(s)	291
BstSNI	TACGTA	1 cut(s)	484
BstV1I	GCAGC	1 cut(s)	712
BstV2I	GAAGAC	1 cut(s)	413
BstXI	CCANNNNNNTGG	1 cut(s)	44
BstZI	CGGCCG	1 cut(s)	289
Bsu15I	ATCGAT	1 cut(s)	765
BsuRI	GGCC	2 cut(s)	291, 433
BsuTUI	ATCGAT	1 cut(s)	765
BtgI	CCRYGG	1 cut(s)	37
BtsCI	GGATG	2 cut(s)	445, 664
BtsI	GCAGTG	1 cut(s)	330
BtsIMutI	CAGTG	3 cut(s)	210, 330, 711
Cac8I	GCNNGC	2 cut(s)	163, 460
CfoI	GCGC	2 cut(s)	29, 384
Cfr10I	RCCGGY	2 cut(s)	161, 287
Cfr13I	GGNCC	1 cut(s)	285
ClaI	ATCGAT	1 cut(s)	765
CseI	GACGC	2 cut(s)	161, 187
Csp6I	GTAC	5 cut(s)	255, 364, 481, 485, 701
CviAII	CATG	3 cut(s)	52, 377, 722
CviJI	RGCY	8 cut(s)	12, 220, 291, 433, 462, 544, 588, 640
CviKI_1	RGCY	8 cut(s)	12, 220, 291, 433, 462, 544, 588, 640
CviQI	GTAC	5 cut(s)	255, 364, 481, 485, 701
DdeI	CTNAG	2 cut(s)	540, 675
DpnI	GATC	1 cut(s)	764
DpnII	GATC	1 cut(s)	762
EaeI	YGGCCR	1 cut(s)	289
EagI	CGGCCG	1 cut(s)	289
EclXI	CGGCCG	1 cut(s)	289
Eco105I	TACGTA	1 cut(s)	484
Eco147I	AGGCCT	1 cut(s)	433
Eco47I	GGWCC	1 cut(s)	285
Eco52I	CGGCCG	1 cut(s)	289
FaeI	CATG	3 cut(s)	55, 380, 725
FaqI	GGGAC	1 cut(s)	298
FatI	CATG	3 cut(s)	51, 376, 721
FauI	CCCGC	2 cut(s)	67, 655
Fnu4HI	GCNGC	3 cut(s)	30, 63, 726
FokI	GGATG	2 cut(s)	452, 671
Fsp4HI	GCNGC	3 cut(s)	30, 63, 726
GlaI	GCGC	2 cut(s)	28, 383
GluI	GCNGC	3 cut(s)	30, 63, 726
HaeII	RGCGCY	2 cut(s)	30, 385
HaeIII	GGCC	2 cut(s)	291, 433
HapII	CCGG	3 cut(s)	162, 288, 292
HgaI	GACGC	2 cut(s)	161, 187
HhaI	GCGC	2 cut(s)	29, 384
Hin1I	GRCGYC	3 cut(s)	111, 153, 198
Hin1II	CATG	3 cut(s)	55, 380, 725
Hin6I	GCGC	2 cut(s)	27, 382
HinP1I	GCGC	2 cut(s)	27, 382
HindIII	AAGCTT	1 cut(s)	218
HinfI	GANTC	2 cut(s)	103, 348
HpaII	CCGG	3 cut(s)	162, 288, 292
Hpy166II	GTNNAC	1 cut(s)	210
Hpy188III	TCNNGA	5 cut(s)	107, 275, 317, 352, 576
Hpy8I	GTNNAC	1 cut(s)	210
Hpy99I	CGWCG	2 cut(s)	23, 203
HpyAV	CCTTC	3 cut(s)	43, 105, 338
HpyCH4III	ACNGT	1 cut(s)	214
HpyCH4IV	ACGT	4 cut(s)	6, 111, 366, 483
HpyCH4V	TGCA	4 cut(s)	235, 303, 458, 775
HpyF3I	CTNAG	2 cut(s)	540, 675
HpySE526I	ACGT	4 cut(s)	6, 111, 366, 483
Hsp92I	GRCGYC	3 cut(s)	111, 153, 198
Hsp92II	CATG	3 cut(s)	55, 380, 725
HspAI	GCGC	2 cut(s)	27, 382
KroI	GCCGGC	1 cut(s)	161
KroNI	GCCGGC	1 cut(s)	163
Kzo9I	GATC	1 cut(s)	762
LmnI	GCTCC	2 cut(s)	319, 665
Lsp1109I	GCAGC	1 cut(s)	712
LweI	GCATC	2 cut(s)	250, 649
MaeII	ACGT	4 cut(s)	6, 111, 366, 483
MaeIII	GTNAC	4 cut(s)	107, 130, 504, 532
MalI	GATC	1 cut(s)	764
MboI	GATC	1 cut(s)	762
MboII	GAAGA	6 cut(s)	116, 261, 415, 418, 484, 623
MluCI	AATT	1 cut(s)	555
MmeI	TCCRAC	1 cut(s)	226
MnlI	CCTC	3 cut(s)	594, 599, 670
MroNI	GCCGGC	1 cut(s)	161
MseI	TTAA	3 cut(s)	138, 147, 216
MslI	CAYNNNNRTG	2 cut(s)	42, 416
MspCI	CTTAAG	1 cut(s)	137
MspI	CCGG	3 cut(s)	162, 288, 292
MspR9I	CCNGG	1 cut(s)	293
Mva1269I	GAATGC	1 cut(s)	305
NaeI	GCCGGC	1 cut(s)	163
NciI	CCSGG	1 cut(s)	293
NdeII	GATC	1 cut(s)	762
NgoMIV	GCCGGC	1 cut(s)	161
NlaIII	CATG	3 cut(s)	55, 380, 725
NlaIV	GGNNCC	1 cut(s)	286
NmuCI	GTSAC	2 cut(s)	107, 532
NspI	RCATGY	1 cut(s)	725
OliI	CACNNNNGTG	1 cut(s)	42
PceI	AGGCCT	1 cut(s)	433
PcsI	WCGNNNNNNNCGW	1 cut(s)	363
PctI	GAATGC	1 cut(s)	305
PdiI	GCCGGC	1 cut(s)	163
PfeI	GAWTC	2 cut(s)	103, 348
PflFI	GACNNNGTC	1 cut(s)	197
PflMI	CCANNNNNTGG	1 cut(s)	521
PkrI	GCNGC	3 cut(s)	31, 64, 727
Ppu21I	YACGTR	1 cut(s)	484
PshBI	ATTAAT	1 cut(s)	147
PspN4I	GGNNCC	1 cut(s)	286
PspPI	GGNCC	1 cut(s)	285
PsrI	GAACNNNNNNTAC	2 cut(s)	347, 379
PsyI	GACNNNGTC	1 cut(s)	197
RsaI	GTAC	5 cut(s)	256, 365, 482, 486, 702
RsaNI	GTAC	5 cut(s)	255, 364, 481, 485, 701
RseI	CAYNNNNRTG	2 cut(s)	42, 416
SaqAI	TTAA	3 cut(s)	138, 147, 216
SatI	GCNGC	3 cut(s)	30, 63, 726
Sau3AI	GATC	1 cut(s)	762
Sau96I	GGNCC	1 cut(s)	285
ScrFI	CCNGG	1 cut(s)	293
SfaNI	GCATC	2 cut(s)	250, 649
SinI	GGWCC	1 cut(s)	285
SmiMI	CAYNNNNRTG	2 cut(s)	42, 416
SmlI	CTYRAG	1 cut(s)	137
SmoI	CTYRAG	1 cut(s)	137
SnaBI	TACGTA	1 cut(s)	484
Sse9I	AATT	1 cut(s)	555
SseBI	AGGCCT	1 cut(s)	433
SsiI	CCGC	5 cut(s)	30, 42, 60, 63, 662
StuI	AGGCCT	1 cut(s)	433
StyD4I	CCNGG	1 cut(s)	291
TaaI	ACNGT	1 cut(s)	214
TaiI	ACGT	4 cut(s)	9, 114, 369, 486
TaqI	TCGA	6 cut(s)	18, 201, 342, 353, 471, 765
TasI	AATT	1 cut(s)	555
TatI	WGTACW	1 cut(s)	254
TauI	GCSGC	2 cut(s)	32, 65
TfiI	GAWTC	2 cut(s)	103, 348
Tru1I	TTAA	3 cut(s)	138, 147, 216
Tru9I	TTAA	3 cut(s)	138, 147, 216
TscAI	CASTG	3 cut(s)	217, 337, 711
TseFI	GTSAC	2 cut(s)	107, 532
TseI	GCWGC	1 cut(s)	725
Tsp45I	GTSAC	2 cut(s)	107, 532
TspDTI	ATGAA	3 cut(s)	17, 40, 365
TspGWI	ACGGA	2 cut(s)	36, 372
TspRI	CASTG	3 cut(s)	217, 337, 711
Tth111I	GACNNNGTC	1 cut(s)	197
Van91I	CCANNNNNTGG	1 cut(s)	521
Vha464I	CTTAAG	1 cut(s)	137
VpaK11BI	GGWCC	1 cut(s)	285
VspI	ATTAAT	1 cut(s)	147
XceI	RCATGY	1 cut(s)	725
ZraI	GACGTC	1 cut(s)	112

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