Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4A

Orthogroup ID

OG0007119

Physical Location & Seq

Genomic Coordinates Reverse (-)

24152923 .. 24159264

Gene Structure 6342 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4AG111500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 654 bp

ATGAACGTGAGCCAATTCGACGGAAGCGCCGCCTTCCACGGCGGTGGGTTCATGCCCCCCGCCGCCAACCCAACCCCCGAACACTCTTTCTTTGCTTCCAAGAATCGTGACGTCCAGACACTGCTTCCCTTAACCCTTAAGCAGATCAGCGACGCCATTGCCGGCGAAAATGGTAAAAGCGATTTCTCTGTTGACGGCGTCGATGTGTCCACTGTTAAGCTTGTGGGAGCAGTGCAGGAGTTTGTTGGAAGATGTACAGATGCTACTTTCACTCTTGATGACGGGACCGGCCGGGTTGAATGCAACCGATGGTGTCAGGAGCAAATAGACACTGCCGAAATCGAAGGAATCTCGAACGGAATGTACGTTCGGGTTCATGGGCGCTTGAAAACCTTTCAGGGGAAGAAGACCATACAAGTGTTCTCTGTTAGGCCTGTGGATGACTATAATGAGATTGCAAGCCACTATATCGAGTGTATGTACGTACATTTCTTCAACAGCAAGTTACTGAAACCACAGGTTGGTGTAGGTGTCACAACTCAGCCATATATGACAATTCCACCAAATCAGGTATCTGGACAACATAGCCTCTATGGACAGAGGAGCATTGAAGAAAGGGTCTTACAAGTTTTGAACCAGCCTTTATACCTGTGA

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

217

Amino Acids

23.98

Weight (kDa)

5.65

Isoelectric Point (pI)

39.77

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
tRNA_anti-codon	PF01336	75 - 145	6.4e-09	OB-fold nucleic acid binding 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)

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	4 cut(s)	30, 42, 60, 63
AcoI	YGGCCR	1 cut(s)	289
AcyI	GRCGYC	3 cut(s)	111, 153, 198
AfaI	GTAC	4 cut(s)	256, 365, 482, 486
AfiI	CCNNNNNNNGG	2 cut(s)	399, 521
AflII	CTTAAG	1 cut(s)	137
AgsI	TTSAA	5 cut(s)	299, 388, 496, 611, 634
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
AlwNI	CAGNNNCTG	1 cut(s)	121
AoxI	GGCC	2 cut(s)	289, 431
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
BccI	CCATC	1 cut(s)	303
BceAI	ACGGC	2 cut(s)	55, 211
BcgI	CGANNNNNNTGC	2 cut(s)	140, 174
BcnI	CCSGG	1 cut(s)	293
BfoI	RGCGCY	2 cut(s)	30, 385
BfrI	CTTAAG	1 cut(s)	137
BisI	GCNGC	2 cut(s)	30, 63
BlsI	GCNGC	2 cut(s)	31, 64
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	1 cut(s)	250
BpiI	GAAGAC	1 cut(s)	413
BpuMI	CCSGG	1 cut(s)	293
BsaAI	YACGTR	1 cut(s)	484
BsaHI	GRCGYC	3 cut(s)	111, 153, 198
BsaJI	CCNNGG	1 cut(s)	37
Bsc4I	CCNNNNNNNGG	2 cut(s)	399, 521
Bse118I	RCCGGY	2 cut(s)	161, 287
Bse3DI	GCAATG	1 cut(s)	156
BseDI	CCNNGG	1 cut(s)	37
BseGI	GGATG	1 cut(s)	445
BseLI	CCNNNNNNNGG	2 cut(s)	399, 521
BseMI	GCAATG	1 cut(s)	156
BseMII	CTCAG	1 cut(s)	554
BseRI	GAGGAG	1 cut(s)	616
BseX3I	CGGCCG	1 cut(s)	289
BsgI	GTGCAG	1 cut(s)	254
Bsh1285I	CGRYCG	1 cut(s)	292
BshFI	GGCC	2 cut(s)	291, 433
BsiEI	CGRYCG	1 cut(s)	292
BsiSI	CCGG	3 cut(s)	162, 288, 292
BslFI	GGGAC	1 cut(s)	298
BslI	CCNNNNNNNGG	2 cut(s)	399, 521
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)	144
BspACI	CCGC	4 cut(s)	30, 42, 60, 63
BspANI	GGCC	2 cut(s)	291, 433
BspCNI	CTCAG	1 cut(s)	553
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
BssAI	RCCGGY	2 cut(s)	161, 287
BssECI	CCNNGG	1 cut(s)	37
BssMI	GATC	1 cut(s)	144
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	1 cut(s)	540
BstDSI	CCRYGG	1 cut(s)	37
BstF5I	GGATG	1 cut(s)	445
BstH2I	RGCGCY	2 cut(s)	30, 385
BstHHI	GCGC	2 cut(s)	29, 384
BstKTI	GATC	1 cut(s)	147
BstMBI	GATC	1 cut(s)	144
BstMCI	CGRYCG	1 cut(s)	292
BstSCI	CCNGG	1 cut(s)	291
BstSNI	TACGTA	1 cut(s)	484
BstV2I	GAAGAC	1 cut(s)	413
BstXI	CCANNNNNNTGG	1 cut(s)	44
BstZI	CGGCCG	1 cut(s)	289
BsuRI	GGCC	2 cut(s)	291, 433
BtgI	CCRYGG	1 cut(s)	37
BtsCI	GGATG	1 cut(s)	445
BtsI	GCAGTG	3 cut(s)	119, 237, 330
BtsIMutI	CAGTG	4 cut(s)	119, 210, 237, 330
Cac8I	GCNNGC	2 cut(s)	163, 460
CaiI	CAGNNNCTG	1 cut(s)	121
CfoI	GCGC	2 cut(s)	29, 384
Cfr10I	RCCGGY	2 cut(s)	161, 287
Cfr13I	GGNCC	1 cut(s)	285
CseI	GACGC	2 cut(s)	161, 187
Csp6I	GTAC	4 cut(s)	255, 364, 481, 485
CviAII	CATG	2 cut(s)	52, 377
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	4 cut(s)	255, 364, 481, 485
DdeI	CTNAG	1 cut(s)	540
DpnI	GATC	1 cut(s)	146
DpnII	GATC	1 cut(s)	144
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	2 cut(s)	55, 380
FaqI	GGGAC	1 cut(s)	298
FatI	CATG	2 cut(s)	51, 376
FauI	CCCGC	1 cut(s)	67
Fnu4HI	GCNGC	2 cut(s)	30, 63
FokI	GGATG	1 cut(s)	452
Fsp4HI	GCNGC	2 cut(s)	30, 63
GlaI	GCGC	2 cut(s)	28, 383
GluI	GCNGC	2 cut(s)	30, 63
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	2 cut(s)	55, 380
Hin6I	GCGC	2 cut(s)	27, 382
HinP1I	GCGC	2 cut(s)	27, 382
HincII	GTYRAC	1 cut(s)	193
HindII	GTYRAC	1 cut(s)	193
HindIII	AAGCTT	1 cut(s)	218
HinfI	GANTC	2 cut(s)	103, 348
HpaII	CCGG	3 cut(s)	162, 288, 292
Hpy166II	GTNNAC	2 cut(s)	193, 210
Hpy188III	TCNNGA	6 cut(s)	107, 115, 275, 317, 352, 576
Hpy8I	GTNNAC	2 cut(s)	193, 210
Hpy99I	CGWCG	3 cut(s)	23, 155, 203
HpyAV	CCTTC	2 cut(s)	43, 338
HpyCH4III	ACNGT	1 cut(s)	214
HpyCH4IV	ACGT	4 cut(s)	6, 111, 366, 483
HpyCH4V	TGCA	3 cut(s)	235, 303, 458
HpyF3I	CTNAG	1 cut(s)	540
HpySE526I	ACGT	4 cut(s)	6, 111, 366, 483
Hsp92I	GRCGYC	3 cut(s)	111, 153, 198
Hsp92II	CATG	2 cut(s)	55, 380
HspAI	GCGC	2 cut(s)	27, 382
KroI	GCCGGC	1 cut(s)	161
KroNI	GCCGGC	1 cut(s)	163
Kzo9I	GATC	1 cut(s)	144
LmnI	GCTCC	3 cut(s)	227, 319, 603
LweI	GCATC	1 cut(s)	250
MaeII	ACGT	4 cut(s)	6, 111, 366, 483
MaeIII	GTNAC	3 cut(s)	107, 504, 532
MalI	GATC	1 cut(s)	146
MboI	GATC	1 cut(s)	144
MboII	GAAGA	5 cut(s)	261, 415, 418, 484, 623
MluCI	AATT	2 cut(s)	14, 555
MmeI	TCCRAC	1 cut(s)	226
MnlI	CCTC	2 cut(s)	594, 599
MroNI	GCCGGC	1 cut(s)	161
MseI	TTAA	3 cut(s)	131, 138, 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)	144
NgoMIV	GCCGGC	1 cut(s)	161
NlaIII	CATG	2 cut(s)	55, 380
NlaIV	GGNNCC	1 cut(s)	286
NmuCI	GTSAC	2 cut(s)	107, 532
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	2 cut(s)	31, 64
Ppu21I	YACGTR	1 cut(s)	484
PspN4I	GGNNCC	1 cut(s)	286
PspPI	GGNCC	1 cut(s)	285
PsrI	GAACNNNNNNTAC	2 cut(s)	347, 379
PstNI	CAGNNNCTG	1 cut(s)	121
PsyI	GACNNNGTC	1 cut(s)	197
RsaI	GTAC	4 cut(s)	256, 365, 482, 486
RsaNI	GTAC	4 cut(s)	255, 364, 481, 485
RseI	CAYNNNNRTG	2 cut(s)	42, 416
SaqAI	TTAA	3 cut(s)	131, 138, 216
SatI	GCNGC	2 cut(s)	30, 63
Sau3AI	GATC	1 cut(s)	144
Sau96I	GGNCC	1 cut(s)	285
ScrFI	CCNGG	1 cut(s)	293
SfaNI	GCATC	1 cut(s)	250
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	2 cut(s)	14, 555
SseBI	AGGCCT	1 cut(s)	433
SsiI	CCGC	4 cut(s)	30, 42, 60, 63
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	5 cut(s)	18, 201, 342, 353, 471
TasI	AATT	2 cut(s)	14, 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)	131, 138, 216
Tru9I	TTAA	3 cut(s)	131, 138, 216
TscAI	CASTG	4 cut(s)	126, 217, 237, 337
TseFI	GTSAC	2 cut(s)	107, 532
Tsp45I	GTSAC	2 cut(s)	107, 532
TspDTI	ATGAA	3 cut(s)	17, 40, 365
TspGWI	ACGGA	2 cut(s)	36, 372
TspRI	CASTG	4 cut(s)	126, 217, 237, 337
Tth111I	GACNNNGTC	1 cut(s)	197
Van91I	CCANNNNNTGG	1 cut(s)	521
Vha464I	CTTAAG	1 cut(s)	137
VpaK11BI	GGWCC	1 cut(s)	285
ZraI	GACGTC	1 cut(s)	112

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