Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6B

Orthogroup ID

OG0013776

Physical Location & Seq

Genomic Coordinates Reverse (-)

35429341 .. 35430475

Gene Structure 1135 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6BG190600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 486 bp

ATGGTTTTGTTCTTCACGGCATCTAAGTCGGCTCTGCGCCTAGGGATTTCAGCAATGACGGTGGAACTGACGCGGGACGCGGTAGTCAGTATCATCGGCGGTAATGTCAACTTGAAGCCGCTGATGCAGGTCATCGATATCAATCCCGTCAAGATCCCCCACTTGCCAGTGAGTTACCGGTTGCTGGTCTCCGACGGCGTTTGGTCTCATCCCGCCGTGGTCACCTTTCTGCTCAACGACCTATTTAACCTTCAAAGTGTCAGGAAAGGCTCCATTGTCCGGCTCACCGACTACGTTTGCTCTGAAGTTATTGACCACAAGCTTATTGTTGTGATGAATATGGAAACTATTGTACCGGACTCGATGCTTATTGGGAATCCAAGAGAATATGTTCAGTCTGATACAACTGCTCAAACTGCATTGCCTAAGAACAATTTCCAGCAGTCTGCCCATGGCAACATTGATGAGATCCATAGAGACAATTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0000228 GO:0000280 GO:0000785 GO:0000790 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005694 GO:0006139 GO:0006259 GO:0006281 GO:0006310 GO:0006725 GO:0006807 GO:0006950 GO:0006974 GO:0006996 GO:0007049 GO:0007059 GO:0007127 GO:0007129 GO:0007131 GO:0007140 GO:0007141 GO:0007275 GO:0007276 GO:0008150 GO:0008152 GO:0009555 GO:0009987 GO:0016043 GO:0019953 GO:0022402 GO:0022412 GO:0022414 GO:0022607 GO:0031974 GO:0031981 GO:0032501 GO:0032502 GO:0032504 GO:0033554 GO:0034641 GO:0035825 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0044085 GO:0044237 GO:0044238 GO:0044260 GO:0044422 GO:0044424 GO:0044427 GO:0044428 GO:0044446 GO:0044454 GO:0044464 GO:0044703 GO:0045132 GO:0045143 GO:0046483 GO:0048229 GO:0048232 GO:0048285 GO:0048609 GO:0048856 GO:0050896 GO:0051026 GO:0051276 GO:0051321 GO:0051704 GO:0051716 GO:0061982 GO:0070013 GO:0070192 GO:0071704 GO:0071840 GO:0090304 GO:0098813 GO:0140013 GO:1901360 GO:1903046

KEGG Pathways

Metabolic & Signaling

ko03030 ko03420 ko03430 ko03440 ko03460 map03030 map03420 map03430 map03440 map03460

Pfam Domains

Protein Families

REPA_OB_2 Rep-A_N Rep_fac-A_C tRNA_anti-codon

Protein Analysis

161

Amino Acids

17.85

Weight (kDa)

6.17

Isoelectric Point (pI)

25.98

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Rep-A_N	PF04057	23 - 118	3.8e-19	Replication factor-A protein 1, N-terminal 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

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Publication-ready

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Orthologous Genes (Group: OG0013776)

Species	Orthologous Gene IDs
rosa_laevigata	RLG00000029349
rosa_multiflora	Rmu_sc0002196.1_g000001 Rmu_sc0003819.1_g000015 Rmu_sc0004006.1_g000001 Rmu_sc0030815.1_g000001
rosa_roxburghii	Rroxscaffold_4G00315470
rosa_rugosa	Rorug01G0126800 Rorug06G0062600 Rorug06G0067700 Rorug06G0067800
rosa_samantha	Rh1AG148000 Rh1BG115800 Rh1BG115900 Rh1CG139400 Rh1DG154400 Rh6AG187300 Rh6BG190600
rosa_wichuraiana	Rw1G011950

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	83
Acc36I	ACCTGC	1 cut(s)	118
AccII	CGCG	2 cut(s)	73, 80
AciI	CCGC	5 cut(s)	73, 80, 99, 119, 213
AclWI	GGATC	2 cut(s)	148, 463
AcuI	CTGAAG	1 cut(s)	324
AfaI	GTAC	1 cut(s)	354
AfiI	CCNNNNNNNGG	2 cut(s)	184, 279
AgeI	ACCGGT	1 cut(s)	177
AgsI	TTSAA	2 cut(s)	115, 254
AluBI	AGCT	1 cut(s)	322
AluI	AGCT	1 cut(s)	322
Alw26I	GTCTC	3 cut(s)	193, 210, 471
AlwI	GGATC	2 cut(s)	148, 463
AsiGI	ACCGGT	1 cut(s)	177
Asp700I	GAANNNNTTC	2 cut(s)	390, 434
AspA2I	CCTAGG	1 cut(s)	40
AspLEI	GCGC	1 cut(s)	39
AsuHPI	GGTGA	2 cut(s)	214, 277
AvrII	CCTAGG	1 cut(s)	40
BaeI	ACNNNNGTAYC	2 cut(s)	336, 369
BceAI	ACGGC	3 cut(s)	33, 200, 211
BcgI	CGANNNNNNTGC	2 cut(s)	9, 43
BcoDI	GTCTC	3 cut(s)	193, 210, 471
BfaI	CTAG	1 cut(s)	41
BfuAI	ACCTGC	1 cut(s)	118
BisI	GCNGC	1 cut(s)	119
BlnI	CCTAGG	1 cut(s)	40
BlsI	GCNGC	1 cut(s)	120
BmiI	GGNNCC	1 cut(s)	271
BmsI	GCATC	3 cut(s)	29, 114, 354
Bsa29I	ATCGAT	1 cut(s)	135
BsaBI	GATNNNNATC	1 cut(s)	141
BsaI	GGTCTC	2 cut(s)	193, 210
BsaJI	CCNNGG	3 cut(s)	40, 216, 451
BsaWI	WCCGGW	2 cut(s)	177, 355
Bsc4I	CCNNNNNNNGG	2 cut(s)	184, 279
Bse118I	RCCGGY	1 cut(s)	177
Bse1I	ACTGG	1 cut(s)	167
Bse3DI	GCAATG	2 cut(s)	60, 419
Bse8I	GATNNNNATC	1 cut(s)	141
BseCI	ATCGAT	1 cut(s)	135
BseDI	CCNNGG	3 cut(s)	40, 216, 451
BseGI	GGATG	1 cut(s)	208
BseJI	GATNNNNATC	1 cut(s)	141
BseLI	CCNNNNNNNGG	2 cut(s)	184, 279
BseMI	GCAATG	2 cut(s)	60, 419
BseNI	ACTGG	1 cut(s)	167
Bsh1236I	CGCG	2 cut(s)	73, 80
BshTI	ACCGGT	1 cut(s)	177
BshVI	ATCGAT	1 cut(s)	135
BsiSI	CCGG	3 cut(s)	178, 280, 356
BslFI	GGGAC	1 cut(s)	89
BslI	CCNNNNNNNGG	2 cut(s)	184, 279
BsmAI	GTCTC	3 cut(s)	193, 210, 471
BsmFI	GGGAC	1 cut(s)	89
Bso31I	GGTCTC	2 cut(s)	193, 210
Bsp143I	GATC	2 cut(s)	153, 468
Bsp19I	CCATGG	1 cut(s)	451
BspACI	CCGC	5 cut(s)	73, 80, 99, 119, 213
BspDI	ATCGAT	1 cut(s)	135
BspFNI	CGCG	2 cut(s)	73, 80
BspLI	GGNNCC	1 cut(s)	271
BspMI	ACCTGC	1 cut(s)	118
BspPI	GGATC	2 cut(s)	148, 463
BspTNI	GGTCTC	2 cut(s)	193, 210
BsrDI	GCAATG	2 cut(s)	60, 419
BsrFI	RCCGGY	1 cut(s)	177
BsrI	ACTGG	1 cut(s)	167
BssAI	RCCGGY	1 cut(s)	177
BssECI	CCNNGG	3 cut(s)	40, 216, 451
BssMI	GATC	2 cut(s)	153, 468
BssT1I	CCWWGG	2 cut(s)	40, 451
Bst4CI	ACNGT	1 cut(s)	61
BstDEI	CTNAG	2 cut(s)	24, 426
BstDSI	CCRYGG	2 cut(s)	216, 451
BstEII	GGTNACC	1 cut(s)	220
BstF5I	GGATG	1 cut(s)	208
BstFNI	CGCG	2 cut(s)	73, 80
BstHHI	GCGC	1 cut(s)	39
BstKTI	GATC	2 cut(s)	156, 471
BstMAI	GTCTC	3 cut(s)	193, 210, 471
BstMBI	GATC	2 cut(s)	153, 468
BstMWI	GCNNNNNNNGC	2 cut(s)	124, 416
BstPI	GGTNACC	1 cut(s)	220
BstUI	CGCG	2 cut(s)	73, 80
BstX2I	RGATCY	2 cut(s)	153, 468
BstYI	RGATCY	2 cut(s)	153, 468
Bsu15I	ATCGAT	1 cut(s)	135
BsuTUI	ATCGAT	1 cut(s)	135
BtgI	CCRYGG	2 cut(s)	216, 451
BtsCI	GGATG	1 cut(s)	208
BtsIMutI	CAGTG	1 cut(s)	174
BveI	ACCTGC	1 cut(s)	118
CfoI	GCGC	1 cut(s)	39
Cfr10I	RCCGGY	1 cut(s)	177
ClaI	ATCGAT	1 cut(s)	135
CseI	GACGC	2 cut(s)	79, 86
Csp6I	GTAC	1 cut(s)	353
CspAI	ACCGGT	1 cut(s)	177
CspCI	CAANNNNNGTGG	2 cut(s)	42, 77
CviAII	CATG	1 cut(s)	452
CviJI	RGCY	5 cut(s)	32, 118, 270, 283, 322
CviKI_1	RGCY	5 cut(s)	32, 118, 270, 283, 322
CviQI	GTAC	1 cut(s)	353
DdeI	CTNAG	2 cut(s)	24, 426
DpnI	GATC	2 cut(s)	155, 470
DpnII	GATC	2 cut(s)	153, 468
DrdI	GACNNNNNNGTC	1 cut(s)	83
DseDI	GACNNNNNNGTC	1 cut(s)	83
Eco130I	CCWWGG	2 cut(s)	40, 451
Eco31I	GGTCTC	2 cut(s)	193, 210
Eco32I	GATATC	1 cut(s)	139
Eco57I	CTGAAG	1 cut(s)	324
Eco91I	GGTNACC	1 cut(s)	220
EcoO65I	GGTNACC	1 cut(s)	220
EcoRV	GATATC	1 cut(s)	139
EcoT14I	CCWWGG	2 cut(s)	40, 451
ErhI	CCWWGG	2 cut(s)	40, 451
FaeI	CATG	1 cut(s)	455
FaiI	YATR	4 cut(s)	341, 390, 453, 474
FaqI	GGGAC	1 cut(s)	89
FatI	CATG	1 cut(s)	451
FauI	CCCGC	2 cut(s)	66, 220
Fnu4HI	GCNGC	1 cut(s)	119
FokI	GGATG	1 cut(s)	195
Fsp4HI	GCNGC	1 cut(s)	119
FspBI	CTAG	1 cut(s)	41
GlaI	GCGC	1 cut(s)	38
GluI	GCNGC	1 cut(s)	119
HapII	CCGG	3 cut(s)	178, 280, 356
HgaI	GACGC	2 cut(s)	79, 86
HhaI	GCGC	1 cut(s)	39
Hin1II	CATG	1 cut(s)	455
Hin6I	GCGC	1 cut(s)	37
HinP1I	GCGC	1 cut(s)	37
HincII	GTYRAC	1 cut(s)	109
HindII	GTYRAC	1 cut(s)	109
HindIII	AAGCTT	1 cut(s)	320
HinfI	GANTC	2 cut(s)	359, 376
HpaII	CCGG	3 cut(s)	178, 280, 356
HphI	GGTGA	2 cut(s)	214, 277
Hpy166II	GTNNAC	1 cut(s)	109
Hpy188I	TCNGA	3 cut(s)	193, 304, 400
Hpy188III	TCNNGA	2 cut(s)	151, 262
Hpy8I	GTNNAC	1 cut(s)	109
Hpy99I	CGWCG	1 cut(s)	197
HpyAV	CCTTC	1 cut(s)	260
HpyCH4III	ACNGT	1 cut(s)	61
HpyCH4IV	ACGT	1 cut(s)	294
HpyCH4V	TGCA	2 cut(s)	127, 419
HpyF10VI	GCNNNNNNNGC	2 cut(s)	124, 416
HpyF3I	CTNAG	2 cut(s)	24, 426
HpySE526I	ACGT	1 cut(s)	294
Hsp92II	CATG	1 cut(s)	455
HspAI	GCGC	1 cut(s)	37
Kzo9I	GATC	2 cut(s)	153, 468
LmnI	GCTCC	1 cut(s)	275
LpnPI	CCDG	8 cut(s)	113, 170, 180, 191, 247, 293, 369, 452
LweI	GCATC	3 cut(s)	29, 114, 354
MaeI	CTAG	1 cut(s)	41
MaeII	ACGT	1 cut(s)	294
MaeIII	GTNAC	2 cut(s)	173, 220
MalI	GATC	2 cut(s)	155, 470
MboI	GATC	2 cut(s)	153, 468
MboII	GAAGA	1 cut(s)	4
MflI	RGATCY	2 cut(s)	153, 468
MluCI	AATT	2 cut(s)	433, 481
MlyI	GAGTC	1 cut(s)	353
MmeI	TCCRAC	1 cut(s)	216
MroXI	GAANNNNTTC	2 cut(s)	390, 434
MseI	TTAA	2 cut(s)	246, 484
MspA1I	CMGCKG	1 cut(s)	121
MspI	CCGG	3 cut(s)	178, 280, 356
MvnI	CGCG	2 cut(s)	73, 80
MwoI	GCNNNNNNNGC	2 cut(s)	124, 416
NcoI	CCATGG	1 cut(s)	451
NdeII	GATC	2 cut(s)	153, 468
NlaIII	CATG	1 cut(s)	455
NlaIV	GGNNCC	1 cut(s)	271
NmuCI	GTSAC	1 cut(s)	220
PdmI	GAANNNNTTC	2 cut(s)	390, 434
PfeI	GAWTC	1 cut(s)	376
PinAI	ACCGGT	1 cut(s)	177
PkrI	GCNGC	1 cut(s)	120
PleI	GAGTC	1 cut(s)	353
PpsI	GAGTC	1 cut(s)	353
PspEI	GGTNACC	1 cut(s)	220
PspN4I	GGNNCC	1 cut(s)	271
PsuI	RGATCY	2 cut(s)	153, 468
RsaI	GTAC	1 cut(s)	354
RsaNI	GTAC	1 cut(s)	353
SaqAI	TTAA	2 cut(s)	246, 484
SatI	GCNGC	1 cut(s)	119
Sau3AI	GATC	2 cut(s)	153, 468
SchI	GAGTC	1 cut(s)	353
SetI	ASST	6 cut(s)	132, 227, 243, 252, 297, 324
SfaNI	GCATC	3 cut(s)	29, 114, 354
Sse9I	AATT	2 cut(s)	433, 481
SsiI	CCGC	5 cut(s)	73, 80, 99, 119, 213
SspMI	CTAG	1 cut(s)	41
StyI	CCWWGG	2 cut(s)	40, 451
TaaI	ACNGT	1 cut(s)	61
TaiI	ACGT	1 cut(s)	297
TaqI	TCGA	2 cut(s)	135, 362
TasI	AATT	2 cut(s)	433, 481
TauI	GCSGC	1 cut(s)	121
TfiI	GAWTC	1 cut(s)	376
Tru1I	TTAA	2 cut(s)	246, 484
Tru9I	TTAA	2 cut(s)	246, 484
TscAI	CASTG	1 cut(s)	174
TseFI	GTSAC	1 cut(s)	220
Tsp45I	GTSAC	1 cut(s)	220
TspDTI	ATGAA	1 cut(s)	350
TspRI	CASTG	1 cut(s)	174
XmaJI	CCTAGG	1 cut(s)	40
XmnI	GAANNNNTTC	2 cut(s)	390, 434
XspI	CTAG	1 cut(s)	41

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