Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1D

Orthogroup ID

OG0013776

Physical Location & Seq

Genomic Coordinates Reverse (-)

32242609 .. 32243815

Gene Structure 1207 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1DG154400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 573 bp

ATGTCGAATATCAATCCCATCAGGCCCACCAGCTTGCCAGTGTGTTACCGGTTGATGGTTTCCGACAGCGTTTGGTCTCATCATGCCATAGTCGCCTTTCAGCTCAACGACCTATTTGGGATTGACCAGGTCAGGACCTTTCAGCTCAACGACCTATTTGGGATTGACCAGGTCAGGAAAGGCTCCGTCGTCCGGTTCACTGACTACATTTGCACCGATGTCCAGGACCGCAAGCTTATTGTTGTGATGAATATGGAAACTATTGTACTGGACTGGGAGCTTATTGGGAATCCAAAACAATATGTAAAGTCTGGTACAACTGCTCAAACTGCATTGCCTAAGAACAATTTCCAGCAGTCTGCCTATGGCAACATTCATATGATTGGCCAAGAGCCTGTTTCCAAATGGCAGAATCCCAGGCCCTCTTTTCATCCCGAAAACTCTGTTTCCAGTATGCCAAATGTCAGACCTACATTTCAATCTGAAAGCTCTTCTGACAGTGTTCCGAATCCGAGACCTACATTTCATCCTGAAAGCTCAGCTCCCAGTGCAGGGACAGAACCAAAAAATTAA

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

190

Amino Acids

21.33

Weight (kDa)

6.5

Isoelectric Point (pI)

48.09

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Rep-A_N	PF04057	15 - 89	1.3e-08	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

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: 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)
AciI	CCGC	1 cut(s)	229
AcoI	YGGCCR	1 cut(s)	385
AfaI	GTAC	2 cut(s)	267, 316
AfiI	CCNNNNNNNGG	4 cut(s)	55, 192, 551, 552
AgeI	ACCGGT	1 cut(s)	48
AgsI	TTSAA	1 cut(s)	479
AjnI	CCWGG	4 cut(s)	126, 168, 222, 416
AluBI	AGCT	8 cut(s)	33, 103, 145, 235, 280, 489, 537, 542
AluI	AGCT	8 cut(s)	33, 103, 145, 235, 280, 489, 537, 542
Alw26I	GTCTC	2 cut(s)	81, 508
AoxI	GGCC	3 cut(s)	23, 385, 419
AsiGI	ACCGGT	1 cut(s)	48
Asp700I	GAANNNNTTC	1 cut(s)	347
AspS9I	GGNCC	4 cut(s)	24, 135, 226, 420
AvaII	GGWCC	2 cut(s)	135, 226
BalI	TGGCCA	1 cut(s)	387
BccI	CCATC	2 cut(s)	26, 49
BciT130I	CCWGG	4 cut(s)	128, 170, 224, 418
BcoDI	GTCTC	2 cut(s)	81, 508
BlpI	GCTNAGC	1 cut(s)	538
Bme1390I	CCNGG	4 cut(s)	128, 170, 224, 418
Bme18I	GGWCC	2 cut(s)	135, 226
BmgT120I	GGNCC	4 cut(s)	24, 135, 226, 420
BmiI	GGNNCC	1 cut(s)	184
BmrFI	CCNGG	4 cut(s)	128, 170, 224, 418
BmrI	ACTGGG	2 cut(s)	283, 540
BmuI	ACTGGG	2 cut(s)	283, 540
Bpu1102I	GCTNAGC	1 cut(s)	538
BsaI	GGTCTC	2 cut(s)	81, 508
BsaJI	CCNNGG	1 cut(s)	416
BsaWI	WCCGGW	2 cut(s)	48, 192
Bsc4I	CCNNNNNNNGG	4 cut(s)	55, 192, 551, 552
Bse118I	RCCGGY	1 cut(s)	48
Bse1I	ACTGG	5 cut(s)	38, 273, 278, 450, 546
Bse3DI	GCAATG	1 cut(s)	332
BseBI	CCWGG	4 cut(s)	128, 170, 224, 418
BseDI	CCNNGG	1 cut(s)	416
BseGI	GGATG	2 cut(s)	430, 526
BseLI	CCNNNNNNNGG	4 cut(s)	55, 192, 551, 552
BseMI	GCAATG	1 cut(s)	332
BseMII	CTCAG	1 cut(s)	552
BseNI	ACTGG	5 cut(s)	38, 273, 278, 450, 546
BsgI	GTGCAG	1 cut(s)	570
BshFI	GGCC	3 cut(s)	25, 387, 421
BshTI	ACCGGT	1 cut(s)	48
BsiSI	CCGG	2 cut(s)	49, 193
BslFI	GGGAC	1 cut(s)	568
BslI	CCNNNNNNNGG	4 cut(s)	55, 192, 551, 552
BsmAI	GTCTC	2 cut(s)	81, 508
BsmFI	GGGAC	1 cut(s)	568
BsnI	GGCC	3 cut(s)	25, 387, 421
Bso31I	GGTCTC	2 cut(s)	81, 508
Bsp1720I	GCTNAGC	1 cut(s)	538
BspACI	CCGC	1 cut(s)	229
BspANI	GGCC	3 cut(s)	25, 387, 421
BspCNI	CTCAG	1 cut(s)	551
BspLI	GGNNCC	1 cut(s)	184
BspQI	GCTCTTC	1 cut(s)	496
BspTNI	GGTCTC	2 cut(s)	81, 508
BsrDI	GCAATG	1 cut(s)	332
BsrFI	RCCGGY	1 cut(s)	48
BsrI	ACTGG	5 cut(s)	38, 273, 278, 450, 546
BssAI	RCCGGY	1 cut(s)	48
BssECI	CCNNGG	1 cut(s)	416
Bst2UI	CCWGG	4 cut(s)	128, 170, 224, 418
Bst4CI	ACNGT	1 cut(s)	500
Bst6I	CTCTTC	1 cut(s)	496
BstC8I	GCNNGC	2 cut(s)	35, 233
BstDEI	CTNAG	2 cut(s)	339, 538
BstF5I	GGATG	2 cut(s)	430, 526
BstMAI	GTCTC	2 cut(s)	81, 508
BstMWI	GCNNNNNNNGC	3 cut(s)	92, 329, 548
BstNI	CCWGG	4 cut(s)	128, 170, 224, 418
BstSCI	CCNGG	4 cut(s)	126, 168, 222, 416
BsuRI	GGCC	3 cut(s)	25, 387, 421
BtsCI	GGATG	2 cut(s)	430, 526
BtsIMutI	CAGTG	4 cut(s)	45, 198, 505, 553
Cac8I	GCNNGC	2 cut(s)	35, 233
Cfr10I	RCCGGY	1 cut(s)	48
Cfr13I	GGNCC	4 cut(s)	24, 135, 226, 420
CsiI	ACCWGGT	2 cut(s)	126, 168
Csp6I	GTAC	2 cut(s)	266, 315
CspAI	ACCGGT	1 cut(s)	48
CviAII	CATG	1 cut(s)	83
CviQI	GTAC	2 cut(s)	266, 315
DdeI	CTNAG	2 cut(s)	339, 538
EaeI	YGGCCR	1 cut(s)	385
Eam1104I	CTCTTC	1 cut(s)	496
EarI	CTCTTC	1 cut(s)	496
Eco31I	GGTCTC	2 cut(s)	81, 508
Eco47I	GGWCC	2 cut(s)	135, 226
EcoO109I	RGGNCCY	2 cut(s)	135, 420
EcoRII	CCWGG	4 cut(s)	126, 168, 222, 416
FaeI	CATG	1 cut(s)	86
FaiI	YATR	8 cut(s)	84, 89, 254, 303, 366, 378, 380, 455
FaqI	GGGAC	1 cut(s)	568
FatI	CATG	1 cut(s)	82
FauNDI	CATATG	1 cut(s)	378
FokI	GGATG	2 cut(s)	417, 513
HaeIII	GGCC	3 cut(s)	25, 387, 421
HapII	CCGG	2 cut(s)	49, 193
Hin1II	CATG	1 cut(s)	86
HindIII	AAGCTT	1 cut(s)	233
HinfI	GANTC	3 cut(s)	289, 412, 508
HpaII	CCGG	2 cut(s)	49, 193
Hpy166II	GTNNAC	1 cut(s)	198
Hpy188I	TCNGA	6 cut(s)	64, 467, 484, 496, 507, 513
Hpy188III	TCNNGA	4 cut(s)	133, 175, 434, 530
Hpy8I	GTNNAC	1 cut(s)	198
Hpy99I	CGWCG	1 cut(s)	191
HpyCH4III	ACNGT	1 cut(s)	500
HpyCH4V	TGCA	3 cut(s)	213, 332, 551
HpyF10VI	GCNNNNNNNGC	3 cut(s)	92, 329, 548
HpyF3I	CTNAG	2 cut(s)	339, 538
Hsp92II	CATG	1 cut(s)	86
LguI	GCTCTTC	1 cut(s)	496
LmnI	GCTCC	3 cut(s)	188, 277, 547
MabI	ACCWGGT	2 cut(s)	126, 168
MaeIII	GTNAC	1 cut(s)	44
MboII	GAAGA	1 cut(s)	483
MlsI	TGGCCA	1 cut(s)	387
MluCI	AATT	2 cut(s)	346, 568
MluNI	TGGCCA	1 cut(s)	387
MmeI	TCCRAC	1 cut(s)	87
MnlI	CCTC	1 cut(s)	433
Mox20I	TGGCCA	1 cut(s)	387
MroXI	GAANNNNTTC	1 cut(s)	347
MscI	TGGCCA	1 cut(s)	387
MseI	TTAA	1 cut(s)	571
MslI	CAYNNNNRTG	1 cut(s)	377
Msp20I	TGGCCA	1 cut(s)	387
MspI	CCGG	2 cut(s)	49, 193
MspR9I	CCNGG	4 cut(s)	128, 170, 224, 418
MvaI	CCWGG	4 cut(s)	128, 170, 224, 418
MwoI	GCNNNNNNNGC	3 cut(s)	92, 329, 548
NdeI	CATATG	1 cut(s)	378
NlaIII	CATG	1 cut(s)	86
NlaIV	GGNNCC	1 cut(s)	184
PciSI	GCTCTTC	1 cut(s)	496
PdmI	GAANNNNTTC	1 cut(s)	347
PfeI	GAWTC	3 cut(s)	289, 412, 508
PflFI	GACNNNGTC	2 cut(s)	128, 170
PfoI	TCCNGGA	1 cut(s)	222
PinAI	ACCGGT	1 cut(s)	48
PpuMI	RGGWCCY	1 cut(s)	135
Psp5II	RGGWCCY	1 cut(s)	135
Psp6I	CCWGG	4 cut(s)	126, 168, 222, 416
PspGI	CCWGG	4 cut(s)	126, 168, 222, 416
PspN4I	GGNNCC	1 cut(s)	184
PspPI	GGNCC	4 cut(s)	24, 135, 226, 420
PspPPI	RGGWCCY	1 cut(s)	135
PsyI	GACNNNGTC	2 cut(s)	128, 170
RsaI	GTAC	2 cut(s)	267, 316
RsaNI	GTAC	2 cut(s)	266, 315
RseI	CAYNNNNRTG	1 cut(s)	377
SapI	GCTCTTC	1 cut(s)	496
SaqAI	TTAA	1 cut(s)	571
Sau96I	GGNCC	4 cut(s)	24, 135, 226, 420
ScrFI	CCNGG	4 cut(s)	128, 170, 224, 418
SexAI	ACCWGGT	2 cut(s)	126, 168
SinI	GGWCC	2 cut(s)	135, 226
SmiMI	CAYNNNNRTG	1 cut(s)	377
Sse9I	AATT	2 cut(s)	346, 568
SsiI	CCGC	1 cut(s)	229
StyD4I	CCNGG	4 cut(s)	126, 168, 222, 416
TaaI	ACNGT	1 cut(s)	500
TaqI	TCGA	1 cut(s)	5
TasI	AATT	2 cut(s)	346, 568
TatI	WGTACW	1 cut(s)	265
TfiI	GAWTC	3 cut(s)	289, 412, 508
Tru1I	TTAA	1 cut(s)	571
Tru9I	TTAA	1 cut(s)	571
TscAI	CASTG	4 cut(s)	45, 205, 505, 553
TspDTI	ATGAA	4 cut(s)	263, 365, 419, 515
TspGWI	ACGGA	1 cut(s)	175
TspRI	CASTG	4 cut(s)	45, 205, 505, 553
Tth111I	GACNNNGTC	2 cut(s)	128, 170
VpaK11BI	GGWCC	2 cut(s)	135, 226
XmnI	GAANNNNTTC	1 cut(s)	347

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