Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1B

Orthogroup ID

OG0013776

Physical Location & Seq

Genomic Coordinates Reverse (-)

19764326 .. 19769004

Gene Structure 4679 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1BG115800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 384 bp

ATGACAGTGGAACTGACGCCGAACGCGGTGGTCGCCATCATCGGCGGCAATGTCGACTTGAAGCCGGTGTTGCAGGTCACCGATATCAATCCCATCAGGCCCACCGGCTTGCCAGTGTGTTACCGGTTGATGGTTTCCGACGGCGTTTGGTCTCATCACGCCATGGTCGCCTTTCAGCTCAATGACCTATTTGGGACTGACTTTGGGACTGACCAGGTCAGGAAAGGCTCCGTCGTCCGGTTCACCGACTACATTTGCACCAATGTCCAGGACCGCAAATCAGGATCATCACCCATCAATCTCTTCCTTATGATGGCATTAACACTGTTAGGATCATCCTCAACCTGCACAACCAAAGCAAATCAGAGGACGATACAAAGATAG

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

127

Amino Acids

13.89

Weight (kDa)

8.57

Isoelectric Point (pI)

22.54

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Rep-A_N	PF04057	5 - 93	4.3e-17	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

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Align Labels (Cladogram)

Image

Tree File

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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)
Acc36I	ACCTGC	2 cut(s)	64, 353
AccI	GTMKAC	1 cut(s)	54
AccII	CGCG	1 cut(s)	26
AciI	CCGC	3 cut(s)	26, 45, 274
AclWI	GGATC	2 cut(s)	292, 340
AcyI	GRCGYC	1 cut(s)	17
AfiI	CCNNNNNNNGG	3 cut(s)	130, 237, 313
AgeI	ACCGGT	1 cut(s)	123
AgsI	TTSAA	1 cut(s)	61
AjnI	CCWGG	2 cut(s)	213, 267
AluBI	AGCT	1 cut(s)	178
AluI	AGCT	1 cut(s)	178
Alw26I	GTCTC	1 cut(s)	156
AlwI	GGATC	2 cut(s)	292, 340
AoxI	GGCC	1 cut(s)	98
AsiGI	ACCGGT	1 cut(s)	123
AspS9I	GGNCC	2 cut(s)	99, 271
AsuHPI	GGTGA	3 cut(s)	70, 235, 282
AvaII	GGWCC	1 cut(s)	271
BccI	CCATC	5 cut(s)	44, 101, 124, 302, 307
BceAI	ACGGC	1 cut(s)	157
BciT130I	CCWGG	2 cut(s)	215, 269
BcoDI	GTCTC	1 cut(s)	156
BfuAI	ACCTGC	2 cut(s)	64, 353
BisI	GCNGC	1 cut(s)	46
BlsI	GCNGC	1 cut(s)	47
Bme1390I	CCNGG	2 cut(s)	215, 269
Bme18I	GGWCC	1 cut(s)	271
BmgT120I	GGNCC	2 cut(s)	99, 271
BmiI	GGNNCC	1 cut(s)	229
BmrFI	CCNGG	2 cut(s)	215, 269
BsaBI	GATNNNNATC	1 cut(s)	87
BsaHI	GRCGYC	1 cut(s)	17
BsaI	GGTCTC	1 cut(s)	156
BsaJI	CCNNGG	1 cut(s)	162
BsaWI	WCCGGW	2 cut(s)	123, 237
Bsc4I	CCNNNNNNNGG	3 cut(s)	130, 237, 313
Bse118I	RCCGGY	3 cut(s)	64, 104, 123
Bse1I	ACTGG	1 cut(s)	113
Bse3DI	GCAATG	1 cut(s)	55
Bse8I	GATNNNNATC	1 cut(s)	87
BseBI	CCWGG	2 cut(s)	215, 269
BseDI	CCNNGG	1 cut(s)	162
BseGI	GGATG	1 cut(s)	335
BseJI	GATNNNNATC	1 cut(s)	87
BseLI	CCNNNNNNNGG	3 cut(s)	130, 237, 313
BseMI	GCAATG	1 cut(s)	55
BseNI	ACTGG	1 cut(s)	113
BsgI	GTGCAG	1 cut(s)	331
Bsh1236I	CGCG	1 cut(s)	26
BshFI	GGCC	1 cut(s)	100
BshTI	ACCGGT	1 cut(s)	123
BsiSI	CCGG	4 cut(s)	65, 105, 124, 238
BslFI	GGGAC	2 cut(s)	208, 220
BslI	CCNNNNNNNGG	3 cut(s)	130, 237, 313
BsmAI	GTCTC	1 cut(s)	156
BsmFI	GGGAC	2 cut(s)	208, 220
BsnI	GGCC	1 cut(s)	100
Bso31I	GGTCTC	1 cut(s)	156
Bsp143I	GATC	2 cut(s)	284, 332
Bsp19I	CCATGG	1 cut(s)	162
BspACI	CCGC	3 cut(s)	26, 45, 274
BspANI	GGCC	1 cut(s)	100
BspFNI	CGCG	1 cut(s)	26
BspLI	GGNNCC	1 cut(s)	229
BspMI	ACCTGC	2 cut(s)	64, 353
BspPI	GGATC	2 cut(s)	292, 340
BspTNI	GGTCTC	1 cut(s)	156
BsrDI	GCAATG	1 cut(s)	55
BsrFI	RCCGGY	3 cut(s)	64, 104, 123
BsrI	ACTGG	1 cut(s)	113
BssAI	RCCGGY	3 cut(s)	64, 104, 123
BssECI	CCNNGG	1 cut(s)	162
BssMI	GATC	2 cut(s)	284, 332
BssNI	GRCGYC	1 cut(s)	17
BssT1I	CCWWGG	1 cut(s)	162
Bst2UI	CCWGG	2 cut(s)	215, 269
Bst4CI	ACNGT	2 cut(s)	7, 327
Bst6I	CTCTTC	1 cut(s)	308
BstACI	GRCGYC	1 cut(s)	17
BstC8I	GCNNGC	1 cut(s)	110
BstDSI	CCRYGG	1 cut(s)	162
BstEII	GGTNACC	1 cut(s)	76
BstF5I	GGATG	1 cut(s)	335
BstFNI	CGCG	1 cut(s)	26
BstKTI	GATC	2 cut(s)	287, 335
BstMAI	GTCTC	1 cut(s)	156
BstMBI	GATC	2 cut(s)	284, 332
BstMWI	GCNNNNNNNGC	3 cut(s)	32, 70, 167
BstNI	CCWGG	2 cut(s)	215, 269
BstPI	GGTNACC	1 cut(s)	76
BstSCI	CCNGG	2 cut(s)	213, 267
BstUI	CGCG	1 cut(s)	26
BsuRI	GGCC	1 cut(s)	100
BtgI	CCRYGG	1 cut(s)	162
BtsCI	GGATG	1 cut(s)	335
BtsIMutI	CAGTG	3 cut(s)	12, 120, 323
BveI	ACCTGC	2 cut(s)	64, 353
Cac8I	GCNNGC	1 cut(s)	110
Cfr10I	RCCGGY	3 cut(s)	64, 104, 123
Cfr13I	GGNCC	2 cut(s)	99, 271
CseI	GACGC	1 cut(s)	25
CsiI	ACCWGGT	1 cut(s)	213
CspAI	ACCGGT	1 cut(s)	123
CviAII	CATG	1 cut(s)	163
CviJI	RGCY	5 cut(s)	64, 100, 108, 178, 228
CviKI_1	RGCY	5 cut(s)	64, 100, 108, 178, 228
DpnI	GATC	2 cut(s)	286, 334
DpnII	GATC	2 cut(s)	284, 332
Eam1104I	CTCTTC	1 cut(s)	308
EarI	CTCTTC	1 cut(s)	308
Eco130I	CCWWGG	1 cut(s)	162
Eco31I	GGTCTC	1 cut(s)	156
Eco32I	GATATC	1 cut(s)	85
Eco47I	GGWCC	1 cut(s)	271
Eco91I	GGTNACC	1 cut(s)	76
EcoO65I	GGTNACC	1 cut(s)	76
EcoRII	CCWGG	2 cut(s)	213, 267
EcoRV	GATATC	1 cut(s)	85
EcoT14I	CCWWGG	1 cut(s)	162
ErhI	CCWWGG	1 cut(s)	162
FaeI	CATG	1 cut(s)	166
FaiI	YATR	2 cut(s)	164, 311
FaqI	GGGAC	2 cut(s)	208, 220
FatI	CATG	1 cut(s)	162
FblI	GTMKAC	1 cut(s)	54
Fnu4HI	GCNGC	1 cut(s)	46
FokI	GGATG	1 cut(s)	322
Fsp4HI	GCNGC	1 cut(s)	46
GluI	GCNGC	1 cut(s)	46
HaeIII	GGCC	1 cut(s)	100
HapII	CCGG	4 cut(s)	65, 105, 124, 238
HgaI	GACGC	1 cut(s)	25
Hin1I	GRCGYC	1 cut(s)	17
Hin1II	CATG	1 cut(s)	166
HincII	GTYRAC	1 cut(s)	55
HindII	GTYRAC	1 cut(s)	55
HpaII	CCGG	4 cut(s)	65, 105, 124, 238
HphI	GGTGA	3 cut(s)	70, 235, 282
Hpy166II	GTNNAC	2 cut(s)	55, 243
Hpy188I	TCNGA	2 cut(s)	139, 366
Hpy188III	TCNNGA	2 cut(s)	220, 282
Hpy8I	GTNNAC	2 cut(s)	55, 243
Hpy99I	CGWCG	2 cut(s)	143, 236
HpyCH4III	ACNGT	2 cut(s)	7, 327
HpyCH4V	TGCA	3 cut(s)	73, 258, 348
HpyF10VI	GCNNNNNNNGC	3 cut(s)	32, 70, 167
Hsp92I	GRCGYC	1 cut(s)	17
Hsp92II	CATG	1 cut(s)	166
Kzo9I	GATC	2 cut(s)	284, 332
LmnI	GCTCC	1 cut(s)	233
MabI	ACCWGGT	1 cut(s)	213
MaeIII	GTNAC	2 cut(s)	76, 119
MalI	GATC	2 cut(s)	286, 334
MboI	GATC	2 cut(s)	284, 332
MboII	GAAGA	1 cut(s)	295
MmeI	TCCRAC	1 cut(s)	162
MnlI	CCTC	2 cut(s)	349, 360
MseI	TTAA	1 cut(s)	320
MspI	CCGG	4 cut(s)	65, 105, 124, 238
MspR9I	CCNGG	2 cut(s)	215, 269
MvaI	CCWGG	2 cut(s)	215, 269
MvnI	CGCG	1 cut(s)	26
MwoI	GCNNNNNNNGC	3 cut(s)	32, 70, 167
NcoI	CCATGG	1 cut(s)	162
NdeII	GATC	2 cut(s)	284, 332
NlaIII	CATG	1 cut(s)	166
NlaIV	GGNNCC	1 cut(s)	229
NmuCI	GTSAC	1 cut(s)	76
PflFI	GACNNNGTC	1 cut(s)	215
PfoI	TCCNGGA	1 cut(s)	267
PinAI	ACCGGT	1 cut(s)	123
PkrI	GCNGC	1 cut(s)	47
Psp6I	CCWGG	2 cut(s)	213, 267
PspEI	GGTNACC	1 cut(s)	76
PspGI	CCWGG	2 cut(s)	213, 267
PspN4I	GGNNCC	1 cut(s)	229
PspPI	GGNCC	2 cut(s)	99, 271
PsyI	GACNNNGTC	1 cut(s)	215
SalI	GTCGAC	1 cut(s)	53
SaqAI	TTAA	1 cut(s)	320
SatI	GCNGC	1 cut(s)	46
Sau3AI	GATC	2 cut(s)	284, 332
Sau96I	GGNCC	2 cut(s)	99, 271
ScrFI	CCNGG	2 cut(s)	215, 269
SetI	ASST	5 cut(s)	78, 180, 189, 219, 347
SexAI	ACCWGGT	1 cut(s)	213
SinI	GGWCC	1 cut(s)	271
SsiI	CCGC	3 cut(s)	26, 45, 274
StyD4I	CCNGG	2 cut(s)	213, 267
StyI	CCWWGG	1 cut(s)	162
TaaI	ACNGT	2 cut(s)	7, 327
TaqI	TCGA	1 cut(s)	54
TauI	GCSGC	1 cut(s)	48
Tru1I	TTAA	1 cut(s)	320
Tru9I	TTAA	1 cut(s)	320
TscAI	CASTG	3 cut(s)	12, 120, 330
TseFI	GTSAC	1 cut(s)	76
Tsp45I	GTSAC	1 cut(s)	76
TspGWI	ACGGA	1 cut(s)	220
TspRI	CASTG	3 cut(s)	12, 120, 330
Tth111I	GACNNNGTC	1 cut(s)	215
VpaK11BI	GGWCC	1 cut(s)	271
XmiI	GTMKAC	1 cut(s)	54

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