Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr7A

Orthogroup ID

OG0001101

Physical Location & Seq

Genomic Coordinates Reverse (-)

57002945 .. 57003776

Gene Structure 832 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh7AG424200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 600 bp

ATGCATGTTGTTCCGAGATCTCTTTTGGGTGCTGTCTCTAGAGGAAGAATAACCTCATTCTATCTTTTCCATGGTCCACAAGGTACAGGAAAGACATCAGCCTCAAGAATTTTTGCTGCAGCACTTAATTGTCTTTCACTGGAGGAGTACAAGCCGTGCGGTCTCTGCTGCGAGTGTAATGTGTACTTTTCTGGAAACAGCAGAGATATCAAGGAAATAGATTCTGTGAGAATCAACCGGAGAGACCGGTTTAGGTGTCTTATTATGAATGCAGCTACACCTCCCGTTTCTTCACGGTTTAAGGTTTTCATCATTGATGAGTGCCACTTGATGCGTGGGGAAACATGGGCGACTATTTTGAGTAGCATCGATAACCTTTCTCAACGTGTTGTCTTTGTGATGATCACTCCTGATCTGGATAAGCTGCCGCGGAATCAGTATCACGGTCCCAGAGATATCACTTCCCAAAGATTAAGGATGGTGATATTGCAAGCAAGTTGGGAAAAATCTGTGTTGAAGAGGGTCTTGAGTTTGATCAGATTGGAGCTGTTTCTGATGCTCGATTTGCTAGATCTGGCATTGTCATCTGACACTTTCTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005657 GO:0005663 GO:0005694 GO:0006139 GO:0006259 GO:0006260 GO:0006261 GO:0006281 GO:0006725 GO:0006807 GO:0006950 GO:0006974 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009987 GO:0032991 GO:0033554 GO:0034641 GO:0034645 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044422 GO:0044424 GO:0044427 GO:0044446 GO:0044464 GO:0046483 GO:0050896 GO:0051716 GO:0071704 GO:0090304 GO:1901360 GO:1901576

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

DNA_pol3_delta2 DNA_pol3_gamma3

Protein Analysis

199

Amino Acids

22.64

Weight (kDa)

9.23

Isoelectric Point (pI)

38.83

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
DNA_pol3_delta2	PF13177	9 - 142	1.3e-17	DNA polymerase III, delta subunit
AAA	PF00004	21 - 144	3.6e-08	ATPase family associated with various cellular activities (AAA)

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: OG0001101)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G24790 AT4G24790 AT4G24790 AT4G24790 AT4G24790
fragaria_vesca	FvH4_5g06841
malus_domestica	MD06G1160000.v1.1 MD14G1166000.v1.1
prunus_persica	Prupe.5G160500_v2.0.a1
pyrus_communis	pycom06g14310 pycom14g13860 pycom14g13870
rosa_chinensis	RchiOBHm_Chr7g0191751 RchiOBHm_Chr7g0232131
rosa_laevigata	RLG00000001389 RLG00000001431 RLG00000004429
rosa_multiflora	Rmu_co8050558.1_g000001 Rmu_co8237971.1_g000001 Rmu_co8286355.1_g000001 Rmu_co8458339.1_g000001 Rmu_sc0000616.1_g000013 Rmu_sc0003901.1_g000007 Rmu_sc0012403.1_g000007
rosa_roxburghii	Rroxscaffold_3G00228760 Rroxscaffold_3G00263560 Rroxscaffold_3G00263570 Rroxscaffold_3G00263580
rosa_rugosa	Rorug06G0511100 Rorug07G0265100 Rorug07G0265200 Rorug07G0269600
rosa_samantha	Rh7AG120700 Rh7AG417900 Rh7AG418000 Rh7AG418100 Rh7AG418200 Rh7AG424100 Rh7AG424200 Rh7BG122500 Rh7BG397900 Rh7BG398000 Rh7BG398100 Rh7CG125300 Rh7CG437800 Rh7CG437900 Rh7CG444400 Rh7CG444500 Rh7DG124000 Rh7DG411900 Rh7DG412000 Rh7DG412100 Rh7DG412200 Rh7DG416000 Rh7DG416100 Rh7DG416200
rosa_wichuraiana	Rw7G010290 Rw7G034600 Rw7G035070

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccII	CGCG	1 cut(s)	430
AciI	CCGC	3 cut(s)	159, 428, 430
AcsI	RAATTY	1 cut(s)	108
AfaI	GTAC	3 cut(s)	85, 149, 185
AflIII	ACRYGT	1 cut(s)	385
AgeI	ACCGGT	1 cut(s)	246
AgsI	TTSAA	1 cut(s)	517
AluBI	AGCT	3 cut(s)	275, 424, 547
AluI	AGCT	3 cut(s)	275, 424, 547
Alw26I	GTCTC	3 cut(s)	40, 167, 237
ApeKI	GCWGC	5 cut(s)	116, 119, 168, 272, 424
ApoI	RAATTY	1 cut(s)	108
AsiGI	ACCGGT	1 cut(s)	246
AspS9I	GGNCC	2 cut(s)	74, 446
AsuHPI	GGTGA	1 cut(s)	493
AvaII	GGWCC	2 cut(s)	74, 446
BbvI	GCAGC	5 cut(s)	103, 131, 155, 284, 411
BccI	CCATC	1 cut(s)	472
BceAI	ACGGC	1 cut(s)	139
BclI	TGATCA	2 cut(s)	402, 534
BcoDI	GTCTC	3 cut(s)	40, 167, 237
BfaI	CTAG	2 cut(s)	39, 569
BfmI	CTRYAG	1 cut(s)	117
BglII	AGATCT	2 cut(s)	17, 571
BisI	GCNGC	6 cut(s)	117, 120, 169, 273, 425, 428
BlsI	GCNGC	6 cut(s)	118, 121, 170, 274, 426, 429
Bme18I	GGWCC	2 cut(s)	74, 446
BmgT120I	GGNCC	2 cut(s)	74, 446
BmiI	GGNNCC	1 cut(s)	448
BmsI	GCATC	3 cut(s)	321, 375, 546
BpmI	CTGGAG	1 cut(s)	161
BpuEI	CTTGAG	2 cut(s)	88, 547
Bsa29I	ATCGAT	1 cut(s)	369
BsaI	GGTCTC	2 cut(s)	167, 237
BsaJI	CCNNGG	2 cut(s)	70, 428
BsaWI	WCCGGW	2 cut(s)	237, 246
Bse118I	RCCGGY	1 cut(s)	246
Bse1I	ACTGG	1 cut(s)	144
BseCI	ATCGAT	1 cut(s)	369
BseDI	CCNNGG	2 cut(s)	70, 428
BseGI	GGATG	1 cut(s)	483
BseNI	ACTGG	1 cut(s)	144
BseRI	GAGGAG	1 cut(s)	158
BseXI	GCAGC	5 cut(s)	103, 131, 155, 284, 411
Bsh1236I	CGCG	1 cut(s)	430
BshTI	ACCGGT	1 cut(s)	246
BshVI	ATCGAT	1 cut(s)	369
BsiSI	CCGG	2 cut(s)	238, 247
BslFI	GGGAC	1 cut(s)	432
BsmAI	GTCTC	3 cut(s)	40, 167, 237
BsmFI	GGGAC	1 cut(s)	432
BsmI	GAATGC	1 cut(s)	274
Bso31I	GGTCTC	2 cut(s)	167, 237
Bsp143I	GATC	5 cut(s)	17, 402, 412, 534, 571
Bsp19I	CCATGG	1 cut(s)	70
BspACI	CCGC	3 cut(s)	159, 428, 430
BspDI	ATCGAT	1 cut(s)	369
BspFNI	CGCG	1 cut(s)	430
BspLI	GGNNCC	1 cut(s)	448
BspMAI	CTGCAG	1 cut(s)	121
BspTNI	GGTCTC	2 cut(s)	167, 237
BsrFI	RCCGGY	1 cut(s)	246
BsrI	ACTGG	1 cut(s)	144
BssAI	RCCGGY	1 cut(s)	246
BssECI	CCNNGG	2 cut(s)	70, 428
BssMI	GATC	5 cut(s)	17, 402, 412, 534, 571
BssT1I	CCWWGG	1 cut(s)	70
Bst4CI	ACNGT	2 cut(s)	297, 446
Bst6I	CTCTTC	1 cut(s)	512
BstC8I	GCNNGC	1 cut(s)	492
BstDSI	CCRYGG	2 cut(s)	70, 428
BstF5I	GGATG	1 cut(s)	483
BstFNI	CGCG	1 cut(s)	430
BstKTI	GATC	5 cut(s)	20, 405, 415, 537, 574
BstMAI	GTCTC	3 cut(s)	40, 167, 237
BstMBI	GATC	5 cut(s)	17, 402, 412, 534, 571
BstMWI	GCNNNNNNNGC	2 cut(s)	165, 565
BstNSI	RCATGY	1 cut(s)	8
BstSFI	CTRYAG	1 cut(s)	117
BstUI	CGCG	1 cut(s)	430
BstV1I	GCAGC	5 cut(s)	103, 131, 155, 284, 411
BstX2I	RGATCY	2 cut(s)	17, 571
BstYI	RGATCY	2 cut(s)	17, 571
Bsu15I	ATCGAT	1 cut(s)	369
BsuTUI	ATCGAT	1 cut(s)	369
BtgI	CCRYGG	2 cut(s)	70, 428
BtsCI	GGATG	1 cut(s)	483
BtsIMutI	CAGTG	1 cut(s)	137
Cac8I	GCNNGC	1 cut(s)	492
Cfr10I	RCCGGY	1 cut(s)	246
Cfr13I	GGNCC	2 cut(s)	74, 446
Cfr42I	CCGCGG	1 cut(s)	431
ClaI	ATCGAT	1 cut(s)	369
Csp6I	GTAC	3 cut(s)	84, 148, 184
CspAI	ACCGGT	1 cut(s)	246
CviAII	CATG	3 cut(s)	5, 71, 345
CviJI	RGCY	5 cut(s)	101, 154, 275, 424, 547
CviKI_1	RGCY	5 cut(s)	101, 154, 275, 424, 547
CviQI	GTAC	3 cut(s)	84, 148, 184
DpnI	GATC	5 cut(s)	19, 404, 414, 536, 573
DpnII	GATC	5 cut(s)	17, 402, 412, 534, 571
Eam1104I	CTCTTC	1 cut(s)	512
EarI	CTCTTC	1 cut(s)	512
Eco130I	CCWWGG	1 cut(s)	70
Eco31I	GGTCTC	2 cut(s)	167, 237
Eco32I	GATATC	2 cut(s)	208, 457
Eco47I	GGWCC	2 cut(s)	74, 446
EcoRV	GATATC	2 cut(s)	208, 457
EcoT14I	CCWWGG	1 cut(s)	70
EcoT22I	ATGCAT	1 cut(s)	6
ErhI	CCWWGG	1 cut(s)	70
FaeI	CATG	3 cut(s)	8, 74, 348
FaiI	YATR	4 cut(s)	6, 72, 266, 346
FalI	AAGNNNNNCTT	2 cut(s)	509, 541
FaqI	GGGAC	1 cut(s)	432
FatI	CATG	3 cut(s)	4, 70, 344
FbaI	TGATCA	2 cut(s)	402, 534
Fnu4HI	GCNGC	6 cut(s)	117, 120, 169, 273, 425, 428
FokI	GGATG	1 cut(s)	490
Fsp4HI	GCNGC	6 cut(s)	117, 120, 169, 273, 425, 428
FspBI	CTAG	2 cut(s)	39, 569
GluI	GCNGC	6 cut(s)	117, 120, 169, 273, 425, 428
GsuI	CTGGAG	1 cut(s)	161
HapII	CCGG	2 cut(s)	238, 247
Hin1II	CATG	3 cut(s)	8, 74, 348
HinfI	GANTC	3 cut(s)	221, 231, 433
HpaII	CCGG	2 cut(s)	238, 247
HphI	GGTGA	1 cut(s)	493
Hpy166II	GTNNAC	2 cut(s)	77, 184
Hpy188I	TCNGA	4 cut(s)	15, 539, 555, 589
Hpy188III	TCNNGA	6 cut(s)	39, 105, 192, 410, 416, 526
Hpy8I	GTNNAC	2 cut(s)	77, 184
HpyCH4III	ACNGT	2 cut(s)	297, 446
HpyCH4IV	ACGT	1 cut(s)	385
HpyCH4V	TGCA	4 cut(s)	4, 119, 272, 490
HpyF10VI	GCNNNNNNNGC	2 cut(s)	165, 565
HpySE526I	ACGT	1 cut(s)	385
Hsp92II	CATG	3 cut(s)	8, 74, 348
Ksp22I	TGATCA	2 cut(s)	402, 534
KspI	CCGCGG	1 cut(s)	431
Kzo9I	GATC	5 cut(s)	17, 402, 412, 534, 571
LmnI	GCTCC	1 cut(s)	544
LpnPI	CCDG	9 cut(s)	72, 125, 177, 251, 260, 401, 423, 463, 560
Lsp1109I	GCAGC	5 cut(s)	103, 131, 155, 284, 411
LweI	GCATC	3 cut(s)	321, 375, 546
MaeI	CTAG	2 cut(s)	39, 569
MaeII	ACGT	1 cut(s)	385
MalI	GATC	5 cut(s)	19, 404, 414, 536, 573
MboI	GATC	5 cut(s)	17, 402, 412, 534, 571
MboII	GAAGA	3 cut(s)	57, 282, 529
MflI	RGATCY	2 cut(s)	17, 571
MluCI	AATT	2 cut(s)	108, 127
MnlI	CCTC	6 cut(s)	35, 64, 112, 136, 291, 513
Mph1103I	ATGCAT	1 cut(s)	6
MseI	TTAA	3 cut(s)	126, 300, 473
MspA1I	CMGCKG	1 cut(s)	430
MspI	CCGG	2 cut(s)	238, 247
Mva1269I	GAATGC	1 cut(s)	274
MvnI	CGCG	1 cut(s)	430
MwoI	GCNNNNNNNGC	2 cut(s)	165, 565
NcoI	CCATGG	1 cut(s)	70
NdeII	GATC	5 cut(s)	17, 402, 412, 534, 571
NlaIII	CATG	3 cut(s)	8, 74, 348
NlaIV	GGNNCC	1 cut(s)	448
NsiI	ATGCAT	1 cut(s)	6
NspI	RCATGY	1 cut(s)	8
PctI	GAATGC	1 cut(s)	274
PfeI	GAWTC	3 cut(s)	221, 231, 433
PinAI	ACCGGT	1 cut(s)	246
PkrI	GCNGC	6 cut(s)	118, 121, 170, 274, 426, 429
PspN4I	GGNNCC	1 cut(s)	448
PspPI	GGNCC	2 cut(s)	74, 446
PstI	CTGCAG	1 cut(s)	121
PsuI	RGATCY	2 cut(s)	17, 571
RsaI	GTAC	3 cut(s)	85, 149, 185
RsaNI	GTAC	3 cut(s)	84, 148, 184
SacII	CCGCGG	1 cut(s)	431
SaqAI	TTAA	3 cut(s)	126, 300, 473
SatI	GCNGC	6 cut(s)	117, 120, 169, 273, 425, 428
Sau3AI	GATC	5 cut(s)	17, 402, 412, 534, 571
Sau96I	GGNCC	2 cut(s)	74, 446
SfaNI	GCATC	3 cut(s)	321, 375, 546
SfcI	CTRYAG	1 cut(s)	117
Sfr303I	CCGCGG	1 cut(s)	431
SgrBI	CCGCGG	1 cut(s)	431
SinI	GGWCC	2 cut(s)	74, 446
SmlI	CTYRAG	2 cut(s)	103, 526
SmoI	CTYRAG	2 cut(s)	103, 526
Sse9I	AATT	2 cut(s)	108, 127
SsiI	CCGC	3 cut(s)	159, 428, 430
SspMI	CTAG	2 cut(s)	39, 569
StyI	CCWWGG	1 cut(s)	70
TaaI	ACNGT	2 cut(s)	297, 446
TaiI	ACGT	1 cut(s)	388
TaqI	TCGA	2 cut(s)	369, 561
TasI	AATT	2 cut(s)	108, 127
TatI	WGTACW	2 cut(s)	147, 183
TauI	GCSGC	1 cut(s)	430
TfiI	GAWTC	3 cut(s)	221, 231, 433
Tru1I	TTAA	3 cut(s)	126, 300, 473
Tru9I	TTAA	3 cut(s)	126, 300, 473
TscAI	CASTG	1 cut(s)	144
TseI	GCWGC	5 cut(s)	116, 119, 168, 272, 424
TspDTI	ATGAA	2 cut(s)	281, 298
TspRI	CASTG	1 cut(s)	144
VpaK11BI	GGWCC	2 cut(s)	74, 446
XapI	RAATTY	1 cut(s)	108
XbaI	TCTAGA	1 cut(s)	38
XceI	RCATGY	1 cut(s)	8
XcmI	CCANNNNNNNNNTGG	1 cut(s)	332
XspI	CTAG	2 cut(s)	39, 569
Zsp2I	ATGCAT	1 cut(s)	6

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