Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr7A

Orthogroup ID

OG0001101

Physical Location & Seq

Genomic Coordinates Reverse (-)

56106566 .. 56108042

Gene Structure 1477 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh7AG418100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 936 bp

ATGGTGGGGCAAAATGTTGTTGCGAGGTCTCTTTTGGGTGCTGTCTCTAGAGGAAGAATAACCTCATTCTATCTATTCCATGGTCCACAAGGTACAGGAAAGACATCAGCCTCAAGAATTTTTGCTGCAGCACTTAATTGTCTTTCACTGGAGGAGTACAGGCCGTGTGGTCTCTGCTGCGAGTGTAATGTGTACTTTTCTGGAAACAGCAGAGATATCAAGGAAATAGATTCTGTGAGAATCAGCTGGAGAGACCGGTTTAGGTGTCTTATTATGAATGCAGCTACACCTCCCGTTTCTTCACGGTTTAAGGTTTTCATCATTGATGAGTGCCACTTGATGCGTGGGGAAACATGGGTGACTATTTTGAGCACCGATAACCTTTCTCAACATGTTGTCTTTGTGATGATCACTCCTGATCTGGATAAGCTGCCGCGGAATCAGTATCACGGTCCGAGATATCACTTCCCAAAGATTAAGGATGGTGATATTGCAAGCAAGTTGGGAAAAATCTGTGTTGAAGAGGGTCTTGAGTTTGATCAGGTTGCTTTAAACTTCACTGCTGCCAAATCAAATGGTTCACTTAGGGATGCAGAGATGATGCTTGATCAGCTAAGTTTGCTTGGTAAAAATATCACAATGGGCTTGGCATACGAGCTTATTGGAGCTGTTTCTGATGATGAATTACTCGATTTGCTAGATCTGGCATTGTCAGCTGACACTTCTAATACAGTTTTAAGGGCCAGGGAGTTGATGAGATCAAGGATTGATCCGATGCAACTTATATCGCAGTTGGCAAATCTTATTATGGACATCCTTGCTGGTGAGGAAGGTGGTTCTGAAGTCCAGAAACAGTTCTCTCGTAGGCATACCTCTGAAATGGACCTCCAGAAACTGAGTCATGCATTGAAAATATTCTCTGAAACTGAGAAGTAA

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

311

Amino Acids

34.73

Weight (kDa)

6.01

Isoelectric Point (pI)

29.16

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
DNA_pol3_delta2	PF13177	4 - 143	7.5e-15	DNA polymerase III, delta subunit
DNAX_ATPase_lid	PF22608	164 - 204	6.8e-07	DNA polymerase III clamp loader subunit, ATPase lid 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

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

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)	436
AciI	CCGC	2 cut(s)	434, 436
AclWI	GGATC	1 cut(s)	764
AcsI	RAATTY	1 cut(s)	117
AcuI	CTGAAG	1 cut(s)	861
AfaI	GTAC	3 cut(s)	94, 158, 194
AflIII	ACRYGT	1 cut(s)	391
AgeI	ACCGGT	1 cut(s)	255
AgsI	TTSAA	2 cut(s)	521, 910
AjnI	CCWGG	1 cut(s)	743
AluBI	AGCT	7 cut(s)	246, 284, 430, 613, 658, 668, 716
AluI	AGCT	7 cut(s)	246, 284, 430, 613, 658, 668, 716
Alw21I	GWGCWC	1 cut(s)	374
Alw26I	GTCTC	4 cut(s)	33, 49, 176, 246
AlwI	GGATC	1 cut(s)	764
AlwNI	CAGNNNCTG	1 cut(s)	895
AoxI	GGCC	2 cut(s)	161, 741
ApeKI	GCWGC	6 cut(s)	125, 128, 177, 281, 430, 563
ApoI	RAATTY	1 cut(s)	117
AsiGI	ACCGGT	1 cut(s)	255
Asp700I	GAANNNNTTC	2 cut(s)	854, 914
AspS9I	GGNCC	4 cut(s)	83, 452, 741, 883
AsuHPI	GGTGA	3 cut(s)	370, 497, 836
AvaII	GGWCC	3 cut(s)	83, 452, 883
Bbv12I	GWGCWC	1 cut(s)	374
BbvI	GCAGC	6 cut(s)	112, 140, 164, 293, 417, 550
BccI	CCATC	1 cut(s)	476
BceAI	ACGGC	1 cut(s)	148
BciT130I	CCWGG	1 cut(s)	745
BclI	TGATCA	3 cut(s)	408, 538, 607
BcoDI	GTCTC	4 cut(s)	33, 49, 176, 246
BfaI	CTAG	2 cut(s)	48, 698
BfmI	CTRYAG	1 cut(s)	126
BglII	AGATCT	1 cut(s)	700
BisI	GCNGC	7 cut(s)	126, 129, 178, 282, 431, 434, 564
BlsI	GCNGC	7 cut(s)	127, 130, 179, 283, 432, 435, 565
Bme1390I	CCNGG	1 cut(s)	745
Bme18I	GGWCC	3 cut(s)	83, 452, 883
BmgT120I	GGNCC	4 cut(s)	83, 452, 741, 883
BmrFI	CCNGG	1 cut(s)	745
BmsI	GCATC	4 cut(s)	330, 580, 591, 765
BpmI	CTGGAG	3 cut(s)	170, 268, 872
BpuEI	CTTGAG	2 cut(s)	97, 551
BsaI	GGTCTC	3 cut(s)	33, 176, 246
BsaJI	CCNNGG	3 cut(s)	79, 434, 744
BsaWI	WCCGGW	1 cut(s)	255
Bse118I	RCCGGY	1 cut(s)	255
Bse1I	ACTGG	1 cut(s)	153
BseBI	CCWGG	1 cut(s)	745
BseDI	CCNNGG	3 cut(s)	79, 434, 744
BseGI	GGATG	3 cut(s)	487, 595, 813
BseMII	CTCAG	2 cut(s)	887, 918
BseNI	ACTGG	1 cut(s)	153
BseRI	GAGGAG	1 cut(s)	167
BseXI	GCAGC	6 cut(s)	112, 140, 164, 293, 417, 550
Bsh1236I	CGCG	1 cut(s)	436
BshFI	GGCC	2 cut(s)	163, 743
BshTI	ACCGGT	1 cut(s)	255
BsiHKAI	GWGCWC	1 cut(s)	374
BsiSI	CCGG	1 cut(s)	256
BsmAI	GTCTC	4 cut(s)	33, 49, 176, 246
BsmI	GAATGC	1 cut(s)	283
BsnI	GGCC	2 cut(s)	163, 743
Bso31I	GGTCTC	3 cut(s)	33, 176, 246
Bsp1286I	GDGCHC	1 cut(s)	374
Bsp143I	GATC	7 cut(s)	408, 418, 538, 607, 700, 758, 769
Bsp19I	CCATGG	1 cut(s)	79
BspACI	CCGC	2 cut(s)	434, 436
BspANI	GGCC	2 cut(s)	163, 743
BspCNI	CTCAG	2 cut(s)	888, 919
BspFNI	CGCG	1 cut(s)	436
BspMAI	CTGCAG	1 cut(s)	130
BspPI	GGATC	1 cut(s)	764
BspTNI	GGTCTC	3 cut(s)	33, 176, 246
BsrFI	RCCGGY	1 cut(s)	255
BsrI	ACTGG	1 cut(s)	153
BssAI	RCCGGY	1 cut(s)	255
BssECI	CCNNGG	3 cut(s)	79, 434, 744
BssMI	GATC	7 cut(s)	408, 418, 538, 607, 700, 758, 769
BssT1I	CCWWGG	1 cut(s)	79
Bst2UI	CCWGG	1 cut(s)	745
Bst4CI	ACNGT	4 cut(s)	306, 452, 733, 855
Bst6I	CTCTTC	1 cut(s)	516
BstC8I	GCNNGC	1 cut(s)	496
BstDEI	CTNAG	4 cut(s)	584, 614, 896, 927
BstDSI	CCRYGG	2 cut(s)	79, 434
BstF5I	GGATG	3 cut(s)	487, 595, 813
BstFNI	CGCG	1 cut(s)	436
BstKTI	GATC	7 cut(s)	411, 421, 541, 610, 703, 761, 772
BstMAI	GTCTC	4 cut(s)	33, 49, 176, 246
BstMBI	GATC	7 cut(s)	408, 418, 538, 607, 700, 758, 769
BstMWI	GCNNNNNNNGC	3 cut(s)	610, 619, 713
BstNI	CCWGG	1 cut(s)	745
BstNSI	RCATGY	1 cut(s)	395
BstSCI	CCNGG	1 cut(s)	743
BstSFI	CTRYAG	1 cut(s)	126
BstUI	CGCG	1 cut(s)	436
BstV1I	GCAGC	6 cut(s)	112, 140, 164, 293, 417, 550
BstX2I	RGATCY	1 cut(s)	700
BstYI	RGATCY	1 cut(s)	700
BsuRI	GGCC	2 cut(s)	163, 743
BtgI	CCRYGG	2 cut(s)	79, 434
BtsCI	GGATG	3 cut(s)	487, 595, 813
BtsI	GCAGTG	1 cut(s)	558
BtsIMutI	CAGTG	2 cut(s)	146, 558
Cac8I	GCNNGC	1 cut(s)	496
CaiI	CAGNNNCTG	1 cut(s)	895
Cfr10I	RCCGGY	1 cut(s)	255
Cfr13I	GGNCC	4 cut(s)	83, 452, 741, 883
Cfr42I	CCGCGG	1 cut(s)	437
CpoI	CGGWCCG	1 cut(s)	452
Csp6I	GTAC	3 cut(s)	93, 157, 193
CspAI	ACCGGT	1 cut(s)	255
CspI	CGGWCCG	1 cut(s)	452
CviAII	CATG	4 cut(s)	80, 354, 392, 902
CviQI	GTAC	3 cut(s)	93, 157, 193
DdeI	CTNAG	4 cut(s)	584, 614, 896, 927
DpnI	GATC	7 cut(s)	410, 420, 540, 609, 702, 760, 771
DpnII	GATC	7 cut(s)	408, 418, 538, 607, 700, 758, 769
DraI	TTTAAA	1 cut(s)	552
Eam1104I	CTCTTC	1 cut(s)	516
EarI	CTCTTC	1 cut(s)	516
Eco130I	CCWWGG	1 cut(s)	79
Eco31I	GGTCTC	3 cut(s)	33, 176, 246
Eco32I	GATATC	2 cut(s)	217, 461
Eco47I	GGWCC	3 cut(s)	83, 452, 883
Eco57I	CTGAAG	1 cut(s)	861
EcoRII	CCWGG	1 cut(s)	743
EcoRV	GATATC	2 cut(s)	217, 461
EcoT14I	CCWWGG	1 cut(s)	79
EcoT22I	ATGCAT	1 cut(s)	907
ErhI	CCWWGG	1 cut(s)	79
FaeI	CATG	4 cut(s)	83, 357, 395, 905
FaiI	YATR	9 cut(s)	81, 275, 355, 393, 652, 785, 809, 870, 903
FalI	AAGNNNNNCTT	2 cut(s)	513, 545
FatI	CATG	4 cut(s)	79, 353, 391, 901
FbaI	TGATCA	3 cut(s)	408, 538, 607
Fnu4HI	GCNGC	7 cut(s)	126, 129, 178, 282, 431, 434, 564
FokI	GGATG	3 cut(s)	494, 602, 800
Fsp4HI	GCNGC	7 cut(s)	126, 129, 178, 282, 431, 434, 564
FspBI	CTAG	2 cut(s)	48, 698
GluI	GCNGC	7 cut(s)	126, 129, 178, 282, 431, 434, 564
GsuI	CTGGAG	3 cut(s)	170, 268, 872
HaeIII	GGCC	2 cut(s)	163, 743
HapII	CCGG	1 cut(s)	256
Hin1II	CATG	4 cut(s)	83, 357, 395, 905
HinfI	GANTC	4 cut(s)	230, 240, 439, 898
HpaII	CCGG	1 cut(s)	256
HphI	GGTGA	3 cut(s)	370, 497, 836
Hpy166II	GTNNAC	3 cut(s)	86, 193, 581
Hpy188I	TCNGA	6 cut(s)	456, 676, 774, 841, 877, 922
Hpy188III	TCNNGA	8 cut(s)	48, 114, 201, 416, 422, 530, 847, 889
Hpy8I	GTNNAC	3 cut(s)	86, 193, 581
HpyAV	CCTTC	1 cut(s)	824
HpyCH4III	ACNGT	4 cut(s)	306, 452, 733, 855
HpyCH4V	TGCA	6 cut(s)	128, 281, 494, 593, 778, 905
HpyF10VI	GCNNNNNNNGC	3 cut(s)	610, 619, 713
HpyF3I	CTNAG	4 cut(s)	584, 614, 896, 927
Hsp92II	CATG	4 cut(s)	83, 357, 395, 905
Ksp22I	TGATCA	3 cut(s)	408, 538, 607
KspI	CCGCGG	1 cut(s)	437
Kzo9I	GATC	7 cut(s)	408, 418, 538, 607, 700, 758, 769
LmnI	GCTCC	1 cut(s)	665
Lsp1109I	GCAGC	6 cut(s)	112, 140, 164, 293, 417, 550
LweI	GCATC	4 cut(s)	330, 580, 591, 765
MaeI	CTAG	2 cut(s)	48, 698
MaeIII	GTNAC	1 cut(s)	358
MalI	GATC	7 cut(s)	410, 420, 540, 609, 702, 760, 771
MboI	GATC	7 cut(s)	408, 418, 538, 607, 700, 758, 769
MboII	GAAGA	3 cut(s)	66, 291, 533
MflI	RGATCY	1 cut(s)	700
MhlI	GDGCHC	1 cut(s)	374
MluCI	AATT	3 cut(s)	117, 136, 683
MlyI	GAGTC	1 cut(s)	907
Mph1103I	ATGCAT	1 cut(s)	907
MroXI	GAANNNNTTC	2 cut(s)	854, 914
MseI	TTAA	5 cut(s)	135, 309, 477, 551, 737
MspA1I	CMGCKG	3 cut(s)	246, 436, 716
MspI	CCGG	1 cut(s)	256
MspR9I	CCNGG	1 cut(s)	745
Mva1269I	GAATGC	1 cut(s)	283
MvaI	CCWGG	1 cut(s)	745
MvnI	CGCG	1 cut(s)	436
MwoI	GCNNNNNNNGC	3 cut(s)	610, 619, 713
NcoI	CCATGG	1 cut(s)	79
NdeII	GATC	7 cut(s)	408, 418, 538, 607, 700, 758, 769
NlaIII	CATG	4 cut(s)	83, 357, 395, 905
NmuCI	GTSAC	1 cut(s)	358
NsiI	ATGCAT	1 cut(s)	907
NspI	RCATGY	1 cut(s)	395
PciI	ACATGT	1 cut(s)	391
PctI	GAATGC	1 cut(s)	283
PdmI	GAANNNNTTC	2 cut(s)	854, 914
PfeI	GAWTC	3 cut(s)	230, 240, 439
PinAI	ACCGGT	1 cut(s)	255
PkrI	GCNGC	7 cut(s)	127, 130, 179, 283, 432, 435, 565
PleI	GAGTC	1 cut(s)	906
PpsI	GAGTC	1 cut(s)	906
PscI	ACATGT	1 cut(s)	391
Psp6I	CCWGG	1 cut(s)	743
PspGI	CCWGG	1 cut(s)	743
PspPI	GGNCC	4 cut(s)	83, 452, 741, 883
PstI	CTGCAG	1 cut(s)	130
PstNI	CAGNNNCTG	1 cut(s)	895
PsuI	RGATCY	1 cut(s)	700
PvuII	CAGCTG	2 cut(s)	246, 716
RsaI	GTAC	3 cut(s)	94, 158, 194
RsaNI	GTAC	3 cut(s)	93, 157, 193
Rsr2I	CGGWCCG	1 cut(s)	452
RsrII	CGGWCCG	1 cut(s)	452
SacII	CCGCGG	1 cut(s)	437
SaqAI	TTAA	5 cut(s)	135, 309, 477, 551, 737
SatI	GCNGC	7 cut(s)	126, 129, 178, 282, 431, 434, 564
Sau3AI	GATC	7 cut(s)	408, 418, 538, 607, 700, 758, 769
Sau96I	GGNCC	4 cut(s)	83, 452, 741, 883
SchI	GAGTC	1 cut(s)	907
ScrFI	CCNGG	1 cut(s)	745
SduI	GDGCHC	1 cut(s)	374
SfaNI	GCATC	4 cut(s)	330, 580, 591, 765
SfcI	CTRYAG	1 cut(s)	126
Sfr303I	CCGCGG	1 cut(s)	437
SgrBI	CCGCGG	1 cut(s)	437
SinI	GGWCC	3 cut(s)	83, 452, 883
SmlI	CTYRAG	2 cut(s)	112, 530
SmoI	CTYRAG	2 cut(s)	112, 530
Sse9I	AATT	3 cut(s)	117, 136, 683
SsiI	CCGC	2 cut(s)	434, 436
SspI	AATATT	1 cut(s)	915
SspMI	CTAG	2 cut(s)	48, 698
StyD4I	CCNGG	1 cut(s)	743
StyI	CCWWGG	1 cut(s)	79
TaaI	ACNGT	4 cut(s)	306, 452, 733, 855
TaqI	TCGA	1 cut(s)	690
TasI	AATT	3 cut(s)	117, 136, 683
TatI	WGTACW	2 cut(s)	156, 192
TauI	GCSGC	1 cut(s)	436
TfiI	GAWTC	3 cut(s)	230, 240, 439
Tru1I	TTAA	5 cut(s)	135, 309, 477, 551, 737
Tru9I	TTAA	5 cut(s)	135, 309, 477, 551, 737
TscAI	CASTG	2 cut(s)	153, 565
TseFI	GTSAC	1 cut(s)	358
TseI	GCWGC	6 cut(s)	125, 128, 177, 281, 430, 563
Tsp45I	GTSAC	1 cut(s)	358
TspDTI	ATGAA	3 cut(s)	290, 307, 696
TspRI	CASTG	2 cut(s)	153, 565
VpaK11BI	GGWCC	3 cut(s)	83, 452, 883
XapI	RAATTY	1 cut(s)	117
XbaI	TCTAGA	1 cut(s)	47
XceI	RCATGY	1 cut(s)	395
XcmI	CCANNNNNNNNNTGG	1 cut(s)	341
XmnI	GAANNNNTTC	2 cut(s)	854, 914
XspI	CTAG	2 cut(s)	48, 698
Zsp2I	ATGCAT	1 cut(s)	907

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