Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr7A

Orthogroup ID

OG0004494

Physical Location & Seq

Genomic Coordinates Forward (+)

494446 .. 496846

Gene Structure 2401 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh7AG007300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 942 bp

ATGGTTGTTGCAGAAGGCGAGATGCTTTTAGAAGGTGTTTTTCAGGTTATTACTTGTGGATTTCCTCCATTAGAGGACAGAGACATGTCAGTCAAATTGCTTGCAGGACATGACTTCTTTGGTGGTGGTATACTAACAAAAGAAGAGACACTCAGACTTTCAGAACTGGAAAAGAGAGCAGTTAATGACATGTTTGTCATACTCTCTGACATTTGGCTGGACAGTGAAGAGGCTATGGGAAAGCTAGAGAGGATCCTTGATGGTTACGAGAACCAGGAAGTGGTACCTTCCTTATTTGTGTTTATGGGAAATTTTAGTTCTCACCCTTGCAACCTTTCCTTCCGCCCCTCTAGTCTCAGGTTGCAGTTTGGCAAGCTAGGACAAATGATTGCAGCCCATCAACAGCTAACAAAGCGTAGCCGTTTTCTGTTTATCCCAGGTCCTGATGACCCAGGTCCTTCGAAAGTTCTACCCAGATGTGCTTTACCAAAATATATAACAGAAGAGCTTCAAAAACACATACCAAATGCCATGTTTTCAAGTAATCCTTGCAGAATAAAGTTCTATACCCAAGAGCTTGTATTTTTTCGTCAGGATTTACTGTACAGAATGCGCCATTCGTGCCTGATCCCCCCTTCTACAGAAGAAACTGATGATCCCTTTGAGCATCTTGTTGCTACAATAACCCATCAAAGCCATCTATGCCCACTCCCTCTTATTGTACAACCCATTATCTGGAATTATGATCACTCACTCTATCTCTATCCAACTCCACATACGATAGTTTTGGGTGACAGAAGTGAGCAGAAGGCTTTCAAATACACAGGAATCACTTGTTTTAATCCTGGTTCCTTCTCAAGAGAGGGCACATTTGTGGCATATTATCCTTGTACTCAGGAAGTTGAATTGTCAGCCTTAGAGGATTCTGATTCGATACAGTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0000228 GO:0000731 GO:0003006 GO:0003674 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005694 GO:0006139 GO:0006259 GO:0006260 GO:0006261 GO:0006281 GO:0006301 GO:0006725 GO:0006807 GO:0006950 GO:0006974 GO:0007275 GO:0008150 GO:0008152 GO:0008622 GO:0009058 GO:0009059 GO:0009790 GO:0009791 GO:0009793 GO:0009987 GO:0010154 GO:0018130 GO:0019438 GO:0019899 GO:0019985 GO:0022414 GO:0031974 GO:0031981 GO:0032501 GO:0032502 GO:0032991 GO:0033554 GO:0034641 GO:0034645 GO:0034654 GO:0042276 GO:0042575 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044271 GO:0044422 GO:0044424 GO:0044427 GO:0044428 GO:0044446 GO:0044454 GO:0044464 GO:0046483 GO:0048316 GO:0048518 GO:0048522 GO:0048608 GO:0048731 GO:0048856 GO:0050789 GO:0050794 GO:0050896 GO:0051302 GO:0051716 GO:0051781 GO:0061458 GO:0061695 GO:0065007 GO:0070013 GO:0070182 GO:0071704 GO:0071897 GO:0090304 GO:1901360 GO:1901362 GO:1901576 GO:1902494 GO:1990234

KEGG Pathways

Metabolic & Signaling

ko00230 ko00240 ko01100 ko03030 ko03410 ko03420 ko05166 map00230 map00240 map01100 map03030 map03410 map03420 map05166

Pfam Domains

Protein Families

DNA_pol_E_B Dpoe2NT

Protein Analysis

313

Amino Acids

35.63

Weight (kDa)

5.22

Isoelectric Point (pI)

48.07

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
DNA_pol_E_B	PF04042	65 - 269	2.2e-49	DNA polymerase alpha/epsilon subunit B

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: OG0004494)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G22110 AT5G22110
fragaria_vesca	FvH4_5g17980
malus_domestica	MD06G1235400.v1.1 MD14G1242400.v1.1
prunus_persica	Prupe.5G240100_v2.0.a1 Prupe.8G055400_v2.0.a1 Prupe.8G055400_v2.0.a1 Prupe.8G055400_v2.0.a1 Prupe.8G055400_v2.0.a1 Prupe.8G055400_v2.0.a1 Prupe.8G055400_v2.0.a1 Prupe.8G055400_v2.0.a1
pyrus_communis	pycom06g21030 pycom14g12970 pycom14g20380
rosa_chinensis	RchiOBHm_Chr7g0177621
rosa_laevigata	RLG00000005519 RLG00000005520
rosa_multiflora	Rmu_ssc0000330.1_g000015
rosa_roxburghii	Rroxscaffold_3G00275720
rosa_rugosa	Rorug06G0407900 Rorug06G0408000
rosa_samantha	Rh7AG007200 Rh7AG007300 Rh7BG007200 Rh7BG007300 Rh7CG007700 Rh7CG007800 Rh7DG007400 Rh7DG007500
rosa_wichuraiana	Rw7G000620

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	2 cut(s)	89, 194
Acc65I	GGTACC	1 cut(s)	283
AccB1I	GGYRCC	1 cut(s)	283
AccB7I	CCANNNNNTGG	2 cut(s)	280, 735
AccI	GTMKAC	1 cut(s)	130
AciI	CCGC	1 cut(s)	343
AclWI	GGATC	4 cut(s)	247, 260, 622, 650
AcsI	RAATTY	1 cut(s)	310
AfaI	GTAC	4 cut(s)	285, 605, 723, 892
AfiI	CCNNNNNNNGG	2 cut(s)	280, 735
AflIII	ACRYGT	2 cut(s)	84, 189
AgsI	TTSAA	4 cut(s)	512, 540, 817, 905
AjnI	CCWGG	4 cut(s)	273, 436, 451, 844
AleI	CACNNNNGTG	1 cut(s)	872
AluBI	AGCT	5 cut(s)	244, 376, 406, 508, 577
AluI	AGCT	5 cut(s)	244, 376, 406, 508, 577
Alw26I	GTCTC	3 cut(s)	75, 140, 359
AlwI	GGATC	4 cut(s)	247, 260, 622, 650
AlwNI	CAGNNNCTG	1 cut(s)	443
ApeKI	GCWGC	1 cut(s)	392
ApoI	RAATTY	1 cut(s)	310
Asp700I	GAANNNNTTC	2 cut(s)	507, 812
Asp718I	GGTACC	1 cut(s)	283
AspLEI	GCGC	1 cut(s)	615
AspS9I	GGNCC	2 cut(s)	440, 455
AsuHPI	GGTGA	2 cut(s)	314, 803
AsuII	TTCGAA	1 cut(s)	461
AvaII	GGWCC	2 cut(s)	440, 455
BaeGI	GKGCMC	1 cut(s)	869
BamHI	GGATCC	1 cut(s)	252
BanI	GGYRCC	1 cut(s)	283
BbvI	GCAGC	1 cut(s)	404
BccI	CCATC	4 cut(s)	254, 405, 696, 705
BceAI	ACGGC	1 cut(s)	405
BciT130I	CCWGG	4 cut(s)	275, 438, 453, 846
BclI	TGATCA	1 cut(s)	745
BcoDI	GTCTC	3 cut(s)	75, 140, 359
BfaI	CTAG	3 cut(s)	245, 351, 377
BfmI	CTRYAG	1 cut(s)	639
BisI	GCNGC	1 cut(s)	393
BlsI	GCNGC	1 cut(s)	394
Bme1390I	CCNGG	4 cut(s)	275, 438, 453, 846
Bme18I	GGWCC	2 cut(s)	440, 455
BmgT120I	GGNCC	2 cut(s)	440, 455
BmiI	GGNNCC	3 cut(s)	254, 285, 850
BmrFI	CCNGG	4 cut(s)	275, 438, 453, 846
BmsI	GCATC	2 cut(s)	12, 676
BoxI	GACNNNNGTC	1 cut(s)	453
Bpu14I	TTCGAA	1 cut(s)	461
BpuEI	CTTGAG	1 cut(s)	841
BsaJI	CCNNGG	2 cut(s)	436, 451
Bsc4I	CCNNNNNNNGG	2 cut(s)	280, 735
Bse1I	ACTGG	1 cut(s)	171
BseBI	CCWGG	4 cut(s)	275, 438, 453, 846
BseDI	CCNNGG	2 cut(s)	436, 451
BseLI	CCNNNNNNNGG	2 cut(s)	280, 735
BseMII	CTCAG	3 cut(s)	166, 370, 908
BseNI	ACTGG	1 cut(s)	171
BseSI	GKGCMC	1 cut(s)	869
BseXI	GCAGC	1 cut(s)	404
BshNI	GGYRCC	1 cut(s)	283
BslI	CCNNNNNNNGG	2 cut(s)	280, 735
BsmAI	GTCTC	3 cut(s)	75, 140, 359
BsmI	GAATGC	1 cut(s)	615
Bsp119I	TTCGAA	1 cut(s)	461
Bsp1286I	GDGCHC	1 cut(s)	869
Bsp1407I	TGTACA	2 cut(s)	603, 721
Bsp143I	GATC	4 cut(s)	252, 627, 655, 745
BspACI	CCGC	1 cut(s)	343
BspCNI	CTCAG	3 cut(s)	165, 369, 907
BspLI	GGNNCC	3 cut(s)	254, 285, 850
BspPI	GGATC	4 cut(s)	247, 260, 622, 650
BspQI	GCTCTTC	1 cut(s)	498
BspT104I	TTCGAA	1 cut(s)	461
BspT107I	GGYRCC	1 cut(s)	283
BsrGI	TGTACA	2 cut(s)	603, 721
BsrI	ACTGG	1 cut(s)	171
BssECI	CCNNGG	2 cut(s)	436, 451
BssMI	GATC	4 cut(s)	252, 627, 655, 745
BssNAI	GTATAC	1 cut(s)	131
Bst1107I	GTATAC	1 cut(s)	131
Bst2UI	CCWGG	4 cut(s)	275, 438, 453, 846
Bst4CI	ACNGT	3 cut(s)	224, 603, 939
Bst6I	CTCTTC	3 cut(s)	138, 222, 498
BstAUI	TGTACA	2 cut(s)	603, 721
BstBI	TTCGAA	1 cut(s)	461
BstC8I	GCNNGC	2 cut(s)	102, 374
BstDEI	CTNAG	4 cut(s)	152, 356, 894, 916
BstHHI	GCGC	1 cut(s)	615
BstKTI	GATC	4 cut(s)	255, 630, 658, 748
BstMAI	GTCTC	3 cut(s)	75, 140, 359
BstMBI	GATC	4 cut(s)	252, 627, 655, 745
BstMWI	GCNNNNNNNGC	3 cut(s)	412, 621, 702
BstNI	CCWGG	4 cut(s)	275, 438, 453, 846
BstNSI	RCATGY	2 cut(s)	88, 193
BstPAI	GACNNNNGTC	1 cut(s)	453
BstSCI	CCNGG	4 cut(s)	273, 436, 451, 844
BstSFI	CTRYAG	1 cut(s)	639
BstSLI	GKGCMC	1 cut(s)	869
BstV1I	GCAGC	1 cut(s)	404
BstX2I	RGATCY	1 cut(s)	252
BstYI	RGATCY	1 cut(s)	252
BstZ17I	GTATAC	1 cut(s)	131
BtsIMutI	CAGTG	1 cut(s)	229
Cac8I	GCNNGC	2 cut(s)	102, 374
CaiI	CAGNNNCTG	1 cut(s)	443
CfoI	GCGC	1 cut(s)	615
Cfr13I	GGNCC	2 cut(s)	440, 455
Csp6I	GTAC	4 cut(s)	284, 604, 722, 891
CviAII	CATG	4 cut(s)	85, 110, 190, 532
CviQI	GTAC	4 cut(s)	284, 604, 722, 891
DdeI	CTNAG	4 cut(s)	152, 356, 894, 916
DpnI	GATC	4 cut(s)	254, 629, 657, 747
DpnII	GATC	4 cut(s)	252, 627, 655, 745
DrdI	GACNNNNNNGTC	2 cut(s)	89, 194
DseDI	GACNNNNNNGTC	2 cut(s)	89, 194
Eam1104I	CTCTTC	3 cut(s)	138, 222, 498
EarI	CTCTTC	3 cut(s)	138, 222, 498
EciI	GGCGGA	1 cut(s)	332
Eco47I	GGWCC	2 cut(s)	440, 455
EcoO109I	RGGNCCY	2 cut(s)	440, 455
EcoRII	CCWGG	4 cut(s)	273, 436, 451, 844
FaeI	CATG	4 cut(s)	88, 113, 193, 535
FalI	AAGNNNNNCTT	2 cut(s)	532, 564
FatI	CATG	4 cut(s)	84, 109, 189, 531
FbaI	TGATCA	1 cut(s)	745
FblI	GTMKAC	1 cut(s)	130
Fnu4HI	GCNGC	1 cut(s)	393
Fsp4HI	GCNGC	1 cut(s)	393
FspBI	CTAG	3 cut(s)	245, 351, 377
GlaI	GCGC	1 cut(s)	614
GluI	GCNGC	1 cut(s)	393
HhaI	GCGC	1 cut(s)	615
Hin1II	CATG	4 cut(s)	88, 113, 193, 535
Hin6I	GCGC	1 cut(s)	613
HinP1I	GCGC	1 cut(s)	613
HinfI	GANTC	3 cut(s)	828, 923, 929
HphI	GGTGA	2 cut(s)	314, 803
Hpy166II	GTNNAC	1 cut(s)	131
Hpy188I	TCNGA	4 cut(s)	155, 163, 208, 928
Hpy188III	TCNNGA	5 cut(s)	443, 593, 736, 858, 896
Hpy8I	GTNNAC	1 cut(s)	131
HpyAV	CCTTC	8 cut(s)	8, 26, 297, 349, 468, 645, 802, 862
HpyCH4III	ACNGT	3 cut(s)	224, 603, 939
HpyCH4V	TGCA	6 cut(s)	11, 104, 330, 364, 392, 552
HpyF10VI	GCNNNNNNNGC	3 cut(s)	412, 621, 702
HpyF3I	CTNAG	4 cut(s)	152, 356, 894, 916
Hsp92II	CATG	4 cut(s)	88, 113, 193, 535
HspAI	GCGC	1 cut(s)	613
KpnI	GGTACC	1 cut(s)	287
Ksp22I	TGATCA	1 cut(s)	745
Kzo9I	GATC	4 cut(s)	252, 627, 655, 745
LguI	GCTCTTC	1 cut(s)	498
Lsp1109I	GCAGC	1 cut(s)	404
LweI	GCATC	2 cut(s)	12, 676
MaeI	CTAG	3 cut(s)	245, 351, 377
MaeIII	GTNAC	2 cut(s)	263, 791
MalI	GATC	4 cut(s)	254, 629, 657, 747
MboI	GATC	4 cut(s)	252, 627, 655, 745
MboII	GAAGA	4 cut(s)	155, 239, 515, 656
MflI	RGATCY	1 cut(s)	252
MhlI	GDGCHC	1 cut(s)	869
MluCI	AATT	4 cut(s)	95, 310, 739, 905
MmeI	TCCRAC	1 cut(s)	791
MnlI	CCTC	8 cut(s)	67, 75, 223, 243, 358, 723, 856, 913
MroXI	GAANNNNTTC	2 cut(s)	507, 812
MseI	TTAA	2 cut(s)	183, 840
MslI	CAYNNNNRTG	1 cut(s)	872
MspR9I	CCNGG	4 cut(s)	275, 438, 453, 846
Mva1269I	GAATGC	1 cut(s)	615
MvaI	CCWGG	4 cut(s)	275, 438, 453, 846
MwoI	GCNNNNNNNGC	3 cut(s)	412, 621, 702
NdeII	GATC	4 cut(s)	252, 627, 655, 745
NlaIII	CATG	4 cut(s)	88, 113, 193, 535
NlaIV	GGNNCC	3 cut(s)	254, 285, 850
NmuCI	GTSAC	1 cut(s)	791
NspI	RCATGY	2 cut(s)	88, 193
NspV	TTCGAA	1 cut(s)	461
OliI	CACNNNNGTG	1 cut(s)	872
PciI	ACATGT	2 cut(s)	84, 189
PciSI	GCTCTTC	1 cut(s)	498
PctI	GAATGC	1 cut(s)	615
PdmI	GAANNNNTTC	2 cut(s)	507, 812
PfeI	GAWTC	3 cut(s)	828, 923, 929
PflMI	CCANNNNNTGG	2 cut(s)	280, 735
PkrI	GCNGC	1 cut(s)	394
PpuMI	RGGWCCY	2 cut(s)	440, 455
PscI	ACATGT	2 cut(s)	84, 189
PshAI	GACNNNNGTC	1 cut(s)	453
Psp5II	RGGWCCY	2 cut(s)	440, 455
Psp6I	CCWGG	4 cut(s)	273, 436, 451, 844
PspGI	CCWGG	4 cut(s)	273, 436, 451, 844
PspN4I	GGNNCC	3 cut(s)	254, 285, 850
PspPI	GGNCC	2 cut(s)	440, 455
PspPPI	RGGWCCY	2 cut(s)	440, 455
PstNI	CAGNNNCTG	1 cut(s)	443
PsuI	RGATCY	1 cut(s)	252
RsaI	GTAC	4 cut(s)	285, 605, 723, 892
RsaNI	GTAC	4 cut(s)	284, 604, 722, 891
RseI	CAYNNNNRTG	1 cut(s)	872
SapI	GCTCTTC	1 cut(s)	498
SaqAI	TTAA	2 cut(s)	183, 840
SatI	GCNGC	1 cut(s)	393
Sau3AI	GATC	4 cut(s)	252, 627, 655, 745
Sau96I	GGNCC	2 cut(s)	440, 455
ScrFI	CCNGG	4 cut(s)	275, 438, 453, 846
SduI	GDGCHC	1 cut(s)	869
SfaNI	GCATC	2 cut(s)	12, 676
SfcI	CTRYAG	1 cut(s)	639
SfuI	TTCGAA	1 cut(s)	461
SinI	GGWCC	2 cut(s)	440, 455
SmiMI	CAYNNNNRTG	1 cut(s)	872
SmlI	CTYRAG	1 cut(s)	856
SmoI	CTYRAG	1 cut(s)	856
Sse9I	AATT	4 cut(s)	95, 310, 739, 905
SsiI	CCGC	1 cut(s)	343
SspMI	CTAG	3 cut(s)	245, 351, 377
StyD4I	CCNGG	4 cut(s)	273, 436, 451, 844
TaaI	ACNGT	3 cut(s)	224, 603, 939
TaqI	TCGA	2 cut(s)	461, 932
TasI	AATT	4 cut(s)	95, 310, 739, 905
TatI	WGTACW	3 cut(s)	603, 721, 890
TfiI	GAWTC	3 cut(s)	828, 923, 929
Tru1I	TTAA	2 cut(s)	183, 840
Tru9I	TTAA	2 cut(s)	183, 840
TscAI	CASTG	1 cut(s)	229
TseFI	GTSAC	1 cut(s)	791
TseI	GCWGC	1 cut(s)	392
Tsp45I	GTSAC	1 cut(s)	791
TspRI	CASTG	1 cut(s)	229
Van91I	CCANNNNNTGG	2 cut(s)	280, 735
VpaK11BI	GGWCC	2 cut(s)	440, 455
XapI	RAATTY	1 cut(s)	310
XceI	RCATGY	2 cut(s)	88, 193
XmiI	GTMKAC	1 cut(s)	130
XmnI	GAANNNNTTC	2 cut(s)	507, 812
XspI	CTAG	3 cut(s)	245, 351, 377

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