Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1C

Orthogroup ID

OG0007200

Physical Location & Seq

Genomic Coordinates Reverse (-)

69298750 .. 69301174

Gene Structure 2425 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1CG439200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 879 bp

ATGTCACTCAGAAAACATGTTTTGTTAATGTGCATAAGTGGCCGGAGGAGAGGGCACGCCAGGAATCTTAACAGAAATGATATCTATTCTGTCGCCAGAGACGGCGCCGGACAACTGATTTCGCTCCGCCACCCAAAATCCGGAAACACAATGTGCTGTGTTTTAGTTGATGGGATGCTCCAGGAACTTAATTGGTTCAGGCAGTCCTACAGTTCTTGGTTTCTTGGAGACTATGTTTCTGAGGATGGTGGGATATATACCGCCACTCGTGTTGATCCTGTTTTCATTTTGTTGCCCATTTTTGAGGAAGCTAGAATGAAGCTAGGGGACGATCCTGGGAAGTACAGGCCATTGGATGAGATAGTCTTCGTTGATGGCTATCCCGGATATCAGCAACTACTGTCCATTGCTGAGGACTCTATGCAAGTAGTTTGTGAAATCAAAGAAATTGATTCCTCCAAATATTTTAGGCTTGACGACTCCATGGTTCTGGCTTGGTTGTACCACAAGGCATGCCAGCTAAAACAGACGCTATCCACGTTGGACAGTAATTATGCTGCAAGGGAAGAAAAGCATAGATTGGCTGATGCGGTTTCAATATTAGGGGAATACCTGAAGGATGAGCCCTGGTTGAAGCTTTTGTGTGACCGTTTGAGGATAGATTTACCAGAGGCACCAAAAAAAGCACCAGATGCTGAAACTCTCCCAACTGCCAACGAAAGTAGCCCAGGGATTTGGAATGGTTCACAGGAAAAGAGCAAGAGTGACAATAAGGTTACTACCAGAGCTGCTGGAAGGCAAGCTAAAAAGATCAAACTGGAGACGGGATCACATAACATCAGAGACATGTTCACTAGGGCCTCATCAAGTAAGAAGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

ko03030 map03030

Pfam Domains

Protein Families

RNase_H2-Ydr279

Protein Analysis

292

Amino Acids

33.08

Weight (kDa)

8.42

Isoelectric Point (pI)

45.22

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Ydr279_N	PF17745	38 - 92	6.6e-06	Ydr279p protein triple barrel domain
RNase_H2-Ydr279	PF09468	95 - 178	8.1e-09	Ydr279p protein family (RNase H2 complex component) wHTH domain

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

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

Orthologous Genes (Group: OG0007200)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G20325 AT4G20325
fragaria_vesca	FvH4_2g36540 FvH4_2g36540 FvH4_2g36540 FvH4_2g36540 FvH4_2g36540 FvH4_2g36540
malus_domestica	MD08G1125300.v1.1 MD15G1105100.v1.1
prunus_persica	Prupe.1G456900_v2.0.a1
pyrus_communis	pycom08g10420 pycom08g10430 pycom15g09540
rosa_chinensis	RchiOBHm_Chr6g0305311
rosa_laevigata	RLG00000010901
rosa_multiflora	Rmu_ssc0000148.1_g000002
rosa_roxburghii	Rroxscaffold_7G00162910
rosa_rugosa	Rorug06G0339500
rosa_samantha	Rh1CG439200 Rh6AG451100 Rh6BG450200 Rh6CG465400 Rh6DG451900
rosa_wichuraiana	Rw6G039320

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	2 cut(s)	104, 673
AccIII	TCCGGA	1 cut(s)	140
AciI	CCGC	3 cut(s)	127, 261, 590
AclWI	GGATC	3 cut(s)	269, 326, 835
AcoI	YGGCCR	1 cut(s)	40
AcuI	CTGAAG	1 cut(s)	635
AcyI	GRCGYC	1 cut(s)	105
AdeI	CACNNNGTG	1 cut(s)	153
AfaI	GTAC	2 cut(s)	344, 503
AfiI	CCNNNNNNNGG	1 cut(s)	140
AflIII	ACRYGT	2 cut(s)	16, 846
AgsI	TTSAA	2 cut(s)	597, 634
AjnI	CCWGG	5 cut(s)	59, 180, 334, 626, 727
AluBI	AGCT	6 cut(s)	311, 322, 520, 637, 788, 803
AluI	AGCT	6 cut(s)	311, 322, 520, 637, 788, 803
Alw26I	GTCTC	4 cut(s)	93, 222, 815, 837
AlwI	GGATC	3 cut(s)	269, 326, 835
AlwNI	CAGNNNCTG	1 cut(s)	695
Aor13HI	TCCGGA	1 cut(s)	140
AoxI	GGCC	3 cut(s)	40, 347, 858
ApeKI	GCWGC	2 cut(s)	557, 788
AspLEI	GCGC	1 cut(s)	107
AspS9I	GGNCC	1 cut(s)	858
AsuC2I	CCSGG	1 cut(s)	384
BaeGI	GKGCMC	1 cut(s)	57
BanI	GGYRCC	2 cut(s)	104, 673
BanII	GRGCYC	1 cut(s)	627
BauI	CACGAG	1 cut(s)	267
BbsI	GAAGAC	1 cut(s)	358
BbvCI	CCTCAGC	1 cut(s)	411
BbvI	GCAGC	2 cut(s)	544, 775
BccI	CCATC	3 cut(s)	164, 239, 368
BceAI	ACGGC	1 cut(s)	118
BciT130I	CCWGG	5 cut(s)	61, 182, 336, 628, 729
BcnI	CCSGG	1 cut(s)	384
BcoDI	GTCTC	4 cut(s)	93, 222, 815, 837
BfaI	CTAG	3 cut(s)	312, 323, 855
BfmI	CTRYAG	1 cut(s)	208
BfoI	RGCGCY	1 cut(s)	108
BisI	GCNGC	2 cut(s)	558, 789
BlsI	GCNGC	2 cut(s)	559, 790
Bme1390I	CCNGG	6 cut(s)	61, 182, 336, 384, 628, 729
BmgT120I	GGNCC	1 cut(s)	858
BmiI	GGNNCC	2 cut(s)	106, 675
BmrFI	CCNGG	6 cut(s)	61, 182, 336, 384, 628, 729
BmsI	GCATC	3 cut(s)	165, 577, 682
BpiI	GAAGAC	1 cut(s)	358
BpmI	CTGGAG	2 cut(s)	164, 839
Bpu10I	CCTNAGC	1 cut(s)	411
BpuMI	CCSGG	1 cut(s)	384
BsaBI	GATNNNNATC	1 cut(s)	378
BsaHI	GRCGYC	1 cut(s)	105
BsaJI	CCNNGG	5 cut(s)	335, 483, 626, 727, 728
BsaWI	WCCGGW	1 cut(s)	140
BsaXI	ACNNNNNCTCC	2 cut(s)	219, 249
Bsc4I	CCNNNNNNNGG	1 cut(s)	140
Bse1I	ACTGG	1 cut(s)	822
Bse3DI	GCAATG	1 cut(s)	405
Bse8I	GATNNNNATC	1 cut(s)	378
BseAI	TCCGGA	1 cut(s)	140
BseBI	CCWGG	5 cut(s)	61, 182, 336, 628, 729
BseDI	CCNNGG	5 cut(s)	335, 483, 626, 727, 728
BseGI	GGATG	4 cut(s)	180, 250, 361, 625
BseJI	GATNNNNATC	1 cut(s)	378
BseLI	CCNNNNNNNGG	1 cut(s)	140
BseMI	GCAATG	1 cut(s)	405
BseMII	CTCAG	3 cut(s)	22, 231, 402
BseNI	ACTGG	1 cut(s)	822
BseRI	GAGGAG	1 cut(s)	61
BseSI	GKGCMC	1 cut(s)	57
BseXI	GCAGC	2 cut(s)	544, 775
BshFI	GGCC	3 cut(s)	42, 349, 860
BshNI	GGYRCC	2 cut(s)	104, 673
BsiSI	CCGG	4 cut(s)	43, 108, 141, 384
BslFI	GGGAC	1 cut(s)	341
BslI	CCNNNNNNNGG	1 cut(s)	140
BsmAI	GTCTC	4 cut(s)	93, 222, 815, 837
BsmBI	CGTCTC	2 cut(s)	93, 815
BsmFI	GGGAC	1 cut(s)	341
BsnI	GGCC	3 cut(s)	42, 349, 860
Bsp1286I	GDGCHC	2 cut(s)	57, 627
Bsp13I	TCCGGA	1 cut(s)	140
Bsp143I	GATC	4 cut(s)	274, 331, 810, 827
Bsp19I	CCATGG	1 cut(s)	483
BspACI	CCGC	3 cut(s)	127, 261, 590
BspANI	GGCC	3 cut(s)	42, 349, 860
BspCNI	CTCAG	3 cut(s)	21, 232, 403
BspEI	TCCGGA	1 cut(s)	140
BspLI	GGNNCC	2 cut(s)	106, 675
BspPI	GGATC	3 cut(s)	269, 326, 835
BspT107I	GGYRCC	2 cut(s)	104, 673
BsrDI	GCAATG	1 cut(s)	405
BsrI	ACTGG	1 cut(s)	822
BssECI	CCNNGG	5 cut(s)	335, 483, 626, 727, 728
BssMI	GATC	4 cut(s)	274, 331, 810, 827
BssNI	GRCGYC	1 cut(s)	105
BssSI	CACGAG	1 cut(s)	267
BssT1I	CCWWGG	1 cut(s)	483
Bst2BI	CACGAG	1 cut(s)	267
Bst2UI	CCWGG	5 cut(s)	61, 182, 336, 628, 729
Bst4CI	ACNGT	4 cut(s)	212, 402, 548, 650
BstACI	GRCGYC	1 cut(s)	105
BstAPI	GCANNNNNTGC	1 cut(s)	692
BstC8I	GCNNGC	4 cut(s)	57, 514, 518, 801
BstDEI	CTNAG	3 cut(s)	8, 240, 411
BstDSI	CCRYGG	1 cut(s)	483
BstF5I	GGATG	4 cut(s)	180, 250, 361, 625
BstH2I	RGCGCY	1 cut(s)	108
BstHHI	GCGC	1 cut(s)	107
BstKTI	GATC	4 cut(s)	277, 334, 813, 830
BstMAI	GTCTC	4 cut(s)	93, 222, 815, 837
BstMBI	GATC	4 cut(s)	274, 331, 810, 827
BstMWI	GCNNNNNNNGC	2 cut(s)	39, 692
BstNI	CCWGG	5 cut(s)	61, 182, 336, 628, 729
BstNSI	RCATGY	3 cut(s)	20, 516, 850
BstSCI	CCNGG	6 cut(s)	59, 180, 334, 382, 626, 727
BstSFI	CTRYAG	1 cut(s)	208
BstSLI	GKGCMC	1 cut(s)	57
BstV1I	GCAGC	2 cut(s)	544, 775
BstV2I	GAAGAC	1 cut(s)	358
BstXI	CCANNNNNNTGG	2 cut(s)	490, 735
BsuRI	GGCC	3 cut(s)	42, 349, 860
BtgI	CCRYGG	1 cut(s)	483
BtsCI	GGATG	4 cut(s)	180, 250, 361, 625
Cac8I	GCNNGC	4 cut(s)	57, 514, 518, 801
CaiI	CAGNNNCTG	1 cut(s)	695
CfoI	GCGC	1 cut(s)	107
Cfr13I	GGNCC	1 cut(s)	858
CseI	GACGC	1 cut(s)	538
Csp6I	GTAC	2 cut(s)	343, 502
CspCI	CAANNNNNGTGG	2 cut(s)	253, 288
CviAII	CATG	4 cut(s)	17, 484, 513, 847
CviQI	GTAC	2 cut(s)	343, 502
DdeI	CTNAG	3 cut(s)	8, 240, 411
DinI	GGCGCC	1 cut(s)	106
DpnI	GATC	4 cut(s)	276, 333, 812, 829
DpnII	GATC	4 cut(s)	274, 331, 810, 827
DraIII	CACNNNGTG	1 cut(s)	153
EaeI	YGGCCR	1 cut(s)	40
EciI	GGCGGA	1 cut(s)	116
Eco130I	CCWWGG	1 cut(s)	483
Eco24I	GRGCYC	1 cut(s)	627
Eco32I	GATATC	2 cut(s)	82, 389
Eco57I	CTGAAG	1 cut(s)	635
EcoO109I	RGGNCCY	1 cut(s)	858
EcoRII	CCWGG	5 cut(s)	59, 180, 334, 626, 727
EcoRV	GATATC	2 cut(s)	82, 389
EcoT14I	CCWWGG	1 cut(s)	483
EcoT38I	GRGCYC	1 cut(s)	627
EgeI	GGCGCC	1 cut(s)	106
EheI	GGCGCC	1 cut(s)	106
ErhI	CCWWGG	1 cut(s)	483
Esp3I	CGTCTC	2 cut(s)	93, 815
FaeI	CATG	4 cut(s)	20, 487, 516, 850
FaqI	GGGAC	1 cut(s)	341
FatI	CATG	4 cut(s)	16, 483, 512, 846
Fnu4HI	GCNGC	2 cut(s)	558, 789
FokI	GGATG	4 cut(s)	187, 257, 368, 632
FriOI	GRGCYC	1 cut(s)	627
Fsp4HI	GCNGC	2 cut(s)	558, 789
FspBI	CTAG	3 cut(s)	312, 323, 855
GlaI	GCGC	1 cut(s)	106
GluI	GCNGC	2 cut(s)	558, 789
GsuI	CTGGAG	2 cut(s)	164, 839
HaeII	RGCGCY	1 cut(s)	108
HaeIII	GGCC	3 cut(s)	42, 349, 860
HapII	CCGG	4 cut(s)	43, 108, 141, 384
HgaI	GACGC	1 cut(s)	538
HhaI	GCGC	1 cut(s)	107
Hin1I	GRCGYC	1 cut(s)	105
Hin1II	CATG	4 cut(s)	20, 487, 516, 850
Hin6I	GCGC	1 cut(s)	105
HinP1I	GCGC	1 cut(s)	105
HindIII	AAGCTT	1 cut(s)	635
HinfI	GANTC	4 cut(s)	64, 416, 452, 479
HpaII	CCGG	4 cut(s)	43, 108, 141, 384
Hpy166II	GTNNAC	2 cut(s)	746, 852
Hpy188I	TCNGA	3 cut(s)	11, 241, 842
Hpy188III	TCNNGA	1 cut(s)	141
Hpy8I	GTNNAC	2 cut(s)	746, 852
HpyAV	CCTTC	2 cut(s)	610, 789
HpyCH4III	ACNGT	4 cut(s)	212, 402, 548, 650
HpyCH4IV	ACGT	1 cut(s)	539
HpyCH4V	TGCA	3 cut(s)	33, 424, 560
HpyF10VI	GCNNNNNNNGC	2 cut(s)	39, 692
HpyF3I	CTNAG	3 cut(s)	8, 240, 411
HpySE526I	ACGT	1 cut(s)	539
Hsp92I	GRCGYC	1 cut(s)	105
Hsp92II	CATG	4 cut(s)	20, 487, 516, 850
HspAI	GCGC	1 cut(s)	105
KasI	GGCGCC	1 cut(s)	104
Kpn2I	TCCGGA	1 cut(s)	140
Kzo9I	GATC	4 cut(s)	274, 331, 810, 827
LmnI	GCTCC	2 cut(s)	129, 183
Lsp1109I	GCAGC	2 cut(s)	544, 775
LweI	GCATC	3 cut(s)	165, 577, 682
MaeI	CTAG	3 cut(s)	312, 323, 855
MaeII	ACGT	1 cut(s)	539
MaeIII	GTNAC	4 cut(s)	3, 644, 764, 775
MalI	GATC	4 cut(s)	276, 333, 812, 829
MboI	GATC	4 cut(s)	274, 331, 810, 827
MboII	GAAGA	2 cut(s)	358, 578
MhlI	GDGCHC	2 cut(s)	57, 627
MluCI	AATT	3 cut(s)	190, 447, 550
Mly113I	GGCGCC	1 cut(s)	105
MlyI	GAGTC	2 cut(s)	410, 473
MmeI	TCCRAC	1 cut(s)	522
MnlI	CCTC	9 cut(s)	39, 44, 235, 298, 406, 466, 648, 664, 871
MroI	TCCGGA	1 cut(s)	140
MseI	TTAA	3 cut(s)	26, 69, 189
MspI	CCGG	4 cut(s)	43, 108, 141, 384
MspR9I	CCNGG	6 cut(s)	61, 182, 336, 384, 628, 729
MvaI	CCWGG	5 cut(s)	61, 182, 336, 628, 729
MwoI	GCNNNNNNNGC	2 cut(s)	39, 692
NarI	GGCGCC	1 cut(s)	105
NciI	CCSGG	1 cut(s)	384
NcoI	CCATGG	1 cut(s)	483
NdeII	GATC	4 cut(s)	274, 331, 810, 827
NlaIII	CATG	4 cut(s)	20, 487, 516, 850
NlaIV	GGNNCC	2 cut(s)	106, 675
NmuCI	GTSAC	3 cut(s)	3, 644, 764
NspI	RCATGY	3 cut(s)	20, 516, 850
PaeI	GCATGC	1 cut(s)	516
PasI	CCCWGGG	1 cut(s)	728
PciI	ACATGT	2 cut(s)	16, 846
PcsI	WCGNNNNNNNCGW	1 cut(s)	536
PfeI	GAWTC	2 cut(s)	64, 452
PfoI	TCCNGGA	2 cut(s)	180, 382
PkrI	GCNGC	2 cut(s)	559, 790
PleI	GAGTC	2 cut(s)	410, 473
PluTI	GGCGCC	1 cut(s)	108
PpsI	GAGTC	2 cut(s)	410, 473
PscI	ACATGT	2 cut(s)	16, 846
Psp6I	CCWGG	5 cut(s)	59, 180, 334, 626, 727
PspGI	CCWGG	5 cut(s)	59, 180, 334, 626, 727
PspN4I	GGNNCC	2 cut(s)	106, 675
PspPI	GGNCC	1 cut(s)	858
PstNI	CAGNNNCTG	1 cut(s)	695
RsaI	GTAC	2 cut(s)	344, 503
RsaNI	GTAC	2 cut(s)	343, 502
SaqAI	TTAA	3 cut(s)	26, 69, 189
SatI	GCNGC	2 cut(s)	558, 789
Sau3AI	GATC	4 cut(s)	274, 331, 810, 827
Sau96I	GGNCC	1 cut(s)	858
SchI	GAGTC	2 cut(s)	410, 473
ScrFI	CCNGG	6 cut(s)	61, 182, 336, 384, 628, 729
SduI	GDGCHC	2 cut(s)	57, 627
SetI	ASST	9 cut(s)	313, 324, 522, 542, 615, 639, 777, 790, 805
SfaNI	GCATC	3 cut(s)	165, 577, 682
SfcI	CTRYAG	1 cut(s)	208
SfoI	GGCGCC	1 cut(s)	106
SphI	GCATGC	1 cut(s)	516
Sse9I	AATT	3 cut(s)	190, 447, 550
SsiI	CCGC	3 cut(s)	127, 261, 590
SspDI	GGCGCC	1 cut(s)	104
SspI	AATATT	2 cut(s)	464, 600
SspMI	CTAG	3 cut(s)	312, 323, 855
StyD4I	CCNGG	6 cut(s)	59, 180, 334, 382, 626, 727
StyI	CCWWGG	1 cut(s)	483
TaaI	ACNGT	4 cut(s)	212, 402, 548, 650
TaiI	ACGT	1 cut(s)	542
TasI	AATT	3 cut(s)	190, 447, 550
TatI	WGTACW	1 cut(s)	342
TfiI	GAWTC	2 cut(s)	64, 452
Tru1I	TTAA	3 cut(s)	26, 69, 189
Tru9I	TTAA	3 cut(s)	26, 69, 189
TseFI	GTSAC	3 cut(s)	3, 644, 764
TseI	GCWGC	2 cut(s)	557, 788
Tsp45I	GTSAC	3 cut(s)	3, 644, 764
TspDTI	ATGAA	2 cut(s)	274, 332
XceI	RCATGY	3 cut(s)	20, 516, 850
XspI	CTAG	3 cut(s)	312, 323, 855

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