Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2C

Orthogroup ID

OG0002197

Physical Location & Seq

Genomic Coordinates Reverse (-)

45341891 .. 45345079

Gene Structure 3189 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2CG339700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 696 bp

ATGGACGGTCAGTCTAAAGAAGAATACATTGGATCATTGAGGAGGAAGAGTAGTGGATTTTCTCGTGGCGTTTCAAAATATAGAGGTGTAGCAAGACACCACCATAATGGAAGATGGGAGGCTCGAATTGGAAGAGTATTTGGAAACAAATATCTCTACCTTGGAACCTATGCGACGCAAGAAGAAGCAGCTACAGCTTACGACATGGCAGCAATAGAGTATCGTGGACTTAATGCCGTAACGAACTTCGATCTTAGCCGTTACATCAAGTCACTGTGCCCCAATAATGAGAACGTTCCCAACAACACGCAACCAAACCCTAATGCTGACCTCAGTTCGATTCAAAACCCTGATTCTAAGGTAGGGTTAGGGTTTATGCCCCACAACCCGAGTCCGAGCACTAGCGAGTCAATGGTAGCAGTGCCACGGCCGGGCAATGGTTCGTCGGCATCATCTGCACTAGGGCTTTTATTGCAGTCCCCTAAGTTCAAGGAAATGCTCGAGAGGACGTCAGTGGTAGACTGCTCGTCAACGACGACTTTGGAGCCAAACATGCCGCGCCGGAGTTTCCCCGATGACATTCAAACGTACTTTGATTGTCAAGATTTGAATAGCTATGCAGAAGGAGACGACATTATTTTCGGGGAGTTAAACTCATTTGCTTCACCTGTTTTTCATTGTGAACTTGATGCCTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000981 GO:0001101 GO:0003674 GO:0003700 GO:0006355 GO:0006357 GO:0006950 GO:0006970 GO:0008150 GO:0009414 GO:0009415 GO:0009628 GO:0009651 GO:0009719 GO:0009725 GO:0009737 GO:0009889 GO:0009891 GO:0009893 GO:0010029 GO:0010033 GO:0010035 GO:0010187 GO:0010468 GO:0010556 GO:0010557 GO:0010565 GO:0010604 GO:0019216 GO:0019217 GO:0019219 GO:0019222 GO:0031323 GO:0031325 GO:0031326 GO:0031328 GO:0033993 GO:0040008 GO:0042221 GO:0042304 GO:0045723 GO:0045834 GO:0045923 GO:0046889 GO:0046890 GO:0048518 GO:0048519 GO:0048522 GO:0048580 GO:0048581 GO:0050789 GO:0050793 GO:0050794 GO:0050896 GO:0051093 GO:0051171 GO:0051239 GO:0051241 GO:0051252 GO:0060255 GO:0062012 GO:0062013 GO:0065007 GO:0080090 GO:0097305 GO:0140110 GO:1900140 GO:1901700 GO:1901957 GO:1901959 GO:1903506 GO:2000026 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

AP2

Protein Analysis

231

Amino Acids

25.49

Weight (kDa)

5.56

Isoelectric Point (pI)

53.42

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
AP2	PF00847	25 - 76	1e-11	AP2 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)

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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: OG0002197)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G16060 AT1G16060 AT1G16060 AT1G16060 AT1G16060 AT1G16060 AT1G16060 AT1G79700 AT1G79700 AT1G79700 AT1G79700
fragaria_vesca	FvH4_4g08800 FvH4_6g28200 FvH4_6g28200 FvH4_6g28200
malus_domestica	MD09G1228500.v1.1 MD16G1258700.v1.1 MD17G1226700.v1.1
prunus_persica	Prupe.1G101600_v2.0.a1 Prupe.3G104100_v2.0.a1
pyrus_communis	pycom09g14740 pycom17g23010
rosa_chinensis	RchiOBHm_Chr2g0132251 RchiOBHm_Chr4g0405371
rosa_laevigata	RLG00000008847 RLG00000019240
rosa_multiflora	Rmu_sc0006313.1_g000002 Rmu_sc0011487.1_g000002
rosa_roxburghii	Rroxscaffold_2G00112250 Rroxscaffold_5G00349830
rosa_rugosa	Rorug02G0303000 Rorug02G0303000 Rorug04G0057800
rosa_samantha	Rh2AG356200 Rh2BG362600 Rh2CG339700 Rh2DG379500 Rh4AG131300 Rh4BG125900 Rh4CG138400 Rh4DG125400
rosa_wichuraiana	Rw2G028940 Rw4G010640

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AatII	GACGTC	1 cut(s)	512
AccI	GTMKAC	1 cut(s)	519
AccII	CGCG	1 cut(s)	559
AciI	CCGC	1 cut(s)	557
AclI	AACGTT	1 cut(s)	294
AclWI	GGATC	1 cut(s)	40
AcoI	YGGCCR	1 cut(s)	428
AcyI	GRCGYC	1 cut(s)	509
AfaI	GTAC	1 cut(s)	590
AfiI	CCNNNNNNNGG	2 cut(s)	431, 437
AgsI	TTSAA	5 cut(s)	75, 344, 490, 584, 610
AhdI	GACNNNNNGTC	2 cut(s)	10, 526
AjuI	GAANNNNNNNTTGG	2 cut(s)	12, 44
AluBI	AGCT	3 cut(s)	191, 197, 615
AluI	AGCT	3 cut(s)	191, 197, 615
Alw21I	GWGCWC	1 cut(s)	401
Alw26I	GTCTC	1 cut(s)	621
AlwI	GGATC	1 cut(s)	40
Ama87I	CYCGRG	2 cut(s)	388, 500
AoxI	GGCC	1 cut(s)	428
ApeKI	GCWGC	2 cut(s)	188, 209
ArsI	GACNNNNNNTTYG	2 cut(s)	623, 655
AspLEI	GCGC	1 cut(s)	561
AsuC2I	CCSGG	1 cut(s)	432
AsuHPI	GGTGA	1 cut(s)	657
AvaI	CYCGRG	2 cut(s)	388, 500
BaeGI	GKGCMC	1 cut(s)	281
BauI	CACGAG	1 cut(s)	63
Bbv12I	GWGCWC	1 cut(s)	401
BbvI	GCAGC	2 cut(s)	200, 221
BccI	CCATC	1 cut(s)	108
BceAI	ACGGC	3 cut(s)	221, 243, 443
BcnI	CCSGG	1 cut(s)	432
BcoDI	GTCTC	1 cut(s)	621
BfaI	CTAG	2 cut(s)	402, 461
BfmI	CTRYAG	1 cut(s)	192
BisI	GCNGC	3 cut(s)	189, 210, 557
BlsI	GCNGC	3 cut(s)	190, 211, 558
Bme1390I	CCNGG	1 cut(s)	432
BmeRI	GACNNNNNGTC	2 cut(s)	10, 526
BmeT110I	CYCGRG	2 cut(s)	388, 500
BmiI	GGNNCC	2 cut(s)	166, 546
BmrFI	CCNGG	1 cut(s)	432
BmsI	GCATC	2 cut(s)	458, 679
BplI	GAGNNNNNCTC	2 cut(s)	638, 670
BpuMI	CCSGG	1 cut(s)	432
BsaHI	GRCGYC	1 cut(s)	509
BsaJI	CCNNGG	2 cut(s)	160, 425
BsaXI	ACNNNNNCTCC	2 cut(s)	34, 64
Bsc4I	CCNNNNNNNGG	2 cut(s)	431, 437
Bse3DI	GCAATG	1 cut(s)	442
BseDI	CCNNGG	2 cut(s)	160, 425
BseLI	CCNNNNNNNGG	2 cut(s)	431, 437
BseMI	GCAATG	1 cut(s)	442
BseMII	CTCAG	1 cut(s)	346
BseRI	GAGGAG	1 cut(s)	55
BseSI	GKGCMC	1 cut(s)	281
BseX3I	CGGCCG	1 cut(s)	428
BseXI	GCAGC	2 cut(s)	200, 221
BsgI	GTGCAG	1 cut(s)	441
Bsh1236I	CGCG	1 cut(s)	559
Bsh1285I	CGRYCG	1 cut(s)	431
BshFI	GGCC	1 cut(s)	430
BsiEI	CGRYCG	1 cut(s)	431
BsiHKAI	GWGCWC	1 cut(s)	401
BsiHKCI	CYCGRG	2 cut(s)	388, 500
BsiSI	CCGG	2 cut(s)	431, 562
BslFI	GGGAC	1 cut(s)	463
BslI	CCNNNNNNNGG	2 cut(s)	431, 437
BsmAI	GTCTC	1 cut(s)	621
BsmBI	CGTCTC	1 cut(s)	621
BsmFI	GGGAC	1 cut(s)	463
BsnI	GGCC	1 cut(s)	430
BsoBI	CYCGRG	2 cut(s)	388, 500
Bsp1286I	GDGCHC	2 cut(s)	281, 401
Bsp143I	GATC	2 cut(s)	32, 250
BspACI	CCGC	1 cut(s)	557
BspANI	GGCC	1 cut(s)	430
BspCNI	CTCAG	1 cut(s)	345
BspFNI	CGCG	1 cut(s)	559
BspLI	GGNNCC	2 cut(s)	166, 546
BspPI	GGATC	1 cut(s)	40
BsrDI	GCAATG	1 cut(s)	442
BssECI	CCNNGG	2 cut(s)	160, 425
BssMI	GATC	2 cut(s)	32, 250
BssNI	GRCGYC	1 cut(s)	509
BssSI	CACGAG	1 cut(s)	63
BssT1I	CCWWGG	1 cut(s)	160
Bst2BI	CACGAG	1 cut(s)	63
Bst4CI	ACNGT	2 cut(s)	8, 276
Bst6I	CTCTTC	2 cut(s)	41, 127
BstACI	GRCGYC	1 cut(s)	509
BstAPI	GCANNNNNTGC	1 cut(s)	455
BstDEI	CTNAG	4 cut(s)	254, 332, 357, 483
BstDSI	CCRYGG	1 cut(s)	425
BstFNI	CGCG	1 cut(s)	559
BstHHI	GCGC	1 cut(s)	561
BstKTI	GATC	2 cut(s)	35, 253
BstMAI	GTCTC	1 cut(s)	621
BstMBI	GATC	2 cut(s)	32, 250
BstMCI	CGRYCG	1 cut(s)	431
BstMWI	GCNNNNNNNGC	4 cut(s)	194, 455, 472, 553
BstNSI	RCATGY	1 cut(s)	556
BstSCI	CCNGG	1 cut(s)	430
BstSFI	CTRYAG	1 cut(s)	192
BstSLI	GKGCMC	1 cut(s)	281
BstUI	CGCG	1 cut(s)	559
BstV1I	GCAGC	2 cut(s)	200, 221
BstXI	CCANNNNNNTGG	1 cut(s)	107
BstZI	CGGCCG	1 cut(s)	428
BsuRI	GGCC	1 cut(s)	430
BtgI	CCRYGG	1 cut(s)	425
BtsI	GCAGTG	1 cut(s)	426
BtsIMutI	CAGTG	3 cut(s)	272, 426, 519
CfoI	GCGC	1 cut(s)	561
CseI	GACGC	1 cut(s)	184
Csp6I	GTAC	1 cut(s)	589
CviAII	CATG	2 cut(s)	205, 553
CviJI	RGCY	8 cut(s)	122, 191, 197, 258, 430, 466, 547, 615
CviKI_1	RGCY	8 cut(s)	122, 191, 197, 258, 430, 466, 547, 615
CviQI	GTAC	1 cut(s)	589
DdeI	CTNAG	4 cut(s)	254, 332, 357, 483
DpnI	GATC	2 cut(s)	34, 252
DpnII	GATC	2 cut(s)	32, 250
DriI	GACNNNNNGTC	2 cut(s)	10, 526
EaeI	YGGCCR	1 cut(s)	428
EagI	CGGCCG	1 cut(s)	428
Eam1104I	CTCTTC	2 cut(s)	41, 127
Eam1105I	GACNNNNNGTC	2 cut(s)	10, 526
EarI	CTCTTC	2 cut(s)	41, 127
EclXI	CGGCCG	1 cut(s)	428
Eco130I	CCWWGG	1 cut(s)	160
Eco52I	CGGCCG	1 cut(s)	428
Eco88I	CYCGRG	2 cut(s)	388, 500
EcoT14I	CCWWGG	1 cut(s)	160
ErhI	CCWWGG	1 cut(s)	160
Esp3I	CGTCTC	1 cut(s)	621
FaeI	CATG	2 cut(s)	208, 556
FaiI	YATR	7 cut(s)	81, 105, 171, 206, 377, 554, 618
FaqI	GGGAC	1 cut(s)	463
FatI	CATG	2 cut(s)	204, 552
FblI	GTMKAC	1 cut(s)	519
Fnu4HI	GCNGC	3 cut(s)	189, 210, 557
Fsp4HI	GCNGC	3 cut(s)	189, 210, 557
FspBI	CTAG	2 cut(s)	402, 461
GlaI	GCGC	1 cut(s)	560
GluI	GCNGC	3 cut(s)	189, 210, 557
HaeIII	GGCC	1 cut(s)	430
HapII	CCGG	2 cut(s)	431, 562
HgaI	GACGC	1 cut(s)	184
HhaI	GCGC	1 cut(s)	561
Hin1I	GRCGYC	1 cut(s)	509
Hin1II	CATG	2 cut(s)	208, 556
Hin6I	GCGC	1 cut(s)	559
HinP1I	GCGC	1 cut(s)	559
HincII	GTYRAC	1 cut(s)	531
HindII	GTYRAC	1 cut(s)	531
HinfI	GANTC	4 cut(s)	340, 353, 391, 407
HpaII	CCGG	2 cut(s)	431, 562
HphI	GGTGA	1 cut(s)	657
Hpy166II	GTNNAC	4 cut(s)	227, 520, 531, 683
Hpy188I	TCNGA	1 cut(s)	396
Hpy188III	TCNNGA	2 cut(s)	502, 602
Hpy8I	GTNNAC	4 cut(s)	227, 520, 531, 683
Hpy99I	CGWCG	3 cut(s)	178, 448, 538
HpyAV	CCTTC	1 cut(s)	617
HpyCH4III	ACNGT	2 cut(s)	8, 276
HpyCH4IV	ACGT	3 cut(s)	294, 509, 587
HpyCH4V	TGCA	3 cut(s)	458, 475, 620
HpyF10VI	GCNNNNNNNGC	4 cut(s)	194, 455, 472, 553
HpyF3I	CTNAG	4 cut(s)	254, 332, 357, 483
HpySE526I	ACGT	3 cut(s)	294, 509, 587
Hsp92I	GRCGYC	1 cut(s)	509
Hsp92II	CATG	2 cut(s)	208, 556
HspAI	GCGC	1 cut(s)	559
Kzo9I	GATC	2 cut(s)	32, 250
LmnI	GCTCC	1 cut(s)	544
LpnPI	CCDG	4 cut(s)	363, 444, 575, 681
Lsp1109I	GCAGC	2 cut(s)	200, 221
LweI	GCATC	2 cut(s)	458, 679
MaeI	CTAG	2 cut(s)	402, 461
MaeII	ACGT	3 cut(s)	294, 509, 587
MaeIII	GTNAC	3 cut(s)	238, 260, 270
MalI	GATC	2 cut(s)	34, 252
MboI	GATC	2 cut(s)	32, 250
MboII	GAAGA	5 cut(s)	32, 58, 123, 144, 194
MhlI	GDGCHC	2 cut(s)	281, 401
MluCI	AATT	1 cut(s)	126
MlyI	GAGTC	2 cut(s)	400, 416
MnlI	CCTC	6 cut(s)	33, 36, 77, 112, 341, 498
MseI	TTAA	2 cut(s)	231, 650
MslI	CAYNNNNRTG	1 cut(s)	105
MspI	CCGG	2 cut(s)	431, 562
MspR9I	CCNGG	1 cut(s)	432
MvnI	CGCG	1 cut(s)	559
MwoI	GCNNNNNNNGC	4 cut(s)	194, 455, 472, 553
NciI	CCSGG	1 cut(s)	432
NdeII	GATC	2 cut(s)	32, 250
NlaIII	CATG	2 cut(s)	208, 556
NlaIV	GGNNCC	2 cut(s)	166, 546
NmuCI	GTSAC	1 cut(s)	270
NspI	RCATGY	1 cut(s)	556
PaeR7I	CTCGAG	1 cut(s)	500
PcsI	WCGNNNNNNNCGW	1 cut(s)	533
PfeI	GAWTC	2 cut(s)	340, 353
PkrI	GCNGC	3 cut(s)	190, 211, 558
PleI	GAGTC	2 cut(s)	399, 415
PpsI	GAGTC	2 cut(s)	399, 415
Psp1406I	AACGTT	1 cut(s)	294
PspN4I	GGNNCC	2 cut(s)	166, 546
RsaI	GTAC	1 cut(s)	590
RsaNI	GTAC	1 cut(s)	589
RseI	CAYNNNNRTG	1 cut(s)	105
SaqAI	TTAA	2 cut(s)	231, 650
SatI	GCNGC	3 cut(s)	189, 210, 557
Sau3AI	GATC	2 cut(s)	32, 250
SchI	GAGTC	2 cut(s)	400, 416
ScrFI	CCNGG	1 cut(s)	432
SduI	GDGCHC	2 cut(s)	281, 401
SfaNI	GCATC	2 cut(s)	458, 679
SfcI	CTRYAG	1 cut(s)	192
Sfr274I	CTCGAG	1 cut(s)	500
SlaI	CTCGAG	1 cut(s)	500
SmiMI	CAYNNNNRTG	1 cut(s)	105
SmlI	CTYRAG	1 cut(s)	500
SmoI	CTYRAG	1 cut(s)	500
Sse9I	AATT	1 cut(s)	126
SsiI	CCGC	1 cut(s)	557
SspMI	CTAG	2 cut(s)	402, 461
StyD4I	CCNGG	1 cut(s)	430
StyI	CCWWGG	1 cut(s)	160
TaaI	ACNGT	2 cut(s)	8, 276
TaiI	ACGT	3 cut(s)	297, 512, 590
TaqI	TCGA	4 cut(s)	124, 249, 338, 501
TasI	AATT	1 cut(s)	126
TauI	GCSGC	1 cut(s)	559
TfiI	GAWTC	2 cut(s)	340, 353
Tru1I	TTAA	2 cut(s)	231, 650
Tru9I	TTAA	2 cut(s)	231, 650
TscAI	CASTG	3 cut(s)	279, 426, 519
TseFI	GTSAC	1 cut(s)	270
TseI	GCWGC	2 cut(s)	188, 209
Tsp45I	GTSAC	1 cut(s)	270
TspDTI	ATGAA	1 cut(s)	665
TspRI	CASTG	3 cut(s)	279, 426, 519
XceI	RCATGY	1 cut(s)	556
XhoI	CTCGAG	1 cut(s)	500
XmiI	GTMKAC	1 cut(s)	519
XspI	CTAG	2 cut(s)	402, 461
ZraI	GACGTC	1 cut(s)	510

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