Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3C

Orthogroup ID

OG0016356

Physical Location & Seq

Genomic Coordinates Reverse (-)

1604977 .. 1606058

Gene Structure 1082 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3CG023500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 705 bp

ATGGACTCTTCGGAGTTCTCTTTTGAGTCTTGTTCTTCCTTCAGCTCTCTGGGTTCTGATCTTTCCTGGGACATGTTCAATTTTGATCACAGTTACAATCAAGTACAAGTACCCGCTCAGCTACCATTCAACGAAAACGACTCTGAAGAAATGGTTCTTTACGGAGTTCTTGCTCAGGCTGGTGCCGGAGACTCCTCCGACGCAACCAGTACTGCTCATCATTCTAAAGATCATGAAGAGGTGAACTCCAACGCCGCCGTGGAATACGAGGAGCCTATGAAGGACGAGATAGCATATAGAGGGGTCCGCCGGCGGCCATGGGGGAAGTACGCGGCGGAGATAAGGGATTCAACCCGAAATGGGGTGCGGGTTTGGTTGGGAACTTTTGACACGGCGGAGGATGCAGCTCTAGCTTACGACCAAGCAGCATTTGCAATGCGGGGGACTCTGGCGGTACTTAATTTTCCGGCTGACGTTGTTTACCAGTCGCTCGTCGACATGAATTACGGGTTCGAAGAGGGCTCATCTCCAGTTTTGGCCTTGAAGAAAAGGCACTCCATGAAGAGGAAGTCATCGATGAACAAAAAGAAGAAGGACGTTCAGAAGTGTGATGATGATGTTGAGGAGTTGAGGTTGGAAAATGTGGTGGTTTTTGAGGATCTTGGTGCTGACTATTTGGAAGAGCTTCTCAGTATATCTTCTTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000160 GO:0001101 GO:0003674 GO:0003676 GO:0003677 GO:0003700 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006355 GO:0006950 GO:0006952 GO:0007154 GO:0007165 GO:0008150 GO:0009719 GO:0009723 GO:0009725 GO:0009753 GO:0009755 GO:0009867 GO:0009873 GO:0009889 GO:0009987 GO:0010033 GO:0010468 GO:0010556 GO:0019219 GO:0019222 GO:0023052 GO:0031323 GO:0031326 GO:0032870 GO:0035556 GO:0042221 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044464 GO:0050789 GO:0050794 GO:0050896 GO:0051171 GO:0051252 GO:0051716 GO:0060255 GO:0065007 GO:0070887 GO:0071229 GO:0071310 GO:0071369 GO:0071395 GO:0071495 GO:0080090 GO:0097159 GO:0140110 GO:1901363 GO:1901700 GO:1901701 GO:1903506 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

ko04016 ko04075 map04016 map04075

Pfam Domains

Protein Families

AP2

Protein Analysis

234

Amino Acids

26.19

Weight (kDa)

4.56

Isoelectric Point (pI)

50.04

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
AP2	PF00847	99 - 148	3.9e-15	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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Tree File

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Publication-ready

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Orthologous Genes (Group: OG0016356)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_6g02270
malus_domestica	MD04G1228800.v1.1 MD12G1246000.v1.1
prunus_persica	Prupe.6G348700_v2.0.a1
pyrus_communis	pycom04g20280
rosa_chinensis	RchiOBHm_Chr3g0450011
rosa_laevigata	RLG00000025765
rosa_multiflora	Rmu_co8520667.1_g000001
rosa_roxburghii	Rroxscaffold_6G00427780
rosa_rugosa	Rorug02G0624900
rosa_samantha	Rh3AG023900 Rh3BG024500 Rh3CG023500 Rh3DG024500
rosa_wichuraiana	Rw3G001900

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	182
AccBSI	CCGCTC	1 cut(s)	116
AccI	GTMKAC	1 cut(s)	495
AccII	CGCG	1 cut(s)	332
AclWI	GGATC	1 cut(s)	666
AcoI	YGGCCR	1 cut(s)	314
AcuI	CTGAAG	2 cut(s)	25, 165
AfaI	GTAC	5 cut(s)	105, 111, 211, 329, 456
AfiI	CCNNNNNNNGG	3 cut(s)	360, 361, 564
AflIII	ACRYGT	1 cut(s)	72
AgsI	TTSAA	4 cut(s)	79, 130, 351, 544
AjnI	CCWGG	1 cut(s)	65
AluBI	AGCT	5 cut(s)	45, 121, 407, 413, 685
AluI	AGCT	5 cut(s)	45, 121, 407, 413, 685
Alw26I	GTCTC	1 cut(s)	183
AlwI	GGATC	1 cut(s)	666
AoxI	GGCC	2 cut(s)	314, 537
ApeKI	GCWGC	2 cut(s)	404, 425
Asp700I	GAANNNNTTC	2 cut(s)	153, 684
AspS9I	GGNCC	1 cut(s)	304
AsuHPI	GGTGA	1 cut(s)	253
AsuII	TTCGAA	1 cut(s)	513
AvaII	GGWCC	1 cut(s)	304
BanI	GGYRCC	1 cut(s)	182
BanII	GRGCYC	1 cut(s)	524
BbvI	GCAGC	2 cut(s)	416, 437
BceAI	ACGGC	2 cut(s)	242, 408
BciT130I	CCWGG	1 cut(s)	67
BclI	TGATCA	1 cut(s)	85
BcoDI	GTCTC	1 cut(s)	183
BfaI	CTAG	1 cut(s)	410
BisI	GCNGC	5 cut(s)	255, 314, 333, 405, 426
BlpI	GCTNAGC	1 cut(s)	117
BlsI	GCNGC	5 cut(s)	256, 315, 334, 406, 427
BmcAI	AGTACT	1 cut(s)	211
Bme1390I	CCNGG	1 cut(s)	67
Bme18I	GGWCC	1 cut(s)	304
BmgT120I	GGNCC	1 cut(s)	304
BmiI	GGNNCC	3 cut(s)	184, 273, 305
BmrFI	CCNGG	1 cut(s)	67
BmsI	GCATC	1 cut(s)	391
BplI	GAGNNNNNCTC	2 cut(s)	230, 262
BpmI	CTGGAG	1 cut(s)	513
Bpu10I	CCTNAGC	1 cut(s)	174
Bpu1102I	GCTNAGC	1 cut(s)	117
Bpu14I	TTCGAA	1 cut(s)	513
Bsa29I	ATCGAT	1 cut(s)	575
BsaJI	CCNNGG	3 cut(s)	66, 258, 317
BsaXI	ACNNNNNCTCC	2 cut(s)	617, 647
Bsc4I	CCNNNNNNNGG	3 cut(s)	360, 361, 564
Bse118I	RCCGGY	1 cut(s)	309
Bse1I	ACTGG	3 cut(s)	207, 484, 530
Bse3DI	GCAATG	1 cut(s)	441
BseBI	CCWGG	1 cut(s)	67
BseCI	ATCGAT	1 cut(s)	575
BseDI	CCNNGG	3 cut(s)	66, 258, 317
BseGI	GGATG	1 cut(s)	406
BseLI	CCNNNNNNNGG	3 cut(s)	360, 361, 564
BseMI	GCAATG	1 cut(s)	441
BseMII	CTCAG	3 cut(s)	131, 188, 703
BseNI	ACTGG	3 cut(s)	207, 484, 530
BseRI	GAGGAG	3 cut(s)	184, 284, 638
BseXI	GCAGC	2 cut(s)	416, 437
Bsh1236I	CGCG	1 cut(s)	332
BshFI	GGCC	2 cut(s)	316, 539
BshNI	GGYRCC	1 cut(s)	182
BshVI	ATCGAT	1 cut(s)	575
BsiSI	CCGG	3 cut(s)	186, 310, 467
BslFI	GGGAC	2 cut(s)	83, 457
BslI	CCNNNNNNNGG	3 cut(s)	360, 361, 564
BsmAI	GTCTC	1 cut(s)	183
BsmFI	GGGAC	2 cut(s)	83, 457
BsnI	GGCC	2 cut(s)	316, 539
Bsp119I	TTCGAA	1 cut(s)	513
Bsp1286I	GDGCHC	1 cut(s)	524
Bsp143I	GATC	4 cut(s)	58, 85, 229, 658
Bsp1720I	GCTNAGC	1 cut(s)	117
Bsp19I	CCATGG	1 cut(s)	317
BspANI	GGCC	2 cut(s)	316, 539
BspCNI	CTCAG	3 cut(s)	130, 187, 702
BspDI	ATCGAT	1 cut(s)	575
BspFNI	CGCG	1 cut(s)	332
BspHI	TCATGA	1 cut(s)	232
BspLI	GGNNCC	3 cut(s)	184, 273, 305
BspPI	GGATC	1 cut(s)	666
BspQI	GCTCTTC	1 cut(s)	675
BspT104I	TTCGAA	1 cut(s)	513
BspT107I	GGYRCC	1 cut(s)	182
BsrBI	CCGCTC	1 cut(s)	116
BsrDI	GCAATG	1 cut(s)	441
BsrFI	RCCGGY	1 cut(s)	309
BsrI	ACTGG	3 cut(s)	207, 484, 530
BssAI	RCCGGY	1 cut(s)	309
BssECI	CCNNGG	3 cut(s)	66, 258, 317
BssMI	GATC	4 cut(s)	58, 85, 229, 658
BssT1I	CCWWGG	1 cut(s)	317
Bst2UI	CCWGG	1 cut(s)	67
Bst4CI	ACNGT	1 cut(s)	92
Bst6I	CTCTTC	5 cut(s)	13, 231, 510, 557, 675
BstAPI	GCANNNNNTGC	1 cut(s)	431
BstBI	TTCGAA	1 cut(s)	513
BstC8I	GCNNGC	1 cut(s)	311
BstDEI	CTNAG	3 cut(s)	117, 174, 689
BstDSI	CCRYGG	2 cut(s)	258, 317
BstF5I	GGATG	1 cut(s)	406
BstFNI	CGCG	1 cut(s)	332
BstKTI	GATC	4 cut(s)	61, 88, 232, 661
BstMAI	GTCTC	1 cut(s)	183
BstMBI	GATC	4 cut(s)	58, 85, 229, 658
BstMWI	GCNNNNNNNGC	3 cut(s)	401, 410, 431
BstNI	CCWGG	1 cut(s)	67
BstNSI	RCATGY	1 cut(s)	76
BstSCI	CCNGG	1 cut(s)	65
BstUI	CGCG	1 cut(s)	332
BstV1I	GCAGC	2 cut(s)	416, 437
BstX2I	RGATCY	1 cut(s)	658
BstYI	RGATCY	1 cut(s)	658
Bsu15I	ATCGAT	1 cut(s)	575
BsuRI	GGCC	2 cut(s)	316, 539
BsuTUI	ATCGAT	1 cut(s)	575
BtgI	CCRYGG	2 cut(s)	258, 317
BtsCI	GGATG	1 cut(s)	406
Cac8I	GCNNGC	1 cut(s)	311
CciI	TCATGA	1 cut(s)	232
Cfr10I	RCCGGY	1 cut(s)	309
Cfr13I	GGNCC	1 cut(s)	304
ClaI	ATCGAT	1 cut(s)	575
CseI	GACGC	1 cut(s)	209
Csp6I	GTAC	5 cut(s)	104, 110, 210, 328, 455
CviAII	CATG	5 cut(s)	73, 233, 318, 499, 559
CviQI	GTAC	5 cut(s)	104, 110, 210, 328, 455
DdeI	CTNAG	3 cut(s)	117, 174, 689
DpnI	GATC	4 cut(s)	60, 87, 231, 660
DpnII	GATC	4 cut(s)	58, 85, 229, 658
EaeI	YGGCCR	1 cut(s)	314
Eam1104I	CTCTTC	5 cut(s)	13, 231, 510, 557, 675
EarI	CTCTTC	5 cut(s)	13, 231, 510, 557, 675
EciI	GGCGGA	3 cut(s)	296, 350, 410
Eco130I	CCWWGG	1 cut(s)	317
Eco24I	GRGCYC	1 cut(s)	524
Eco47I	GGWCC	1 cut(s)	304
Eco57I	CTGAAG	2 cut(s)	25, 165
EcoRII	CCWGG	1 cut(s)	65
EcoT14I	CCWWGG	1 cut(s)	317
EcoT38I	GRGCYC	1 cut(s)	524
ErhI	CCWWGG	1 cut(s)	317
FaeI	CATG	5 cut(s)	76, 236, 321, 502, 562
FaiI	YATR	9 cut(s)	74, 234, 278, 295, 297, 319, 500, 560, 695
FaqI	GGGAC	2 cut(s)	83, 457
FatI	CATG	5 cut(s)	72, 232, 317, 498, 558
FauI	CCCGC	3 cut(s)	121, 360, 432
FbaI	TGATCA	1 cut(s)	85
FblI	GTMKAC	1 cut(s)	495
Fnu4HI	GCNGC	5 cut(s)	255, 314, 333, 405, 426
FokI	GGATG	1 cut(s)	413
FriOI	GRGCYC	1 cut(s)	524
Fsp4HI	GCNGC	5 cut(s)	255, 314, 333, 405, 426
FspBI	CTAG	1 cut(s)	410
GluI	GCNGC	5 cut(s)	255, 314, 333, 405, 426
GsuI	CTGGAG	1 cut(s)	513
HaeIII	GGCC	2 cut(s)	316, 539
HapII	CCGG	3 cut(s)	186, 310, 467
HgaI	GACGC	1 cut(s)	209
Hin1II	CATG	5 cut(s)	76, 236, 321, 502, 562
HincII	GTYRAC	1 cut(s)	496
HindII	GTYRAC	1 cut(s)	496
HinfI	GANTC	6 cut(s)	5, 26, 140, 191, 347, 445
HpaII	CCGG	3 cut(s)	186, 310, 467
HphI	GGTGA	1 cut(s)	253
Hpy166II	GTNNAC	3 cut(s)	244, 481, 496
Hpy188I	TCNGA	5 cut(s)	13, 58, 145, 199, 603
Hpy188III	TCNNGA	1 cut(s)	233
Hpy8I	GTNNAC	3 cut(s)	244, 481, 496
Hpy99I	CGWCG	2 cut(s)	203, 497
HpyAV	CCTTC	3 cut(s)	49, 274, 586
HpyCH4III	ACNGT	1 cut(s)	92
HpyCH4IV	ACGT	2 cut(s)	474, 597
HpyCH4V	TGCA	2 cut(s)	404, 434
HpyF10VI	GCNNNNNNNGC	3 cut(s)	401, 410, 431
HpyF3I	CTNAG	3 cut(s)	117, 174, 689
HpySE526I	ACGT	2 cut(s)	474, 597
Hsp92II	CATG	5 cut(s)	76, 236, 321, 502, 562
KroI	GCCGGC	1 cut(s)	309
KroNI	GCCGGC	1 cut(s)	311
Ksp22I	TGATCA	1 cut(s)	85
Kzo9I	GATC	4 cut(s)	58, 85, 229, 658
LguI	GCTCTTC	1 cut(s)	675
LmnI	GCTCC	1 cut(s)	271
Lsp1109I	GCAGC	2 cut(s)	416, 437
LweI	GCATC	1 cut(s)	391
MaeI	CTAG	1 cut(s)	410
MaeII	ACGT	2 cut(s)	474, 597
MaeIII	GTNAC	1 cut(s)	92
MalI	GATC	4 cut(s)	60, 87, 231, 660
MbiI	CCGCTC	1 cut(s)	116
MboI	GATC	4 cut(s)	58, 85, 229, 658
MboII	GAAGA	9 cut(s)	27, 158, 248, 527, 556, 574, 601, 690, 692
MflI	RGATCY	1 cut(s)	658
MhlI	GDGCHC	1 cut(s)	524
MluCI	AATT	3 cut(s)	79, 460, 502
MlyI	GAGTC	4 cut(s)	35, 134, 185, 439
MmeI	TCCRAC	3 cut(s)	222, 273, 615
MreI	CGCCGGCG	1 cut(s)	309
MroNI	GCCGGC	1 cut(s)	309
MroXI	GAANNNNTTC	2 cut(s)	153, 684
MseI	TTAA	2 cut(s)	459, 703
MspI	CCGG	3 cut(s)	186, 310, 467
MspR9I	CCNGG	1 cut(s)	67
MvaI	CCWGG	1 cut(s)	67
MvnI	CGCG	1 cut(s)	332
MwoI	GCNNNNNNNGC	3 cut(s)	401, 410, 431
NaeI	GCCGGC	1 cut(s)	311
NcoI	CCATGG	1 cut(s)	317
NdeII	GATC	4 cut(s)	58, 85, 229, 658
NgoMIV	GCCGGC	1 cut(s)	309
NlaIII	CATG	5 cut(s)	76, 236, 321, 502, 562
NlaIV	GGNNCC	3 cut(s)	184, 273, 305
NspI	RCATGY	1 cut(s)	76
NspV	TTCGAA	1 cut(s)	513
PagI	TCATGA	1 cut(s)	232
PciI	ACATGT	1 cut(s)	72
PciSI	GCTCTTC	1 cut(s)	675
PdiI	GCCGGC	1 cut(s)	311
PdmI	GAANNNNTTC	2 cut(s)	153, 684
PfeI	GAWTC	1 cut(s)	347
PkrI	GCNGC	5 cut(s)	256, 315, 334, 406, 427
PleI	GAGTC	4 cut(s)	34, 134, 185, 439
PpsI	GAGTC	4 cut(s)	34, 134, 185, 439
PscI	ACATGT	1 cut(s)	72
Psp6I	CCWGG	1 cut(s)	65
PspGI	CCWGG	1 cut(s)	65
PspN4I	GGNNCC	3 cut(s)	184, 273, 305
PspPI	GGNCC	1 cut(s)	304
PsuI	RGATCY	1 cut(s)	658
RsaI	GTAC	5 cut(s)	105, 111, 211, 329, 456
RsaNI	GTAC	5 cut(s)	104, 110, 210, 328, 455
SalI	GTCGAC	1 cut(s)	494
SapI	GCTCTTC	1 cut(s)	675
SaqAI	TTAA	2 cut(s)	459, 703
SatI	GCNGC	5 cut(s)	255, 314, 333, 405, 426
Sau3AI	GATC	4 cut(s)	58, 85, 229, 658
Sau96I	GGNCC	1 cut(s)	304
ScaI	AGTACT	1 cut(s)	211
SchI	GAGTC	4 cut(s)	35, 134, 185, 439
ScrFI	CCNGG	1 cut(s)	67
SduI	GDGCHC	1 cut(s)	524
SetI	ASST	9 cut(s)	47, 123, 243, 409, 415, 477, 600, 635, 687
SfaNI	GCATC	1 cut(s)	391
SfuI	TTCGAA	1 cut(s)	513
SgrAI	CRCCGGYG	1 cut(s)	309
SinI	GGWCC	1 cut(s)	304
Sse9I	AATT	3 cut(s)	79, 460, 502
SspMI	CTAG	1 cut(s)	410
StyD4I	CCNGG	1 cut(s)	65
StyI	CCWWGG	1 cut(s)	317
TaaI	ACNGT	1 cut(s)	92
TaiI	ACGT	2 cut(s)	477, 600
TaqI	TCGA	3 cut(s)	495, 513, 575
TasI	AATT	3 cut(s)	79, 460, 502
TatI	WGTACW	2 cut(s)	103, 209
TauI	GCSGC	3 cut(s)	257, 316, 335
TfiI	GAWTC	1 cut(s)	347
Tru1I	TTAA	2 cut(s)	459, 703
Tru9I	TTAA	2 cut(s)	459, 703
TseI	GCWGC	2 cut(s)	404, 425
TspDTI	ATGAA	5 cut(s)	249, 293, 515, 575, 593
TspGWI	ACGGA	1 cut(s)	177
VpaK11BI	GGWCC	1 cut(s)	304
XceI	RCATGY	1 cut(s)	76
XcmI	CCANNNNNNNNNTGG	1 cut(s)	256
XmiI	GTMKAC	1 cut(s)	495
XmnI	GAANNNNTTC	2 cut(s)	153, 684
XspI	CTAG	1 cut(s)	410
ZrmI	AGTACT	1 cut(s)	211

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