Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5C

Orthogroup ID

OG0003241

Physical Location & Seq

Genomic Coordinates Forward (+)

352645 .. 355402

Gene Structure 2758 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5CG005200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 729 bp

ATGGGTCAGTCACCTCCTCATAGCCCTAGGGCTACTCACTCCCCTTTGATGTTCACTCCCCAAGTCCCCGTTGTTCCGTTACAAAGACCTGATGAGATGCAGATCCCAAACCCCTCATGGATGCAGACTTCAGCGTATGAAGACATCTCCTGTGAGCAAGGAATTCCAACCATGATTACGTGGAGCTATGGTGGGAAGGACGTAGCTGTGGAGGGATCATGGGATGATTGGAAGACAAGGTTGGCCTTACAGAGATCAGGGAAGGACTTCACTATTATGAAAGTACTGCCATCTGGTGTTTACCAGTATAGGTTTGTTGTTGATGGGCAGTGGAGGTGTGCTCCAGACTTGCCTTTGGCCCAAGATGATGCTGGAAATTCTTACAACCTTTTGGACTTGCAGGATTATGTTCCAGAAGACATTGGAAGCATTTCTGGTTTTGAACCTCCCCAGTCTCCCGACTCGAGTTATAGCAACATGCAACTTGGATCTGAAGATTTTGCGAAGGAGCCACCATTGGTACCTCCACATCTGCAGATGACGCTGCTTAATGCCCCAGCATCTTACATGGAGATGCCGCCTCCTTTATCGAGACCTCAACATGTTGTACTTAATCATCTGTACATGCAGAGAGGGAAGAGTGGCCCATCTGTGGTCGCACTTGGCACAACAGAGAGGTTTATAGCAAAGTATGTGACAGTTGTTCTCTACAAGTCTTTGCAGAGATAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

ko04068 ko04152 ko04211 ko04213 ko04371 ko04530 ko04710 ko04714 ko04910 ko04920 ko04921 ko04922 ko04931 ko04932 ko05410 map04068 map04152 map04211 map04213 map04371 map04530 map04710 map04714 map04910 map04920 map04921 map04922 map04931 map04932 map05410

Pfam Domains

Protein Families

AMPK1_CBM AMPKBI

Protein Analysis

242

Amino Acids

27.04

Weight (kDa)

5.17

Isoelectric Point (pI)

57.56

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
AMPK1_CBM	PF16561	55 - 134	4e-32	Glycogen recognition site of AMP-activated protein kinase
AMPKBI	PF04739	167 - 239	1.5e-25	5'-AMP-activated protein kinase beta subunit, interaction 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

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Publication-ready

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Orthologous Genes (Group: OG0003241)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G21170 AT5G21170 AT5G21170
fragaria_vesca	FvH4_1g28790 FvH4_1g28790 FvH4_3g00390
malus_domestica	MD05G1360800.v1.1 MD10G1338400.v1.1 MD15G1312500.v1.1
prunus_persica	Prupe.4G004500_v2.0.a1
pyrus_communis	pycom05g32760 pycom10g28820
rosa_chinensis	RchiOBHm_Chr5g0000591 RchiOBHm_Chr5g0050101
rosa_laevigata	RLG00000030878 RLG00000034686
rosa_multiflora	Rmu_sc0002289.1_g000010 Rmu_sc0003699.1_g000005
rosa_roxburghii	Rroxscaffold_1G00031050 Rroxscaffold_1G00075620
rosa_rugosa	Rorug04G0385100 Rorug04G0385100 Rorug04G0385200 Rorug04G0385300.1 Rorug05G0258500 Rorug05G0258600 Rorug05G0258700 Rorug05G0258800
rosa_samantha	Rh5AG004800 Rh5AG330500 Rh5BG006400 Rh5BG341200 Rh5CG005200 Rh5DG005200 Rh5DG354000
rosa_wichuraiana	Rw5G000480 Rw5G031220

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc65I	GGTACC	1 cut(s)	520
AccB1I	GGYRCC	1 cut(s)	520
AciI	CCGC	1 cut(s)	578
AclWI	GGATC	3 cut(s)	97, 223, 496
AcsI	RAATTY	2 cut(s)	162, 376
AcuI	CTGAAG	2 cut(s)	114, 513
AfaI	GTAC	4 cut(s)	285, 522, 609, 623
AfiI	CCNNNNNNNGG	1 cut(s)	652
AflIII	ACRYGT	1 cut(s)	601
AgsI	TTSAA	1 cut(s)	443
AjuI	GAANNNNNNNTTGG	2 cut(s)	224, 256
AluBI	AGCT	2 cut(s)	186, 206
AluI	AGCT	2 cut(s)	186, 206
Alw21I	GWGCWC	1 cut(s)	343
Alw26I	GTCTC	2 cut(s)	459, 586
AlwI	GGATC	3 cut(s)	97, 223, 496
Ama87I	CYCGRG	1 cut(s)	463
AoxI	GGCC	3 cut(s)	243, 357, 643
ApeKI	GCWGC	1 cut(s)	544
ApoI	RAATTY	2 cut(s)	162, 376
Asp700I	GAANNNNTTC	2 cut(s)	266, 430
Asp718I	GGTACC	1 cut(s)	520
AspA2I	CCTAGG	1 cut(s)	26
AspS9I	GGNCC	2 cut(s)	358, 644
AsuHPI	GGTGA	1 cut(s)	3
AvaI	CYCGRG	1 cut(s)	463
AvrII	CCTAGG	1 cut(s)	26
BanI	GGYRCC	1 cut(s)	520
BbsI	GAAGAC	3 cut(s)	147, 239, 423
Bbv12I	GWGCWC	1 cut(s)	343
BbvI	GCAGC	1 cut(s)	531
BccI	CCATC	3 cut(s)	298, 317, 655
BcoDI	GTCTC	2 cut(s)	459, 586
BfaI	CTAG	1 cut(s)	27
BfmI	CTRYAG	1 cut(s)	533
BisI	GCNGC	2 cut(s)	545, 578
BlnI	CCTAGG	1 cut(s)	26
BlsI	GCNGC	2 cut(s)	546, 579
BmcAI	AGTACT	1 cut(s)	285
BmeT110I	CYCGRG	1 cut(s)	463
BmgT120I	GGNCC	2 cut(s)	358, 644
BmiI	GGNNCC	2 cut(s)	510, 522
BmrI	ACTGGG	1 cut(s)	445
BmsI	GCATC	5 cut(s)	87, 111, 358, 564, 569
BmuI	ACTGGG	1 cut(s)	445
BpiI	GAAGAC	3 cut(s)	147, 239, 423
BplI	GAGNNNNNCTC	2 cut(s)	325, 357
BpmI	CTGGAG	1 cut(s)	327
BsaAI	YACGTR	1 cut(s)	180
BsaBI	GATNNNNATC	1 cut(s)	101
BsaI	GGTCTC	1 cut(s)	586
BsaJI	CCNNGG	1 cut(s)	26
BsaXI	ACNNNNNCTCC	2 cut(s)	175, 205
Bsc4I	CCNNNNNNNGG	1 cut(s)	652
Bse1I	ACTGG	2 cut(s)	304, 451
Bse8I	GATNNNNATC	1 cut(s)	101
BseDI	CCNNGG	1 cut(s)	26
BseGI	GGATG	2 cut(s)	126, 229
BseJI	GATNNNNATC	1 cut(s)	101
BseLI	CCNNNNNNNGG	1 cut(s)	652
BseNI	ACTGG	2 cut(s)	304, 451
BseRI	GAGGAG	1 cut(s)	6
BseXI	GCAGC	1 cut(s)	531
BseYI	CCCAGC	1 cut(s)	556
BshFI	GGCC	3 cut(s)	245, 359, 645
BshNI	GGYRCC	1 cut(s)	520
BsiHKAI	GWGCWC	1 cut(s)	343
BsiHKCI	CYCGRG	1 cut(s)	463
BslFI	GGGAC	1 cut(s)	50
BslI	CCNNNNNNNGG	1 cut(s)	652
BsmAI	GTCTC	2 cut(s)	459, 586
BsmFI	GGGAC	1 cut(s)	50
BsnI	GGCC	3 cut(s)	245, 359, 645
Bso31I	GGTCTC	1 cut(s)	586
BsoBI	CYCGRG	1 cut(s)	463
Bsp1286I	GDGCHC	1 cut(s)	343
Bsp1407I	TGTACA	1 cut(s)	621
Bsp143I	GATC	4 cut(s)	102, 215, 254, 488
BspACI	CCGC	1 cut(s)	578
BspANI	GGCC	3 cut(s)	245, 359, 645
BspLI	GGNNCC	2 cut(s)	510, 522
BspMAI	CTGCAG	1 cut(s)	537
BspPI	GGATC	3 cut(s)	97, 223, 496
BspT107I	GGYRCC	1 cut(s)	520
BspTNI	GGTCTC	1 cut(s)	586
BsrGI	TGTACA	1 cut(s)	621
BsrI	ACTGG	2 cut(s)	304, 451
BssECI	CCNNGG	1 cut(s)	26
BssMI	GATC	4 cut(s)	102, 215, 254, 488
BssT1I	CCWWGG	1 cut(s)	26
Bst4CI	ACNGT	1 cut(s)	700
Bst6I	CTCTTC	1 cut(s)	632
BstAUI	TGTACA	1 cut(s)	621
BstBAI	YACGTR	1 cut(s)	180
BstF5I	GGATG	2 cut(s)	126, 229
BstKTI	GATC	4 cut(s)	105, 218, 257, 491
BstMAI	GTCTC	2 cut(s)	459, 586
BstMBI	GATC	4 cut(s)	102, 215, 254, 488
BstMWI	GCNNNNNNNGC	1 cut(s)	541
BstNSI	RCATGY	3 cut(s)	481, 605, 628
BstSFI	CTRYAG	1 cut(s)	533
BstV1I	GCAGC	1 cut(s)	531
BstV2I	GAAGAC	3 cut(s)	147, 239, 423
BstX2I	RGATCY	2 cut(s)	102, 488
BstYI	RGATCY	2 cut(s)	102, 488
BsuRI	GGCC	3 cut(s)	245, 359, 645
BtsCI	GGATG	2 cut(s)	126, 229
BtsI	GCAGTG	1 cut(s)	335
BtsIMutI	CAGTG	1 cut(s)	335
Cfr13I	GGNCC	2 cut(s)	358, 644
CseI	GACGC	1 cut(s)	550
Csp6I	GTAC	4 cut(s)	284, 521, 608, 622
CviAII	CATG	7 cut(s)	117, 172, 219, 478, 568, 602, 625
CviJI	RGCY	8 cut(s)	24, 32, 186, 206, 245, 359, 511, 645
CviKI_1	RGCY	8 cut(s)	24, 32, 186, 206, 245, 359, 511, 645
CviQI	GTAC	4 cut(s)	284, 521, 608, 622
DpnI	GATC	4 cut(s)	104, 217, 256, 490
DpnII	GATC	4 cut(s)	102, 215, 254, 488
Eam1104I	CTCTTC	1 cut(s)	632
EarI	CTCTTC	1 cut(s)	632
Eco130I	CCWWGG	1 cut(s)	26
Eco31I	GGTCTC	1 cut(s)	586
Eco57I	CTGAAG	2 cut(s)	114, 513
Eco88I	CYCGRG	1 cut(s)	463
EcoRI	GAATTC	1 cut(s)	162
EcoT14I	CCWWGG	1 cut(s)	26
ErhI	CCWWGG	1 cut(s)	26
FaeI	CATG	7 cut(s)	120, 175, 222, 481, 571, 605, 628
FaqI	GGGAC	1 cut(s)	50
FatI	CATG	7 cut(s)	116, 171, 218, 477, 567, 601, 624
Fnu4HI	GCNGC	2 cut(s)	545, 578
FokI	GGATG	2 cut(s)	133, 236
Fsp4HI	GCNGC	2 cut(s)	545, 578
FspBI	CTAG	1 cut(s)	27
GluI	GCNGC	2 cut(s)	545, 578
GsaI	CCCAGC	1 cut(s)	560
GsuI	CTGGAG	1 cut(s)	327
HaeIII	GGCC	3 cut(s)	245, 359, 645
HgaI	GACGC	1 cut(s)	550
Hin1II	CATG	7 cut(s)	120, 175, 222, 481, 571, 605, 628
HinfI	GANTC	1 cut(s)	461
HphI	GGTGA	1 cut(s)	3
Hpy166II	GTNNAC	2 cut(s)	54, 301
Hpy188I	TCNGA	1 cut(s)	493
Hpy188III	TCNNGA	4 cut(s)	344, 413, 458, 591
Hpy8I	GTNNAC	2 cut(s)	54, 301
HpyAV	CCTTC	3 cut(s)	190, 256, 499
HpyCH4III	ACNGT	1 cut(s)	700
HpyCH4IV	ACGT	2 cut(s)	179, 201
HpyCH4V	TGCA	7 cut(s)	100, 124, 400, 481, 535, 628, 721
HpyF10VI	GCNNNNNNNGC	1 cut(s)	541
HpySE526I	ACGT	2 cut(s)	179, 201
Hsp92II	CATG	7 cut(s)	120, 175, 222, 481, 571, 605, 628
KpnI	GGTACC	1 cut(s)	524
Kzo9I	GATC	4 cut(s)	102, 215, 254, 488
LmnI	GCTCC	3 cut(s)	183, 346, 508
Lsp1109I	GCAGC	1 cut(s)	531
LweI	GCATC	5 cut(s)	87, 111, 358, 564, 569
MaeI	CTAG	1 cut(s)	27
MaeII	ACGT	2 cut(s)	179, 201
MaeIII	GTNAC	3 cut(s)	9, 78, 694
MalI	GATC	4 cut(s)	104, 217, 256, 490
MboI	GATC	4 cut(s)	102, 215, 254, 488
MboII	GAAGA	5 cut(s)	152, 244, 428, 506, 649
MflI	RGATCY	2 cut(s)	102, 488
MhlI	GDGCHC	1 cut(s)	343
MluCI	AATT	2 cut(s)	162, 376
MlyI	GAGTC	1 cut(s)	455
MmeI	TCCRAC	1 cut(s)	191
MroXI	GAANNNNTTC	2 cut(s)	266, 430
MseI	TTAA	2 cut(s)	549, 612
MslI	CAYNNNNRTG	2 cut(s)	275, 572
MwoI	GCNNNNNNNGC	1 cut(s)	541
NdeII	GATC	4 cut(s)	102, 215, 254, 488
NlaIII	CATG	7 cut(s)	120, 175, 222, 481, 571, 605, 628
NlaIV	GGNNCC	2 cut(s)	510, 522
NmuCI	GTSAC	2 cut(s)	9, 694
NspI	RCATGY	3 cut(s)	481, 605, 628
PaeR7I	CTCGAG	1 cut(s)	463
PciI	ACATGT	1 cut(s)	601
PdmI	GAANNNNTTC	2 cut(s)	266, 430
PkrI	GCNGC	2 cut(s)	546, 579
PleI	GAGTC	1 cut(s)	455
PpsI	GAGTC	1 cut(s)	455
Ppu21I	YACGTR	1 cut(s)	180
PscI	ACATGT	1 cut(s)	601
PspFI	CCCAGC	1 cut(s)	556
PspN4I	GGNNCC	2 cut(s)	510, 522
PspPI	GGNCC	2 cut(s)	358, 644
PspXI	VCTCGAGB	1 cut(s)	463
PstI	CTGCAG	1 cut(s)	537
PsuI	RGATCY	2 cut(s)	102, 488
RsaI	GTAC	4 cut(s)	285, 522, 609, 623
RsaNI	GTAC	4 cut(s)	284, 521, 608, 622
RseI	CAYNNNNRTG	2 cut(s)	275, 572
SaqAI	TTAA	2 cut(s)	549, 612
SatI	GCNGC	2 cut(s)	545, 578
Sau3AI	GATC	4 cut(s)	102, 215, 254, 488
Sau96I	GGNCC	2 cut(s)	358, 644
ScaI	AGTACT	1 cut(s)	285
SchI	GAGTC	1 cut(s)	455
SduI	GDGCHC	1 cut(s)	343
SfaNI	GCATC	5 cut(s)	87, 111, 358, 564, 569
SfcI	CTRYAG	1 cut(s)	533
Sfr274I	CTCGAG	1 cut(s)	463
SlaI	CTCGAG	1 cut(s)	463
SmiMI	CAYNNNNRTG	2 cut(s)	275, 572
SmlI	CTYRAG	1 cut(s)	463
SmoI	CTYRAG	1 cut(s)	463
Sse9I	AATT	2 cut(s)	162, 376
SsiI	CCGC	1 cut(s)	578
SspMI	CTAG	1 cut(s)	27
StyI	CCWWGG	1 cut(s)	26
TaaI	ACNGT	1 cut(s)	700
TaiI	ACGT	2 cut(s)	182, 204
TaqI	TCGA	2 cut(s)	464, 590
TasI	AATT	2 cut(s)	162, 376
TatI	WGTACW	3 cut(s)	283, 607, 621
TauI	GCSGC	1 cut(s)	580
Tru1I	TTAA	2 cut(s)	549, 612
Tru9I	TTAA	2 cut(s)	549, 612
TscAI	CASTG	1 cut(s)	335
TseFI	GTSAC	2 cut(s)	9, 694
TseI	GCWGC	1 cut(s)	544
Tsp45I	GTSAC	2 cut(s)	9, 694
TspDTI	ATGAA	2 cut(s)	153, 293
TspGWI	ACGGA	1 cut(s)	66
TspRI	CASTG	1 cut(s)	335
XapI	RAATTY	2 cut(s)	162, 376
XceI	RCATGY	3 cut(s)	481, 605, 628
XcmI	CCANNNNNNNNNTGG	2 cut(s)	114, 368
XhoI	CTCGAG	1 cut(s)	463
XmaJI	CCTAGG	1 cut(s)	26
XmnI	GAANNNNTTC	2 cut(s)	266, 430
XspI	CTAG	1 cut(s)	27
ZrmI	AGTACT	1 cut(s)	285

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