Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5B

Orthogroup ID

OG0003241

Physical Location & Seq

Genomic Coordinates Reverse (-)

48405098 .. 48408563

Gene Structure 3466 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5BG341200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 711 bp

ATGTCTCCATTAATGGCTTTCTGGATGATTTATTGGCTGCTGTCTGTGCATGTGCAGGTTCCTGTAGCTCCGCTTCAAAGGGGTGAGGGCATTCCTGAATTTCCTCAAATGTTGACAACTGAAATTCAAGGTGTTCATCATCCTCCTGAACAAGGAATTCCCACCATGATTACATGGAATTATGGTGGGAACAATTTGGCTGTGGAGGGTTCTTGGGACAATTGGAAATCTAGGAAATCACTACAGAGATCTGGTAAGGATCATTCAGTTCTTTTGGTCTTGCCATCAGGCATATACCGGTACAAGTTCATCGTTGATGGTGAACCGAGATATATCCCAGATCTTCCATTCATAGCTGATGAAATGGGCCATGTTTGTAATCTTCTTGATGTTCATGACTATGTGCCAGAAAATTTGGACAGTGTGGCTGAGTTTGAGGCTCCGGCTTCCCCAGAATCCAGCTATGATCAAGCATTTCCAGCTGAGGAAGATCTTACAAAGGAACCAGTGGTTATCCCACCACAGCTGCAACTGACTGTCCTTGGCATGGAGGATTCAAATGAGGATTCTCCAAAGCCTCGACATGTTGTACTTAACCACCTTTTTATAGAAAAAGGATGGGCCTCACAATCTATGGTTTCCCTGGGACTGACTCACAGGTTTGAGTCTAAATATGTGACTGTTGTCCTATATAAATCACTTAAAAGGTAA

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

236

Amino Acids

26.75

Weight (kDa)

5.12

Isoelectric Point (pI)

54.72

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
AMPK1_CBM	PF16561	53 - 133	3e-30	Glycogen recognition site of AMP-activated protein kinase
AMPKBI	PF04739	167 - 233	5.5e-22	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)

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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)
Acc36I	ACCTGC	1 cut(s)	46
AciI	CCGC	1 cut(s)	71
AclWI	GGATC	1 cut(s)	267
AcsI	RAATTY	4 cut(s)	98, 123, 156, 412
AfaI	GTAC	2 cut(s)	302, 591
AfiI	CCNNNNNNNGG	2 cut(s)	152, 547
AflIII	ACRYGT	1 cut(s)	583
AgeI	ACCGGT	1 cut(s)	297
AgsI	TTSAA	3 cut(s)	77, 128, 558
AjnI	CCWGG	1 cut(s)	642
AluBI	AGCT	5 cut(s)	68, 356, 462, 482, 526
AluI	AGCT	5 cut(s)	68, 356, 462, 482, 526
Alw26I	GTCTC	1 cut(s)	9
AlwI	GGATC	1 cut(s)	267
AoxI	GGCC	2 cut(s)	367, 621
ApeKI	GCWGC	2 cut(s)	37, 526
ApoI	RAATTY	4 cut(s)	98, 123, 156, 412
AseI	ATTAAT	1 cut(s)	11
AsiGI	ACCGGT	1 cut(s)	297
AspS9I	GGNCC	2 cut(s)	367, 621
AsuHPI	GGTGA	2 cut(s)	95, 332
BarI	GAAGNNNNNNTAC	2 cut(s)	57, 89
BbvCI	CCTCAGC	1 cut(s)	483
BbvI	GCAGC	2 cut(s)	24, 513
BccI	CCATC	3 cut(s)	292, 311, 612
BciT130I	CCWGG	1 cut(s)	644
BclI	TGATCA	1 cut(s)	466
BcoDI	GTCTC	1 cut(s)	9
BfaI	CTAG	1 cut(s)	231
BfmI	CTRYAG	2 cut(s)	63, 242
BfuAI	ACCTGC	1 cut(s)	46
BglII	AGATCT	3 cut(s)	248, 340, 490
BisI	GCNGC	2 cut(s)	38, 527
BlsI	GCNGC	2 cut(s)	39, 528
Bme1390I	CCNGG	1 cut(s)	644
BmgT120I	GGNCC	2 cut(s)	367, 621
BmiI	GGNNCC	3 cut(s)	60, 441, 504
BmrFI	CCNGG	1 cut(s)	644
BoxI	GACNNNNGTC	1 cut(s)	683
Bpu10I	CCTNAGC	1 cut(s)	483
BsaJI	CCNNGG	3 cut(s)	541, 642, 643
BsaWI	WCCGGW	1 cut(s)	297
Bsc4I	CCNNNNNNNGG	2 cut(s)	152, 547
Bse118I	RCCGGY	1 cut(s)	297
Bse1I	ACTGG	1 cut(s)	506
BseBI	CCWGG	1 cut(s)	644
BseDI	CCNNGG	3 cut(s)	541, 642, 643
BseGI	GGATG	3 cut(s)	30, 139, 623
BseLI	CCNNNNNNNGG	2 cut(s)	152, 547
BseMII	CTCAG	2 cut(s)	420, 474
BseNI	ACTGG	1 cut(s)	506
BseXI	GCAGC	2 cut(s)	24, 513
BsgI	GTGCAG	1 cut(s)	74
BshFI	GGCC	2 cut(s)	369, 623
BshTI	ACCGGT	1 cut(s)	297
BsiSI	CCGG	2 cut(s)	298, 443
BslFI	GGGAC	2 cut(s)	230, 660
BslI	CCNNNNNNNGG	2 cut(s)	152, 547
BsmAI	GTCTC	1 cut(s)	9
BsmFI	GGGAC	2 cut(s)	230, 660
BsmI	GAATGC	1 cut(s)	90
BsnI	GGCC	2 cut(s)	369, 623
Bsp143I	GATC	5 cut(s)	248, 259, 340, 466, 490
BspACI	CCGC	1 cut(s)	71
BspANI	GGCC	2 cut(s)	369, 623
BspCNI	CTCAG	2 cut(s)	421, 475
BspHI	TCATGA	1 cut(s)	394
BspLI	GGNNCC	3 cut(s)	60, 441, 504
BspMI	ACCTGC	1 cut(s)	46
BspPI	GGATC	1 cut(s)	267
BsrFI	RCCGGY	1 cut(s)	297
BsrI	ACTGG	1 cut(s)	506
BssAI	RCCGGY	1 cut(s)	297
BssECI	CCNNGG	3 cut(s)	541, 642, 643
BssMI	GATC	5 cut(s)	248, 259, 340, 466, 490
BssT1I	CCWWGG	1 cut(s)	541
Bst2UI	CCWGG	1 cut(s)	644
Bst4CI	ACNGT	3 cut(s)	422, 538, 682
BstDEI	CTNAG	2 cut(s)	429, 483
BstENI	CCTNNNNNAGG	1 cut(s)	150
BstF5I	GGATG	3 cut(s)	30, 139, 623
BstKTI	GATC	5 cut(s)	251, 262, 343, 469, 493
BstMAI	GTCTC	1 cut(s)	9
BstMBI	GATC	5 cut(s)	248, 259, 340, 466, 490
BstMWI	GCNNNNNNNGC	2 cut(s)	46, 479
BstNI	CCWGG	1 cut(s)	644
BstNSI	RCATGY	2 cut(s)	53, 587
BstPAI	GACNNNNGTC	1 cut(s)	683
BstSCI	CCNGG	1 cut(s)	642
BstSFI	CTRYAG	2 cut(s)	63, 242
BstV1I	GCAGC	2 cut(s)	24, 513
BstX2I	RGATCY	3 cut(s)	248, 340, 490
BstYI	RGATCY	3 cut(s)	248, 340, 490
BsuRI	GGCC	2 cut(s)	369, 623
BtsCI	GGATG	3 cut(s)	30, 139, 623
BtsIMutI	CAGTG	2 cut(s)	427, 513
BveI	ACCTGC	1 cut(s)	46
CciI	TCATGA	1 cut(s)	394
Cfr10I	RCCGGY	1 cut(s)	297
Cfr13I	GGNCC	2 cut(s)	367, 621
Csp6I	GTAC	2 cut(s)	301, 590
CspAI	ACCGGT	1 cut(s)	297
CviAII	CATG	7 cut(s)	50, 166, 174, 371, 395, 547, 584
CviQI	GTAC	2 cut(s)	301, 590
DdeI	CTNAG	2 cut(s)	429, 483
DpnI	GATC	5 cut(s)	250, 261, 342, 468, 492
DpnII	GATC	5 cut(s)	248, 259, 340, 466, 490
Eco130I	CCWWGG	1 cut(s)	541
EcoNI	CCTNNNNNAGG	1 cut(s)	150
EcoRI	GAATTC	1 cut(s)	156
EcoRII	CCWGG	1 cut(s)	642
EcoT14I	CCWWGG	1 cut(s)	541
ErhI	CCWWGG	1 cut(s)	541
FaeI	CATG	7 cut(s)	53, 169, 177, 374, 398, 550, 587
FaqI	GGGAC	2 cut(s)	230, 660
FatI	CATG	7 cut(s)	49, 165, 173, 370, 394, 546, 583
FbaI	TGATCA	1 cut(s)	466
Fnu4HI	GCNGC	2 cut(s)	38, 527
FokI	GGATG	3 cut(s)	37, 126, 630
Fsp4HI	GCNGC	2 cut(s)	38, 527
FspBI	CTAG	1 cut(s)	231
GluI	GCNGC	2 cut(s)	38, 527
HaeIII	GGCC	2 cut(s)	369, 623
HapII	CCGG	2 cut(s)	298, 443
Hin1II	CATG	7 cut(s)	53, 169, 177, 374, 398, 550, 587
HincII	GTYRAC	1 cut(s)	114
HindII	GTYRAC	1 cut(s)	114
HinfI	GANTC	5 cut(s)	455, 554, 566, 652, 665
HpaII	CCGG	2 cut(s)	298, 443
HphI	GGTGA	2 cut(s)	95, 332
Hpy166II	GTNNAC	2 cut(s)	114, 323
Hpy188III	TCNNGA	5 cut(s)	22, 95, 146, 386, 395
Hpy8I	GTNNAC	2 cut(s)	114, 323
HpyCH4III	ACNGT	3 cut(s)	422, 538, 682
HpyCH4V	TGCA	3 cut(s)	49, 55, 529
HpyF10VI	GCNNNNNNNGC	2 cut(s)	46, 479
HpyF3I	CTNAG	2 cut(s)	429, 483
Hsp92II	CATG	7 cut(s)	53, 169, 177, 374, 398, 550, 587
Ksp22I	TGATCA	1 cut(s)	466
Kzo9I	GATC	5 cut(s)	248, 259, 340, 466, 490
LmnI	GCTCC	2 cut(s)	73, 445
Lsp1109I	GCAGC	2 cut(s)	24, 513
MaeI	CTAG	1 cut(s)	231
MaeIII	GTNAC	1 cut(s)	676
MalI	GATC	5 cut(s)	250, 261, 342, 468, 492
MboI	GATC	5 cut(s)	248, 259, 340, 466, 490
MboII	GAAGA	3 cut(s)	335, 374, 500
MfeI	CAATTG	1 cut(s)	220
MflI	RGATCY	3 cut(s)	248, 340, 490
MluCI	AATT	7 cut(s)	98, 123, 156, 178, 193, 220, 412
MlyI	GAGTC	2 cut(s)	646, 674
MseI	TTAA	3 cut(s)	11, 594, 702
MslI	CAYNNNNRTG	1 cut(s)	399
MspA1I	CMGCKG	2 cut(s)	482, 526
MspI	CCGG	2 cut(s)	298, 443
MspR9I	CCNGG	1 cut(s)	644
MunI	CAATTG	1 cut(s)	220
Mva1269I	GAATGC	1 cut(s)	90
MvaI	CCWGG	1 cut(s)	644
MwoI	GCNNNNNNNGC	2 cut(s)	46, 479
NdeII	GATC	5 cut(s)	248, 259, 340, 466, 490
NlaIII	CATG	7 cut(s)	53, 169, 177, 374, 398, 550, 587
NlaIV	GGNNCC	3 cut(s)	60, 441, 504
NmuCI	GTSAC	1 cut(s)	676
NspI	RCATGY	2 cut(s)	53, 587
PagI	TCATGA	1 cut(s)	394
PasI	CCCWGGG	1 cut(s)	643
PciI	ACATGT	1 cut(s)	583
PctI	GAATGC	1 cut(s)	90
PfeI	GAWTC	3 cut(s)	455, 554, 566
PinAI	ACCGGT	1 cut(s)	297
PkrI	GCNGC	2 cut(s)	39, 528
PleI	GAGTC	2 cut(s)	646, 673
PpsI	GAGTC	2 cut(s)	646, 673
PscI	ACATGT	1 cut(s)	583
PshAI	GACNNNNGTC	1 cut(s)	683
PshBI	ATTAAT	1 cut(s)	11
Psp6I	CCWGG	1 cut(s)	642
PspGI	CCWGG	1 cut(s)	642
PspN4I	GGNNCC	3 cut(s)	60, 441, 504
PspPI	GGNCC	2 cut(s)	367, 621
PsuI	RGATCY	3 cut(s)	248, 340, 490
PvuII	CAGCTG	2 cut(s)	482, 526
RsaI	GTAC	2 cut(s)	302, 591
RsaNI	GTAC	2 cut(s)	301, 590
RseI	CAYNNNNRTG	1 cut(s)	399
SaqAI	TTAA	3 cut(s)	11, 594, 702
SatI	GCNGC	2 cut(s)	38, 527
Sau3AI	GATC	5 cut(s)	248, 259, 340, 466, 490
Sau96I	GGNCC	2 cut(s)	367, 621
SchI	GAGTC	2 cut(s)	646, 674
ScrFI	CCNGG	1 cut(s)	644
SfcI	CTRYAG	2 cut(s)	63, 242
SmiMI	CAYNNNNRTG	1 cut(s)	399
Sse9I	AATT	7 cut(s)	98, 123, 156, 178, 193, 220, 412
SsiI	CCGC	1 cut(s)	71
SspMI	CTAG	1 cut(s)	231
StyD4I	CCNGG	1 cut(s)	642
StyI	CCWWGG	1 cut(s)	541
TaaI	ACNGT	3 cut(s)	422, 538, 682
TaqI	TCGA	1 cut(s)	580
TasI	AATT	7 cut(s)	98, 123, 156, 178, 193, 220, 412
TatI	WGTACW	1 cut(s)	589
TfiI	GAWTC	3 cut(s)	455, 554, 566
Tru1I	TTAA	3 cut(s)	11, 594, 702
Tru9I	TTAA	3 cut(s)	11, 594, 702
TscAI	CASTG	2 cut(s)	427, 513
TseFI	GTSAC	1 cut(s)	676
TseI	GCWGC	2 cut(s)	37, 526
Tsp45I	GTSAC	1 cut(s)	676
TspDTI	ATGAA	5 cut(s)	125, 298, 340, 375, 383
TspRI	CASTG	2 cut(s)	427, 513
VspI	ATTAAT	1 cut(s)	11
XagI	CCTNNNNNAGG	1 cut(s)	150
XapI	RAATTY	4 cut(s)	98, 123, 156, 412
XceI	RCATGY	2 cut(s)	53, 587
XspI	CTAG	1 cut(s)	231

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