Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000001

Orthogroup ID

OG0003241

Physical Location & Seq

Genomic Coordinates Reverse (-)

96300286 .. 96303484

Gene Structure 3199 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_1G00075620.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 882 bp

ATGGGGAATGTGAATGGGAGAGAAGATGGCGGCGGAAGCCCATCGGCGGCGGCGGCAGAGGAAGAGGCCGGTGGCGGGACCTCCCAGGAGGGTCATCACCCCCTTCCGCCTCCACTTGGCGGCGGCGGCGGCGGAGGCGCGGTGGCTGAATTGATGGGTCAGTCACCTCCTCATAGCCCTAGGGCTACTCACTCCCCTTTGATGTTCACTCCCCAAGTCCCCGTTGTTCCGTTACAAAGACCTGATGAGATGCAGATCCCAAATCCCTCATGGATGCAGACTTCAGCGTATGAAGACATCTCCTGTGAGCAAGGAATTCCAACCATGATTACGTGGAGCTATGGTGGAAAGGATGTAGCTGTGGAGGGATCATGGGATGATTGGAAGACAAGGTTGGCCTTACAGAGATCAGGGAAGGACTTCACTATTATGAAAGTACTGCCATCCGGTGTTTACCAGTATAGGTTTGTTGTTGATGGGCAGTGGAGGTGTGCTCCAGACTTGCCTTTGGCCCAAGATGATGCTGGAAATTCTTACAACCTTTTGGACTTGCAGGATTATGTTCCAGAAGACATTGGAAGCATTTCTGGTTTTGAACCTCCCCAGTCTCCCGACTCGAGTTATAGCAACATGCAACTTGGATCTGAAGATTTTGCGAAGGAGCCACCATTGGTACCTCCACATCTGCAGATGACGCTGCTCAATGCCCCAGCATCTTACATGGAGATGCCGCCTCCTTTATCAAGACCTCAACATGTTGTACTTAATCATCTATACATGCAGAGAGGGAAGAGTGGCCCATCTGTGGTCGCACTTGGCACAACAGAGAGGTTTATAGCAAAGTATGTGACAGTAGTTCTCTACAAGTCTTTGCAGAGATAA

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

293

Amino Acids

31.64

Weight (kDa)

4.87

Isoelectric Point (pI)

60.34

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
AMPK1_CBM	PF16561	106 - 185	5.8e-32	Glycogen recognition site of AMP-activated protein kinase
AMPKBI	PF04739	218 - 290	2.2e-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

Style Settings

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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: 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)	673
AccB1I	GGYRCC	1 cut(s)	673
AccII	CGCG	1 cut(s)	140
AclWI	GGATC	3 cut(s)	250, 376, 649
AcsI	RAATTY	2 cut(s)	315, 529
AcuI	CTGAAG	2 cut(s)	267, 666
AfaI	GTAC	3 cut(s)	438, 675, 762
AfiI	CCNNNNNNNGG	5 cut(s)	46, 75, 116, 119, 805
AflIII	ACRYGT	1 cut(s)	754
AgsI	TTSAA	1 cut(s)	596
AjnI	CCWGG	1 cut(s)	84
AjuI	GAANNNNNNNTTGG	2 cut(s)	377, 409
AluBI	AGCT	2 cut(s)	339, 359
AluI	AGCT	2 cut(s)	339, 359
Alw21I	GWGCWC	1 cut(s)	496
Alw26I	GTCTC	1 cut(s)	612
AlwI	GGATC	3 cut(s)	250, 376, 649
Ama87I	CYCGRG	1 cut(s)	616
AoxI	GGCC	4 cut(s)	66, 396, 510, 796
ApeKI	GCWGC	1 cut(s)	697
ApoI	RAATTY	2 cut(s)	315, 529
Asp700I	GAANNNNTTC	2 cut(s)	419, 583
Asp718I	GGTACC	1 cut(s)	673
AspA2I	CCTAGG	1 cut(s)	179
AspLEI	GCGC	1 cut(s)	140
AspS9I	GGNCC	3 cut(s)	78, 511, 797
AsuHPI	GGTGA	2 cut(s)	89, 156
AvaI	CYCGRG	1 cut(s)	616
AvaII	GGWCC	1 cut(s)	78
AvrII	CCTAGG	1 cut(s)	179
BanI	GGYRCC	1 cut(s)	673
BbsI	GAAGAC	3 cut(s)	300, 392, 576
Bbv12I	GWGCWC	1 cut(s)	496
BbvI	GCAGC	1 cut(s)	684
BccI	CCATC	6 cut(s)	20, 49, 148, 451, 470, 808
BciT130I	CCWGG	1 cut(s)	86
BcoDI	GTCTC	1 cut(s)	612
BfaI	CTAG	1 cut(s)	180
BfmI	CTRYAG	1 cut(s)	686
BlnI	CCTAGG	1 cut(s)	179
BmcAI	AGTACT	1 cut(s)	438
Bme1390I	CCNGG	1 cut(s)	86
Bme18I	GGWCC	1 cut(s)	78
BmeT110I	CYCGRG	1 cut(s)	616
BmgT120I	GGNCC	3 cut(s)	78, 511, 797
BmiI	GGNNCC	3 cut(s)	79, 663, 675
BmrFI	CCNGG	1 cut(s)	86
BmrI	ACTGGG	1 cut(s)	598
BmsI	GCATC	5 cut(s)	240, 264, 511, 717, 722
BmuI	ACTGGG	1 cut(s)	598
BpiI	GAAGAC	3 cut(s)	300, 392, 576
BplI	GAGNNNNNCTC	2 cut(s)	478, 510
BpmI	CTGGAG	1 cut(s)	480
BsaAI	YACGTR	1 cut(s)	333
BsaBI	GATNNNNATC	1 cut(s)	254
BsaJI	CCNNGG	2 cut(s)	84, 179
BsaWI	WCCGGW	1 cut(s)	446
BsaXI	ACNNNNNCTCC	4 cut(s)	126, 156, 328, 358
Bsc4I	CCNNNNNNNGG	5 cut(s)	46, 75, 116, 119, 805
Bse118I	RCCGGY	1 cut(s)	68
Bse1I	ACTGG	2 cut(s)	457, 604
Bse8I	GATNNNNATC	1 cut(s)	254
BseBI	CCWGG	1 cut(s)	86
BseDI	CCNNGG	2 cut(s)	84, 179
BseGI	GGATG	4 cut(s)	279, 358, 382, 443
BseJI	GATNNNNATC	1 cut(s)	254
BseLI	CCNNNNNNNGG	5 cut(s)	46, 75, 116, 119, 805
BseNI	ACTGG	2 cut(s)	457, 604
BseRI	GAGGAG	1 cut(s)	159
BseXI	GCAGC	1 cut(s)	684
BseYI	CCCAGC	1 cut(s)	709
Bsh1236I	CGCG	1 cut(s)	140
BshFI	GGCC	4 cut(s)	68, 398, 512, 798
BshNI	GGYRCC	1 cut(s)	673
BsiHKAI	GWGCWC	1 cut(s)	496
BsiHKCI	CYCGRG	1 cut(s)	616
BsiSI	CCGG	2 cut(s)	69, 447
BslFI	GGGAC	2 cut(s)	91, 203
BslI	CCNNNNNNNGG	5 cut(s)	46, 75, 116, 119, 805
BsmAI	GTCTC	1 cut(s)	612
BsmFI	GGGAC	2 cut(s)	91, 203
BsnI	GGCC	4 cut(s)	68, 398, 512, 798
BsoBI	CYCGRG	1 cut(s)	616
Bsp1286I	GDGCHC	1 cut(s)	496
Bsp143I	GATC	4 cut(s)	255, 368, 407, 641
BspANI	GGCC	4 cut(s)	68, 398, 512, 798
BspFNI	CGCG	1 cut(s)	140
BspLI	GGNNCC	3 cut(s)	79, 663, 675
BspMAI	CTGCAG	1 cut(s)	690
BspPI	GGATC	3 cut(s)	250, 376, 649
BspT107I	GGYRCC	1 cut(s)	673
BsrFI	RCCGGY	1 cut(s)	68
BsrI	ACTGG	2 cut(s)	457, 604
BssAI	RCCGGY	1 cut(s)	68
BssECI	CCNNGG	2 cut(s)	84, 179
BssMI	GATC	4 cut(s)	255, 368, 407, 641
BssT1I	CCWWGG	1 cut(s)	179
Bst2UI	CCWGG	1 cut(s)	86
Bst4CI	ACNGT	1 cut(s)	853
Bst6I	CTCTTC	2 cut(s)	57, 785
BstBAI	YACGTR	1 cut(s)	333
BstF5I	GGATG	4 cut(s)	279, 358, 382, 443
BstFNI	CGCG	1 cut(s)	140
BstHHI	GCGC	1 cut(s)	140
BstKTI	GATC	4 cut(s)	258, 371, 410, 644
BstMAI	GTCTC	1 cut(s)	612
BstMBI	GATC	4 cut(s)	255, 368, 407, 641
BstMWI	GCNNNNNNNGC	6 cut(s)	36, 53, 126, 129, 135, 694
BstNI	CCWGG	1 cut(s)	86
BstNSI	RCATGY	3 cut(s)	634, 758, 781
BstSCI	CCNGG	1 cut(s)	84
BstSFI	CTRYAG	1 cut(s)	686
BstUI	CGCG	1 cut(s)	140
BstV1I	GCAGC	1 cut(s)	684
BstV2I	GAAGAC	3 cut(s)	300, 392, 576
BstX2I	RGATCY	2 cut(s)	255, 641
BstYI	RGATCY	2 cut(s)	255, 641
BsuRI	GGCC	4 cut(s)	68, 398, 512, 798
BtsCI	GGATG	4 cut(s)	279, 358, 382, 443
BtsI	GCAGTG	1 cut(s)	488
BtsIMutI	CAGTG	1 cut(s)	488
CfoI	GCGC	1 cut(s)	140
Cfr10I	RCCGGY	1 cut(s)	68
Cfr13I	GGNCC	3 cut(s)	78, 511, 797
CseI	GACGC	1 cut(s)	703
Csp6I	GTAC	3 cut(s)	437, 674, 761
CviAII	CATG	7 cut(s)	270, 325, 372, 631, 721, 755, 778
CviQI	GTAC	3 cut(s)	437, 674, 761
DpnI	GATC	4 cut(s)	257, 370, 409, 643
DpnII	GATC	4 cut(s)	255, 368, 407, 641
Eam1104I	CTCTTC	2 cut(s)	57, 785
EarI	CTCTTC	2 cut(s)	57, 785
EciI	GGCGGA	3 cut(s)	48, 96, 147
Eco130I	CCWWGG	1 cut(s)	179
Eco47I	GGWCC	1 cut(s)	78
Eco57I	CTGAAG	2 cut(s)	267, 666
Eco88I	CYCGRG	1 cut(s)	616
EcoO109I	RGGNCCY	1 cut(s)	78
EcoRI	GAATTC	1 cut(s)	315
EcoRII	CCWGG	1 cut(s)	84
EcoT14I	CCWWGG	1 cut(s)	179
ErhI	CCWWGG	1 cut(s)	179
FaeI	CATG	7 cut(s)	273, 328, 375, 634, 724, 758, 781
FaqI	GGGAC	2 cut(s)	91, 203
FatI	CATG	7 cut(s)	269, 324, 371, 630, 720, 754, 777
FauI	CCCGC	1 cut(s)	68
FokI	GGATG	4 cut(s)	286, 365, 389, 430
FspBI	CTAG	1 cut(s)	180
GlaI	GCGC	1 cut(s)	139
GsaI	CCCAGC	1 cut(s)	713
GsuI	CTGGAG	1 cut(s)	480
HaeIII	GGCC	4 cut(s)	68, 398, 512, 798
HapII	CCGG	2 cut(s)	69, 447
HgaI	GACGC	1 cut(s)	703
HhaI	GCGC	1 cut(s)	140
Hin1II	CATG	7 cut(s)	273, 328, 375, 634, 724, 758, 781
Hin6I	GCGC	1 cut(s)	138
HinP1I	GCGC	1 cut(s)	138
HinfI	GANTC	1 cut(s)	614
HpaII	CCGG	2 cut(s)	69, 447
HphI	GGTGA	2 cut(s)	89, 156
Hpy166II	GTNNAC	2 cut(s)	207, 454
Hpy188I	TCNGA	1 cut(s)	646
Hpy188III	TCNNGA	4 cut(s)	497, 566, 611, 744
Hpy8I	GTNNAC	2 cut(s)	207, 454
HpyAV	CCTTC	3 cut(s)	113, 409, 652
HpyCH4III	ACNGT	1 cut(s)	853
HpyCH4IV	ACGT	1 cut(s)	332
HpyCH4V	TGCA	7 cut(s)	253, 277, 553, 634, 688, 781, 874
HpyF10VI	GCNNNNNNNGC	6 cut(s)	36, 53, 126, 129, 135, 694
HpySE526I	ACGT	1 cut(s)	332
Hsp92II	CATG	7 cut(s)	273, 328, 375, 634, 724, 758, 781
HspAI	GCGC	1 cut(s)	138
KpnI	GGTACC	1 cut(s)	677
Kzo9I	GATC	4 cut(s)	255, 368, 407, 641
LmnI	GCTCC	3 cut(s)	336, 499, 661
Lsp1109I	GCAGC	1 cut(s)	684
LweI	GCATC	5 cut(s)	240, 264, 511, 717, 722
MaeI	CTAG	1 cut(s)	180
MaeII	ACGT	1 cut(s)	332
MaeIII	GTNAC	3 cut(s)	162, 231, 847
MalI	GATC	4 cut(s)	257, 370, 409, 643
MboI	GATC	4 cut(s)	255, 368, 407, 641
MboII	GAAGA	7 cut(s)	35, 74, 305, 397, 581, 659, 802
MflI	RGATCY	2 cut(s)	255, 641
MhlI	GDGCHC	1 cut(s)	496
MluCI	AATT	3 cut(s)	149, 315, 529
MlyI	GAGTC	1 cut(s)	608
MmeI	TCCRAC	1 cut(s)	344
MroXI	GAANNNNTTC	2 cut(s)	419, 583
MseI	TTAA	1 cut(s)	765
MslI	CAYNNNNRTG	2 cut(s)	428, 725
MspI	CCGG	2 cut(s)	69, 447
MspR9I	CCNGG	1 cut(s)	86
MvaI	CCWGG	1 cut(s)	86
MvnI	CGCG	1 cut(s)	140
MwoI	GCNNNNNNNGC	6 cut(s)	36, 53, 126, 129, 135, 694
NdeII	GATC	4 cut(s)	255, 368, 407, 641
NlaIII	CATG	7 cut(s)	273, 328, 375, 634, 724, 758, 781
NlaIV	GGNNCC	3 cut(s)	79, 663, 675
NmuCI	GTSAC	2 cut(s)	162, 847
NspI	RCATGY	3 cut(s)	634, 758, 781
PaeR7I	CTCGAG	1 cut(s)	616
PciI	ACATGT	1 cut(s)	754
PdmI	GAANNNNTTC	2 cut(s)	419, 583
PleI	GAGTC	1 cut(s)	608
PpsI	GAGTC	1 cut(s)	608
Ppu21I	YACGTR	1 cut(s)	333
PpuMI	RGGWCCY	1 cut(s)	78
PscI	ACATGT	1 cut(s)	754
Psp5II	RGGWCCY	1 cut(s)	78
Psp6I	CCWGG	1 cut(s)	84
PspFI	CCCAGC	1 cut(s)	709
PspGI	CCWGG	1 cut(s)	84
PspN4I	GGNNCC	3 cut(s)	79, 663, 675
PspPI	GGNCC	3 cut(s)	78, 511, 797
PspPPI	RGGWCCY	1 cut(s)	78
PspXI	VCTCGAGB	1 cut(s)	616
PstI	CTGCAG	1 cut(s)	690
PsuI	RGATCY	2 cut(s)	255, 641
RsaI	GTAC	3 cut(s)	438, 675, 762
RsaNI	GTAC	3 cut(s)	437, 674, 761
RseI	CAYNNNNRTG	2 cut(s)	428, 725
SaqAI	TTAA	1 cut(s)	765
Sau3AI	GATC	4 cut(s)	255, 368, 407, 641
Sau96I	GGNCC	3 cut(s)	78, 511, 797
ScaI	AGTACT	1 cut(s)	438
SchI	GAGTC	1 cut(s)	608
ScrFI	CCNGG	1 cut(s)	86
SduI	GDGCHC	1 cut(s)	496
SfaNI	GCATC	5 cut(s)	240, 264, 511, 717, 722
SfcI	CTRYAG	1 cut(s)	686
Sfr274I	CTCGAG	1 cut(s)	616
SinI	GGWCC	1 cut(s)	78
SlaI	CTCGAG	1 cut(s)	616
SmiMI	CAYNNNNRTG	2 cut(s)	428, 725
SmlI	CTYRAG	1 cut(s)	616
SmoI	CTYRAG	1 cut(s)	616
Sse9I	AATT	3 cut(s)	149, 315, 529
SspMI	CTAG	1 cut(s)	180
StyD4I	CCNGG	1 cut(s)	84
StyI	CCWWGG	1 cut(s)	179
TaaI	ACNGT	1 cut(s)	853
TaiI	ACGT	1 cut(s)	335
TaqI	TCGA	1 cut(s)	617
TasI	AATT	3 cut(s)	149, 315, 529
TatI	WGTACW	2 cut(s)	436, 760
TauI	GCSGC	9 cut(s)	33, 50, 53, 56, 123, 126, 129, 132, 733
Tru1I	TTAA	1 cut(s)	765
Tru9I	TTAA	1 cut(s)	765
TscAI	CASTG	1 cut(s)	488
TseFI	GTSAC	2 cut(s)	162, 847
TseI	GCWGC	1 cut(s)	697
Tsp45I	GTSAC	2 cut(s)	162, 847
TspDTI	ATGAA	2 cut(s)	306, 446
TspGWI	ACGGA	1 cut(s)	219
TspRI	CASTG	1 cut(s)	488
VpaK11BI	GGWCC	1 cut(s)	78
XapI	RAATTY	2 cut(s)	315, 529
XceI	RCATGY	3 cut(s)	634, 758, 781
XcmI	CCANNNNNNNNNTGG	2 cut(s)	267, 521
XhoI	CTCGAG	1 cut(s)	616
XmaJI	CCTAGG	1 cut(s)	179
XmnI	GAANNNNTTC	2 cut(s)	419, 583
XspI	CTAG	1 cut(s)	180
ZrmI	AGTACT	1 cut(s)	438

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