Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr4

Orthogroup ID

OG0004315

Physical Location & Seq

Genomic Coordinates Reverse (-)

27826623 .. 27832144

Gene Structure 5522 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000018276

Sequence Viewer

CDS Protein Promoter (2k)

Length: 765 bp

ATGCACCACACAAGCCCTCCCTCTCCACCCCATGTCCACCCTCTTCTCCACCCCCTCCCAAACCCGCCTTCAAATATTACTTTTGTAGGTTCATCAGTGGAATCTGGAAACTTTTATGCTCATTTTGATGAATATCTTGTTCTGAAGAGTAAGTCCCAAGAGATTGAGCCATACTTAAACGGGCGCTGTATATATCTTGTTGGTAAGTCTATTTTGTCACAGGCACTTAATTATTCATTTATTGATAGTGATACATTCGTGGAGCATGAGGCAGGTGGAAAATCTGTAGCTGAAATTTTCAAACTCTATGGAGAGGGTTTCTTTAGAGAAAAGGAGACCGAGGCCCTACGAAAACTGTCTATGATGCAACGTCATGTTGTCTCTACTGGCGGAGGTGCAGTAATTCGGCCGGTGAACTGGAAATGTATGCGGAAGGGGATTAGCGTGTGGTTAGATGTACCCTTGGAAGCCTCGGCCCAGAGAATTGCAGACGTGGGAACTGGTTCTCGTCCCCTTTTGCATCAAGGGCCCGGGGATGCGTACAGTGAAACATTTATGCGTCTATCGAGTCTTTTCGAAGAGAGAGGTGATGCATATGCCAATGCCAGTGCTCGGGTTTCTTTGGAAACCAAAATGGGTTATAGAGATGTATCCAATCTCTCGCCTACATCTATTGCTCTTAAGGTTTCCCCGCTTTCTCTTACTCTCAATTTTAGATTCCTAGATGATAGATGTAAACTGAAGGGATCCTTAAAAAAAGAATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000287 GO:0003674 GO:0003824 GO:0004765 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0006082 GO:0006520 GO:0006725 GO:0006793 GO:0006796 GO:0006807 GO:0008150 GO:0008152 GO:0008652 GO:0009058 GO:0009072 GO:0009073 GO:0009507 GO:0009536 GO:0009987 GO:0016053 GO:0016301 GO:0016310 GO:0016740 GO:0016772 GO:0016773 GO:0019438 GO:0019632 GO:0019752 GO:0032787 GO:0043167 GO:0043169 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043436 GO:0044237 GO:0044238 GO:0044249 GO:0044281 GO:0044283 GO:0044424 GO:0044444 GO:0044464 GO:0046394 GO:0046872 GO:0071704 GO:1901360 GO:1901362 GO:1901564 GO:1901566 GO:1901576 GO:1901615

KEGG Pathways

Metabolic & Signaling

ko00400 ko01100 ko01110 ko01130 ko01230 map00400 map01100 map01110 map01130 map01230

Pfam Domains

Protein Families

SKI

Protein Analysis

255

Amino Acids

28.19

Weight (kDa)

8.35

Isoelectric Point (pI)

37.53

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
SKI	PF01202	71 - 211	2.7e-34	Shikimate kinase

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

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0004315)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G21940 AT2G21940 AT2G21940 AT2G21940 AT2G21940 AT2G21940 AT2G21940 AT4G39540 AT4G39540 AT4G39540
malus_domestica	MD01G1019500.v1.1 MD15G1332900.v1.1
prunus_persica	Prupe.6G172800_v2.0.a1 Prupe.6G172800_v2.0.a1
pyrus_communis	pycom01g04900 pycom15g29260
rosa_chinensis	RchiOBHm_Chr2g0116491 RchiOBHm_Chr2g0116501 RchiOBHm_Chr2g0116521 RchiOBHm_Chr6g0259311
rosa_laevigata	RLG00000018276 RLG00000018279
rosa_multiflora	Rmu_sc0004191.1_g000047 Rmu_sc0018630.1_g000001 Rmu_ssc0000050.1_g000062
rosa_roxburghii	Rroxscaffold_2G00127140 Rroxscaffold_2G00127150
rosa_rugosa	Rorug02G0207100 Rorug05G0587200
rosa_samantha	Rh2CG268700
rosa_wichuraiana	Rw2G020620 Rw2G020630

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	263
Acc36I	ACCTGC	1 cut(s)	263
AciI	CCGC	4 cut(s)	65, 390, 430, 692
AclWI	GGATC	2 cut(s)	741, 754
AcoI	YGGCCR	1 cut(s)	407
AcsI	RAATTY	1 cut(s)	294
AcuI	CTGAAG	2 cut(s)	164, 761
AfaI	GTAC	2 cut(s)	459, 542
AfiI	CCNNNNNNNGG	1 cut(s)	612
AflII	CTTAAG	1 cut(s)	680
AgsI	TTSAA	2 cut(s)	72, 301
AjiI	CACGTC	1 cut(s)	493
AjuI	GAANNNNNNNTTGG	2 cut(s)	52, 84
AluBI	AGCT	1 cut(s)	290
AluI	AGCT	1 cut(s)	290
Alw21I	GWGCWC	1 cut(s)	613
Alw26I	GTCTC	2 cut(s)	329, 385
AlwI	GGATC	2 cut(s)	741, 754
Ama87I	CYCGRG	2 cut(s)	530, 612
AoxI	GGCC	4 cut(s)	342, 407, 474, 527
ApaI	GGGCCC	1 cut(s)	531
ApoI	RAATTY	1 cut(s)	294
Asp700I	GAANNNNTTC	1 cut(s)	502
AspLEI	GCGC	1 cut(s)	186
AspS9I	GGNCC	4 cut(s)	343, 475, 527, 528
AsuC2I	CCSGG	2 cut(s)	531, 532
AsuHPI	GGTGA	2 cut(s)	424, 599
AsuII	TTCGAA	1 cut(s)	576
AvaI	CYCGRG	2 cut(s)	530, 612
BaeGI	GKGCMC	1 cut(s)	531
BaeI	ACNNNNGTAYC	2 cut(s)	243, 276
BamHI	GGATCC	1 cut(s)	746
BanII	GRGCYC	1 cut(s)	531
Bbv12I	GWGCWC	1 cut(s)	613
BciVI	GTATCC	1 cut(s)	661
BcnI	CCSGG	2 cut(s)	531, 532
BcoDI	GTCTC	2 cut(s)	329, 385
BfaI	CTAG	1 cut(s)	722
BfmI	CTRYAG	1 cut(s)	285
BfoI	RGCGCY	1 cut(s)	187
BfrI	CTTAAG	1 cut(s)	680
BfuAI	ACCTGC	1 cut(s)	263
BfuI	GTATCC	1 cut(s)	661
Bme1390I	CCNGG	2 cut(s)	531, 532
BmeT110I	CYCGRG	2 cut(s)	530, 612
BmgBI	CACGTC	1 cut(s)	493
BmgT120I	GGNCC	4 cut(s)	343, 475, 527, 528
BmiI	GGNNCC	2 cut(s)	529, 748
BmrFI	CCNGG	2 cut(s)	531, 532
BmsI	GCATC	4 cut(s)	354, 526, 529, 580
Bpu14I	TTCGAA	1 cut(s)	576
BpuMI	CCSGG	2 cut(s)	531, 532
BsaBI	GATNNNNATC	1 cut(s)	132
BsaI	GGTCTC	1 cut(s)	329
BsaJI	CCNNGG	5 cut(s)	339, 462, 471, 530, 531
BsaXI	ACNNNNNCTCC	3 cut(s)	31, 384, 414
Bsc4I	CCNNNNNNNGG	1 cut(s)	612
Bse118I	RCCGGY	1 cut(s)	409
Bse1I	ACTGG	4 cut(s)	391, 422, 505, 606
Bse8I	GATNNNNATC	1 cut(s)	132
BseDI	CCNNGG	5 cut(s)	339, 462, 471, 530, 531
BseGI	GGATG	1 cut(s)	541
BseJI	GATNNNNATC	1 cut(s)	132
BseLI	CCNNNNNNNGG	1 cut(s)	612
BseNI	ACTGG	4 cut(s)	391, 422, 505, 606
BseSI	GKGCMC	1 cut(s)	531
BseX3I	CGGCCG	1 cut(s)	407
BsgI	GTGCAG	1 cut(s)	417
Bsh1285I	CGRYCG	1 cut(s)	410
BshFI	GGCC	4 cut(s)	344, 409, 476, 529
BsiEI	CGRYCG	1 cut(s)	410
BsiHKAI	GWGCWC	1 cut(s)	613
BsiHKCI	CYCGRG	2 cut(s)	530, 612
BsiSI	CCGG	2 cut(s)	410, 531
BslFI	GGGAC	2 cut(s)	139, 495
BslI	CCNNNNNNNGG	1 cut(s)	612
BsmAI	GTCTC	2 cut(s)	329, 385
BsmFI	GGGAC	2 cut(s)	139, 495
BsnI	GGCC	4 cut(s)	344, 409, 476, 529
Bso31I	GGTCTC	1 cut(s)	329
BsoBI	CYCGRG	2 cut(s)	530, 612
Bsp119I	TTCGAA	1 cut(s)	576
Bsp120I	GGGCCC	1 cut(s)	527
Bsp1286I	GDGCHC	2 cut(s)	531, 613
Bsp143I	GATC	1 cut(s)	746
BspACI	CCGC	4 cut(s)	65, 390, 430, 692
BspANI	GGCC	4 cut(s)	344, 409, 476, 529
BspLI	GGNNCC	2 cut(s)	529, 748
BspMI	ACCTGC	1 cut(s)	263
BspPI	GGATC	2 cut(s)	741, 754
BspT104I	TTCGAA	1 cut(s)	576
BspTI	CTTAAG	1 cut(s)	680
BspTNI	GGTCTC	1 cut(s)	329
BsrFI	RCCGGY	1 cut(s)	409
BsrI	ACTGG	4 cut(s)	391, 422, 505, 606
BssAI	RCCGGY	1 cut(s)	409
BssECI	CCNNGG	5 cut(s)	339, 462, 471, 530, 531
BssMI	GATC	1 cut(s)	746
BssT1I	CCWWGG	1 cut(s)	462
Bst4CI	ACNGT	2 cut(s)	357, 545
Bst6I	CTCTTC	3 cut(s)	48, 140, 573
BstAFI	CTTAAG	1 cut(s)	680
BstBI	TTCGAA	1 cut(s)	576
BstF5I	GGATG	1 cut(s)	541
BstH2I	RGCGCY	1 cut(s)	187
BstHHI	GCGC	1 cut(s)	186
BstKTI	GATC	1 cut(s)	749
BstMAI	GTCTC	2 cut(s)	329, 385
BstMBI	GATC	1 cut(s)	746
BstMCI	CGRYCG	1 cut(s)	410
BstMWI	GCNNNNNNNGC	1 cut(s)	526
BstSCI	CCNGG	2 cut(s)	529, 530
BstSFI	CTRYAG	1 cut(s)	285
BstSLI	GKGCMC	1 cut(s)	531
BstX2I	RGATCY	1 cut(s)	746
BstYI	RGATCY	1 cut(s)	746
BstZI	CGGCCG	1 cut(s)	407
BsuI	GTATCC	1 cut(s)	661
BsuRI	GGCC	4 cut(s)	344, 409, 476, 529
BtrI	CACGTC	1 cut(s)	493
BtsCI	GGATG	1 cut(s)	541
BtsIMutI	CAGTG	3 cut(s)	102, 550, 613
BveI	ACCTGC	1 cut(s)	263
CfoI	GCGC	1 cut(s)	186
Cfr10I	RCCGGY	1 cut(s)	409
Cfr13I	GGNCC	4 cut(s)	343, 475, 527, 528
Cfr9I	CCCGGG	1 cut(s)	530
CseI	GACGC	1 cut(s)	548
Csp6I	GTAC	2 cut(s)	458, 541
CviAII	CATG	3 cut(s)	32, 266, 374
CviJI	RGCY	8 cut(s)	15, 169, 290, 344, 409, 470, 476, 529
CviKI_1	RGCY	8 cut(s)	15, 169, 290, 344, 409, 470, 476, 529
CviQI	GTAC	2 cut(s)	458, 541
DpnI	GATC	1 cut(s)	748
DpnII	GATC	1 cut(s)	746
EaeI	YGGCCR	1 cut(s)	407
EagI	CGGCCG	1 cut(s)	407
Eam1104I	CTCTTC	3 cut(s)	48, 140, 573
EarI	CTCTTC	3 cut(s)	48, 140, 573
EciI	GGCGGA	1 cut(s)	405
EclXI	CGGCCG	1 cut(s)	407
Eco130I	CCWWGG	1 cut(s)	462
Eco24I	GRGCYC	1 cut(s)	531
Eco31I	GGTCTC	1 cut(s)	329
Eco52I	CGGCCG	1 cut(s)	407
Eco57I	CTGAAG	2 cut(s)	164, 761
Eco88I	CYCGRG	2 cut(s)	530, 612
EcoO109I	RGGNCCY	2 cut(s)	343, 527
EcoT14I	CCWWGG	1 cut(s)	462
EcoT22I	ATGCAT	1 cut(s)	595
EcoT38I	GRGCYC	1 cut(s)	531
ErhI	CCWWGG	1 cut(s)	462
FaeI	CATG	3 cut(s)	35, 269, 377
FalI	AAGNNNNNCTT	1 cut(s)	734
FaqI	GGGAC	2 cut(s)	139, 495
FatI	CATG	3 cut(s)	31, 265, 373
FauI	CCCGC	2 cut(s)	72, 699
FauNDI	CATATG	1 cut(s)	595
FokI	GGATG	1 cut(s)	548
FriOI	GRGCYC	1 cut(s)	531
FspBI	CTAG	1 cut(s)	722
GlaI	GCGC	1 cut(s)	185
HaeII	RGCGCY	1 cut(s)	187
HaeIII	GGCC	4 cut(s)	344, 409, 476, 529
HapII	CCGG	2 cut(s)	410, 531
HgaI	GACGC	1 cut(s)	548
HhaI	GCGC	1 cut(s)	186
Hin1II	CATG	3 cut(s)	35, 269, 377
Hin6I	GCGC	1 cut(s)	184
HinP1I	GCGC	1 cut(s)	184
HinfI	GANTC	3 cut(s)	101, 568, 717
HpaII	CCGG	2 cut(s)	410, 531
HphI	GGTGA	2 cut(s)	424, 599
Hpy166II	GTNNAC	3 cut(s)	37, 415, 737
Hpy188I	TCNGA	1 cut(s)	144
Hpy188III	TCNNGA	1 cut(s)	105
Hpy8I	GTNNAC	3 cut(s)	37, 415, 737
HpyAV	CCTTC	3 cut(s)	78, 427, 736
HpyCH4III	ACNGT	2 cut(s)	357, 545
HpyCH4IV	ACGT	2 cut(s)	370, 492
HpyCH4V	TGCA	6 cut(s)	4, 367, 398, 488, 520, 593
HpyF10VI	GCNNNNNNNGC	1 cut(s)	526
HpySE526I	ACGT	2 cut(s)	370, 492
Hsp92II	CATG	3 cut(s)	35, 269, 377
HspAI	GCGC	1 cut(s)	184
Kzo9I	GATC	1 cut(s)	746
LmnI	GCTCC	1 cut(s)	262
LweI	GCATC	4 cut(s)	354, 526, 529, 580
MaeI	CTAG	1 cut(s)	722
MaeII	ACGT	2 cut(s)	370, 492
MaeIII	GTNAC	1 cut(s)	216
MalI	GATC	1 cut(s)	748
MboI	GATC	1 cut(s)	746
MboII	GAAGA	3 cut(s)	35, 157, 590
MflI	RGATCY	1 cut(s)	746
MhlI	GDGCHC	2 cut(s)	531, 613
MluCI	AATT	5 cut(s)	229, 294, 402, 483, 709
MlyI	GAGTC	1 cut(s)	577
Mph1103I	ATGCAT	1 cut(s)	595
MroXI	GAANNNNTTC	1 cut(s)	502
MseI	TTAA	4 cut(s)	176, 228, 681, 752
MslI	CAYNNNNRTG	1 cut(s)	126
MspCI	CTTAAG	1 cut(s)	680
MspI	CCGG	2 cut(s)	410, 531
MspR9I	CCNGG	2 cut(s)	531, 532
MwoI	GCNNNNNNNGC	1 cut(s)	526
NciI	CCSGG	2 cut(s)	531, 532
NdeI	CATATG	1 cut(s)	595
NdeII	GATC	1 cut(s)	746
NlaIII	CATG	3 cut(s)	35, 269, 377
NlaIV	GGNNCC	2 cut(s)	529, 748
NmeAIII	GCCGAG	1 cut(s)	452
NmuCI	GTSAC	1 cut(s)	216
NsiI	ATGCAT	1 cut(s)	595
NspV	TTCGAA	1 cut(s)	576
PaqCI	CACCTGC	1 cut(s)	263
PdmI	GAANNNNTTC	1 cut(s)	502
PfeI	GAWTC	2 cut(s)	101, 717
PleI	GAGTC	1 cut(s)	576
PpsI	GAGTC	1 cut(s)	576
PspN4I	GGNNCC	2 cut(s)	529, 748
PspOMI	GGGCCC	1 cut(s)	527
PspPI	GGNCC	4 cut(s)	343, 475, 527, 528
PsuI	RGATCY	1 cut(s)	746
RsaI	GTAC	2 cut(s)	459, 542
RsaNI	GTAC	2 cut(s)	458, 541
RseI	CAYNNNNRTG	1 cut(s)	126
SaqAI	TTAA	4 cut(s)	176, 228, 681, 752
Sau3AI	GATC	1 cut(s)	746
Sau96I	GGNCC	4 cut(s)	343, 475, 527, 528
SchI	GAGTC	1 cut(s)	577
ScrFI	CCNGG	2 cut(s)	531, 532
SduI	GDGCHC	2 cut(s)	531, 613
SetI	ASST	8 cut(s)	91, 277, 292, 373, 397, 495, 589, 687
SfaNI	GCATC	4 cut(s)	354, 526, 529, 580
SfcI	CTRYAG	1 cut(s)	285
SfuI	TTCGAA	1 cut(s)	576
SmaI	CCCGGG	1 cut(s)	532
SmiMI	CAYNNNNRTG	1 cut(s)	126
SmlI	CTYRAG	1 cut(s)	680
SmoI	CTYRAG	1 cut(s)	680
Sse9I	AATT	5 cut(s)	229, 294, 402, 483, 709
SsiI	CCGC	4 cut(s)	65, 390, 430, 692
SspI	AATATT	1 cut(s)	76
SspMI	CTAG	1 cut(s)	722
StyD4I	CCNGG	2 cut(s)	529, 530
StyI	CCWWGG	1 cut(s)	462
TaaI	ACNGT	2 cut(s)	357, 545
TaiI	ACGT	2 cut(s)	373, 495
TaqI	TCGA	2 cut(s)	566, 576
TaqII	GACCGA	1 cut(s)	353
TasI	AATT	5 cut(s)	229, 294, 402, 483, 709
TfiI	GAWTC	2 cut(s)	101, 717
Tru1I	TTAA	4 cut(s)	176, 228, 681, 752
Tru9I	TTAA	4 cut(s)	176, 228, 681, 752
TscAI	CASTG	3 cut(s)	102, 550, 613
TseFI	GTSAC	1 cut(s)	216
Tsp45I	GTSAC	1 cut(s)	216
TspDTI	ATGAA	3 cut(s)	81, 144, 225
TspMI	CCCGGG	1 cut(s)	530
TspRI	CASTG	3 cut(s)	102, 550, 613
Vha464I	CTTAAG	1 cut(s)	680
XapI	RAATTY	1 cut(s)	294
XmaI	CCCGGG	1 cut(s)	530
XmnI	GAANNNNTTC	1 cut(s)	502
XspI	CTAG	1 cut(s)	722
Zsp2I	ATGCAT	1 cut(s)	595

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