Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000002

Orthogroup ID

OG0004315

Physical Location & Seq

Genomic Coordinates Forward (+)

62612888 .. 62622116

Gene Structure 9229 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_2G00127150.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 675 bp

ATGATGGGCTCTGGGAAAACAACTGTTGGCAAGATTTTGTCACAGGCACTTAATTATTCATTTATTGATAGTGATACATTCGTGGAGCATGAGGCAGGTGGAAAATCTGTAGCTGAAATTTTCAAACTCTATGGAGAGGGTTTCTTTAGAGACAAGGAGACCGAGGCCCTACGAAAACTGTCTATGATGCAACGTCATGTTGTCTCTACTGGCGGAGGTGCAGTAGTTCGGCCGGTCAACTGGAAATGTATGCAGAAGGGGATTAGTGTATGGTTAGATGTACCCTTGGAAGCCTTGGCCCAGAAAATTGCAGACGTGGGAACTGGTTCTCGTCCCCTTTTGCATCAAGGGCCCGGGGATGTGTACAGTAAAACATTTGTGTGTCTATCTAATCTTTTCAGAGAGAGAGGTGATGCATATGCCAATGCCAATGCTCGGGTTTCTTTGGAAAGTAAGTGCGCTTTGTACGTGGCCCTTTCTTGTTATCACATAAAACAGAAGAGATCATGTTTAGATCTTTATGATATTGCAGCCAAAATGGGTTATAGGGATGTATCGAATCTCTCGCCTACATCTATTGCTCTTGAGAGAGAGGTGCAGCACACGTTCTCCGGACAAGCATGCAGCAGACAACATATTCCGGACAAGGTCATGTCAATCCCATACTTCTCCTAA

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

224

Amino Acids

24.74

Weight (kDa)

8.84

Isoelectric Point (pI)

37.05

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
AAA_18	PF13238	1 - 107	3.1e-06	AAA domain
SKI	PF01202	2 - 152	4.3e-41	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)	86
Acc36I	ACCTGC	1 cut(s)	86
AccIII	TCCGGA	2 cut(s)	611, 640
AciI	CCGC	1 cut(s)	213
AcoI	YGGCCR	1 cut(s)	230
AcsI	RAATTY	1 cut(s)	117
AfaI	GTAC	3 cut(s)	282, 365, 467
AfiI	CCNNNNNNNGG	1 cut(s)	435
AflIII	ACRYGT	1 cut(s)	603
AgsI	TTSAA	1 cut(s)	124
AjiI	CACGTC	1 cut(s)	316
AluBI	AGCT	1 cut(s)	113
AluI	AGCT	1 cut(s)	113
Alw26I	GTCTC	3 cut(s)	144, 152, 208
Ama87I	CYCGRG	2 cut(s)	353, 435
Aor13HI	TCCGGA	2 cut(s)	611, 640
AoxI	GGCC	5 cut(s)	165, 230, 297, 350, 471
ApaI	GGGCCC	1 cut(s)	354
ApeKI	GCWGC	3 cut(s)	530, 598, 624
ApoI	RAATTY	1 cut(s)	117
Asp700I	GAANNNNTTC	1 cut(s)	325
AspLEI	GCGC	1 cut(s)	461
AspS9I	GGNCC	5 cut(s)	166, 298, 350, 351, 472
AsuC2I	CCSGG	2 cut(s)	354, 355
AsuHPI	GGTGA	1 cut(s)	422
AvaI	CYCGRG	2 cut(s)	353, 435
BaeGI	GKGCMC	1 cut(s)	354
BaeI	ACNNNNGTAYC	2 cut(s)	66, 99
BanII	GRGCYC	2 cut(s)	11, 354
BbvI	GCAGC	3 cut(s)	542, 610, 636
BcnI	CCSGG	2 cut(s)	354, 355
BcoDI	GTCTC	3 cut(s)	144, 152, 208
BfmI	CTRYAG	1 cut(s)	108
BfuAI	ACCTGC	1 cut(s)	86
BglII	AGATCT	1 cut(s)	514
BisI	GCNGC	3 cut(s)	531, 599, 625
BlsI	GCNGC	3 cut(s)	532, 600, 626
Bme1390I	CCNGG	2 cut(s)	354, 355
BmeT110I	CYCGRG	2 cut(s)	353, 435
BmgBI	CACGTC	1 cut(s)	316
BmgT120I	GGNCC	5 cut(s)	166, 298, 350, 351, 472
BmiI	GGNNCC	1 cut(s)	352
BmrFI	CCNGG	2 cut(s)	354, 355
BmsI	GCATC	3 cut(s)	177, 352, 403
BpuEI	CTTGAG	1 cut(s)	605
BpuMI	CCSGG	2 cut(s)	354, 355
BsaAI	YACGTR	1 cut(s)	469
BsaI	GGTCTC	1 cut(s)	152
BsaJI	CCNNGG	5 cut(s)	162, 285, 294, 353, 354
BsaWI	WCCGGW	2 cut(s)	611, 640
BsaXI	ACNNNNNCTCC	4 cut(s)	207, 237, 593, 623
Bsc4I	CCNNNNNNNGG	1 cut(s)	435
Bse118I	RCCGGY	1 cut(s)	232
Bse1I	ACTGG	3 cut(s)	214, 245, 328
BseAI	TCCGGA	2 cut(s)	611, 640
BseDI	CCNNGG	5 cut(s)	162, 285, 294, 353, 354
BseGI	GGATG	2 cut(s)	364, 556
BseLI	CCNNNNNNNGG	1 cut(s)	435
BseNI	ACTGG	3 cut(s)	214, 245, 328
BseSI	GKGCMC	1 cut(s)	354
BseX3I	CGGCCG	1 cut(s)	230
BseXI	GCAGC	3 cut(s)	542, 610, 636
BsgI	GTGCAG	2 cut(s)	240, 617
Bsh1285I	CGRYCG	1 cut(s)	233
BshFI	GGCC	5 cut(s)	167, 232, 299, 352, 473
BsiEI	CGRYCG	1 cut(s)	233
BsiHKCI	CYCGRG	2 cut(s)	353, 435
BsiSI	CCGG	4 cut(s)	233, 354, 612, 641
BslFI	GGGAC	1 cut(s)	318
BslI	CCNNNNNNNGG	1 cut(s)	435
BsmAI	GTCTC	3 cut(s)	144, 152, 208
BsmFI	GGGAC	1 cut(s)	318
BsnI	GGCC	5 cut(s)	167, 232, 299, 352, 473
Bso31I	GGTCTC	1 cut(s)	152
BsoBI	CYCGRG	2 cut(s)	353, 435
Bsp120I	GGGCCC	1 cut(s)	350
Bsp1286I	GDGCHC	2 cut(s)	11, 354
Bsp13I	TCCGGA	2 cut(s)	611, 640
Bsp1407I	TGTACA	1 cut(s)	363
Bsp143I	GATC	2 cut(s)	503, 514
BspACI	CCGC	1 cut(s)	213
BspANI	GGCC	5 cut(s)	167, 232, 299, 352, 473
BspEI	TCCGGA	2 cut(s)	611, 640
BspLI	GGNNCC	1 cut(s)	352
BspMI	ACCTGC	1 cut(s)	86
BspTNI	GGTCTC	1 cut(s)	152
BsrFI	RCCGGY	1 cut(s)	232
BsrGI	TGTACA	1 cut(s)	363
BsrI	ACTGG	3 cut(s)	214, 245, 328
BssAI	RCCGGY	1 cut(s)	232
BssECI	CCNNGG	5 cut(s)	162, 285, 294, 353, 354
BssMI	GATC	2 cut(s)	503, 514
BssT1I	CCWWGG	2 cut(s)	285, 294
Bst4CI	ACNGT	3 cut(s)	25, 180, 368
Bst6I	CTCTTC	1 cut(s)	494
BstAUI	TGTACA	1 cut(s)	363
BstBAI	YACGTR	1 cut(s)	469
BstC8I	GCNNGC	1 cut(s)	622
BstF5I	GGATG	2 cut(s)	364, 556
BstHHI	GCGC	1 cut(s)	461
BstKTI	GATC	2 cut(s)	506, 517
BstMAI	GTCTC	3 cut(s)	144, 152, 208
BstMBI	GATC	2 cut(s)	503, 514
BstMCI	CGRYCG	1 cut(s)	233
BstMWI	GCNNNNNNNGC	1 cut(s)	349
BstNSI	RCATGY	1 cut(s)	624
BstSCI	CCNGG	2 cut(s)	352, 353
BstSFI	CTRYAG	1 cut(s)	108
BstSLI	GKGCMC	1 cut(s)	354
BstV1I	GCAGC	3 cut(s)	542, 610, 636
BstX2I	RGATCY	1 cut(s)	514
BstYI	RGATCY	1 cut(s)	514
BstZI	CGGCCG	1 cut(s)	230
BsuRI	GGCC	5 cut(s)	167, 232, 299, 352, 473
BtrI	CACGTC	1 cut(s)	316
BtsCI	GGATG	2 cut(s)	364, 556
BveI	ACCTGC	1 cut(s)	86
Cac8I	GCNNGC	1 cut(s)	622
CfoI	GCGC	1 cut(s)	461
Cfr10I	RCCGGY	1 cut(s)	232
Cfr13I	GGNCC	5 cut(s)	166, 298, 350, 351, 472
Cfr9I	CCCGGG	1 cut(s)	353
Csp6I	GTAC	3 cut(s)	281, 364, 466
CviAII	CATG	5 cut(s)	89, 197, 507, 621, 652
CviJI	RGCY	9 cut(s)	9, 113, 167, 232, 293, 299, 352, 473, 533
CviKI_1	RGCY	9 cut(s)	9, 113, 167, 232, 293, 299, 352, 473, 533
CviQI	GTAC	3 cut(s)	281, 364, 466
DpnI	GATC	2 cut(s)	505, 516
DpnII	GATC	2 cut(s)	503, 514
EaeI	YGGCCR	1 cut(s)	230
EagI	CGGCCG	1 cut(s)	230
Eam1104I	CTCTTC	1 cut(s)	494
EarI	CTCTTC	1 cut(s)	494
EciI	GGCGGA	1 cut(s)	228
EclXI	CGGCCG	1 cut(s)	230
Eco130I	CCWWGG	2 cut(s)	285, 294
Eco24I	GRGCYC	2 cut(s)	11, 354
Eco31I	GGTCTC	1 cut(s)	152
Eco52I	CGGCCG	1 cut(s)	230
Eco88I	CYCGRG	2 cut(s)	353, 435
EcoO109I	RGGNCCY	2 cut(s)	166, 350
EcoT14I	CCWWGG	2 cut(s)	285, 294
EcoT22I	ATGCAT	1 cut(s)	418
EcoT38I	GRGCYC	2 cut(s)	11, 354
ErhI	CCWWGG	2 cut(s)	285, 294
FaeI	CATG	5 cut(s)	92, 200, 510, 624, 655
FaqI	GGGAC	1 cut(s)	318
FatI	CATG	5 cut(s)	88, 196, 506, 620, 651
FauNDI	CATATG	1 cut(s)	418
Fnu4HI	GCNGC	3 cut(s)	531, 599, 625
FokI	GGATG	2 cut(s)	371, 563
FriOI	GRGCYC	2 cut(s)	11, 354
Fsp4HI	GCNGC	3 cut(s)	531, 599, 625
GlaI	GCGC	1 cut(s)	460
GluI	GCNGC	3 cut(s)	531, 599, 625
HaeIII	GGCC	5 cut(s)	167, 232, 299, 352, 473
HapII	CCGG	4 cut(s)	233, 354, 612, 641
HhaI	GCGC	1 cut(s)	461
Hin1II	CATG	5 cut(s)	92, 200, 510, 624, 655
Hin6I	GCGC	1 cut(s)	459
HinP1I	GCGC	1 cut(s)	459
HincII	GTYRAC	1 cut(s)	238
HindII	GTYRAC	1 cut(s)	238
HinfI	GANTC	1 cut(s)	559
HpaII	CCGG	4 cut(s)	233, 354, 612, 641
HphI	GGTGA	1 cut(s)	422
Hpy166II	GTNNAC	2 cut(s)	238, 364
Hpy188I	TCNGA	1 cut(s)	401
Hpy188III	TCNNGA	3 cut(s)	584, 612, 641
Hpy8I	GTNNAC	2 cut(s)	238, 364
HpyAV	CCTTC	1 cut(s)	250
HpyCH4III	ACNGT	3 cut(s)	25, 180, 368
HpyCH4IV	ACGT	4 cut(s)	193, 315, 468, 605
HpyCH4V	TGCA	9 cut(s)	190, 221, 253, 311, 343, 416, 530, 598, 624
HpyF10VI	GCNNNNNNNGC	1 cut(s)	349
HpySE526I	ACGT	4 cut(s)	193, 315, 468, 605
Hsp92II	CATG	5 cut(s)	92, 200, 510, 624, 655
HspAI	GCGC	1 cut(s)	459
Kpn2I	TCCGGA	2 cut(s)	611, 640
Kzo9I	GATC	2 cut(s)	503, 514
LmnI	GCTCC	1 cut(s)	85
Lsp1109I	GCAGC	3 cut(s)	542, 610, 636
LweI	GCATC	3 cut(s)	177, 352, 403
MaeII	ACGT	4 cut(s)	193, 315, 468, 605
MaeIII	GTNAC	1 cut(s)	39
MalI	GATC	2 cut(s)	505, 516
MboI	GATC	2 cut(s)	503, 514
MboII	GAAGA	1 cut(s)	511
MflI	RGATCY	1 cut(s)	514
MhlI	GDGCHC	2 cut(s)	11, 354
MluCI	AATT	3 cut(s)	52, 117, 306
MnlI	CCTC	6 cut(s)	85, 130, 157, 209, 401, 586
Mph1103I	ATGCAT	1 cut(s)	418
MroI	TCCGGA	2 cut(s)	611, 640
MroXI	GAANNNNTTC	1 cut(s)	325
MseI	TTAA	1 cut(s)	51
MslI	CAYNNNNRTG	1 cut(s)	379
MspI	CCGG	4 cut(s)	233, 354, 612, 641
MspR9I	CCNGG	2 cut(s)	354, 355
MwoI	GCNNNNNNNGC	1 cut(s)	349
NciI	CCSGG	2 cut(s)	354, 355
NdeI	CATATG	1 cut(s)	418
NdeII	GATC	2 cut(s)	503, 514
NlaIII	CATG	5 cut(s)	92, 200, 510, 624, 655
NlaIV	GGNNCC	1 cut(s)	352
NmuCI	GTSAC	1 cut(s)	39
NsiI	ATGCAT	1 cut(s)	418
NspI	RCATGY	1 cut(s)	624
PaeI	GCATGC	1 cut(s)	624
PaqCI	CACCTGC	1 cut(s)	86
PdmI	GAANNNNTTC	1 cut(s)	325
PfeI	GAWTC	1 cut(s)	559
PflFI	GACNNNGTC	1 cut(s)	647
PkrI	GCNGC	3 cut(s)	532, 600, 626
Ppu21I	YACGTR	1 cut(s)	469
PspN4I	GGNNCC	1 cut(s)	352
PspOMI	GGGCCC	1 cut(s)	350
PspPI	GGNCC	5 cut(s)	166, 298, 350, 351, 472
PsuI	RGATCY	1 cut(s)	514
PsyI	GACNNNGTC	1 cut(s)	647
RsaI	GTAC	3 cut(s)	282, 365, 467
RsaNI	GTAC	3 cut(s)	281, 364, 466
RseI	CAYNNNNRTG	1 cut(s)	379
SaqAI	TTAA	1 cut(s)	51
SatI	GCNGC	3 cut(s)	531, 599, 625
Sau3AI	GATC	2 cut(s)	503, 514
Sau96I	GGNCC	5 cut(s)	166, 298, 350, 351, 472
ScrFI	CCNGG	2 cut(s)	354, 355
SduI	GDGCHC	2 cut(s)	11, 354
SfaNI	GCATC	3 cut(s)	177, 352, 403
SfcI	CTRYAG	1 cut(s)	108
SmaI	CCCGGG	1 cut(s)	355
SmiMI	CAYNNNNRTG	1 cut(s)	379
SmlI	CTYRAG	1 cut(s)	584
SmoI	CTYRAG	1 cut(s)	584
SphI	GCATGC	1 cut(s)	624
Sse9I	AATT	3 cut(s)	52, 117, 306
SsiI	CCGC	1 cut(s)	213
StyD4I	CCNGG	2 cut(s)	352, 353
StyI	CCWWGG	2 cut(s)	285, 294
TaaI	ACNGT	3 cut(s)	25, 180, 368
TaiI	ACGT	4 cut(s)	196, 318, 471, 608
TaqI	TCGA	1 cut(s)	557
TaqII	GACCGA	1 cut(s)	176
TasI	AATT	3 cut(s)	52, 117, 306
TatI	WGTACW	1 cut(s)	363
TfiI	GAWTC	1 cut(s)	559
Tru1I	TTAA	1 cut(s)	51
Tru9I	TTAA	1 cut(s)	51
TseFI	GTSAC	1 cut(s)	39
TseI	GCWGC	3 cut(s)	530, 598, 624
Tsp45I	GTSAC	1 cut(s)	39
TspDTI	ATGAA	1 cut(s)	48
TspMI	CCCGGG	1 cut(s)	353
Tth111I	GACNNNGTC	1 cut(s)	647
XapI	RAATTY	1 cut(s)	117
XceI	RCATGY	1 cut(s)	624
XmaI	CCCGGG	1 cut(s)	353
XmnI	GAANNNNTTC	1 cut(s)	325
Zsp2I	ATGCAT	1 cut(s)	418

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