Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000004

Orthogroup ID

OG0008323

Physical Location & Seq

Genomic Coordinates Reverse (-)

25815208 .. 25816153

Gene Structure 946 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_4G00305170.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 810 bp

ATGGCGTTTTGGCCTGGACAGCTTCAACGACTACTACGACCCGTCCTTGAAGAGAGCAAGGCAGGCGCTTTTGGAGCGCAGTGGGTGTTCATTGTGGAAGGGGACATAAACGACTCGGCGTTGCTGAGCAAGCTTTTTGAGGTGGTGGCGTTTATCCATGTCATGCATTTCGCTACTCAAGCTGGTGTGAGGTATGCCATGGAGAACCTTGGTTCATATGTTCATAGTAATATAGCTGGTCTTGTTAATCTGCTTGAAGTTTGTAAGAATGCAAATCCACAACCTGCAATTGTTTGGGCTAGCTCTAGTTCTGTCTATGGACTTAACACTAAGGTACCCTTTTCGGAGAGAGACCGGACTGATCAGCCTGCTAGTTTGTATGCTGCTACTAAGAAAGCTGGTGAAGAGATTGCGCATACTTATAATCATATCTATGGTCTTTCGCTTACCGGGTTGAGGTTCTTTACAGTTTATGGGCTGCTTGGCGTCGTTGGACACTGCGGGGAAGAGTACCGGGAGTGGGGGAAGAAGAAGGGTCCTGCCCAGTTGAGGGTTTTCAATTTAGGGAATACGTCTCCTGTGCCAGTTTCGGATCTTGTTACCATTTTGGAGAGGCTTTTGAAGTTGAAGGCCAAGAGGAACATATTGAAGTTGCCGCGTAATGGGGATGTTCAGTTTACTCACGCAAACATCAGCTCTGCGCAGAGGGAACTTGGGTATAAGCCCACAACCGATCTGCAGACAGGGTTGAAGAAATTCGTTAGGTGGTACCTGACTTACTATTCTGGTGGGAAGAAGGCTGCTGGCTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0016020

KEGG Pathways

Metabolic & Signaling

ko00520 ko01100 map00520 map01100

Pfam Domains

Protein Families

Epimerase GDP_Man_Dehyd

Protein Analysis

269

Amino Acids

29.81

Weight (kDa)

9.52

Isoelectric Point (pI)

38.4

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RmlD_sub_bind	PF04321	27 - 208	5.2e-07	RmlD substrate binding domain
GDP_Man_Dehyd	PF16363	29 - 159	7.7e-26	GDP-mannose 4,6 dehydratase
Epimerase	PF01370	30 - 160	2.8e-27	NAD dependent epimerase/dehydratase family

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

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Orthologous Genes (Group: OG0008323)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G02000 AT4G00110
fragaria_vesca	FvH4_7g11540
malus_domestica	MD07G1119800.v1.1 MD07G1120100.v1.1
prunus_persica	Prupe.2G143800_v2.0.a1
pyrus_communis	pycom02g16850 pycom07g10500
rosa_chinensis	RchiOBHm_Chr1g0349991
rosa_laevigata	RLG00000028511
rosa_multiflora	Rmu_sc0003674.1_g000001 Rmu_sc0005220.1_g000011
rosa_roxburghii	Rroxscaffold_4G00305170 Rroxscaffold_4G00305230
rosa_rugosa	Rorug01G0207600 Rorug05G0318700
rosa_samantha	Rh1AG224100 Rh1BG191300 Rh1CG208800 Rh1DG219900
rosa_wichuraiana	Rw0G007580 Rw1G019130 Rw1G019250

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	423
Acc16I	TGCGCA	2 cut(s)	414, 702
Acc36I	ACCTGC	1 cut(s)	292
Acc65I	GGTACC	2 cut(s)	334, 768
AccB1I	GGYRCC	2 cut(s)	334, 768
AccII	CGCG	1 cut(s)	658
AciI	CCGC	2 cut(s)	501, 656
AclWI	GGATC	1 cut(s)	600
AcsI	RAATTY	1 cut(s)	755
AcyI	GRCGYC	1 cut(s)	486
AfaI	GTAC	3 cut(s)	336, 512, 770
AfiI	CCNNNNNNNGG	5 cut(s)	456, 520, 549, 550, 662
AgsI	TTSAA	8 cut(s)	26, 50, 257, 559, 622, 628, 649, 751
AjnI	CCWGG	1 cut(s)	13
AluBI	AGCT	7 cut(s)	22, 133, 182, 236, 303, 398, 696
AluI	AGCT	7 cut(s)	22, 133, 182, 236, 303, 398, 696
Alw26I	GTCTC	2 cut(s)	345, 579
AlwI	GGATC	1 cut(s)	600
AoxI	GGCC	2 cut(s)	11, 630
ApeKI	GCWGC	3 cut(s)	383, 478, 800
ApoI	RAATTY	1 cut(s)	755
Asp700I	GAANNNNTTC	1 cut(s)	755
Asp718I	GGTACC	2 cut(s)	334, 768
AspLEI	GCGC	4 cut(s)	68, 79, 415, 703
AspS9I	GGNCC	1 cut(s)	536
AsuC2I	CCSGG	2 cut(s)	451, 515
AsuHPI	GGTGA	1 cut(s)	413
AsuNHI	GCTAGC	1 cut(s)	299
AvaII	GGWCC	1 cut(s)	536
BaeI	ACNNNNGTAYC	2 cut(s)	318, 351
BanI	GGYRCC	2 cut(s)	334, 768
BbvI	GCAGC	3 cut(s)	370, 465, 787
BciT130I	CCWGG	1 cut(s)	15
BclI	TGATCA	1 cut(s)	361
BcnI	CCSGG	2 cut(s)	451, 515
BcoDI	GTCTC	2 cut(s)	345, 579
BfaI	CTAG	3 cut(s)	300, 306, 372
BfmI	CTRYAG	1 cut(s)	737
BfoI	RGCGCY	1 cut(s)	69
BfuAI	ACCTGC	1 cut(s)	292
BisI	GCNGC	4 cut(s)	384, 479, 656, 801
BlpI	GCTNAGC	1 cut(s)	125
BlsI	GCNGC	4 cut(s)	385, 480, 657, 802
Bme1390I	CCNGG	3 cut(s)	15, 451, 515
Bme18I	GGWCC	1 cut(s)	536
BmgT120I	GGNCC	1 cut(s)	536
BmiI	GGNNCC	3 cut(s)	336, 537, 770
BmrFI	CCNGG	3 cut(s)	15, 451, 515
BmrI	ACTGGG	1 cut(s)	538
BmtI	GCTAGC	1 cut(s)	303
BmuI	ACTGGG	1 cut(s)	538
Bpu1102I	GCTNAGC	1 cut(s)	125
BpuEI	CTTGAG	1 cut(s)	162
BpuMI	CCSGG	2 cut(s)	451, 515
BsaHI	GRCGYC	1 cut(s)	486
BsaI	GGTCTC	1 cut(s)	345
BsaJI	CCNNGG	2 cut(s)	198, 208
BsaWI	WCCGGW	1 cut(s)	354
Bsc4I	CCNNNNNNNGG	5 cut(s)	456, 520, 549, 550, 662
Bse1I	ACTGG	2 cut(s)	544, 584
BseBI	CCWGG	1 cut(s)	15
BseDI	CCNNGG	2 cut(s)	198, 208
BseGI	GGATG	1 cut(s)	673
BseLI	CCNNNNNNNGG	5 cut(s)	456, 520, 549, 550, 662
BseMII	CTCAG	1 cut(s)	116
BseNI	ACTGG	2 cut(s)	544, 584
BseXI	GCAGC	3 cut(s)	370, 465, 787
Bsh1236I	CGCG	1 cut(s)	658
BshFI	GGCC	2 cut(s)	13, 632
BshNI	GGYRCC	2 cut(s)	334, 768
BsiSI	CCGG	3 cut(s)	355, 450, 514
BslFI	GGGAC	1 cut(s)	116
BslI	CCNNNNNNNGG	5 cut(s)	456, 520, 549, 550, 662
BsmAI	GTCTC	2 cut(s)	345, 579
BsmBI	CGTCTC	1 cut(s)	579
BsmFI	GGGAC	1 cut(s)	116
BsmI	GAATGC	1 cut(s)	274
BsnI	GGCC	2 cut(s)	13, 632
Bso31I	GGTCTC	1 cut(s)	345
Bsp143I	GATC	3 cut(s)	361, 592, 733
Bsp1720I	GCTNAGC	1 cut(s)	125
Bsp19I	CCATGG	1 cut(s)	198
BspACI	CCGC	2 cut(s)	501, 656
BspANI	GGCC	2 cut(s)	13, 632
BspCNI	CTCAG	1 cut(s)	117
BspFNI	CGCG	1 cut(s)	658
BspLI	GGNNCC	3 cut(s)	336, 537, 770
BspMAI	CTGCAG	1 cut(s)	741
BspMI	ACCTGC	1 cut(s)	292
BspOI	GCTAGC	1 cut(s)	303
BspPI	GGATC	1 cut(s)	600
BspT107I	GGYRCC	2 cut(s)	334, 768
BspTNI	GGTCTC	1 cut(s)	345
BsrI	ACTGG	2 cut(s)	544, 584
BssECI	CCNNGG	2 cut(s)	198, 208
BssMI	GATC	3 cut(s)	361, 592, 733
BssNI	GRCGYC	1 cut(s)	486
BssT1I	CCWWGG	2 cut(s)	198, 208
Bst2UI	CCWGG	1 cut(s)	15
Bst4CI	ACNGT	1 cut(s)	469
Bst6I	CTCTTC	3 cut(s)	45, 399, 501
BstACI	GRCGYC	1 cut(s)	486
BstC8I	GCNNGC	5 cut(s)	64, 131, 301, 369, 805
BstDEI	CTNAG	3 cut(s)	125, 330, 390
BstDSI	CCRYGG	1 cut(s)	198
BstF5I	GGATG	1 cut(s)	673
BstFNI	CGCG	1 cut(s)	658
BstH2I	RGCGCY	1 cut(s)	69
BstHHI	GCGC	4 cut(s)	68, 79, 415, 703
BstKTI	GATC	3 cut(s)	364, 595, 736
BstMAI	GTCTC	2 cut(s)	345, 579
BstMBI	GATC	3 cut(s)	361, 592, 733
BstMWI	GCNNNNNNNGC	5 cut(s)	19, 63, 74, 130, 179
BstNI	CCWGG	1 cut(s)	15
BstSCI	CCNGG	3 cut(s)	13, 449, 513
BstSFI	CTRYAG	1 cut(s)	737
BstUI	CGCG	1 cut(s)	658
BstV1I	GCAGC	3 cut(s)	370, 465, 787
BstX2I	RGATCY	1 cut(s)	592
BstYI	RGATCY	1 cut(s)	592
BsuRI	GGCC	2 cut(s)	13, 632
BtgI	CCRYGG	1 cut(s)	198
BtsCI	GGATG	1 cut(s)	673
BtsI	GCAGTG	2 cut(s)	86, 496
BtsIMutI	CAGTG	2 cut(s)	86, 496
BveI	ACCTGC	1 cut(s)	292
Cac8I	GCNNGC	5 cut(s)	64, 131, 301, 369, 805
CfoI	GCGC	4 cut(s)	68, 79, 415, 703
Cfr13I	GGNCC	1 cut(s)	536
CseI	GACGC	1 cut(s)	475
Csp6I	GTAC	3 cut(s)	335, 511, 769
CviAII	CATG	3 cut(s)	158, 163, 199
CviQI	GTAC	3 cut(s)	335, 511, 769
DdeI	CTNAG	3 cut(s)	125, 330, 390
DpnI	GATC	3 cut(s)	363, 594, 735
DpnII	GATC	3 cut(s)	361, 592, 733
Eam1104I	CTCTTC	3 cut(s)	45, 399, 501
EarI	CTCTTC	3 cut(s)	45, 399, 501
Eco130I	CCWWGG	2 cut(s)	198, 208
Eco31I	GGTCTC	1 cut(s)	345
Eco47I	GGWCC	1 cut(s)	536
EcoO109I	RGGNCCY	1 cut(s)	536
EcoRII	CCWGG	1 cut(s)	13
EcoT14I	CCWWGG	2 cut(s)	198, 208
EcoT22I	ATGCAT	1 cut(s)	168
ErhI	CCWWGG	2 cut(s)	198, 208
Esp3I	CGTCTC	1 cut(s)	579
FaeI	CATG	3 cut(s)	161, 166, 202
FalI	AAGNNNNNCTT	2 cut(s)	323, 355
FaqI	GGGAC	1 cut(s)	116
FatI	CATG	3 cut(s)	157, 162, 198
FauI	CCCGC	1 cut(s)	494
FauNDI	CATATG	1 cut(s)	217
FbaI	TGATCA	1 cut(s)	361
Fnu4HI	GCNGC	4 cut(s)	384, 479, 656, 801
FokI	GGATG	1 cut(s)	680
Fsp4HI	GCNGC	4 cut(s)	384, 479, 656, 801
FspBI	CTAG	3 cut(s)	300, 306, 372
FspI	TGCGCA	2 cut(s)	414, 702
GlaI	GCGC	4 cut(s)	67, 78, 414, 702
GluI	GCNGC	4 cut(s)	384, 479, 656, 801
HaeII	RGCGCY	1 cut(s)	69
HaeIII	GGCC	2 cut(s)	13, 632
HapII	CCGG	3 cut(s)	355, 450, 514
HgaI	GACGC	1 cut(s)	475
HhaI	GCGC	4 cut(s)	68, 79, 415, 703
Hin1I	GRCGYC	1 cut(s)	486
Hin1II	CATG	3 cut(s)	161, 166, 202
Hin6I	GCGC	4 cut(s)	66, 77, 413, 701
HinP1I	GCGC	4 cut(s)	66, 77, 413, 701
HindIII	AAGCTT	1 cut(s)	131
HinfI	GANTC	1 cut(s)	113
HpaII	CCGG	3 cut(s)	355, 450, 514
HphI	GGTGA	1 cut(s)	413
Hpy166II	GTNNAC	1 cut(s)	678
Hpy188I	TCNGA	2 cut(s)	346, 592
Hpy8I	GTNNAC	1 cut(s)	678
Hpy99I	CGWCG	1 cut(s)	491
HpyAV	CCTTC	4 cut(s)	92, 526, 622, 790
HpyCH4III	ACNGT	1 cut(s)	469
HpyCH4IV	ACGT	1 cut(s)	572
HpyCH4V	TGCA	4 cut(s)	166, 272, 287, 739
HpyF10VI	GCNNNNNNNGC	5 cut(s)	19, 63, 74, 130, 179
HpyF3I	CTNAG	3 cut(s)	125, 330, 390
HpySE526I	ACGT	1 cut(s)	572
Hsp92I	GRCGYC	1 cut(s)	486
Hsp92II	CATG	3 cut(s)	161, 166, 202
HspAI	GCGC	4 cut(s)	66, 77, 413, 701
KpnI	GGTACC	2 cut(s)	338, 772
Ksp22I	TGATCA	1 cut(s)	361
Kzo9I	GATC	3 cut(s)	361, 592, 733
LmnI	GCTCC	1 cut(s)	74
Lsp1109I	GCAGC	3 cut(s)	370, 465, 787
MaeI	CTAG	3 cut(s)	300, 306, 372
MaeII	ACGT	1 cut(s)	572
MaeIII	GTNAC	1 cut(s)	598
MalI	GATC	3 cut(s)	363, 594, 735
MboI	GATC	3 cut(s)	361, 592, 733
MboII	GAAGA	7 cut(s)	62, 416, 518, 538, 541, 763, 805
MfeI	CAATTG	1 cut(s)	288
MflI	RGATCY	1 cut(s)	592
MluCI	AATT	3 cut(s)	288, 559, 755
MlyI	GAGTC	1 cut(s)	107
MmeI	TCCRAC	1 cut(s)	472
MnlI	CCTC	7 cut(s)	133, 183, 450, 543, 606, 630, 699
Mph1103I	ATGCAT	1 cut(s)	168
MroXI	GAANNNNTTC	1 cut(s)	755
MseI	TTAA	2 cut(s)	246, 324
MslI	CAYNNNNRTG	1 cut(s)	432
MspI	CCGG	3 cut(s)	355, 450, 514
MspR9I	CCNGG	3 cut(s)	15, 451, 515
MunI	CAATTG	1 cut(s)	288
Mva1269I	GAATGC	1 cut(s)	274
MvaI	CCWGG	1 cut(s)	15
MvnI	CGCG	1 cut(s)	658
MwoI	GCNNNNNNNGC	5 cut(s)	19, 63, 74, 130, 179
NciI	CCSGG	2 cut(s)	451, 515
NcoI	CCATGG	1 cut(s)	198
NdeI	CATATG	1 cut(s)	217
NdeII	GATC	3 cut(s)	361, 592, 733
NheI	GCTAGC	1 cut(s)	299
NlaIII	CATG	3 cut(s)	161, 166, 202
NlaIV	GGNNCC	3 cut(s)	336, 537, 770
NmeAIII	GCCGAG	1 cut(s)	95
NsbI	TGCGCA	2 cut(s)	414, 702
NsiI	ATGCAT	1 cut(s)	168
PcsI	WCGNNNNNNNCGW	1 cut(s)	34
PctI	GAATGC	1 cut(s)	274
PdmI	GAANNNNTTC	1 cut(s)	755
PkrI	GCNGC	4 cut(s)	385, 480, 657, 802
PleI	GAGTC	1 cut(s)	107
PpsI	GAGTC	1 cut(s)	107
PpuMI	RGGWCCY	1 cut(s)	536
PsiI	TTATAA	1 cut(s)	423
Psp5II	RGGWCCY	1 cut(s)	536
Psp6I	CCWGG	1 cut(s)	13
PspGI	CCWGG	1 cut(s)	13
PspN4I	GGNNCC	3 cut(s)	336, 537, 770
PspPI	GGNCC	1 cut(s)	536
PspPPI	RGGWCCY	1 cut(s)	536
PstI	CTGCAG	1 cut(s)	741
PsuI	RGATCY	1 cut(s)	592
RsaI	GTAC	3 cut(s)	336, 512, 770
RsaNI	GTAC	3 cut(s)	335, 511, 769
RseI	CAYNNNNRTG	1 cut(s)	432
SaqAI	TTAA	2 cut(s)	246, 324
SatI	GCNGC	4 cut(s)	384, 479, 656, 801
Sau3AI	GATC	3 cut(s)	361, 592, 733
Sau96I	GGNCC	1 cut(s)	536
SchI	GAGTC	1 cut(s)	107
ScrFI	CCNGG	3 cut(s)	15, 451, 515
SfcI	CTRYAG	1 cut(s)	737
SinI	GGWCC	1 cut(s)	536
SmiMI	CAYNNNNRTG	1 cut(s)	432
SmlI	CTYRAG	1 cut(s)	177
SmoI	CTYRAG	1 cut(s)	177
Sse9I	AATT	3 cut(s)	288, 559, 755
SsiI	CCGC	2 cut(s)	501, 656
SspMI	CTAG	3 cut(s)	300, 306, 372
StyD4I	CCNGG	3 cut(s)	13, 449, 513
StyI	CCWWGG	2 cut(s)	198, 208
TaaI	ACNGT	1 cut(s)	469
TaiI	ACGT	1 cut(s)	575
TasI	AATT	3 cut(s)	288, 559, 755
TauI	GCSGC	1 cut(s)	658
Tru1I	TTAA	2 cut(s)	246, 324
Tru9I	TTAA	2 cut(s)	246, 324
TscAI	CASTG	2 cut(s)	86, 503
TseI	GCWGC	3 cut(s)	383, 478, 800
TspDTI	ATGAA	3 cut(s)	79, 204, 212
TspRI	CASTG	2 cut(s)	86, 503
VpaK11BI	GGWCC	1 cut(s)	536
XapI	RAATTY	1 cut(s)	755
XmnI	GAANNNNTTC	1 cut(s)	755
XspI	CTAG	3 cut(s)	300, 306, 372
Zsp2I	ATGCAT	1 cut(s)	168

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