Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000005

Orthogroup ID

OG0007446

Physical Location & Seq

Genomic Coordinates Forward (+)

57969360 .. 57970693

Gene Structure 1334 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug05G0417200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 948 bp

ATGGCGTTTTGGCCTGGACAGCTTCAACGACTACTACGACCCGTCCTTGAAGAGAGCAAGGCAGGCGCTTTTGGAGCGCAGTGGGTGTTCATTGTGGAAGGGGACATAAACGACTCGGCGTTGCTGAGCAAGCTTTTTGAGGTGGTGGCGTTTATCCATGTCATGCATTTCGCTGCTCAAGCTGGTGTGAGGTATGCCATGGAGAACCTTGGTTCATATGTTCATAGTAATATAGCTGGTCTTGTTAATCTGCTTGAAGTTTGTAAGAATGCAAATCCACAACCTGCAATTGTTTGGGCTAGCTCTAGTTCTGTCTATGGACTTAACACTAAGGTACCCTTTTCGGAGAGAGACCGAACTGATCAGCCTGCTAGTTTGTATGCTGCTACTAAGAAAGATGGTGAAGAGATTGCGCATACTTATAATCATATCTATGGTCTTTCGCTTACCGGGTTGAGGTTCTTTACAGTTTATGGTCCTTGGGGGAGGCCTGACATGGCTTACTTCTTTTTCACGAGGGATATACTGAAGGGGAAAACTATTCCGATTTTTGAAGCGGCTAATCATGGCACGGTTGCTAGGGATTTTACCTACATTGATGATATTGTGAAGGGCTGCTTGGCGTCTTTGGACACTGCGGAGAAGAGTACCGGGAGTGGGGGGAAGAAGAAGGGTCCTGCCCAGTTGAGGGTTTTCAATCTGGGGAATACGTCTCCTGTGCCAGTTTCGGATCTTGTTACCATTTTGGAGAGGCTTTTGAAGGTGAAGGCCAAGAGGAACATATTGAAGTTGCCGCGTAATGGGGATGTTCAGTTTACTCACGCAAACATCAGCTCTGTGCAGAGGGAACTTGGGTATAAGCCCACAACCGATCTGCAGACAGGGTTGAAGAAATTCGTTAGGTGGTACCTCACTTACTATTCTGGTGGGAAGAAGGCTGCTGGCTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0001522 GO:0003674 GO:0003824 GO:0006139 GO:0006396 GO:0006399 GO:0006400 GO:0006725 GO:0006807 GO:0008033 GO:0008150 GO:0008152 GO:0009451 GO:0009982 GO:0009987 GO:0010467 GO:0016070 GO:0016853 GO:0016866 GO:0031119 GO:0034470 GO:0034641 GO:0034660 GO:0043170 GO:0043412 GO:0044237 GO:0044238 GO:0046483 GO:0071704 GO:0090304 GO:1901360

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

PseudoU_synth_1

Protein Analysis

315

Amino Acids

34.8

Weight (kDa)

9.44

Isoelectric Point (pI)

34.33

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RmlD_sub_bind	PF04321	27 - 142	2.3e-07	RmlD substrate binding domain
GDP_Man_Dehyd	PF16363	29 - 298	2.7e-35	GDP-mannose 4,6 dehydratase
Epimerase	PF01370	30 - 215	1.8e-38	NAD dependent epimerase/dehydratase family
3Beta_HSD	PF01073	31 - 252	9.2e-08	3-beta hydroxysteroid dehydrogenase/isomerase family

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: OG0007446)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G30320
fragaria_vesca	FvH4_3g40070 FvH4_3g40070 FvH4_3g40070
malus_domestica	MD11G1060800.v1.1
prunus_persica	Prupe.6G045100_v2.0.a1 Prupe.6G045100_v2.0.a1 Prupe.6G045100_v2.0.a1 Prupe.6G045100_v2.0.a1 Prupe.6G045100_v2.0.a1 Prupe.6G045100_v2.0.a1 Prupe.6G045100_v2.0.a1
pyrus_communis	pycom11g05030
rosa_chinensis	RchiOBHm_Chr5g0072261
rosa_laevigata	RLG00000036289
rosa_multiflora	Rmu_sc0000714.1_g000004
rosa_roxburghii	Rroxscaffold_1G00009010
rosa_rugosa	Rorug05G0417100 Rorug05G0417200 Rorug05G0417300
rosa_samantha	Rh5AG473100 Rh5BG493300 Rh5CG517300 Rh5DG505300
rosa_wichuraiana	Rw5G043960

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	423
Acc16I	TGCGCA	1 cut(s)	414
Acc36I	ACCTGC	1 cut(s)	292
Acc65I	GGTACC	2 cut(s)	334, 906
AccB1I	GGYRCC	2 cut(s)	334, 906
AccII	CGCG	1 cut(s)	796
AciI	CCGC	3 cut(s)	557, 638, 794
AclWI	GGATC	1 cut(s)	738
AcsI	RAATTY	1 cut(s)	893
AcuI	CTGAAG	1 cut(s)	548
AcyI	GRCGYC	1 cut(s)	623
AfaI	GTAC	3 cut(s)	336, 649, 908
AfiI	CCNNNNNNNGG	5 cut(s)	456, 657, 687, 688, 800
AgsI	TTSAA	8 cut(s)	26, 50, 257, 554, 697, 760, 787, 889
AjnI	CCWGG	1 cut(s)	13
AjuI	GAANNNNNNNTTGG	2 cut(s)	602, 634
AluBI	AGCT	6 cut(s)	22, 133, 182, 236, 303, 834
AluI	AGCT	6 cut(s)	22, 133, 182, 236, 303, 834
Alw26I	GTCTC	2 cut(s)	345, 717
AlwI	GGATC	1 cut(s)	738
AoxI	GGCC	3 cut(s)	11, 488, 768
ApeKI	GCWGC	4 cut(s)	173, 383, 615, 938
ApoI	RAATTY	1 cut(s)	893
Asp700I	GAANNNNTTC	1 cut(s)	893
Asp718I	GGTACC	2 cut(s)	334, 906
AspLEI	GCGC	3 cut(s)	68, 79, 415
AspS9I	GGNCC	2 cut(s)	476, 674
AsuC2I	CCSGG	2 cut(s)	451, 652
AsuHPI	GGTGA	2 cut(s)	413, 775
AsuNHI	GCTAGC	1 cut(s)	299
AvaII	GGWCC	2 cut(s)	476, 674
BaeI	ACNNNNGTAYC	2 cut(s)	318, 351
BanI	GGYRCC	2 cut(s)	334, 906
BauI	CACGAG	1 cut(s)	514
BbvI	GCAGC	4 cut(s)	160, 370, 602, 925
BccI	CCATC	1 cut(s)	392
BciT130I	CCWGG	1 cut(s)	15
BclI	TGATCA	1 cut(s)	361
BcnI	CCSGG	2 cut(s)	451, 652
BcoDI	GTCTC	2 cut(s)	345, 717
BfaI	CTAG	4 cut(s)	300, 306, 372, 579
BfmI	CTRYAG	1 cut(s)	875
BfoI	RGCGCY	1 cut(s)	69
BfuAI	ACCTGC	1 cut(s)	292
BisI	GCNGC	6 cut(s)	174, 384, 558, 616, 794, 939
BlpI	GCTNAGC	1 cut(s)	125
BlsI	GCNGC	6 cut(s)	175, 385, 559, 617, 795, 940
Bme1390I	CCNGG	3 cut(s)	15, 451, 652
Bme18I	GGWCC	2 cut(s)	476, 674
BmgT120I	GGNCC	2 cut(s)	476, 674
BmiI	GGNNCC	3 cut(s)	336, 675, 908
BmrFI	CCNGG	3 cut(s)	15, 451, 652
BmrI	ACTGGG	1 cut(s)	676
BmtI	GCTAGC	1 cut(s)	303
BmuI	ACTGGG	1 cut(s)	676
Bpu1102I	GCTNAGC	1 cut(s)	125
BpuEI	CTTGAG	1 cut(s)	162
BpuMI	CCSGG	2 cut(s)	451, 652
BsaHI	GRCGYC	1 cut(s)	623
BsaI	GGTCTC	1 cut(s)	345
BsaJI	CCNNGG	3 cut(s)	198, 208, 479
Bsc4I	CCNNNNNNNGG	5 cut(s)	456, 657, 687, 688, 800
Bse1I	ACTGG	2 cut(s)	682, 722
BseBI	CCWGG	1 cut(s)	15
BseDI	CCNNGG	3 cut(s)	198, 208, 479
BseGI	GGATG	1 cut(s)	811
BseLI	CCNNNNNNNGG	5 cut(s)	456, 657, 687, 688, 800
BseMII	CTCAG	1 cut(s)	116
BseNI	ACTGG	2 cut(s)	682, 722
BseXI	GCAGC	4 cut(s)	160, 370, 602, 925
BsgI	GTGCAG	1 cut(s)	860
Bsh1236I	CGCG	1 cut(s)	796
BshFI	GGCC	3 cut(s)	13, 490, 770
BshNI	GGYRCC	2 cut(s)	334, 906
BsiSI	CCGG	2 cut(s)	450, 651
BslFI	GGGAC	1 cut(s)	116
BslI	CCNNNNNNNGG	5 cut(s)	456, 657, 687, 688, 800
BsmAI	GTCTC	2 cut(s)	345, 717
BsmBI	CGTCTC	1 cut(s)	717
BsmFI	GGGAC	1 cut(s)	116
BsmI	GAATGC	1 cut(s)	274
BsnI	GGCC	3 cut(s)	13, 490, 770
Bso31I	GGTCTC	1 cut(s)	345
Bsp143I	GATC	3 cut(s)	361, 730, 871
Bsp1720I	GCTNAGC	1 cut(s)	125
Bsp19I	CCATGG	1 cut(s)	198
BspACI	CCGC	3 cut(s)	557, 638, 794
BspANI	GGCC	3 cut(s)	13, 490, 770
BspCNI	CTCAG	1 cut(s)	117
BspFNI	CGCG	1 cut(s)	796
BspLI	GGNNCC	3 cut(s)	336, 675, 908
BspMAI	CTGCAG	1 cut(s)	879
BspMI	ACCTGC	1 cut(s)	292
BspOI	GCTAGC	1 cut(s)	303
BspPI	GGATC	1 cut(s)	738
BspT107I	GGYRCC	2 cut(s)	334, 906
BspTNI	GGTCTC	1 cut(s)	345
BsrI	ACTGG	2 cut(s)	682, 722
BssECI	CCNNGG	3 cut(s)	198, 208, 479
BssMI	GATC	3 cut(s)	361, 730, 871
BssNI	GRCGYC	1 cut(s)	623
BssSI	CACGAG	1 cut(s)	514
BssT1I	CCWWGG	3 cut(s)	198, 208, 479
Bst2BI	CACGAG	1 cut(s)	514
Bst2UI	CCWGG	1 cut(s)	15
Bst4CI	ACNGT	2 cut(s)	469, 574
Bst6I	CTCTTC	3 cut(s)	45, 399, 638
BstACI	GRCGYC	1 cut(s)	623
BstC8I	GCNNGC	5 cut(s)	64, 131, 301, 369, 943
BstDEI	CTNAG	3 cut(s)	125, 330, 390
BstDSI	CCRYGG	1 cut(s)	198
BstF5I	GGATG	1 cut(s)	811
BstFNI	CGCG	1 cut(s)	796
BstH2I	RGCGCY	1 cut(s)	69
BstHHI	GCGC	3 cut(s)	68, 79, 415
BstKTI	GATC	3 cut(s)	364, 733, 874
BstMAI	GTCTC	2 cut(s)	345, 717
BstMBI	GATC	3 cut(s)	361, 730, 871
BstMWI	GCNNNNNNNGC	5 cut(s)	19, 63, 74, 130, 179
BstNI	CCWGG	1 cut(s)	15
BstSCI	CCNGG	3 cut(s)	13, 449, 650
BstSFI	CTRYAG	1 cut(s)	875
BstUI	CGCG	1 cut(s)	796
BstV1I	GCAGC	4 cut(s)	160, 370, 602, 925
BstX2I	RGATCY	1 cut(s)	730
BstYI	RGATCY	1 cut(s)	730
BsuRI	GGCC	3 cut(s)	13, 490, 770
BtgI	CCRYGG	1 cut(s)	198
BtsCI	GGATG	1 cut(s)	811
BtsI	GCAGTG	2 cut(s)	86, 633
BtsIMutI	CAGTG	2 cut(s)	86, 633
BveI	ACCTGC	1 cut(s)	292
Cac8I	GCNNGC	5 cut(s)	64, 131, 301, 369, 943
CfoI	GCGC	3 cut(s)	68, 79, 415
Cfr13I	GGNCC	2 cut(s)	476, 674
CseI	GACGC	1 cut(s)	612
Csp6I	GTAC	3 cut(s)	335, 648, 907
CviAII	CATG	5 cut(s)	158, 163, 199, 496, 566
CviQI	GTAC	3 cut(s)	335, 648, 907
DdeI	CTNAG	3 cut(s)	125, 330, 390
DpnI	GATC	3 cut(s)	363, 732, 873
DpnII	GATC	3 cut(s)	361, 730, 871
Eam1104I	CTCTTC	3 cut(s)	45, 399, 638
EarI	CTCTTC	3 cut(s)	45, 399, 638
Eco130I	CCWWGG	3 cut(s)	198, 208, 479
Eco147I	AGGCCT	1 cut(s)	490
Eco31I	GGTCTC	1 cut(s)	345
Eco47I	GGWCC	2 cut(s)	476, 674
Eco57I	CTGAAG	1 cut(s)	548
EcoO109I	RGGNCCY	1 cut(s)	674
EcoRII	CCWGG	1 cut(s)	13
EcoT14I	CCWWGG	3 cut(s)	198, 208, 479
EcoT22I	ATGCAT	1 cut(s)	168
ErhI	CCWWGG	3 cut(s)	198, 208, 479
Esp3I	CGTCTC	1 cut(s)	717
FaeI	CATG	5 cut(s)	161, 166, 202, 499, 569
FalI	AAGNNNNNCTT	4 cut(s)	323, 355, 602, 634
FaqI	GGGAC	1 cut(s)	116
FatI	CATG	5 cut(s)	157, 162, 198, 495, 565
FauNDI	CATATG	1 cut(s)	217
FbaI	TGATCA	1 cut(s)	361
Fnu4HI	GCNGC	6 cut(s)	174, 384, 558, 616, 794, 939
FokI	GGATG	1 cut(s)	818
Fsp4HI	GCNGC	6 cut(s)	174, 384, 558, 616, 794, 939
FspBI	CTAG	4 cut(s)	300, 306, 372, 579
FspI	TGCGCA	1 cut(s)	414
GlaI	GCGC	3 cut(s)	67, 78, 414
GluI	GCNGC	6 cut(s)	174, 384, 558, 616, 794, 939
HaeII	RGCGCY	1 cut(s)	69
HaeIII	GGCC	3 cut(s)	13, 490, 770
HapII	CCGG	2 cut(s)	450, 651
HgaI	GACGC	1 cut(s)	612
HhaI	GCGC	3 cut(s)	68, 79, 415
Hin1I	GRCGYC	1 cut(s)	623
Hin1II	CATG	5 cut(s)	161, 166, 202, 499, 569
Hin6I	GCGC	3 cut(s)	66, 77, 413
HinP1I	GCGC	3 cut(s)	66, 77, 413
HindIII	AAGCTT	1 cut(s)	131
HinfI	GANTC	1 cut(s)	113
HpaII	CCGG	2 cut(s)	450, 651
HphI	GGTGA	2 cut(s)	413, 775
Hpy166II	GTNNAC	1 cut(s)	816
Hpy188I	TCNGA	3 cut(s)	346, 546, 730
Hpy188III	TCNNGA	1 cut(s)	514
Hpy8I	GTNNAC	1 cut(s)	816
HpyAV	CCTTC	7 cut(s)	92, 523, 604, 664, 754, 760, 928
HpyCH4III	ACNGT	2 cut(s)	469, 574
HpyCH4IV	ACGT	1 cut(s)	710
HpyCH4V	TGCA	5 cut(s)	166, 272, 287, 841, 877
HpyF10VI	GCNNNNNNNGC	5 cut(s)	19, 63, 74, 130, 179
HpyF3I	CTNAG	3 cut(s)	125, 330, 390
HpySE526I	ACGT	1 cut(s)	710
Hsp92I	GRCGYC	1 cut(s)	623
Hsp92II	CATG	5 cut(s)	161, 166, 202, 499, 569
HspAI	GCGC	3 cut(s)	66, 77, 413
KpnI	GGTACC	2 cut(s)	338, 910
Ksp22I	TGATCA	1 cut(s)	361
Kzo9I	GATC	3 cut(s)	361, 730, 871
LmnI	GCTCC	1 cut(s)	74
Lsp1109I	GCAGC	4 cut(s)	160, 370, 602, 925
MaeI	CTAG	4 cut(s)	300, 306, 372, 579
MaeII	ACGT	1 cut(s)	710
MaeIII	GTNAC	1 cut(s)	736
MalI	GATC	3 cut(s)	363, 732, 873
MboI	GATC	3 cut(s)	361, 730, 871
MboII	GAAGA	7 cut(s)	62, 416, 655, 676, 679, 901, 943
MfeI	CAATTG	1 cut(s)	288
MflI	RGATCY	1 cut(s)	730
MluCI	AATT	2 cut(s)	288, 893
MlyI	GAGTC	1 cut(s)	107
Mph1103I	ATGCAT	1 cut(s)	168
MroXI	GAANNNNTTC	1 cut(s)	893
MseI	TTAA	2 cut(s)	246, 324
MslI	CAYNNNNRTG	1 cut(s)	432
MspI	CCGG	2 cut(s)	450, 651
MspR9I	CCNGG	3 cut(s)	15, 451, 652
MunI	CAATTG	1 cut(s)	288
Mva1269I	GAATGC	1 cut(s)	274
MvaI	CCWGG	1 cut(s)	15
MvnI	CGCG	1 cut(s)	796
MwoI	GCNNNNNNNGC	5 cut(s)	19, 63, 74, 130, 179
NciI	CCSGG	2 cut(s)	451, 652
NcoI	CCATGG	1 cut(s)	198
NdeI	CATATG	1 cut(s)	217
NdeII	GATC	3 cut(s)	361, 730, 871
NheI	GCTAGC	1 cut(s)	299
NlaIII	CATG	5 cut(s)	161, 166, 202, 499, 569
NlaIV	GGNNCC	3 cut(s)	336, 675, 908
NmeAIII	GCCGAG	1 cut(s)	95
NsbI	TGCGCA	1 cut(s)	414
NsiI	ATGCAT	1 cut(s)	168
PceI	AGGCCT	1 cut(s)	490
PcsI	WCGNNNNNNNCGW	1 cut(s)	34
PctI	GAATGC	1 cut(s)	274
PdmI	GAANNNNTTC	1 cut(s)	893
PkrI	GCNGC	6 cut(s)	175, 385, 559, 617, 795, 940
PleI	GAGTC	1 cut(s)	107
PpsI	GAGTC	1 cut(s)	107
PpuMI	RGGWCCY	1 cut(s)	674
PsiI	TTATAA	1 cut(s)	423
Psp5II	RGGWCCY	1 cut(s)	674
Psp6I	CCWGG	1 cut(s)	13
PspGI	CCWGG	1 cut(s)	13
PspN4I	GGNNCC	3 cut(s)	336, 675, 908
PspPI	GGNCC	2 cut(s)	476, 674
PspPPI	RGGWCCY	1 cut(s)	674
PstI	CTGCAG	1 cut(s)	879
PsuI	RGATCY	1 cut(s)	730
RsaI	GTAC	3 cut(s)	336, 649, 908
RsaNI	GTAC	3 cut(s)	335, 648, 907
RseI	CAYNNNNRTG	1 cut(s)	432
SaqAI	TTAA	2 cut(s)	246, 324
SatI	GCNGC	6 cut(s)	174, 384, 558, 616, 794, 939
Sau3AI	GATC	3 cut(s)	361, 730, 871
Sau96I	GGNCC	2 cut(s)	476, 674
SchI	GAGTC	1 cut(s)	107
ScrFI	CCNGG	3 cut(s)	15, 451, 652
SfcI	CTRYAG	1 cut(s)	875
SinI	GGWCC	2 cut(s)	476, 674
SmiMI	CAYNNNNRTG	1 cut(s)	432
SmlI	CTYRAG	1 cut(s)	177
SmoI	CTYRAG	1 cut(s)	177
Sse9I	AATT	2 cut(s)	288, 893
SseBI	AGGCCT	1 cut(s)	490
SsiI	CCGC	3 cut(s)	557, 638, 794
SspMI	CTAG	4 cut(s)	300, 306, 372, 579
StuI	AGGCCT	1 cut(s)	490
StyD4I	CCNGG	3 cut(s)	13, 449, 650
StyI	CCWWGG	3 cut(s)	198, 208, 479
TaaI	ACNGT	2 cut(s)	469, 574
TaiI	ACGT	1 cut(s)	713
TaqII	GACCGA	1 cut(s)	369
TasI	AATT	2 cut(s)	288, 893
TauI	GCSGC	2 cut(s)	560, 796
Tru1I	TTAA	2 cut(s)	246, 324
Tru9I	TTAA	2 cut(s)	246, 324
TscAI	CASTG	2 cut(s)	86, 640
TseI	GCWGC	4 cut(s)	173, 383, 615, 938
TspDTI	ATGAA	3 cut(s)	79, 204, 212
TspRI	CASTG	2 cut(s)	86, 640
VpaK11BI	GGWCC	2 cut(s)	476, 674
XapI	RAATTY	1 cut(s)	893
XmnI	GAANNNNTTC	1 cut(s)	893
XspI	CTAG	4 cut(s)	300, 306, 372, 579
Zsp2I	ATGCAT	1 cut(s)	168

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