Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000007

Orthogroup ID

OG0009925

Physical Location & Seq

Genomic Coordinates Forward (+)

65321479 .. 65325810

Gene Structure 4332 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_7G00214680.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1170 bp

ATGGCGTCCAGCGTGGAAGTGAATCAACGCATTGCAAGGCTCTCAGCTCATCTCTACCCTTCAAATCTCCAGAAGATGGAGGACAGCAGTTCTGCTGTGAGAAGAGCTGATTGCAGAGCCAAAGGAGGAGCACCTGGTTTTAAAGTGGCTATTTTGGGTGCTGCTGGAGGCATTGGACAACCTCTTGCAATGCTCATGAAAATGAATCCACTGGTCTCAGTTCTTCATCTCTATGATGTCGTCAATGCCCCCGGTGTGACAGCTGATATTAGTCACATGGACACTGGCGCTGTGGTGCGCGGGTTCTTGGGGCAGGCACAGCTTGACAATGCTCTCACAGGTATTGACCTTGTGATCATACCTGCCGGTGTTCCAAGGAAGCCTGGAATGACCAGGGATGATCTTTTCAAGATCAATGCCGGAATAGTTAGGACTCTTTGCGAGGGAATTGCAAGGTGCTGCCCTAGAGCAATTGTCAACTTGATCAGTAATCCAGTGAACTCTACAGTTCCTATAGCAGCTGAGGTTTTCAAGAAAGCTGGTACTTATGACCCAAAGCGACTGCTAGGTGTTACAATGCTTGATGTCGTGAGAGCAAACACATTTGTTGCTGAAGTTCTGGGACTCGATCCTAGAGAAGTTGATGTTCCGGTTGTTGGAGGCCATTCAGGAGTGACCATTTTGCCCCTTCTGTCGCAGGTCAAGCCTCCTTGCTCCTTCACTCGAGAAGAAACAGAATACCTGACTGATCGTATTCAAAATGGTGGAACAGAAGTTGTTGAGGACAACATAATGGCAGCCTGTTACTCATCTGTTACATCTGTGCTAGTCTTGAATACTCCTGTACTAATAAATGGTCTGCTTCTTATTGCTTCTGCAAAGGCTGGGGCTGGCTCGGCAACATTATCAATGGCATATGCAGCTGTCAAGTTTGCGGATGCATGTCTTCGTGGCTTGAGAGGAGATGCTGGTGTTGTGGAATGCTCTTTTGTTGCATCTCAGGTTACAGAACTTCCTTTCTTTGTAACCAAGGTACGGCTTGGCCGTAATGGAGCTGAGGAAGTCTACCAACTTGGGCCTCTGAATGAGTATGAGAGGGTCGGTTTAGAGAAGGCGAAAAAAGAGTTAGCAGGAAGCATCGAAAAGGGGGTTTCTTTCATCAGGAAGTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005777 GO:0008150 GO:0009514 GO:0009894 GO:0010565 GO:0019216 GO:0019217 GO:0019222 GO:0031323 GO:0031329 GO:0031998 GO:0042579 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044444 GO:0044464 GO:0046320 GO:0050789 GO:0050794 GO:0050994 GO:0062012 GO:0065007 GO:0080090 GO:0080093

KEGG Pathways

Metabolic & Signaling

ko00020 ko00270 ko00620 ko00630 ko00710 ko01100 ko01110 ko01120 ko01130 ko01200 map00020 map00270 map00620 map00630 map00710 map01100 map01110 map01120 map01130 map01200

Pfam Domains

Protein Families

Ldh_1_C Ldh_1_N

Protein Analysis

389

Amino Acids

41.13

Weight (kDa)

8.36

Isoelectric Point (pI)

29.52

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Ldh_1_N	PF00056	48 - 190	1.2e-45	lactate/malate dehydrogenase, NAD binding domain
Ldh_1_C	PF02866	192 - 274	8.1e-21	lactate/malate dehydrogenase, alpha/beta C-terminal domain
Ldh_1_C	PF02866	292 - 386	4.7e-18	lactate/malate dehydrogenase, alpha/beta C-terminal domain

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: OG0009925)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G09660 AT5G09660 AT5G09660 AT5G09660
fragaria_vesca	FvH4_2g02490 FvH4_2g02490
malus_domestica	MD05G1112700.v1.1
prunus_persica	Prupe.8G157300_v2.0.a1
pyrus_communis	pycom05g10810 pycom10g09980
rosa_chinensis	RchiOBHm_Chr6g0246321
rosa_laevigata	RLG00000015263
rosa_multiflora	Rmu_sc0001066.1_g000009
rosa_roxburghii	Rroxscaffold_7G00214680
rosa_rugosa	Rorug05G0520300.1
rosa_samantha	Rh6AG034500 Rh6BG029600 Rh6CG030000 Rh6DG028900
rosa_wichuraiana	Rw6G002790 Rw6G002950

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	2 cut(s)	370, 688
AccB7I	CCANNNNNTGG	1 cut(s)	76
AccI	GTMKAC	1 cut(s)	1065
AccII	CGCG	1 cut(s)	300
AciI	CCGC	2 cut(s)	300, 935
AclWI	GGATC	1 cut(s)	623
AcoI	YGGCCR	1 cut(s)	1042
AcuI	CTGAAG	1 cut(s)	633
AcyI	GRCGYC	1 cut(s)	5
AfaI	GTAC	3 cut(s)	544, 846, 1035
AfiI	CCNNNNNNNGG	3 cut(s)	76, 656, 1035
AgsI	TTSAA	5 cut(s)	63, 409, 532, 758, 835
AjnI	CCWGG	3 cut(s)	133, 382, 392
AluBI	AGCT	8 cut(s)	47, 107, 263, 322, 521, 539, 923, 1055
AluI	AGCT	8 cut(s)	47, 107, 263, 322, 521, 539, 923, 1055
Alw21I	GWGCWC	1 cut(s)	133
Alw26I	GTCTC	1 cut(s)	220
AlwI	GGATC	1 cut(s)	623
Ama87I	CYCGRG	1 cut(s)	723
AoxI	GGCC	3 cut(s)	661, 1042, 1076
ApeKI	GCWGC	5 cut(s)	161, 459, 518, 797, 920
AspLEI	GCGC	2 cut(s)	290, 300
AspS9I	GGNCC	1 cut(s)	1076
AsuC2I	CCSGG	1 cut(s)	252
AvaI	CYCGRG	1 cut(s)	723
BbsI	GAAGAC	1 cut(s)	938
Bbv12I	GWGCWC	1 cut(s)	133
BbvCI	CCTCAGC	2 cut(s)	522, 1056
BbvI	GCAGC	5 cut(s)	148, 446, 530, 809, 932
BccI	CCATC	1 cut(s)	70
BceAI	ACGGC	2 cut(s)	1029, 1052
BcgI	CGANNNNNNTGC	2 cut(s)	431, 465
BciT130I	CCWGG	3 cut(s)	135, 384, 394
BclI	TGATCA	2 cut(s)	354, 483
BcnI	CCSGG	1 cut(s)	252
BcoDI	GTCTC	1 cut(s)	220
BfaI	CTAG	4 cut(s)	465, 566, 633, 827
BfmI	CTRYAG	2 cut(s)	504, 513
BfoI	RGCGCY	1 cut(s)	291
BfuAI	ACCTGC	2 cut(s)	370, 688
BisI	GCNGC	5 cut(s)	162, 460, 519, 798, 921
BlsI	GCNGC	5 cut(s)	163, 461, 520, 799, 922
Bme1390I	CCNGG	4 cut(s)	135, 252, 384, 394
BmeT110I	CYCGRG	1 cut(s)	723
BmgT120I	GGNCC	1 cut(s)	1076
BmrFI	CCNGG	4 cut(s)	135, 252, 384, 394
BmsI	GCATC	4 cut(s)	928, 955, 1004, 1146
BpiI	GAAGAC	1 cut(s)	938
BpmI	CTGGAG	2 cut(s)	53, 186
Bpu10I	CCTNAGC	2 cut(s)	522, 1056
BpuEI	CTTGAG	1 cut(s)	976
BpuMI	CCSGG	1 cut(s)	252
BsaHI	GRCGYC	1 cut(s)	5
BsaI	GGTCTC	1 cut(s)	220
BsaJI	CCNNGG	4 cut(s)	250, 374, 393, 1029
BsaWI	WCCGGW	1 cut(s)	649
Bsc4I	CCNNNNNNNGG	3 cut(s)	76, 656, 1035
Bse118I	RCCGGY	1 cut(s)	365
Bse1I	ACTGG	3 cut(s)	216, 289, 494
Bse3DI	GCAATG	2 cut(s)	30, 195
BseBI	CCWGG	3 cut(s)	135, 384, 394
BseDI	CCNNGG	4 cut(s)	250, 374, 393, 1029
BseGI	GGATG	2 cut(s)	403, 943
BseLI	CCNNNNNNNGG	3 cut(s)	76, 656, 1035
BseMI	GCAATG	2 cut(s)	30, 195
BseMII	CTCAG	5 cut(s)	57, 231, 513, 1013, 1047
BseNI	ACTGG	3 cut(s)	216, 289, 494
BseRI	GAGGAG	2 cut(s)	141, 975
BseXI	GCAGC	5 cut(s)	148, 446, 530, 809, 932
BseYI	CCCAGC	1 cut(s)	884
Bsh1236I	CGCG	1 cut(s)	300
BshFI	GGCC	3 cut(s)	663, 1044, 1078
BsiHKAI	GWGCWC	1 cut(s)	133
BsiHKCI	CYCGRG	1 cut(s)	723
BsiSI	CCGG	4 cut(s)	252, 366, 420, 650
BslFI	GGGAC	1 cut(s)	636
BslI	CCNNNNNNNGG	3 cut(s)	76, 656, 1035
BsmAI	GTCTC	1 cut(s)	220
BsmFI	GGGAC	1 cut(s)	636
BsmI	GAATGC	1 cut(s)	986
BsnI	GGCC	3 cut(s)	663, 1044, 1078
Bso31I	GGTCTC	1 cut(s)	220
BsoBI	CYCGRG	1 cut(s)	723
Bsp1286I	GDGCHC	1 cut(s)	133
Bsp143I	GATC	6 cut(s)	354, 400, 411, 483, 628, 748
BspACI	CCGC	2 cut(s)	300, 935
BspANI	GGCC	3 cut(s)	663, 1044, 1078
BspCNI	CTCAG	5 cut(s)	56, 230, 514, 1012, 1048
BspFNI	CGCG	1 cut(s)	300
BspHI	TCATGA	1 cut(s)	195
BspMI	ACCTGC	2 cut(s)	370, 688
BspPI	GGATC	1 cut(s)	623
BspQI	GCTCTTC	1 cut(s)	97
BspTNI	GGTCTC	1 cut(s)	220
BsrDI	GCAATG	2 cut(s)	30, 195
BsrFI	RCCGGY	1 cut(s)	365
BsrI	ACTGG	3 cut(s)	216, 289, 494
BssAI	RCCGGY	1 cut(s)	365
BssECI	CCNNGG	4 cut(s)	250, 374, 393, 1029
BssMI	GATC	6 cut(s)	354, 400, 411, 483, 628, 748
BssNI	GRCGYC	1 cut(s)	5
BssT1I	CCWWGG	2 cut(s)	374, 1029
Bst2UI	CCWGG	3 cut(s)	135, 384, 394
Bst4CI	ACNGT	1 cut(s)	508
Bst6I	CTCTTC	1 cut(s)	97
BstACI	GRCGYC	1 cut(s)	5
BstC8I	GCNNGC	2 cut(s)	315, 892
BstDEI	CTNAG	5 cut(s)	43, 217, 522, 999, 1056
BstF5I	GGATG	2 cut(s)	403, 943
BstFNI	CGCG	1 cut(s)	300
BstH2I	RGCGCY	1 cut(s)	291
BstHHI	GCGC	2 cut(s)	290, 300
BstKTI	GATC	6 cut(s)	357, 403, 414, 486, 631, 751
BstMAI	GTCTC	1 cut(s)	220
BstMBI	GATC	6 cut(s)	354, 400, 411, 483, 628, 748
BstMWI	GCNNNNNNNGC	4 cut(s)	319, 703, 896, 920
BstNI	CCWGG	3 cut(s)	135, 384, 394
BstNSI	RCATGY	1 cut(s)	945
BstSCI	CCNGG	4 cut(s)	133, 250, 382, 392
BstSFI	CTRYAG	2 cut(s)	504, 513
BstUI	CGCG	1 cut(s)	300
BstV1I	GCAGC	5 cut(s)	148, 446, 530, 809, 932
BstV2I	GAAGAC	1 cut(s)	938
BsuRI	GGCC	3 cut(s)	663, 1044, 1078
BtsCI	GGATG	2 cut(s)	403, 943
BtsIMutI	CAGTG	3 cut(s)	209, 282, 501
BveI	ACCTGC	2 cut(s)	370, 688
Cac8I	GCNNGC	2 cut(s)	315, 892
CciI	TCATGA	1 cut(s)	195
CfoI	GCGC	2 cut(s)	290, 300
Cfr10I	RCCGGY	1 cut(s)	365
Cfr13I	GGNCC	1 cut(s)	1076
CsiI	ACCWGGT	1 cut(s)	133
Csp6I	GTAC	3 cut(s)	543, 845, 1034
CviAII	CATG	3 cut(s)	196, 277, 942
CviQI	GTAC	3 cut(s)	543, 845, 1034
DdeI	CTNAG	5 cut(s)	43, 217, 522, 999, 1056
DpnI	GATC	6 cut(s)	356, 402, 413, 485, 630, 750
DpnII	GATC	6 cut(s)	354, 400, 411, 483, 628, 748
DraI	TTTAAA	1 cut(s)	142
EaeI	YGGCCR	1 cut(s)	1042
Eam1104I	CTCTTC	1 cut(s)	97
EarI	CTCTTC	1 cut(s)	97
Eco130I	CCWWGG	2 cut(s)	374, 1029
Eco31I	GGTCTC	1 cut(s)	220
Eco57I	CTGAAG	1 cut(s)	633
Eco88I	CYCGRG	1 cut(s)	723
EcoRII	CCWGG	3 cut(s)	133, 382, 392
EcoT14I	CCWWGG	2 cut(s)	374, 1029
EcoT22I	ATGCAT	1 cut(s)	943
ErhI	CCWWGG	2 cut(s)	374, 1029
FaeI	CATG	3 cut(s)	199, 280, 945
FaqI	GGGAC	1 cut(s)	636
FatI	CATG	3 cut(s)	195, 276, 941
FauI	CCCGC	1 cut(s)	293
FauNDI	CATATG	1 cut(s)	916
FbaI	TGATCA	2 cut(s)	354, 483
FblI	GTMKAC	1 cut(s)	1065
Fnu4HI	GCNGC	5 cut(s)	162, 460, 519, 798, 921
FokI	GGATG	2 cut(s)	410, 950
Fsp4HI	GCNGC	5 cut(s)	162, 460, 519, 798, 921
FspBI	CTAG	4 cut(s)	465, 566, 633, 827
GlaI	GCGC	2 cut(s)	289, 299
GluI	GCNGC	5 cut(s)	162, 460, 519, 798, 921
GsaI	CCCAGC	1 cut(s)	888
GsuI	CTGGAG	2 cut(s)	53, 186
HaeII	RGCGCY	1 cut(s)	291
HaeIII	GGCC	3 cut(s)	663, 1044, 1078
HapII	CCGG	4 cut(s)	252, 366, 420, 650
HhaI	GCGC	2 cut(s)	290, 300
Hin1I	GRCGYC	1 cut(s)	5
Hin1II	CATG	3 cut(s)	199, 280, 945
Hin6I	GCGC	2 cut(s)	288, 298
HinP1I	GCGC	2 cut(s)	288, 298
HincII	GTYRAC	1 cut(s)	478
HindII	GTYRAC	1 cut(s)	478
HinfI	GANTC	4 cut(s)	22, 205, 433, 624
HpaII	CCGG	4 cut(s)	252, 366, 420, 650
Hpy166II	GTNNAC	3 cut(s)	478, 499, 1066
Hpy188I	TCNGA	1 cut(s)	1083
Hpy188III	TCNNGA	9 cut(s)	70, 196, 409, 532, 589, 669, 725, 832, 1162
Hpy8I	GTNNAC	3 cut(s)	478, 499, 1066
HpyAV	CCTTC	4 cut(s)	69, 698, 727, 1105
HpyCH4III	ACNGT	1 cut(s)	508
HpyCH4V	TGCA	8 cut(s)	35, 114, 188, 452, 878, 920, 941, 995
HpyF10VI	GCNNNNNNNGC	4 cut(s)	319, 703, 896, 920
HpyF3I	CTNAG	5 cut(s)	43, 217, 522, 999, 1056
Hsp92I	GRCGYC	1 cut(s)	5
Hsp92II	CATG	3 cut(s)	199, 280, 945
HspAI	GCGC	2 cut(s)	288, 298
Ksp22I	TGATCA	2 cut(s)	354, 483
Kzo9I	GATC	6 cut(s)	354, 400, 411, 483, 628, 748
LguI	GCTCTTC	1 cut(s)	97
LmnI	GCTCC	3 cut(s)	128, 719, 1052
Lsp1109I	GCAGC	5 cut(s)	148, 446, 530, 809, 932
LweI	GCATC	4 cut(s)	928, 955, 1004, 1146
MabI	ACCWGGT	1 cut(s)	133
MaeI	CTAG	4 cut(s)	465, 566, 633, 827
MaeIII	GTNAC	8 cut(s)	256, 272, 571, 673, 803, 814, 1003, 1024
MalI	GATC	6 cut(s)	356, 402, 413, 485, 630, 750
MboI	GATC	6 cut(s)	354, 400, 411, 483, 628, 748
MboII	GAAGA	5 cut(s)	85, 114, 215, 740, 938
MfeI	CAATTG	1 cut(s)	471
MhlI	GDGCHC	1 cut(s)	133
MluCI	AATT	2 cut(s)	447, 471
MlyI	GAGTC	2 cut(s)	427, 618
MmeI	TCCRAC	1 cut(s)	637
Mph1103I	ATGCAT	1 cut(s)	943
MseI	TTAA	1 cut(s)	141
MslI	CAYNNNNRTG	2 cut(s)	200, 231
MspA1I	CMGCKG	3 cut(s)	263, 521, 923
MspI	CCGG	4 cut(s)	252, 366, 420, 650
MspR9I	CCNGG	4 cut(s)	135, 252, 384, 394
MunI	CAATTG	1 cut(s)	471
Mva1269I	GAATGC	1 cut(s)	986
MvaI	CCWGG	3 cut(s)	135, 384, 394
MvnI	CGCG	1 cut(s)	300
MwoI	GCNNNNNNNGC	4 cut(s)	319, 703, 896, 920
NciI	CCSGG	1 cut(s)	252
NdeI	CATATG	1 cut(s)	916
NdeII	GATC	6 cut(s)	354, 400, 411, 483, 628, 748
NlaIII	CATG	3 cut(s)	199, 280, 945
NmeAIII	GCCGAG	1 cut(s)	875
NmuCI	GTSAC	3 cut(s)	256, 272, 673
NsiI	ATGCAT	1 cut(s)	943
NspI	RCATGY	1 cut(s)	945
PaeR7I	CTCGAG	1 cut(s)	723
PagI	TCATGA	1 cut(s)	195
PciSI	GCTCTTC	1 cut(s)	97
PcsI	WCGNNNNNNNCGW	1 cut(s)	1042
PctI	GAATGC	1 cut(s)	986
PfeI	GAWTC	2 cut(s)	22, 205
PflMI	CCANNNNNTGG	1 cut(s)	76
PkrI	GCNGC	5 cut(s)	163, 461, 520, 799, 922
PleI	GAGTC	2 cut(s)	427, 618
PpsI	GAGTC	2 cut(s)	427, 618
Psp6I	CCWGG	3 cut(s)	133, 382, 392
PspFI	CCCAGC	1 cut(s)	884
PspGI	CCWGG	3 cut(s)	133, 382, 392
PspPI	GGNCC	1 cut(s)	1076
PvuII	CAGCTG	3 cut(s)	263, 521, 923
RsaI	GTAC	3 cut(s)	544, 846, 1035
RsaNI	GTAC	3 cut(s)	543, 845, 1034
RseI	CAYNNNNRTG	2 cut(s)	200, 231
SapI	GCTCTTC	1 cut(s)	97
SaqAI	TTAA	1 cut(s)	141
SatI	GCNGC	5 cut(s)	162, 460, 519, 798, 921
Sau3AI	GATC	6 cut(s)	354, 400, 411, 483, 628, 748
Sau96I	GGNCC	1 cut(s)	1076
SchI	GAGTC	2 cut(s)	427, 618
ScrFI	CCNGG	4 cut(s)	135, 252, 384, 394
SduI	GDGCHC	1 cut(s)	133
SexAI	ACCWGGT	1 cut(s)	133
SfaNI	GCATC	4 cut(s)	928, 955, 1004, 1146
SfcI	CTRYAG	2 cut(s)	504, 513
Sfr274I	CTCGAG	1 cut(s)	723
SlaI	CTCGAG	1 cut(s)	723
SmiMI	CAYNNNNRTG	2 cut(s)	200, 231
SmlI	CTYRAG	2 cut(s)	723, 955
SmoI	CTYRAG	2 cut(s)	723, 955
Sse9I	AATT	2 cut(s)	447, 471
SsiI	CCGC	2 cut(s)	300, 935
SspMI	CTAG	4 cut(s)	465, 566, 633, 827
StyD4I	CCNGG	4 cut(s)	133, 250, 382, 392
StyI	CCWWGG	2 cut(s)	374, 1029
TaaI	ACNGT	1 cut(s)	508
TaqI	TCGA	3 cut(s)	627, 724, 1140
TasI	AATT	2 cut(s)	447, 471
TatI	WGTACW	1 cut(s)	844
TfiI	GAWTC	2 cut(s)	22, 205
Tru1I	TTAA	1 cut(s)	141
Tru9I	TTAA	1 cut(s)	141
TscAI	CASTG	3 cut(s)	216, 289, 501
TseFI	GTSAC	3 cut(s)	256, 272, 673
TseI	GCWGC	5 cut(s)	161, 459, 518, 797, 920
Tsp45I	GTSAC	3 cut(s)	256, 272, 673
TspDTI	ATGAA	4 cut(s)	212, 215, 218, 1147
TspRI	CASTG	3 cut(s)	216, 289, 501
Van91I	CCANNNNNTGG	1 cut(s)	76
XceI	RCATGY	1 cut(s)	945
XhoI	CTCGAG	1 cut(s)	723
XmiI	GTMKAC	1 cut(s)	1065
XspI	CTAG	4 cut(s)	465, 566, 633, 827
Zsp2I	ATGCAT	1 cut(s)	943

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