Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000003

Orthogroup ID

OG0014268

Physical Location & Seq

Genomic Coordinates Forward (+)

64226329 .. 64227561

Gene Structure 1233 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_3G00271950.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1233 bp

ATGGCAGCAACAGCAGCAGCTACCTTTTCCGTCGGAACCACAAGTTCCGTTGGCCGGAATGGAGTCTCAACCACACAATCGAAGCCTTGTGCTTTGAGGTTCACCACCCAGAGTCCTCTTAAGAGTTTCAGTGGCCTTAAGGCAACTAGTGGATCGTTCGCTTGCGAATCTGAGTCATCATTCTTTGGCAAGGAAAGCACTGCAGCCATTCGAGCTTCTTATGCTCTGAAAGCCCAGAAGGAAGCCTCGGTGGTTCAGCAGCCGCAGGCCTCTTACAAAGTAGCTGTTCTTGGAGCTGCTGGTGGGATTGGCCAGCCCTTGGCTCTTCTCATCAAGATGTCCCCTTTGGTGTCTTCCCTGCATTTGTATGATATTGCAAATGTCAAGGGTGTTGCGGCTGATCTCAGTCACTGCAACACTCCCTCCCAGGTTCTGGATTTCACCGGAGCTGATGAGTTGGCTAAATCTTTGAAAGGTGTGGATGTGGTTGTCATACCTGCTGGAGTTCCAAGGAAGCCTGGCATGACCCGTGATGATCTCTTTAACATCAATGCCGGCATTGTGAAGACCTTGATTGAGGCTGTTGCTGATAACTGCCCGGATGCTTTCATTCACATCATCAGTAACCCAGTTAACTCTACTGTGCCTATTGCGGCTGAGGTTCTGAAGCAGAAGGGTGTTTATAACCCAAAGAAGCTCTTTGGTGTTTCTACTTTGGATGTTGTGAGGGCCAACACATTTGTTGCTCAGAAGAAGAATCTGAAATTGATTGATGTTGATGTCCCAGTTGTTGGGGGACATGCTGGAATAACTATACTGCCATTGCTGTCGAAGACAAAACCCTCAGTCAGCCTCAGTGATGAAGAAGTTGCAGAGCTGACTGTTAGGATTCAGAATGCTGGAACTGAAGTTGTGGAGGCGAAGGCAGGTGCTGGGTCTGCAACATTGTCAATGGCATATGCTGCAGCTAGATTTGTTGAGTCTTCTCTCCGTGCACTGGATGGAGACAGCGATGTCTATGAGTGCTCTTATGTGGATTCAAATCTGACTGAGCTTCCGTTCTTTGCTTCAAGAATTAAGATTGGAAAGGAAGGAGTTGAAGCTTTGATACCATCTGACCTTCAGGGTCTAACAGAGTACGAACAAAAGGCTCTTGAAGCACTGAAGCCAGAACTGAAAGCCAGCATCGAGAAGGGTATTGCATTTGCCAACAAGCAACCAGTGGCTGCCTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0003006 GO:0003674 GO:0003824 GO:0005575 GO:0005576 GO:0005622 GO:0005623 GO:0005737 GO:0005739 GO:0005773 GO:0005774 GO:0006950 GO:0007275 GO:0008150 GO:0008152 GO:0008746 GO:0009266 GO:0009409 GO:0009507 GO:0009526 GO:0009532 GO:0009536 GO:0009570 GO:0009628 GO:0009719 GO:0009725 GO:0009735 GO:0009790 GO:0009791 GO:0009793 GO:0009941 GO:0010033 GO:0010154 GO:0010319 GO:0016020 GO:0016491 GO:0016614 GO:0016615 GO:0016616 GO:0016651 GO:0016652 GO:0022414 GO:0030060 GO:0031090 GO:0031967 GO:0031975 GO:0032501 GO:0032502 GO:0042221 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044422 GO:0044424 GO:0044434 GO:0044435 GO:0044437 GO:0044444 GO:0044446 GO:0044464 GO:0048046 GO:0048316 GO:0048608 GO:0048731 GO:0048856 GO:0050896 GO:0055114 GO:0061458 GO:0098588 GO:0098805

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

410

Amino Acids

42.82

Weight (kDa)

6.91

Isoelectric Point (pI)

35.9

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Ldh_1_N	PF00056	93 - 235	1.8e-47	lactate/malate dehydrogenase, NAD binding domain
Ldh_1_C	PF02866	238 - 402	3.5e-42	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: OG0014268)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G47520
fragaria_vesca	FvH4_5g14890
malus_domestica	MD06G1193800.v1.1
prunus_persica	Prupe.5G194200_v2.0.a1
pyrus_communis	pycom06g17180
rosa_chinensis	RchiOBHm_Chr7g0181501
rosa_laevigata	RLG00000005188
rosa_multiflora	Rmu_sc0017276.1_g000002
rosa_roxburghii	Rroxscaffold_3G00271950
rosa_rugosa	Rorug06G0441800 Rorug06G0441900
rosa_samantha	Rh7AG043700 Rh7BG043000 Rh7CG044800 Rh7DG043500
rosa_wichuraiana	Rw2G025070 Rw7G003630

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	684
AarI	CACCTGC	1 cut(s)	917
AasI	GACNNNNNNGTC	1 cut(s)	1013
Acc36I	ACCTGC	2 cut(s)	505, 917
AccB7I	CCANNNNNTGG	3 cut(s)	319, 433, 791
AciI	CCGC	3 cut(s)	263, 395, 653
AclWI	GGATC	1 cut(s)	160
AcoI	YGGCCR	2 cut(s)	52, 310
AcuI	CTGAAG	4 cut(s)	686, 927, 1106, 1184
AfaI	GTAC	1 cut(s)	1139
AfiI	CCNNNNNNNGG	5 cut(s)	54, 319, 433, 791, 997
AflII	CTTAAG	2 cut(s)	119, 137
AgsI	TTSAA	5 cut(s)	472, 1041, 1071, 1100, 1157
AhlI	ACTAGT	1 cut(s)	146
AjnI	CCWGG	2 cut(s)	426, 517
Alw21I	GWGCWC	2 cut(s)	997, 1028
Alw26I	GTCTC	2 cut(s)	70, 999
Alw44I	GTGCAC	1 cut(s)	993
AlwI	GGATC	1 cut(s)	160
AlwNI	CAGNNNCTG	4 cut(s)	411, 433, 932, 1226
AoxI	GGCC	5 cut(s)	52, 133, 267, 310, 729
ApaLI	GTGCAC	1 cut(s)	993
ApeKI	GCWGC	9 cut(s)	5, 14, 17, 203, 259, 296, 962, 965, 1226
AspS9I	GGNCC	1 cut(s)	729
AsuC2I	CCSGG	1 cut(s)	599
AsuHPI	GGTGA	2 cut(s)	94, 433
BaeGI	GKGCMC	1 cut(s)	997
BalI	TGGCCA	1 cut(s)	312
BarI	GAAGNNNNNNTAC	2 cut(s)	1092, 1124
BbsI	GAAGAC	4 cut(s)	345, 572, 839, 975
Bbv12I	GWGCWC	2 cut(s)	997, 1028
BbvCI	CCTCAGC	1 cut(s)	657
BbvI	GCAGC	9 cut(s)	17, 26, 29, 215, 271, 283, 949, 977, 1213
BccI	CCATC	2 cut(s)	995, 1120
BciT130I	CCWGG	2 cut(s)	428, 519
BcnI	CCSGG	1 cut(s)	599
BcoDI	GTCTC	2 cut(s)	70, 999
BcuI	ACTAGT	1 cut(s)	146
BfaI	CTAG	3 cut(s)	147, 969, 1231
BfmI	CTRYAG	2 cut(s)	201, 963
BfrI	CTTAAG	2 cut(s)	119, 137
BfuAI	ACCTGC	2 cut(s)	505, 917
Bme1390I	CCNGG	3 cut(s)	428, 519, 599
BmgT120I	GGNCC	1 cut(s)	729
BmiI	GGNNCC	1 cut(s)	37
BmrFI	CCNGG	3 cut(s)	428, 519, 599
BmrI	ACTGGG	2 cut(s)	623, 779
BmsI	GCATC	2 cut(s)	592, 1194
BmuI	ACTGGG	2 cut(s)	623, 779
BpiI	GAAGAC	4 cut(s)	345, 572, 839, 975
BpmI	CTGGAG	1 cut(s)	522
Bpu10I	CCTNAGC	1 cut(s)	657
BpuMI	CCSGG	1 cut(s)	599
BsaBI	GATNNNNATC	1 cut(s)	1041
BsaJI	CCNNGG	4 cut(s)	246, 318, 426, 509
BsaWI	WCCGGW	1 cut(s)	443
BsaXI	ACNNNNNCTCC	2 cut(s)	407, 437
Bsc4I	CCNNNNNNNGG	5 cut(s)	54, 319, 433, 791, 997
Bse118I	RCCGGY	1 cut(s)	554
Bse1I	ACTGG	4 cut(s)	629, 785, 1002, 1220
Bse3DI	GCAATG	1 cut(s)	821
Bse8I	GATNNNNATC	1 cut(s)	1041
BseBI	CCWGG	2 cut(s)	428, 519
BseDI	CCNNGG	4 cut(s)	246, 318, 426, 509
BseGI	GGATG	4 cut(s)	487, 607, 724, 1006
BseJI	GATNNNNATC	1 cut(s)	1041
BseLI	CCNNNNNNNGG	5 cut(s)	54, 319, 433, 791, 997
BseMI	GCAATG	1 cut(s)	821
BseMII	CTCAG	7 cut(s)	162, 418, 648, 761, 858, 868, 1041
BseNI	ACTGG	4 cut(s)	629, 785, 1002, 1220
BseSI	GKGCMC	1 cut(s)	997
BseXI	GCAGC	9 cut(s)	17, 26, 29, 215, 271, 283, 949, 977, 1213
BseYI	CCCAGC	1 cut(s)	932
BshFI	GGCC	5 cut(s)	54, 135, 269, 312, 731
BsiHKAI	GWGCWC	2 cut(s)	997, 1028
BsiSI	CCGG	4 cut(s)	55, 444, 555, 599
BslFI	GGGAC	3 cut(s)	325, 767, 810
BslI	CCNNNNNNNGG	5 cut(s)	54, 319, 433, 791, 997
BsmAI	GTCTC	2 cut(s)	70, 999
BsmFI	GGGAC	3 cut(s)	325, 767, 810
BsmI	GAATGC	1 cut(s)	901
BsnI	GGCC	5 cut(s)	54, 135, 269, 312, 731
Bsp1286I	GDGCHC	2 cut(s)	997, 1028
Bsp143I	GATC	3 cut(s)	152, 400, 535
BspACI	CCGC	3 cut(s)	263, 395, 653
BspANI	GGCC	5 cut(s)	54, 135, 269, 312, 731
BspCNI	CTCAG	7 cut(s)	163, 417, 649, 760, 857, 867, 1042
BspLI	GGNNCC	1 cut(s)	37
BspMAI	CTGCAG	2 cut(s)	205, 967
BspMI	ACCTGC	2 cut(s)	505, 917
BspPI	GGATC	1 cut(s)	160
BspQI	GCTCTTC	1 cut(s)	330
BspTI	CTTAAG	2 cut(s)	119, 137
BsrDI	GCAATG	1 cut(s)	821
BsrFI	RCCGGY	1 cut(s)	554
BsrI	ACTGG	4 cut(s)	629, 785, 1002, 1220
BssAI	RCCGGY	1 cut(s)	554
BssECI	CCNNGG	4 cut(s)	246, 318, 426, 509
BssMI	GATC	3 cut(s)	152, 400, 535
BssT1I	CCWWGG	2 cut(s)	318, 509
Bst2UI	CCWGG	2 cut(s)	428, 519
Bst4CI	ACNGT	2 cut(s)	643, 883
Bst6I	CTCTTC	1 cut(s)	330
BstAFI	CTTAAG	2 cut(s)	119, 137
BstAPI	GCANNNNNTGC	1 cut(s)	962
BstC8I	GCNNGC	5 cut(s)	163, 267, 314, 556, 1183
BstDEI	CTNAG	7 cut(s)	171, 404, 657, 747, 844, 854, 1050
BstF5I	GGATG	4 cut(s)	487, 607, 724, 1006
BstKTI	GATC	3 cut(s)	155, 403, 538
BstMAI	GTCTC	2 cut(s)	70, 999
BstMBI	GATC	3 cut(s)	152, 400, 535
BstMWI	GCNNNNNNNGC	9 cut(s)	11, 14, 195, 212, 221, 230, 938, 962, 1157
BstNI	CCWGG	2 cut(s)	428, 519
BstNSI	RCATGY	1 cut(s)	803
BstSCI	CCNGG	3 cut(s)	426, 517, 597
BstSFI	CTRYAG	2 cut(s)	201, 963
BstSLI	GKGCMC	1 cut(s)	997
BstV1I	GCAGC	9 cut(s)	17, 26, 29, 215, 271, 283, 949, 977, 1213
BstV2I	GAAGAC	4 cut(s)	345, 572, 839, 975
BsuRI	GGCC	5 cut(s)	54, 135, 269, 312, 731
BtgZI	GCGATG	1 cut(s)	1026
BtsCI	GGATG	4 cut(s)	487, 607, 724, 1006
BtsI	GCAGTG	2 cut(s)	198, 409
BtsIMutI	CAGTG	7 cut(s)	136, 198, 409, 862, 995, 1160, 1227
BveI	ACCTGC	2 cut(s)	505, 917
Cac8I	GCNNGC	5 cut(s)	163, 267, 314, 556, 1183
CaiI	CAGNNNCTG	4 cut(s)	411, 433, 932, 1226
Cfr10I	RCCGGY	1 cut(s)	554
Cfr13I	GGNCC	1 cut(s)	729
Csp6I	GTAC	1 cut(s)	1138
CviAII	CATG	2 cut(s)	523, 800
CviQI	GTAC	1 cut(s)	1138
DdeI	CTNAG	7 cut(s)	171, 404, 657, 747, 844, 854, 1050
DpnI	GATC	3 cut(s)	154, 402, 537
DpnII	GATC	3 cut(s)	152, 400, 535
DrdI	GACNNNNNNGTC	1 cut(s)	1013
DseDI	GACNNNNNNGTC	1 cut(s)	1013
EaeI	YGGCCR	2 cut(s)	52, 310
Eam1104I	CTCTTC	1 cut(s)	330
EarI	CTCTTC	1 cut(s)	330
Eco130I	CCWWGG	2 cut(s)	318, 509
Eco147I	AGGCCT	1 cut(s)	269
Eco57I	CTGAAG	4 cut(s)	686, 927, 1106, 1184
EcoRII	CCWGG	2 cut(s)	426, 517
EcoT14I	CCWWGG	2 cut(s)	318, 509
ErhI	CCWWGG	2 cut(s)	318, 509
FaeI	CATG	2 cut(s)	526, 803
FalI	AAGNNNNNCTT	2 cut(s)	683, 715
FaqI	GGGAC	3 cut(s)	325, 767, 810
FatI	CATG	2 cut(s)	522, 799
FauNDI	CATATG	1 cut(s)	958
FokI	GGATG	4 cut(s)	494, 614, 731, 1013
FspBI	CTAG	3 cut(s)	147, 969, 1231
GsaI	CCCAGC	1 cut(s)	936
GsuI	CTGGAG	1 cut(s)	522
HaeIII	GGCC	5 cut(s)	54, 135, 269, 312, 731
HapII	CCGG	4 cut(s)	55, 444, 555, 599
Hin1II	CATG	2 cut(s)	526, 803
HincII	GTYRAC	1 cut(s)	634
HindII	GTYRAC	1 cut(s)	634
HindIII	AAGCTT	1 cut(s)	1101
HinfI	GANTC	8 cut(s)	63, 112, 167, 173, 757, 889, 980, 1037
HpaI	GTTAAC	1 cut(s)	634
HpaII	CCGG	4 cut(s)	55, 444, 555, 599
HphI	GGTGA	2 cut(s)	94, 433
Hpy166II	GTNNAC	3 cut(s)	102, 634, 995
Hpy188I	TCNGA	9 cut(s)	35, 172, 228, 666, 750, 762, 894, 1047, 1117
Hpy188III	TCNNGA	5 cut(s)	334, 434, 1071, 1154, 1189
Hpy8I	GTNNAC	3 cut(s)	102, 634, 995
Hpy99I	CGWCG	1 cut(s)	35
HpyAV	CCTTC	6 cut(s)	232, 667, 916, 1085, 1130, 1186
HpyCH4III	ACNGT	2 cut(s)	643, 883
HpyCH4V	TGCA	9 cut(s)	203, 361, 377, 414, 872, 941, 965, 995, 1202
HpyF10VI	GCNNNNNNNGC	9 cut(s)	11, 14, 195, 212, 221, 230, 938, 962, 1157
HpyF3I	CTNAG	7 cut(s)	171, 404, 657, 747, 844, 854, 1050
Hsp92II	CATG	2 cut(s)	526, 803
KroI	GCCGGC	1 cut(s)	554
KroNI	GCCGGC	1 cut(s)	556
KspAI	GTTAAC	1 cut(s)	634
Kzo9I	GATC	3 cut(s)	152, 400, 535
LguI	GCTCTTC	1 cut(s)	330
LmnI	GCTCC	2 cut(s)	293, 446
Lsp1109I	GCAGC	9 cut(s)	17, 26, 29, 215, 271, 283, 949, 977, 1213
LweI	GCATC	2 cut(s)	592, 1194
MaeI	CTAG	3 cut(s)	147, 969, 1231
MaeIII	GTNAC	2 cut(s)	407, 623
MalI	GATC	3 cut(s)	154, 402, 537
MboI	GATC	3 cut(s)	152, 400, 535
MboII	GAAGA	8 cut(s)	317, 345, 577, 763, 766, 844, 875, 975
MhlI	GDGCHC	2 cut(s)	997, 1028
MlsI	TGGCCA	1 cut(s)	312
MluCI	AATT	2 cut(s)	764, 1074
MluNI	TGGCCA	1 cut(s)	312
MlyI	GAGTC	4 cut(s)	72, 121, 182, 989
MmeI	TCCRAC	1 cut(s)	13
Mox20I	TGGCCA	1 cut(s)	312
MroNI	GCCGGC	1 cut(s)	554
MscI	TGGCCA	1 cut(s)	312
MseI	TTAA	5 cut(s)	120, 138, 543, 633, 1077
MslI	CAYNNNNRTG	2 cut(s)	335, 366
Msp20I	TGGCCA	1 cut(s)	312
MspCI	CTTAAG	2 cut(s)	119, 137
MspI	CCGG	4 cut(s)	55, 444, 555, 599
MspR9I	CCNGG	3 cut(s)	428, 519, 599
Mva1269I	GAATGC	1 cut(s)	901
MvaI	CCWGG	2 cut(s)	428, 519
MwoI	GCNNNNNNNGC	9 cut(s)	11, 14, 195, 212, 221, 230, 938, 962, 1157
NaeI	GCCGGC	1 cut(s)	556
NciI	CCSGG	1 cut(s)	599
NdeI	CATATG	1 cut(s)	958
NdeII	GATC	3 cut(s)	152, 400, 535
NgoMIV	GCCGGC	1 cut(s)	554
NlaIII	CATG	2 cut(s)	526, 803
NlaIV	GGNNCC	1 cut(s)	37
NmuCI	GTSAC	1 cut(s)	407
NspI	RCATGY	1 cut(s)	803
PaqCI	CACCTGC	1 cut(s)	917
PceI	AGGCCT	1 cut(s)	269
PciSI	GCTCTTC	1 cut(s)	330
PctI	GAATGC	1 cut(s)	901
PdiI	GCCGGC	1 cut(s)	556
PfeI	GAWTC	4 cut(s)	167, 757, 889, 1037
PflMI	CCANNNNNTGG	3 cut(s)	319, 433, 791
PleI	GAGTC	4 cut(s)	71, 120, 181, 988
PpsI	GAGTC	4 cut(s)	71, 120, 181, 988
PsiI	TTATAA	1 cut(s)	684
Psp6I	CCWGG	2 cut(s)	426, 517
PspFI	CCCAGC	1 cut(s)	932
PspGI	CCWGG	2 cut(s)	426, 517
PspN4I	GGNNCC	1 cut(s)	37
PspPI	GGNCC	1 cut(s)	729
PstI	CTGCAG	2 cut(s)	205, 967
PstNI	CAGNNNCTG	4 cut(s)	411, 433, 932, 1226
RsaI	GTAC	1 cut(s)	1139
RsaNI	GTAC	1 cut(s)	1138
RseI	CAYNNNNRTG	2 cut(s)	335, 366
SapI	GCTCTTC	1 cut(s)	330
SaqAI	TTAA	5 cut(s)	120, 138, 543, 633, 1077
Sau3AI	GATC	3 cut(s)	152, 400, 535
Sau96I	GGNCC	1 cut(s)	729
SchI	GAGTC	4 cut(s)	72, 121, 182, 989
ScrFI	CCNGG	3 cut(s)	428, 519, 599
SduI	GDGCHC	2 cut(s)	997, 1028
SfaNI	GCATC	2 cut(s)	592, 1194
SfcI	CTRYAG	2 cut(s)	201, 963
SmiMI	CAYNNNNRTG	2 cut(s)	335, 366
SmlI	CTYRAG	2 cut(s)	119, 137
SmoI	CTYRAG	2 cut(s)	119, 137
SpeI	ACTAGT	1 cut(s)	146
Sse9I	AATT	2 cut(s)	764, 1074
SseBI	AGGCCT	1 cut(s)	269
SsiI	CCGC	3 cut(s)	263, 395, 653
SspMI	CTAG	3 cut(s)	147, 969, 1231
StuI	AGGCCT	1 cut(s)	269
StyD4I	CCNGG	3 cut(s)	426, 517, 597
StyI	CCWWGG	2 cut(s)	318, 509
TaaI	ACNGT	2 cut(s)	643, 883
TaqI	TCGA	4 cut(s)	80, 211, 830, 1188
TasI	AATT	2 cut(s)	764, 1074
TauI	GCSGC	3 cut(s)	265, 398, 656
TfiI	GAWTC	4 cut(s)	167, 757, 889, 1037
Tru1I	TTAA	5 cut(s)	120, 138, 543, 633, 1077
Tru9I	TTAA	5 cut(s)	120, 138, 543, 633, 1077
TscAI	CASTG	7 cut(s)	136, 205, 416, 862, 1002, 1167, 1227
TseFI	GTSAC	1 cut(s)	407
TseI	GCWGC	9 cut(s)	5, 14, 17, 203, 259, 296, 962, 965, 1226
Tsp45I	GTSAC	1 cut(s)	407
TspDTI	ATGAA	2 cut(s)	598, 876
TspGWI	ACGGA	4 cut(s)	19, 37, 980, 1047
TspRI	CASTG	7 cut(s)	136, 205, 416, 862, 1002, 1167, 1227
Van91I	CCANNNNNTGG	3 cut(s)	319, 433, 791
Vha464I	CTTAAG	2 cut(s)	119, 137
VneI	GTGCAC	1 cut(s)	993
XceI	RCATGY	1 cut(s)	803
XspI	CTAG	3 cut(s)	147, 969, 1231

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