Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr7B

Orthogroup ID

OG0014268

Physical Location & Seq

Genomic Coordinates Reverse (-)

2718386 .. 2720856

Gene Structure 2471 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh7BG043000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1236 bp

ATGGCAGCAACAGCAGCAGCAGCTACCTTTTCCGTCGGAACCACATGTTCCGTTGGCCGGAAAGGAATCTCAACCCCACAATCGAAGCCTTGTGCTTTGAGGTTCACCACCCAGAATCCTCTTAAGAGTTTCAGTGGCCTTAAGGCAACAAGTGGATCGTTCGCTTGCGAATCTGAGTCATCATTCTTTGGCAAGGAAAGCACTGCAGCTATTCGAGCTTCTTATGCTCTGAAAGCCCAGAAGGAAGCCTCGGTGGTTCAGCAGCCGCAGGCGTCTTACAAAGTAGCTGTTCTTGGAGCTGCTGGTGGGATTGGCCAGCCCTTGGCTCTTCTCATCAAGATGTCCCCTTTGGTGTCTTCCCTGCATTTGTACGATATTGCAAATGTCAAGGGTGTTGCGGCTGATCTCAGTCACTGCAACACTCCCTCCCAGGTTCTGGATTTCACCGGAGCTGATGAGTTGGCTAAATCTTTGAAAGGTGTGGATGTGGTTGTCATTCCTGCTGGAGTTCCAAGGAAGCCTGGCATGACCCGTGATGATCTCTTTAACATCAATGCTGGCATTGTGAAGACCTTGATTGAGGCTGTTGCTGAGAACTGCCCAGATGCTTTCATTCACATCATCAGTAACCCAGTTAACTCTACTGTGCCTATTGCGGCTGAGGTTCTGAAGCAGAAGGGTGTTTATAACCCAAAGAAGCTCTTTGGTGTTTCTACTTTGGATGTTGTGAGGGCTAACACATTTGTTGCTCAGAAGAAGAATCTGAAATTGATTGATGTTGATGTCCCAGTTGTTGGGGGACATGCTGGAATAACTATACTGCCATTGCTGTCGAAGACAAAACCCTCAGTCAGCCTCAGTGATGAAGAAGTTGCAGAGCTGACTGTTAGGATTCAGAATGCTGGAACTGAAGTTGTGGAGGCGAAGGCAGGTGCTGGGTCTGCAACATTGTCAATGGCATATGCTGCAGCTAGATTTGTTGAGTCGTCTCTCCGTGCACTGGATGGAGACAGCGATGTCTATGAGTGCTCTTATGTGGATTCAAATCTGACTGAGCTTCCGTTCTTTGCTTCAAGAATTAAGATTGGAAAGGAAGGAGTTGAAGCTTTGATACCATCTGACCTTCAGGGTCTAACAGAGTACGAGCAAAAGGCTCTTGAAGCACTGAAGCCAGAACTGAAAGCCAGCATCGAGAAGGGTATTGCATTTGCCAACAAGCAACCAGTGGCTGCCTAG

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

411

Amino Acids

42.97

Weight (kDa)

7.55

Isoelectric Point (pI)

33.67

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Ldh_1_N	PF00056	94 - 236	9.9e-48	lactate/malate dehydrogenase, NAD binding domain
Ldh_1_C	PF02866	239 - 403	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

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: 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)	687
AarI	CACCTGC	1 cut(s)	920
AasI	GACNNNNNNGTC	1 cut(s)	1016
Acc36I	ACCTGC	1 cut(s)	920
AccB7I	CCANNNNNTGG	3 cut(s)	322, 436, 794
AciI	CCGC	3 cut(s)	266, 398, 656
AclWI	GGATC	1 cut(s)	163
AcoI	YGGCCR	2 cut(s)	55, 313
AcuI	CTGAAG	4 cut(s)	689, 930, 1109, 1187
AcyI	GRCGYC	1 cut(s)	272
AfaI	GTAC	2 cut(s)	371, 1142
AfiI	CCNNNNNNNGG	5 cut(s)	57, 322, 436, 794, 1000
AflII	CTTAAG	2 cut(s)	122, 140
AflIII	ACRYGT	1 cut(s)	44
AgsI	TTSAA	5 cut(s)	475, 1044, 1074, 1103, 1160
AjnI	CCWGG	2 cut(s)	429, 520
Alw21I	GWGCWC	2 cut(s)	1000, 1031
Alw26I	GTCTC	2 cut(s)	993, 1002
Alw44I	GTGCAC	1 cut(s)	996
AlwI	GGATC	1 cut(s)	163
AlwNI	CAGNNNCTG	4 cut(s)	414, 436, 935, 1229
AoxI	GGCC	3 cut(s)	55, 136, 313
ApaLI	GTGCAC	1 cut(s)	996
AsuHPI	GGTGA	2 cut(s)	97, 436
BaeGI	GKGCMC	1 cut(s)	1000
BalI	TGGCCA	1 cut(s)	315
BarI	GAAGNNNNNNTAC	2 cut(s)	1095, 1127
BbsI	GAAGAC	3 cut(s)	348, 575, 842
Bbv12I	GWGCWC	2 cut(s)	1000, 1031
BbvCI	CCTCAGC	1 cut(s)	660
BccI	CCATC	2 cut(s)	998, 1123
BciT130I	CCWGG	2 cut(s)	431, 522
BcoDI	GTCTC	2 cut(s)	993, 1002
BfaI	CTAG	2 cut(s)	972, 1234
BfmI	CTRYAG	2 cut(s)	204, 966
BfrI	CTTAAG	2 cut(s)	122, 140
BfuAI	ACCTGC	1 cut(s)	920
Bme1390I	CCNGG	2 cut(s)	431, 522
BmiI	GGNNCC	1 cut(s)	40
BmrFI	CCNGG	2 cut(s)	431, 522
BmrI	ACTGGG	2 cut(s)	626, 782
BmsI	GCATC	2 cut(s)	595, 1197
BmuI	ACTGGG	2 cut(s)	626, 782
BpiI	GAAGAC	3 cut(s)	348, 575, 842
BpmI	CTGGAG	1 cut(s)	525
Bpu10I	CCTNAGC	1 cut(s)	660
BsaBI	GATNNNNATC	1 cut(s)	1044
BsaHI	GRCGYC	1 cut(s)	272
BsaJI	CCNNGG	4 cut(s)	249, 321, 429, 512
BsaWI	WCCGGW	1 cut(s)	446
BsaXI	ACNNNNNCTCC	2 cut(s)	410, 440
Bsc4I	CCNNNNNNNGG	5 cut(s)	57, 322, 436, 794, 1000
Bse1I	ACTGG	4 cut(s)	632, 788, 1005, 1223
Bse3DI	GCAATG	1 cut(s)	824
Bse8I	GATNNNNATC	1 cut(s)	1044
BseBI	CCWGG	2 cut(s)	431, 522
BseDI	CCNNGG	4 cut(s)	249, 321, 429, 512
BseGI	GGATG	3 cut(s)	490, 727, 1009
BseJI	GATNNNNATC	1 cut(s)	1044
BseLI	CCNNNNNNNGG	5 cut(s)	57, 322, 436, 794, 1000
BseMI	GCAATG	1 cut(s)	824
BseMII	CTCAG	8 cut(s)	165, 421, 582, 651, 764, 861, 871, 1044
BseNI	ACTGG	4 cut(s)	632, 788, 1005, 1223
BseSI	GKGCMC	1 cut(s)	1000
BseYI	CCCAGC	1 cut(s)	935
BshFI	GGCC	3 cut(s)	57, 138, 315
BsiHKAI	GWGCWC	2 cut(s)	1000, 1031
BsiSI	CCGG	2 cut(s)	58, 447
BslFI	GGGAC	3 cut(s)	328, 770, 813
BslI	CCNNNNNNNGG	5 cut(s)	57, 322, 436, 794, 1000
BsmAI	GTCTC	2 cut(s)	993, 1002
BsmBI	CGTCTC	1 cut(s)	993
BsmFI	GGGAC	3 cut(s)	328, 770, 813
BsmI	GAATGC	1 cut(s)	904
BsnI	GGCC	3 cut(s)	57, 138, 315
Bsp1286I	GDGCHC	2 cut(s)	1000, 1031
Bsp143I	GATC	3 cut(s)	155, 403, 538
BspACI	CCGC	3 cut(s)	266, 398, 656
BspANI	GGCC	3 cut(s)	57, 138, 315
BspCNI	CTCAG	8 cut(s)	166, 420, 583, 652, 763, 860, 870, 1045
BspLI	GGNNCC	1 cut(s)	40
BspMAI	CTGCAG	2 cut(s)	208, 970
BspMI	ACCTGC	1 cut(s)	920
BspPI	GGATC	1 cut(s)	163
BspQI	GCTCTTC	1 cut(s)	333
BspTI	CTTAAG	2 cut(s)	122, 140
BsrDI	GCAATG	1 cut(s)	824
BsrI	ACTGG	4 cut(s)	632, 788, 1005, 1223
BssECI	CCNNGG	4 cut(s)	249, 321, 429, 512
BssMI	GATC	3 cut(s)	155, 403, 538
BssNI	GRCGYC	1 cut(s)	272
BssT1I	CCWWGG	2 cut(s)	321, 512
Bst2UI	CCWGG	2 cut(s)	431, 522
Bst4CI	ACNGT	2 cut(s)	646, 886
Bst6I	CTCTTC	1 cut(s)	333
BstACI	GRCGYC	1 cut(s)	272
BstAFI	CTTAAG	2 cut(s)	122, 140
BstAPI	GCANNNNNTGC	1 cut(s)	965
BstC8I	GCNNGC	5 cut(s)	166, 270, 317, 559, 1186
BstDEI	CTNAG	8 cut(s)	174, 407, 591, 660, 750, 847, 857, 1053
BstF5I	GGATG	3 cut(s)	490, 727, 1009
BstKTI	GATC	3 cut(s)	158, 406, 541
BstMAI	GTCTC	2 cut(s)	993, 1002
BstMBI	GATC	3 cut(s)	155, 403, 538
BstNI	CCWGG	2 cut(s)	431, 522
BstNSI	RCATGY	2 cut(s)	48, 806
BstSCI	CCNGG	2 cut(s)	429, 520
BstSFI	CTRYAG	2 cut(s)	204, 966
BstSLI	GKGCMC	1 cut(s)	1000
BstV2I	GAAGAC	3 cut(s)	348, 575, 842
BsuRI	GGCC	3 cut(s)	57, 138, 315
BtgZI	GCGATG	1 cut(s)	1029
BtsCI	GGATG	3 cut(s)	490, 727, 1009
BtsI	GCAGTG	2 cut(s)	201, 412
BtsIMutI	CAGTG	7 cut(s)	139, 201, 412, 865, 998, 1163, 1230
BveI	ACCTGC	1 cut(s)	920
Cac8I	GCNNGC	5 cut(s)	166, 270, 317, 559, 1186
CaiI	CAGNNNCTG	4 cut(s)	414, 436, 935, 1229
CseI	GACGC	1 cut(s)	261
Csp6I	GTAC	2 cut(s)	370, 1141
CviAII	CATG	3 cut(s)	45, 526, 803
CviQI	GTAC	2 cut(s)	370, 1141
DdeI	CTNAG	8 cut(s)	174, 407, 591, 660, 750, 847, 857, 1053
DpnI	GATC	3 cut(s)	157, 405, 540
DpnII	GATC	3 cut(s)	155, 403, 538
DrdI	GACNNNNNNGTC	1 cut(s)	1016
DseDI	GACNNNNNNGTC	1 cut(s)	1016
EaeI	YGGCCR	2 cut(s)	55, 313
Eam1104I	CTCTTC	1 cut(s)	333
EarI	CTCTTC	1 cut(s)	333
Eco130I	CCWWGG	2 cut(s)	321, 512
Eco57I	CTGAAG	4 cut(s)	689, 930, 1109, 1187
EcoRII	CCWGG	2 cut(s)	429, 520
EcoT14I	CCWWGG	2 cut(s)	321, 512
ErhI	CCWWGG	2 cut(s)	321, 512
Esp3I	CGTCTC	1 cut(s)	993
FaeI	CATG	3 cut(s)	48, 529, 806
FalI	AAGNNNNNCTT	2 cut(s)	686, 718
FaqI	GGGAC	3 cut(s)	328, 770, 813
FatI	CATG	3 cut(s)	44, 525, 802
FauNDI	CATATG	1 cut(s)	961
FokI	GGATG	3 cut(s)	497, 734, 1016
FspBI	CTAG	2 cut(s)	972, 1234
GsaI	CCCAGC	1 cut(s)	939
GsuI	CTGGAG	1 cut(s)	525
HaeIII	GGCC	3 cut(s)	57, 138, 315
HapII	CCGG	2 cut(s)	58, 447
HgaI	GACGC	1 cut(s)	261
Hin1I	GRCGYC	1 cut(s)	272
Hin1II	CATG	3 cut(s)	48, 529, 806
HincII	GTYRAC	1 cut(s)	637
HindII	GTYRAC	1 cut(s)	637
HindIII	AAGCTT	1 cut(s)	1104
HinfI	GANTC	8 cut(s)	66, 115, 170, 176, 760, 892, 983, 1040
HpaI	GTTAAC	1 cut(s)	637
HpaII	CCGG	2 cut(s)	58, 447
HphI	GGTGA	2 cut(s)	97, 436
Hpy166II	GTNNAC	3 cut(s)	105, 637, 998
Hpy188I	TCNGA	9 cut(s)	38, 175, 231, 669, 753, 765, 897, 1050, 1120
Hpy188III	TCNNGA	5 cut(s)	337, 437, 1074, 1157, 1192
Hpy8I	GTNNAC	3 cut(s)	105, 637, 998
Hpy99I	CGWCG	1 cut(s)	38
HpyAV	CCTTC	6 cut(s)	235, 670, 919, 1088, 1133, 1189
HpyCH4III	ACNGT	2 cut(s)	646, 886
HpyCH4V	TGCA	9 cut(s)	206, 364, 380, 417, 875, 944, 968, 998, 1205
HpyF3I	CTNAG	8 cut(s)	174, 407, 591, 660, 750, 847, 857, 1053
Hsp92I	GRCGYC	1 cut(s)	272
Hsp92II	CATG	3 cut(s)	48, 529, 806
KspAI	GTTAAC	1 cut(s)	637
Kzo9I	GATC	3 cut(s)	155, 403, 538
LguI	GCTCTTC	1 cut(s)	333
LmnI	GCTCC	2 cut(s)	296, 449
LweI	GCATC	2 cut(s)	595, 1197
MaeI	CTAG	2 cut(s)	972, 1234
MaeIII	GTNAC	2 cut(s)	410, 626
MalI	GATC	3 cut(s)	157, 405, 540
MboI	GATC	3 cut(s)	155, 403, 538
MboII	GAAGA	7 cut(s)	320, 348, 580, 766, 769, 847, 878
MhlI	GDGCHC	2 cut(s)	1000, 1031
MlsI	TGGCCA	1 cut(s)	315
MluCI	AATT	2 cut(s)	767, 1077
MluNI	TGGCCA	1 cut(s)	315
MlyI	GAGTC	2 cut(s)	185, 992
MmeI	TCCRAC	1 cut(s)	16
Mox20I	TGGCCA	1 cut(s)	315
MscI	TGGCCA	1 cut(s)	315
MseI	TTAA	5 cut(s)	123, 141, 546, 636, 1080
MslI	CAYNNNNRTG	1 cut(s)	338
Msp20I	TGGCCA	1 cut(s)	315
MspCI	CTTAAG	2 cut(s)	122, 140
MspI	CCGG	2 cut(s)	58, 447
MspR9I	CCNGG	2 cut(s)	431, 522
Mva1269I	GAATGC	1 cut(s)	904
MvaI	CCWGG	2 cut(s)	431, 522
NdeI	CATATG	1 cut(s)	961
NdeII	GATC	3 cut(s)	155, 403, 538
NlaIII	CATG	3 cut(s)	48, 529, 806
NlaIV	GGNNCC	1 cut(s)	40
NmuCI	GTSAC	1 cut(s)	410
NspI	RCATGY	2 cut(s)	48, 806
PaqCI	CACCTGC	1 cut(s)	920
PciI	ACATGT	1 cut(s)	44
PciSI	GCTCTTC	1 cut(s)	333
PctI	GAATGC	1 cut(s)	904
PfeI	GAWTC	6 cut(s)	66, 115, 170, 760, 892, 1040
PflMI	CCANNNNNTGG	3 cut(s)	322, 436, 794
PleI	GAGTC	2 cut(s)	184, 991
PpsI	GAGTC	2 cut(s)	184, 991
PscI	ACATGT	1 cut(s)	44
PsiI	TTATAA	1 cut(s)	687
Psp6I	CCWGG	2 cut(s)	429, 520
PspFI	CCCAGC	1 cut(s)	935
PspGI	CCWGG	2 cut(s)	429, 520
PspN4I	GGNNCC	1 cut(s)	40
PstI	CTGCAG	2 cut(s)	208, 970
PstNI	CAGNNNCTG	4 cut(s)	414, 436, 935, 1229
RsaI	GTAC	2 cut(s)	371, 1142
RsaNI	GTAC	2 cut(s)	370, 1141
RseI	CAYNNNNRTG	1 cut(s)	338
SapI	GCTCTTC	1 cut(s)	333
SaqAI	TTAA	5 cut(s)	123, 141, 546, 636, 1080
Sau3AI	GATC	3 cut(s)	155, 403, 538
SchI	GAGTC	2 cut(s)	185, 992
ScrFI	CCNGG	2 cut(s)	431, 522
SduI	GDGCHC	2 cut(s)	1000, 1031
SfaNI	GCATC	2 cut(s)	595, 1197
SfcI	CTRYAG	2 cut(s)	204, 966
SmiMI	CAYNNNNRTG	1 cut(s)	338
SmlI	CTYRAG	2 cut(s)	122, 140
SmoI	CTYRAG	2 cut(s)	122, 140
Sse9I	AATT	2 cut(s)	767, 1077
SsiI	CCGC	3 cut(s)	266, 398, 656
SspMI	CTAG	2 cut(s)	972, 1234
StyD4I	CCNGG	2 cut(s)	429, 520
StyI	CCWWGG	2 cut(s)	321, 512
TaaI	ACNGT	2 cut(s)	646, 886
TaqI	TCGA	4 cut(s)	83, 214, 833, 1191
TasI	AATT	2 cut(s)	767, 1077
TauI	GCSGC	3 cut(s)	268, 401, 659
TfiI	GAWTC	6 cut(s)	66, 115, 170, 760, 892, 1040
Tru1I	TTAA	5 cut(s)	123, 141, 546, 636, 1080
Tru9I	TTAA	5 cut(s)	123, 141, 546, 636, 1080
TscAI	CASTG	7 cut(s)	139, 208, 419, 865, 1005, 1170, 1230
TseFI	GTSAC	1 cut(s)	410
Tsp45I	GTSAC	1 cut(s)	410
TspDTI	ATGAA	2 cut(s)	601, 879
TspGWI	ACGGA	4 cut(s)	22, 40, 983, 1050
TspRI	CASTG	7 cut(s)	139, 208, 419, 865, 1005, 1170, 1230
Van91I	CCANNNNNTGG	3 cut(s)	322, 436, 794
Vha464I	CTTAAG	2 cut(s)	122, 140
VneI	GTGCAC	1 cut(s)	996
XceI	RCATGY	2 cut(s)	48, 806
XspI	CTAG	2 cut(s)	972, 1234

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