Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr6

Orthogroup ID

OG0008337

Physical Location & Seq

Genomic Coordinates Forward (+)

38391209 .. 38396670

Gene Structure 5462 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000029409

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1326 bp

ATGGCAGTAGCAGAGCTCTCAACCCCTTCATACACCAATACCCGCCTTGTTTACCCATCCAAGCTCTCTTTCTCAACCACCCATCTCCACTCTCACCGCCGTCTTGCTTTTCCACCTCTCTCTCGCACCCATAATGCTAGAATCTCTTGCTCTCTTGCACCCAATCAAGTTCAAGCTCCTGCTCCTGCTCCTGCGCAAACTGAAGACCCCAAGACCAAGCCCGAGTGTTATGGCGTGTTTTGCCTCACCTATGATCTCAAAGCTGAAGAAGAGACAAAATCCTGGAAGAAATTAATTAATGTTGCGGTCTCAGGTGCAGCTGGAATGATTTCTAATCATCTACTGTTCAAACTTGCGTCGGGTGAGGTTTTTGGGGCAGACCAACCTATTGCATTGAAACTACTGGGATCTGAAAGATCATTTGAAGCTCTCGAAGGAGTTGCTATGGAATTGGAGGATTCCCTATTTCCTCTGTTGAGGGAGGTGATCATAAGTATTGATCCATATGAGGTGTTCCAAGATGTTGACTGGGCTCTTCTAATAGGAGCAAAGCCTAGAGGTCCTGGAATGGAACGAGCTGATTTGTTGGATATAAATGGGCAGATCTTTGCAGCGCAGGGAAAGGCTCTTAATGCTGTTGCATCTAGTAATGTCAAGGTGATTGTGGTTGGCAACCCTTGTAACACAAATGCACTAATTTGTTTGAAAAATGCTCCAAACATTCCTGCTAAAAATTTTCATGCTTTGACACGGCTGGATGAAAATAGAGCAAAATGTCAGCTGGCCCTCAAAGCTGGTGTCTTCTATGATAAAGTTTCAAACGTGACCATCTGGGGAAATCATTCTACCACTCAGGTCCCAGATTTCTTAAATGCAAGAATTGATGGCTTGCCTGTCAAAGAGGTCATCAAGGATCACAAGTGGTTAGAGGAGGAGTTTACACACAAGGTCCAGACGAGAGGAGGTGCTCTCATAAAAAAGTGGGGAAGATCTTCAGCTGCATCAACTTCCGTGTCGATTGTAGATGCCATAAAGTCCTTGGTTAATCCTACCCCTGAGGGCGACTGGTTTTCTTCTGGTGTTTACACCAACGGAAATCCCTATGGTATAGCAGAGGATATAGTATTCAGTATGCCATGCAGATCCAAAGGGGATGGAGATTATGAACTTGTGAAGGACATAAAATTTGACGATTATCTTCTCAAGAGAATAACAAAGAGTGAAGCTGAGTTACTAGCTGAGAAAAGATGTGTTGGTCACCTAATTGGGCAGGGTATTGCTTTTTGTGATTTGCCCGAGGACACTATGCTTCCTGGAGAGATGTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003824 GO:0005575 GO:0005576 GO:0005622 GO:0005623 GO:0005737 GO:0005739 GO:0006082 GO:0006091 GO:0006099 GO:0006101 GO:0006107 GO:0006108 GO:0006139 GO:0006725 GO:0006732 GO:0006733 GO:0006734 GO:0006753 GO:0006793 GO:0006796 GO:0006807 GO:0008150 GO:0008152 GO:0008746 GO:0009060 GO:0009117 GO:0009507 GO:0009526 GO:0009532 GO:0009536 GO:0009570 GO:0009579 GO:0009941 GO:0009987 GO:0015980 GO:0016491 GO:0016614 GO:0016615 GO:0016616 GO:0016651 GO:0016652 GO:0016999 GO:0017144 GO:0019362 GO:0019637 GO:0019674 GO:0019752 GO:0030060 GO:0031967 GO:0031975 GO:0034641 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043436 GO:0043648 GO:0044237 GO:0044238 GO:0044281 GO:0044422 GO:0044424 GO:0044434 GO:0044435 GO:0044444 GO:0044446 GO:0044464 GO:0045333 GO:0046483 GO:0046496 GO:0048046 GO:0050896 GO:0051186 GO:0051775 GO:0055086 GO:0055114 GO:0071704 GO:0072350 GO:0072524 GO:1901360 GO:1901564

KEGG Pathways

Metabolic & Signaling

ko00620 ko00710 ko01100 ko01120 ko01200 map00620 map00710 map01100 map01120 map01200

Pfam Domains

Protein Families

Ldh_1_C Ldh_1_N

Protein Analysis

442

Amino Acids

48.24

Weight (kDa)

6.1

Isoelectric Point (pI)

28.2

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Ldh_1_N	PF00056	100 - 247	5.7e-36	lactate/malate dehydrogenase, NAD binding domain
Ldh_1_C	PF02866	250 - 418	2.3e-48	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: OG0008337)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G58330 AT5G58330 AT5G58330
fragaria_vesca	FvH4_7g06530
malus_domestica	MD02G1243100.v1.1 MD07G1073300.v1.1
prunus_persica	Prupe.2G091600_v2.0.a1
pyrus_communis	pycom02g20970 pycom07g05680
rosa_chinensis	RchiOBHm_Chr1g0334961
rosa_laevigata	RLG00000029409
rosa_multiflora	Rmu_co7973608.1_g000002 Rmu_sc0000574.1_g000062 Rmu_sc0000574.1_g000065
rosa_roxburghii	Rroxscaffold_4G00316350
rosa_rugosa	Rorug01G0118000 Rorug01G0118100
rosa_samantha	Rh1AG141400 Rh1BG108900 Rh1CG133300 Rh1DG145900 Rh1DG146000
rosa_wichuraiana	Rw1G011730

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc16I	TGCGCA	1 cut(s)	195
AciI	CCGC	3 cut(s)	43, 97, 305
AclWI	GGATC	4 cut(s)	415, 494, 921, 1137
AcsI	RAATTY	2 cut(s)	733, 1184
AcuI	CTGAAG	3 cut(s)	222, 285, 978
AgsI	TTSAA	6 cut(s)	173, 349, 397, 425, 706, 819
AjnI	CCWGG	3 cut(s)	281, 562, 1312
AjuI	GAANNNNNNNTTGG	2 cut(s)	53, 85
Alw21I	GWGCWC	2 cut(s)	18, 970
Alw26I	GTCTC	2 cut(s)	266, 313
AlwI	GGATC	4 cut(s)	415, 494, 921, 1137
Ama87I	CYCGRG	2 cut(s)	221, 1295
AoxI	GGCC	1 cut(s)	783
ApeKI	GCWGC	3 cut(s)	317, 611, 998
ApoI	RAATTY	2 cut(s)	733, 1184
ArsI	GACNNNNNNTTYG	4 cut(s)	783, 815, 1169, 1201
AseI	ATTAAT	2 cut(s)	293, 297
Asp700I	GAANNNNTTC	3 cut(s)	328, 841, 991
AspLEI	GCGC	2 cut(s)	196, 616
AspS9I	GGNCC	4 cut(s)	560, 784, 856, 949
AsuHPI	GGTGA	6 cut(s)	86, 238, 374, 496, 670, 1250
AvaI	CYCGRG	2 cut(s)	221, 1295
AvaII	GGWCC	3 cut(s)	560, 856, 949
AxyI	CCTNAGG	1 cut(s)	1056
BanII	GRGCYC	2 cut(s)	18, 535
BarI	GAAGNNNNNNTAC	2 cut(s)	1215, 1247
BbsI	GAAGAC	2 cut(s)	210, 793
Bbv12I	GWGCWC	2 cut(s)	18, 970
BbvI	GCAGC	3 cut(s)	329, 623, 985
BccI	CCATC	5 cut(s)	64, 90, 836, 878, 1148
BceAI	ACGGC	2 cut(s)	84, 767
BcgI	CGANNNNNNTGC	2 cut(s)	422, 456
BciT130I	CCWGG	3 cut(s)	283, 564, 1314
BclI	TGATCA	1 cut(s)	486
BcoDI	GTCTC	2 cut(s)	266, 313
BfaI	CTAG	4 cut(s)	138, 555, 645, 1235
BglII	AGATCT	2 cut(s)	603, 989
BisI	GCNGC	3 cut(s)	318, 612, 999
BlsI	GCNGC	3 cut(s)	319, 613, 1000
Bme1390I	CCNGG	3 cut(s)	283, 564, 1314
Bme18I	GGWCC	3 cut(s)	560, 856, 949
BmeT110I	CYCGRG	2 cut(s)	221, 1295
BmgT120I	GGNCC	4 cut(s)	560, 784, 856, 949
BmiI	GGNNCC	1 cut(s)	858
BmrFI	CCNGG	3 cut(s)	283, 564, 1314
BmrI	ACTGGG	2 cut(s)	413, 538
BmsI	GCATC	3 cut(s)	650, 1010, 1015
BmuI	ACTGGG	2 cut(s)	413, 538
BpiI	GAAGAC	2 cut(s)	210, 793
BplI	GAGNNNNNCTC	2 cut(s)	954, 986
BpuEI	CTTGAG	1 cut(s)	1187
BsaI	GGTCTC	1 cut(s)	313
BsaJI	CCNNGG	2 cut(s)	1038, 1296
Bse1I	ACTGG	3 cut(s)	408, 533, 1070
Bse21I	CCTNAGG	1 cut(s)	1056
BseBI	CCWGG	3 cut(s)	283, 564, 1314
BseDI	CCNNGG	2 cut(s)	1038, 1296
BseGI	GGATG	3 cut(s)	56, 763, 1159
BseMII	CTCAG	5 cut(s)	324, 866, 1047, 1218, 1230
BseNI	ACTGG	3 cut(s)	408, 533, 1070
BseRI	GAGGAG	3 cut(s)	944, 947, 975
BseXI	GCAGC	3 cut(s)	329, 623, 985
BsgI	GTGCAG	1 cut(s)	336
BshFI	GGCC	1 cut(s)	785
BsiHKAI	GWGCWC	2 cut(s)	18, 970
BsiHKCI	CYCGRG	2 cut(s)	221, 1295
BslFI	GGGAC	1 cut(s)	842
BsmAI	GTCTC	2 cut(s)	266, 313
BsmFI	GGGAC	1 cut(s)	842
BsnI	GGCC	1 cut(s)	785
Bso31I	GGTCTC	1 cut(s)	313
BsoBI	CYCGRG	2 cut(s)	221, 1295
Bsp1286I	GDGCHC	3 cut(s)	18, 535, 970
Bsp143I	GATC	9 cut(s)	253, 407, 416, 486, 499, 603, 913, 989, 1142
BspACI	CCGC	3 cut(s)	43, 97, 305
BspANI	GGCC	1 cut(s)	785
BspCNI	CTCAG	5 cut(s)	323, 865, 1048, 1219, 1231
BspLI	GGNNCC	1 cut(s)	858
BspPI	GGATC	4 cut(s)	415, 494, 921, 1137
BspQI	GCTCTTC	1 cut(s)	540
BspTNI	GGTCTC	1 cut(s)	313
BsrI	ACTGG	3 cut(s)	408, 533, 1070
BssECI	CCNNGG	2 cut(s)	1038, 1296
BssMI	GATC	9 cut(s)	253, 407, 416, 486, 499, 603, 913, 989, 1142
BssT1I	CCWWGG	1 cut(s)	1038
Bst2UI	CCWGG	3 cut(s)	283, 564, 1314
Bst4CI	ACNGT	1 cut(s)	345
Bst6I	CTCTTC	2 cut(s)	264, 540
BstC8I	GCNNGC	2 cut(s)	783, 890
BstDEI	CTNAG	5 cut(s)	310, 852, 1056, 1227, 1239
BstEII	GGTNACC	1 cut(s)	1256
BstF5I	GGATG	3 cut(s)	56, 763, 1159
BstHHI	GCGC	2 cut(s)	196, 616
BstKTI	GATC	9 cut(s)	256, 410, 419, 489, 502, 606, 916, 992, 1145
BstMAI	GTCTC	2 cut(s)	266, 313
BstMBI	GATC	9 cut(s)	253, 407, 416, 486, 499, 603, 913, 989, 1142
BstMWI	GCNNNNNNNGC	3 cut(s)	240, 632, 791
BstNI	CCWGG	3 cut(s)	283, 564, 1314
BstPI	GGTNACC	1 cut(s)	1256
BstSCI	CCNGG	3 cut(s)	281, 562, 1312
BstV1I	GCAGC	3 cut(s)	329, 623, 985
BstV2I	GAAGAC	2 cut(s)	210, 793
BstX2I	RGATCY	4 cut(s)	407, 603, 989, 1142
BstYI	RGATCY	4 cut(s)	407, 603, 989, 1142
Bsu36I	CCTNAGG	1 cut(s)	1056
BsuRI	GGCC	1 cut(s)	785
BtsCI	GGATG	3 cut(s)	56, 763, 1159
Cac8I	GCNNGC	2 cut(s)	783, 890
CfoI	GCGC	2 cut(s)	196, 616
Cfr13I	GGNCC	4 cut(s)	560, 784, 856, 949
CseI	GACGC	1 cut(s)	345
CviAII	CATG	2 cut(s)	740, 1137
DdeI	CTNAG	5 cut(s)	310, 852, 1056, 1227, 1239
DpnI	GATC	9 cut(s)	255, 409, 418, 488, 501, 605, 915, 991, 1144
DpnII	GATC	9 cut(s)	253, 407, 416, 486, 499, 603, 913, 989, 1142
Eam1104I	CTCTTC	2 cut(s)	264, 540
EarI	CTCTTC	2 cut(s)	264, 540
Ecl136II	GAGCTC	1 cut(s)	16
Eco130I	CCWWGG	1 cut(s)	1038
Eco24I	GRGCYC	2 cut(s)	18, 535
Eco31I	GGTCTC	1 cut(s)	313
Eco47I	GGWCC	3 cut(s)	560, 856, 949
Eco53kI	GAGCTC	1 cut(s)	16
Eco57I	CTGAAG	3 cut(s)	222, 285, 978
Eco81I	CCTNAGG	1 cut(s)	1056
Eco88I	CYCGRG	2 cut(s)	221, 1295
Eco91I	GGTNACC	1 cut(s)	1256
EcoICRI	GAGCTC	1 cut(s)	16
EcoO109I	RGGNCCY	2 cut(s)	560, 856
EcoO65I	GGTNACC	1 cut(s)	1256
EcoRII	CCWGG	3 cut(s)	281, 562, 1312
EcoT14I	CCWWGG	1 cut(s)	1038
EcoT38I	GRGCYC	2 cut(s)	18, 535
ErhI	CCWWGG	1 cut(s)	1038
FaeI	CATG	2 cut(s)	743, 1140
FaqI	GGGAC	1 cut(s)	842
FatI	CATG	2 cut(s)	739, 1136
FauI	CCCGC	1 cut(s)	50
FauNDI	CATATG	1 cut(s)	505
FbaI	TGATCA	1 cut(s)	486
Fnu4HI	GCNGC	3 cut(s)	318, 612, 999
FokI	GGATG	3 cut(s)	43, 770, 1166
FriOI	GRGCYC	2 cut(s)	18, 535
Fsp4HI	GCNGC	3 cut(s)	318, 612, 999
FspBI	CTAG	4 cut(s)	138, 555, 645, 1235
FspI	TGCGCA	1 cut(s)	195
GlaI	GCGC	2 cut(s)	195, 615
GluI	GCNGC	3 cut(s)	318, 612, 999
HaeIII	GGCC	1 cut(s)	785
HgaI	GACGC	1 cut(s)	345
HhaI	GCGC	2 cut(s)	196, 616
Hin1II	CATG	2 cut(s)	743, 1140
Hin6I	GCGC	2 cut(s)	194, 614
HinP1I	GCGC	2 cut(s)	194, 614
HincII	GTYRAC	1 cut(s)	526
HindII	GTYRAC	1 cut(s)	526
HinfI	GANTC	2 cut(s)	141, 458
HphI	GGTGA	6 cut(s)	86, 238, 374, 496, 670, 1250
Hpy166II	GTNNAC	4 cut(s)	52, 526, 939, 1084
Hpy188I	TCNGA	1 cut(s)	412
Hpy188III	TCNNGA	3 cut(s)	431, 952, 1204
Hpy8I	GTNNAC	4 cut(s)	52, 526, 939, 1084
Hpy99I	CGWCG	1 cut(s)	361
HpyAV	CCTTC	3 cut(s)	36, 428, 1168
HpyCH4III	ACNGT	1 cut(s)	345
HpyCH4IV	ACGT	1 cut(s)	822
HpyCH4V	TGCA	9 cut(s)	158, 317, 392, 611, 641, 692, 875, 1001, 1140
HpyF10VI	GCNNNNNNNGC	3 cut(s)	240, 632, 791
HpyF3I	CTNAG	5 cut(s)	310, 852, 1056, 1227, 1239
HpySE526I	ACGT	1 cut(s)	822
Hsp92II	CATG	2 cut(s)	743, 1140
HspAI	GCGC	2 cut(s)	194, 614
Ksp22I	TGATCA	1 cut(s)	486
Kzo9I	GATC	9 cut(s)	253, 407, 416, 486, 499, 603, 913, 989, 1142
LguI	GCTCTTC	1 cut(s)	540
LmnI	GCTCC	5 cut(s)	181, 187, 193, 545, 718
Lsp1109I	GCAGC	3 cut(s)	329, 623, 985
LweI	GCATC	3 cut(s)	650, 1010, 1015
MaeI	CTAG	4 cut(s)	138, 555, 645, 1235
MaeII	ACGT	1 cut(s)	822
MaeIII	GTNAC	4 cut(s)	680, 823, 1230, 1256
MalI	GATC	9 cut(s)	255, 409, 418, 488, 501, 605, 915, 991, 1144
MboI	GATC	9 cut(s)	253, 407, 416, 486, 499, 603, 913, 989, 1142
MflI	RGATCY	4 cut(s)	407, 603, 989, 1142
MhlI	GDGCHC	3 cut(s)	18, 535, 970
MluCI	AATT	8 cut(s)	290, 294, 449, 696, 733, 879, 1184, 1263
MmeI	TCCRAC	1 cut(s)	567
MroXI	GAANNNNTTC	3 cut(s)	328, 841, 991
MseI	TTAA	5 cut(s)	293, 297, 630, 869, 1044
MspA1I	CMGCKG	3 cut(s)	320, 781, 998
MspR9I	CCNGG	3 cut(s)	283, 564, 1314
MvaI	CCWGG	3 cut(s)	283, 564, 1314
MwoI	GCNNNNNNNGC	3 cut(s)	240, 632, 791
NdeI	CATATG	1 cut(s)	505
NdeII	GATC	9 cut(s)	253, 407, 416, 486, 499, 603, 913, 989, 1142
NlaIII	CATG	2 cut(s)	743, 1140
NlaIV	GGNNCC	1 cut(s)	858
NmuCI	GTSAC	2 cut(s)	823, 1256
NsbI	TGCGCA	1 cut(s)	195
PacI	TTAATTAA	1 cut(s)	297
PciSI	GCTCTTC	1 cut(s)	540
PdmI	GAANNNNTTC	3 cut(s)	328, 841, 991
PfeI	GAWTC	2 cut(s)	141, 458
PfoI	TCCNGGA	3 cut(s)	281, 562, 1312
PkrI	GCNGC	3 cut(s)	319, 613, 1000
PpuMI	RGGWCCY	2 cut(s)	560, 856
PshBI	ATTAAT	2 cut(s)	293, 297
Psp124BI	GAGCTC	1 cut(s)	18
Psp5II	RGGWCCY	2 cut(s)	560, 856
Psp6I	CCWGG	3 cut(s)	281, 562, 1312
PspEI	GGTNACC	1 cut(s)	1256
PspGI	CCWGG	3 cut(s)	281, 562, 1312
PspN4I	GGNNCC	1 cut(s)	858
PspPI	GGNCC	4 cut(s)	560, 784, 856, 949
PspPPI	RGGWCCY	2 cut(s)	560, 856
PsuI	RGATCY	4 cut(s)	407, 603, 989, 1142
PvuII	CAGCTG	3 cut(s)	320, 781, 998
SacI	GAGCTC	1 cut(s)	18
SapI	GCTCTTC	1 cut(s)	540
SaqAI	TTAA	5 cut(s)	293, 297, 630, 869, 1044
SatI	GCNGC	3 cut(s)	318, 612, 999
Sau3AI	GATC	9 cut(s)	253, 407, 416, 486, 499, 603, 913, 989, 1142
Sau96I	GGNCC	4 cut(s)	560, 784, 856, 949
ScrFI	CCNGG	3 cut(s)	283, 564, 1314
SduI	GDGCHC	3 cut(s)	18, 535, 970
SfaNI	GCATC	3 cut(s)	650, 1010, 1015
SinI	GGWCC	3 cut(s)	560, 856, 949
SmlI	CTYRAG	1 cut(s)	1202
SmoI	CTYRAG	1 cut(s)	1202
Sse9I	AATT	8 cut(s)	290, 294, 449, 696, 733, 879, 1184, 1263
SsiI	CCGC	3 cut(s)	43, 97, 305
SspMI	CTAG	4 cut(s)	138, 555, 645, 1235
SstI	GAGCTC	1 cut(s)	18
StyD4I	CCNGG	3 cut(s)	281, 562, 1312
StyI	CCWWGG	1 cut(s)	1038
TaaI	ACNGT	1 cut(s)	345
TaiI	ACGT	1 cut(s)	825
TaqI	TCGA	2 cut(s)	432, 1016
TasI	AATT	8 cut(s)	290, 294, 449, 696, 733, 879, 1184, 1263
TfiI	GAWTC	2 cut(s)	141, 458
Tru1I	TTAA	5 cut(s)	293, 297, 630, 869, 1044
Tru9I	TTAA	5 cut(s)	293, 297, 630, 869, 1044
TseFI	GTSAC	2 cut(s)	823, 1256
TseI	GCWGC	3 cut(s)	317, 611, 998
Tsp45I	GTSAC	2 cut(s)	823, 1256
TspDTI	ATGAA	4 cut(s)	18, 728, 774, 1179
TspGWI	ACGGA	2 cut(s)	1000, 1107
VpaK11BI	GGWCC	3 cut(s)	560, 856, 949
VspI	ATTAAT	2 cut(s)	293, 297
XapI	RAATTY	2 cut(s)	733, 1184
XcmI	CCANNNNNNNNNTGG	1 cut(s)	1036
XmnI	GAANNNNTTC	3 cut(s)	328, 841, 991
XspI	CTAG	4 cut(s)	138, 555, 645, 1235

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