Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1D

Orthogroup ID

OG0008337

Physical Location & Seq

Genomic Coordinates Reverse (-)

30653160 .. 30655464

Gene Structure 2305 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1DG145900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 882 bp

ATGGAATTGGAGGATTCCCTATTTCCTCTGTTGAGGGAGGTGATCATAAGTATTGATCCATATGAGGTATTCCAAGATGTTGACTGGGCTCTACTAATAGGAGCAAAGCCTAGAGGTCCTGGAATGGAACGAGCTGATTTGTTGGATATAAATGGGCAGATCTTTGCAGCGCAGGGAAAGGCTCTTAATGCTGTTGCATCTCGTAATGTCAAGGTGATTGTGGTTGGCAACCCTTGTAACACAAATGCACTAATTTGTTTGAAAAATGCTCCGAACATTCCTGCTAAAAATTTTCATGCTTTGACACGGTTGGATGAAAATAGAGCAAAATGTCAGCTGGCCCTCAAAGCTGGCGTCTTCTATGATAAAGTTTCAAACGTGACCATCTGGGGAAATCATTCTACCACTCAGGTCCCAGATTTCTTAAATGCTAGAATTGATGGCTTGCCTGTCAAAGAGGTCATCAAGGATCACAAGTGGTTAGAGGAGGAGTTTACACACAAGGTCCAGACGAGAGGAGGTGCTCTCATAAAAAAGTGGGGAAGATCTTCAGCTGCATCAACTTCCGTGTCGATTGTAGATGCCATAAAGTCCTTGGTTAATCCTACCCCTGAGGGCGACTGGTTTTCTTCTGGTGTTTACACCACTGGAAATCCCTATGGTATAGCAGAGGATATAGTATTCAGTATGCCATGCAGATCCACAGGGGATGGAGATTATGAACTTGTGAAGGACATAAAATTTGACGATTATCTTCTCAAGAGAATAACAAAGAGTGAAGCTGAGTTACTAGCTGAGAAAAGATGTGTTGGTCACCTAATTGGGCAGGGTATTGCTTTTTGTGATTTGCCCGAGGACACTATGCTTCCTGGAGAGATGTAA

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

293

Amino Acids

32.25

Weight (kDa)

5.36

Isoelectric Point (pI)

21.82

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Ldh_1_N	PF00056	1 - 99	5e-25	lactate/malate dehydrogenase, NAD binding domain
Ldh_1_C	PF02866	102 - 270	1.7e-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

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: 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)
AclWI	GGATC	3 cut(s)	50, 477, 693
AcsI	RAATTY	2 cut(s)	289, 740
AcuI	CTGAAG	1 cut(s)	534
AcyI	GRCGYC	1 cut(s)	354
AgsI	TTSAA	2 cut(s)	262, 375
AjnI	CCWGG	2 cut(s)	118, 868
AluBI	AGCT	6 cut(s)	134, 337, 350, 554, 782, 794
AluI	AGCT	6 cut(s)	134, 337, 350, 554, 782, 794
Alw21I	GWGCWC	1 cut(s)	526
AlwI	GGATC	3 cut(s)	50, 477, 693
Ama87I	CYCGRG	1 cut(s)	851
AoxI	GGCC	1 cut(s)	339
ApeKI	GCWGC	2 cut(s)	167, 554
ApoI	RAATTY	2 cut(s)	289, 740
ArsI	GACNNNNNNTTYG	4 cut(s)	339, 371, 725, 757
Asp700I	GAANNNNTTC	2 cut(s)	397, 547
AspLEI	GCGC	1 cut(s)	172
AspS9I	GGNCC	4 cut(s)	116, 340, 412, 505
AsuHPI	GGTGA	3 cut(s)	52, 226, 806
AvaI	CYCGRG	1 cut(s)	851
AvaII	GGWCC	3 cut(s)	116, 412, 505
AxyI	CCTNAGG	1 cut(s)	612
BanII	GRGCYC	1 cut(s)	91
BarI	GAAGNNNNNNTAC	2 cut(s)	771, 803
BbsI	GAAGAC	1 cut(s)	349
Bbv12I	GWGCWC	1 cut(s)	526
BbvI	GCAGC	2 cut(s)	179, 541
BccI	CCATC	3 cut(s)	392, 434, 704
BciT130I	CCWGG	2 cut(s)	120, 870
BclI	TGATCA	1 cut(s)	42
BfaI	CTAG	3 cut(s)	111, 432, 791
BglII	AGATCT	2 cut(s)	159, 545
BisI	GCNGC	2 cut(s)	168, 555
BlsI	GCNGC	2 cut(s)	169, 556
Bme1390I	CCNGG	2 cut(s)	120, 870
Bme18I	GGWCC	3 cut(s)	116, 412, 505
BmeT110I	CYCGRG	1 cut(s)	851
BmgT120I	GGNCC	4 cut(s)	116, 340, 412, 505
BmiI	GGNNCC	1 cut(s)	414
BmrFI	CCNGG	2 cut(s)	120, 870
BmrI	ACTGGG	1 cut(s)	94
BmsI	GCATC	3 cut(s)	206, 566, 571
BmuI	ACTGGG	1 cut(s)	94
BpiI	GAAGAC	1 cut(s)	349
BplI	GAGNNNNNCTC	2 cut(s)	510, 542
BpuEI	CTTGAG	1 cut(s)	743
BsaHI	GRCGYC	1 cut(s)	354
BsaJI	CCNNGG	2 cut(s)	594, 852
Bse1I	ACTGG	3 cut(s)	89, 626, 652
Bse21I	CCTNAGG	1 cut(s)	612
BseBI	CCWGG	2 cut(s)	120, 870
BseDI	CCNNGG	2 cut(s)	594, 852
BseGI	GGATG	2 cut(s)	319, 715
BseMII	CTCAG	4 cut(s)	422, 603, 774, 786
BseNI	ACTGG	3 cut(s)	89, 626, 652
BseRI	GAGGAG	3 cut(s)	500, 503, 531
BseXI	GCAGC	2 cut(s)	179, 541
BshFI	GGCC	1 cut(s)	341
BsiHKAI	GWGCWC	1 cut(s)	526
BsiHKCI	CYCGRG	1 cut(s)	851
BslFI	GGGAC	1 cut(s)	398
BsmFI	GGGAC	1 cut(s)	398
BsnI	GGCC	1 cut(s)	341
BsoBI	CYCGRG	1 cut(s)	851
Bsp1286I	GDGCHC	2 cut(s)	91, 526
Bsp143I	GATC	6 cut(s)	42, 55, 159, 469, 545, 698
BspANI	GGCC	1 cut(s)	341
BspCNI	CTCAG	4 cut(s)	421, 604, 775, 787
BspLI	GGNNCC	1 cut(s)	414
BspPI	GGATC	3 cut(s)	50, 477, 693
BsrI	ACTGG	3 cut(s)	89, 626, 652
BssECI	CCNNGG	2 cut(s)	594, 852
BssMI	GATC	6 cut(s)	42, 55, 159, 469, 545, 698
BssNI	GRCGYC	1 cut(s)	354
BssT1I	CCWWGG	1 cut(s)	594
Bst2UI	CCWGG	2 cut(s)	120, 870
Bst4CI	ACNGT	1 cut(s)	309
BstACI	GRCGYC	1 cut(s)	354
BstC8I	GCNNGC	3 cut(s)	339, 352, 446
BstDEI	CTNAG	4 cut(s)	408, 612, 783, 795
BstEII	GGTNACC	1 cut(s)	812
BstF5I	GGATG	2 cut(s)	319, 715
BstHHI	GCGC	1 cut(s)	172
BstKTI	GATC	6 cut(s)	45, 58, 162, 472, 548, 701
BstMBI	GATC	6 cut(s)	42, 55, 159, 469, 545, 698
BstMWI	GCNNNNNNNGC	2 cut(s)	188, 347
BstNI	CCWGG	2 cut(s)	120, 870
BstPI	GGTNACC	1 cut(s)	812
BstSCI	CCNGG	2 cut(s)	118, 868
BstV1I	GCAGC	2 cut(s)	179, 541
BstV2I	GAAGAC	1 cut(s)	349
BstX2I	RGATCY	3 cut(s)	159, 545, 698
BstYI	RGATCY	3 cut(s)	159, 545, 698
Bsu36I	CCTNAGG	1 cut(s)	612
BsuRI	GGCC	1 cut(s)	341
BtsCI	GGATG	2 cut(s)	319, 715
BtsIMutI	CAGTG	1 cut(s)	645
Cac8I	GCNNGC	3 cut(s)	339, 352, 446
CfoI	GCGC	1 cut(s)	172
Cfr13I	GGNCC	4 cut(s)	116, 340, 412, 505
CseI	GACGC	1 cut(s)	343
CviAII	CATG	2 cut(s)	296, 693
DdeI	CTNAG	4 cut(s)	408, 612, 783, 795
DpnI	GATC	6 cut(s)	44, 57, 161, 471, 547, 700
DpnII	GATC	6 cut(s)	42, 55, 159, 469, 545, 698
Eco130I	CCWWGG	1 cut(s)	594
Eco24I	GRGCYC	1 cut(s)	91
Eco47I	GGWCC	3 cut(s)	116, 412, 505
Eco57I	CTGAAG	1 cut(s)	534
Eco81I	CCTNAGG	1 cut(s)	612
Eco88I	CYCGRG	1 cut(s)	851
Eco91I	GGTNACC	1 cut(s)	812
EcoO109I	RGGNCCY	2 cut(s)	116, 412
EcoO65I	GGTNACC	1 cut(s)	812
EcoRII	CCWGG	2 cut(s)	118, 868
EcoT14I	CCWWGG	1 cut(s)	594
EcoT38I	GRGCYC	1 cut(s)	91
ErhI	CCWWGG	1 cut(s)	594
FaeI	CATG	2 cut(s)	299, 696
FaqI	GGGAC	1 cut(s)	398
FatI	CATG	2 cut(s)	295, 692
FauNDI	CATATG	1 cut(s)	61
FbaI	TGATCA	1 cut(s)	42
Fnu4HI	GCNGC	2 cut(s)	168, 555
FokI	GGATG	2 cut(s)	326, 722
FriOI	GRGCYC	1 cut(s)	91
Fsp4HI	GCNGC	2 cut(s)	168, 555
FspBI	CTAG	3 cut(s)	111, 432, 791
GlaI	GCGC	1 cut(s)	171
GluI	GCNGC	2 cut(s)	168, 555
HaeIII	GGCC	1 cut(s)	341
HgaI	GACGC	1 cut(s)	343
HhaI	GCGC	1 cut(s)	172
Hin1I	GRCGYC	1 cut(s)	354
Hin1II	CATG	2 cut(s)	299, 696
Hin6I	GCGC	1 cut(s)	170
HinP1I	GCGC	1 cut(s)	170
HincII	GTYRAC	1 cut(s)	82
HindII	GTYRAC	1 cut(s)	82
HinfI	GANTC	1 cut(s)	14
HphI	GGTGA	3 cut(s)	52, 226, 806
Hpy166II	GTNNAC	3 cut(s)	82, 495, 640
Hpy188I	TCNGA	1 cut(s)	273
Hpy188III	TCNNGA	2 cut(s)	508, 760
Hpy8I	GTNNAC	3 cut(s)	82, 495, 640
HpyAV	CCTTC	1 cut(s)	724
HpyCH4III	ACNGT	1 cut(s)	309
HpyCH4IV	ACGT	1 cut(s)	378
HpyCH4V	TGCA	5 cut(s)	167, 197, 248, 557, 696
HpyF10VI	GCNNNNNNNGC	2 cut(s)	188, 347
HpyF3I	CTNAG	4 cut(s)	408, 612, 783, 795
HpySE526I	ACGT	1 cut(s)	378
Hsp92I	GRCGYC	1 cut(s)	354
Hsp92II	CATG	2 cut(s)	299, 696
HspAI	GCGC	1 cut(s)	170
Ksp22I	TGATCA	1 cut(s)	42
Kzo9I	GATC	6 cut(s)	42, 55, 159, 469, 545, 698
LmnI	GCTCC	2 cut(s)	101, 274
Lsp1109I	GCAGC	2 cut(s)	179, 541
LweI	GCATC	3 cut(s)	206, 566, 571
MaeI	CTAG	3 cut(s)	111, 432, 791
MaeII	ACGT	1 cut(s)	378
MaeIII	GTNAC	4 cut(s)	236, 379, 786, 812
MalI	GATC	6 cut(s)	44, 57, 161, 471, 547, 700
MboI	GATC	6 cut(s)	42, 55, 159, 469, 545, 698
MboII	GAAGA	5 cut(s)	349, 540, 555, 621, 746
MflI	RGATCY	3 cut(s)	159, 545, 698
MhlI	GDGCHC	2 cut(s)	91, 526
MluCI	AATT	6 cut(s)	5, 252, 289, 435, 740, 819
MmeI	TCCRAC	2 cut(s)	123, 291
MroXI	GAANNNNTTC	2 cut(s)	397, 547
MseI	TTAA	3 cut(s)	186, 425, 600
MspA1I	CMGCKG	2 cut(s)	337, 554
MspR9I	CCNGG	2 cut(s)	120, 870
MvaI	CCWGG	2 cut(s)	120, 870
MwoI	GCNNNNNNNGC	2 cut(s)	188, 347
NdeI	CATATG	1 cut(s)	61
NdeII	GATC	6 cut(s)	42, 55, 159, 469, 545, 698
NlaIII	CATG	2 cut(s)	299, 696
NlaIV	GGNNCC	1 cut(s)	414
NmuCI	GTSAC	2 cut(s)	379, 812
PdmI	GAANNNNTTC	2 cut(s)	397, 547
PfeI	GAWTC	1 cut(s)	14
PfoI	TCCNGGA	2 cut(s)	118, 868
PkrI	GCNGC	2 cut(s)	169, 556
PpuMI	RGGWCCY	2 cut(s)	116, 412
Psp5II	RGGWCCY	2 cut(s)	116, 412
Psp6I	CCWGG	2 cut(s)	118, 868
PspEI	GGTNACC	1 cut(s)	812
PspGI	CCWGG	2 cut(s)	118, 868
PspN4I	GGNNCC	1 cut(s)	414
PspPI	GGNCC	4 cut(s)	116, 340, 412, 505
PspPPI	RGGWCCY	2 cut(s)	116, 412
PsuI	RGATCY	3 cut(s)	159, 545, 698
PvuII	CAGCTG	2 cut(s)	337, 554
SaqAI	TTAA	3 cut(s)	186, 425, 600
SatI	GCNGC	2 cut(s)	168, 555
Sau3AI	GATC	6 cut(s)	42, 55, 159, 469, 545, 698
Sau96I	GGNCC	4 cut(s)	116, 340, 412, 505
ScrFI	CCNGG	2 cut(s)	120, 870
SduI	GDGCHC	2 cut(s)	91, 526
SfaNI	GCATC	3 cut(s)	206, 566, 571
SinI	GGWCC	3 cut(s)	116, 412, 505
SmlI	CTYRAG	1 cut(s)	758
SmoI	CTYRAG	1 cut(s)	758
Sse9I	AATT	6 cut(s)	5, 252, 289, 435, 740, 819
SspMI	CTAG	3 cut(s)	111, 432, 791
StyD4I	CCNGG	2 cut(s)	118, 868
StyI	CCWWGG	1 cut(s)	594
TaaI	ACNGT	1 cut(s)	309
TaiI	ACGT	1 cut(s)	381
TaqI	TCGA	1 cut(s)	572
TasI	AATT	6 cut(s)	5, 252, 289, 435, 740, 819
TfiI	GAWTC	1 cut(s)	14
Tru1I	TTAA	3 cut(s)	186, 425, 600
Tru9I	TTAA	3 cut(s)	186, 425, 600
TscAI	CASTG	1 cut(s)	652
TseFI	GTSAC	2 cut(s)	379, 812
TseI	GCWGC	2 cut(s)	167, 554
Tsp45I	GTSAC	2 cut(s)	379, 812
TspDTI	ATGAA	3 cut(s)	284, 330, 735
TspGWI	ACGGA	1 cut(s)	556
TspRI	CASTG	1 cut(s)	652
VpaK11BI	GGWCC	3 cut(s)	116, 412, 505
XapI	RAATTY	2 cut(s)	289, 740
XcmI	CCANNNNNNNNNTGG	1 cut(s)	592
XmnI	GAANNNNTTC	2 cut(s)	397, 547
XspI	CTAG	3 cut(s)	111, 432, 791

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