Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1A

Orthogroup ID

OG0008337

Physical Location & Seq

Genomic Coordinates Reverse (-)

26742695 .. 26749927

Gene Structure 7233 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1AG141400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1023 bp

ATGAGAATATGTATTCAACATTTGCAATATGAATTGGTTATGTTCCAGCTTGCGTCGGGTGAGGTTTTTGGGGCAGACCAACCTGTTGCATTGAAACTACTGGGATCTGAAAGATCATTTGAAGCTCTCGAAGGAGTTGCTATGGAATTGGAGGATTCCCTATTTCCTCTGTTGAGGGAGGTGATCATAAGTATTGATCCATATGAGGTGTTCCAAGATGTTGACTGGGCTCTACTAATAGGAGCAAAGCCTAGAGGTCCTGGAATGGAACGAGCTGATTTGTTGGATATAAATGGGCAGATCTTTGCAGCGCAGGGAAAGGCTCTTAATGCTGTTGCATCTCGTAATGTCAAGGTGATTGTGGTTGGCAACCCTTGTAACACAAATGCACTAATTTGTCTGAAAAATGCTCCGAACATTCCTGCTAAAAATTTTCATGCTTTGACACGGTTGGATGAAAATAGAGCAAAATGTCAGCTGGCCCTCAAAGCTGGTGTCTTCTATGATAAAGTTTCAAACGTGACCATCTGGGGAAATCATTCTACCACTCAGGTCCCAGATTTCTTAAATGCTAGAATTGATGGCTTGCCTGTCAAAGAGGTCATCAAGGATCACAAGTGGTTAGAGGAGGAGTTTACACACAAGGTCCAGACGAGAGGAGGTGCTCTCATAAAAAAGTGGGGAAGATCTTCAGCTGCATCAACTTCCGTGTCGATTGTAGATGCCATAAAGTCCTTGGTTAATCCTACCCCTGAGGGCGACTGGTTTTCTTCTGGTGTTTACACCACCGGAAATCCCTATGGTATAGCAGAGGATATAGTATTCAGTATGCCATGCAGATCCAAAGGGGATGGAGATTATGAACTTGTGAAGGACATAAAATTTGACGATTATCTTCTCAAGAGAATAACAAAGAGTGAAGCTGAGTTACTAGCTGAGAAAAGATGTGTTGGTCACCTAATTGGGCAGGGTATTGCTTTTTGTGATTTGCCCGAGGACACTATGCTTCCTGGAGAGATGTAA

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

340

Amino Acids

37.45

Weight (kDa)

5.3

Isoelectric Point (pI)

22.25

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Ldh_1_N	PF00056	17 - 146	2.9e-29	lactate/malate dehydrogenase, NAD binding domain
Ldh_1_C	PF02866	149 - 317	1.1e-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	4 cut(s)	112, 191, 618, 834
AcsI	RAATTY	2 cut(s)	430, 881
AcuI	CTGAAG	1 cut(s)	675
AgsI	TTSAA	4 cut(s)	17, 94, 122, 516
AjnI	CCWGG	2 cut(s)	259, 1009
AluBI	AGCT	8 cut(s)	49, 125, 275, 478, 491, 695, 923, 935
AluI	AGCT	8 cut(s)	49, 125, 275, 478, 491, 695, 923, 935
Alw21I	GWGCWC	1 cut(s)	667
AlwI	GGATC	4 cut(s)	112, 191, 618, 834
Ama87I	CYCGRG	1 cut(s)	992
AoxI	GGCC	1 cut(s)	480
ApeKI	GCWGC	2 cut(s)	308, 695
ApoI	RAATTY	2 cut(s)	430, 881
ArsI	GACNNNNNNTTYG	4 cut(s)	480, 512, 866, 898
Asp700I	GAANNNNTTC	2 cut(s)	538, 688
AspLEI	GCGC	1 cut(s)	313
AspS9I	GGNCC	4 cut(s)	257, 481, 553, 646
AsuHPI	GGTGA	4 cut(s)	71, 193, 367, 947
AvaI	CYCGRG	1 cut(s)	992
AvaII	GGWCC	3 cut(s)	257, 553, 646
AxyI	CCTNAGG	1 cut(s)	753
BanII	GRGCYC	1 cut(s)	232
BarI	GAAGNNNNNNTAC	2 cut(s)	912, 944
BbsI	GAAGAC	1 cut(s)	490
Bbv12I	GWGCWC	1 cut(s)	667
BbvI	GCAGC	2 cut(s)	320, 682
BccI	CCATC	3 cut(s)	533, 575, 845
BcgI	CGANNNNNNTGC	2 cut(s)	119, 153
BciT130I	CCWGG	2 cut(s)	261, 1011
BclI	TGATCA	1 cut(s)	183
BfaI	CTAG	3 cut(s)	252, 573, 932
BglII	AGATCT	2 cut(s)	300, 686
BisI	GCNGC	2 cut(s)	309, 696
BlsI	GCNGC	2 cut(s)	310, 697
Bme1390I	CCNGG	2 cut(s)	261, 1011
Bme18I	GGWCC	3 cut(s)	257, 553, 646
BmeT110I	CYCGRG	1 cut(s)	992
BmgT120I	GGNCC	4 cut(s)	257, 481, 553, 646
BmiI	GGNNCC	1 cut(s)	555
BmrFI	CCNGG	2 cut(s)	261, 1011
BmrI	ACTGGG	2 cut(s)	110, 235
BmsI	GCATC	3 cut(s)	347, 707, 712
BmuI	ACTGGG	2 cut(s)	110, 235
BpiI	GAAGAC	1 cut(s)	490
BplI	GAGNNNNNCTC	2 cut(s)	651, 683
BpuEI	CTTGAG	1 cut(s)	884
BsaJI	CCNNGG	2 cut(s)	735, 993
BsaWI	WCCGGW	1 cut(s)	788
Bse1I	ACTGG	3 cut(s)	105, 230, 767
Bse21I	CCTNAGG	1 cut(s)	753
BseBI	CCWGG	2 cut(s)	261, 1011
BseDI	CCNNGG	2 cut(s)	735, 993
BseGI	GGATG	2 cut(s)	460, 856
BseMII	CTCAG	4 cut(s)	563, 744, 915, 927
BseNI	ACTGG	3 cut(s)	105, 230, 767
BseRI	GAGGAG	3 cut(s)	641, 644, 672
BseXI	GCAGC	2 cut(s)	320, 682
BshFI	GGCC	1 cut(s)	482
BsiHKAI	GWGCWC	1 cut(s)	667
BsiHKCI	CYCGRG	1 cut(s)	992
BsiSI	CCGG	1 cut(s)	789
BslFI	GGGAC	1 cut(s)	539
BsmFI	GGGAC	1 cut(s)	539
BsnI	GGCC	1 cut(s)	482
BsoBI	CYCGRG	1 cut(s)	992
Bsp1286I	GDGCHC	2 cut(s)	232, 667
Bsp143I	GATC	8 cut(s)	104, 113, 183, 196, 300, 610, 686, 839
BspANI	GGCC	1 cut(s)	482
BspCNI	CTCAG	4 cut(s)	562, 745, 916, 928
BspLI	GGNNCC	1 cut(s)	555
BspPI	GGATC	4 cut(s)	112, 191, 618, 834
BsrI	ACTGG	3 cut(s)	105, 230, 767
BssECI	CCNNGG	2 cut(s)	735, 993
BssMI	GATC	8 cut(s)	104, 113, 183, 196, 300, 610, 686, 839
BssT1I	CCWWGG	1 cut(s)	735
Bst2UI	CCWGG	2 cut(s)	261, 1011
Bst4CI	ACNGT	1 cut(s)	450
BstC8I	GCNNGC	3 cut(s)	51, 480, 587
BstDEI	CTNAG	4 cut(s)	549, 753, 924, 936
BstEII	GGTNACC	1 cut(s)	953
BstF5I	GGATG	2 cut(s)	460, 856
BstHHI	GCGC	1 cut(s)	313
BstKTI	GATC	8 cut(s)	107, 116, 186, 199, 303, 613, 689, 842
BstMBI	GATC	8 cut(s)	104, 113, 183, 196, 300, 610, 686, 839
BstMWI	GCNNNNNNNGC	2 cut(s)	329, 488
BstNI	CCWGG	2 cut(s)	261, 1011
BstPI	GGTNACC	1 cut(s)	953
BstSCI	CCNGG	2 cut(s)	259, 1009
BstV1I	GCAGC	2 cut(s)	320, 682
BstV2I	GAAGAC	1 cut(s)	490
BstX2I	RGATCY	4 cut(s)	104, 300, 686, 839
BstYI	RGATCY	4 cut(s)	104, 300, 686, 839
Bsu36I	CCTNAGG	1 cut(s)	753
BsuRI	GGCC	1 cut(s)	482
BtsCI	GGATG	2 cut(s)	460, 856
Cac8I	GCNNGC	3 cut(s)	51, 480, 587
CfoI	GCGC	1 cut(s)	313
Cfr13I	GGNCC	4 cut(s)	257, 481, 553, 646
CseI	GACGC	1 cut(s)	42
CviAII	CATG	2 cut(s)	437, 834
DdeI	CTNAG	4 cut(s)	549, 753, 924, 936
DpnI	GATC	8 cut(s)	106, 115, 185, 198, 302, 612, 688, 841
DpnII	GATC	8 cut(s)	104, 113, 183, 196, 300, 610, 686, 839
Eco130I	CCWWGG	1 cut(s)	735
Eco24I	GRGCYC	1 cut(s)	232
Eco47I	GGWCC	3 cut(s)	257, 553, 646
Eco57I	CTGAAG	1 cut(s)	675
Eco81I	CCTNAGG	1 cut(s)	753
Eco88I	CYCGRG	1 cut(s)	992
Eco91I	GGTNACC	1 cut(s)	953
EcoO109I	RGGNCCY	2 cut(s)	257, 553
EcoO65I	GGTNACC	1 cut(s)	953
EcoRII	CCWGG	2 cut(s)	259, 1009
EcoT14I	CCWWGG	1 cut(s)	735
EcoT38I	GRGCYC	1 cut(s)	232
ErhI	CCWWGG	1 cut(s)	735
FaeI	CATG	2 cut(s)	440, 837
FaqI	GGGAC	1 cut(s)	539
FatI	CATG	2 cut(s)	436, 833
FauNDI	CATATG	1 cut(s)	202
FbaI	TGATCA	1 cut(s)	183
Fnu4HI	GCNGC	2 cut(s)	309, 696
FokI	GGATG	2 cut(s)	467, 863
FriOI	GRGCYC	1 cut(s)	232
Fsp4HI	GCNGC	2 cut(s)	309, 696
FspBI	CTAG	3 cut(s)	252, 573, 932
GlaI	GCGC	1 cut(s)	312
GluI	GCNGC	2 cut(s)	309, 696
HaeIII	GGCC	1 cut(s)	482
HapII	CCGG	1 cut(s)	789
HgaI	GACGC	1 cut(s)	42
HhaI	GCGC	1 cut(s)	313
Hin1II	CATG	2 cut(s)	440, 837
Hin6I	GCGC	1 cut(s)	311
HinP1I	GCGC	1 cut(s)	311
HincII	GTYRAC	1 cut(s)	223
HindII	GTYRAC	1 cut(s)	223
HinfI	GANTC	1 cut(s)	155
HpaII	CCGG	1 cut(s)	789
HphI	GGTGA	4 cut(s)	71, 193, 367, 947
Hpy166II	GTNNAC	3 cut(s)	223, 636, 781
Hpy188I	TCNGA	3 cut(s)	109, 402, 414
Hpy188III	TCNNGA	3 cut(s)	128, 649, 901
Hpy8I	GTNNAC	3 cut(s)	223, 636, 781
Hpy99I	CGWCG	1 cut(s)	58
HpyAV	CCTTC	2 cut(s)	125, 865
HpyCH4III	ACNGT	1 cut(s)	450
HpyCH4IV	ACGT	1 cut(s)	519
HpyCH4V	TGCA	7 cut(s)	25, 89, 308, 338, 389, 698, 837
HpyF10VI	GCNNNNNNNGC	2 cut(s)	329, 488
HpyF3I	CTNAG	4 cut(s)	549, 753, 924, 936
HpySE526I	ACGT	1 cut(s)	519
Hsp92II	CATG	2 cut(s)	440, 837
HspAI	GCGC	1 cut(s)	311
Ksp22I	TGATCA	1 cut(s)	183
Kzo9I	GATC	8 cut(s)	104, 113, 183, 196, 300, 610, 686, 839
LmnI	GCTCC	2 cut(s)	242, 415
Lsp1109I	GCAGC	2 cut(s)	320, 682
LweI	GCATC	3 cut(s)	347, 707, 712
MaeI	CTAG	3 cut(s)	252, 573, 932
MaeII	ACGT	1 cut(s)	519
MaeIII	GTNAC	4 cut(s)	377, 520, 927, 953
MalI	GATC	8 cut(s)	106, 115, 185, 198, 302, 612, 688, 841
MboI	GATC	8 cut(s)	104, 113, 183, 196, 300, 610, 686, 839
MboII	GAAGA	5 cut(s)	490, 681, 696, 762, 887
MflI	RGATCY	4 cut(s)	104, 300, 686, 839
MhlI	GDGCHC	2 cut(s)	232, 667
MluCI	AATT	7 cut(s)	32, 146, 393, 430, 576, 881, 960
MmeI	TCCRAC	2 cut(s)	264, 432
MroXI	GAANNNNTTC	2 cut(s)	538, 688
MseI	TTAA	3 cut(s)	327, 566, 741
MspA1I	CMGCKG	2 cut(s)	478, 695
MspI	CCGG	1 cut(s)	789
MspR9I	CCNGG	2 cut(s)	261, 1011
MvaI	CCWGG	2 cut(s)	261, 1011
MwoI	GCNNNNNNNGC	2 cut(s)	329, 488
NdeI	CATATG	1 cut(s)	202
NdeII	GATC	8 cut(s)	104, 113, 183, 196, 300, 610, 686, 839
NlaIII	CATG	2 cut(s)	440, 837
NlaIV	GGNNCC	1 cut(s)	555
NmuCI	GTSAC	2 cut(s)	520, 953
PdmI	GAANNNNTTC	2 cut(s)	538, 688
PfeI	GAWTC	1 cut(s)	155
PfoI	TCCNGGA	2 cut(s)	259, 1009
PkrI	GCNGC	2 cut(s)	310, 697
PpuMI	RGGWCCY	2 cut(s)	257, 553
Psp5II	RGGWCCY	2 cut(s)	257, 553
Psp6I	CCWGG	2 cut(s)	259, 1009
PspEI	GGTNACC	1 cut(s)	953
PspGI	CCWGG	2 cut(s)	259, 1009
PspN4I	GGNNCC	1 cut(s)	555
PspPI	GGNCC	4 cut(s)	257, 481, 553, 646
PspPPI	RGGWCCY	2 cut(s)	257, 553
PsuI	RGATCY	4 cut(s)	104, 300, 686, 839
PvuII	CAGCTG	2 cut(s)	478, 695
SaqAI	TTAA	3 cut(s)	327, 566, 741
SatI	GCNGC	2 cut(s)	309, 696
Sau3AI	GATC	8 cut(s)	104, 113, 183, 196, 300, 610, 686, 839
Sau96I	GGNCC	4 cut(s)	257, 481, 553, 646
ScrFI	CCNGG	2 cut(s)	261, 1011
SduI	GDGCHC	2 cut(s)	232, 667
SfaNI	GCATC	3 cut(s)	347, 707, 712
SinI	GGWCC	3 cut(s)	257, 553, 646
SmlI	CTYRAG	1 cut(s)	899
SmoI	CTYRAG	1 cut(s)	899
Sse9I	AATT	7 cut(s)	32, 146, 393, 430, 576, 881, 960
SspMI	CTAG	3 cut(s)	252, 573, 932
StyD4I	CCNGG	2 cut(s)	259, 1009
StyI	CCWWGG	1 cut(s)	735
TaaI	ACNGT	1 cut(s)	450
TaiI	ACGT	1 cut(s)	522
TaqI	TCGA	2 cut(s)	129, 713
TasI	AATT	7 cut(s)	32, 146, 393, 430, 576, 881, 960
TfiI	GAWTC	1 cut(s)	155
Tru1I	TTAA	3 cut(s)	327, 566, 741
Tru9I	TTAA	3 cut(s)	327, 566, 741
TseFI	GTSAC	2 cut(s)	520, 953
TseI	GCWGC	2 cut(s)	308, 695
Tsp45I	GTSAC	2 cut(s)	520, 953
TspDTI	ATGAA	4 cut(s)	45, 425, 471, 876
TspGWI	ACGGA	1 cut(s)	697
VpaK11BI	GGWCC	3 cut(s)	257, 553, 646
XapI	RAATTY	2 cut(s)	430, 881
XcmI	CCANNNNNNNNNTGG	1 cut(s)	733
XmnI	GAANNNNTTC	2 cut(s)	538, 688
XspI	CTAG	3 cut(s)	252, 573, 932

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