Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000001

Orthogroup ID

OG0009056

Physical Location & Seq

Genomic Coordinates Forward (+)

77716156 .. 77718556

Gene Structure 2401 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_1G00056000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1083 bp

ATGGAGCACATTGAACTGGTTCAGAAAATTTTAGTGGTTCTTTTCACTGTTGCCTTCTTTTGGAAGCTCATTACATACATGTGGAGCTTCTTGAATGTGGAGAGGGATCCTGTGATAGTATTGGTTACTGGGGCTGCAGGGCAAATAGGCTATGCTATTGTTCCAATGGTTGCTAGGGGGGCCATGCTTGGCCCTGATCAGCCTGTGATTCTGCACATGCTTGATATTCCTCCTGCAGCTGAGGCCTTGAATGGGGTAAAAATGGAACTGATTGATGCCGCCTTTCCTCTTCTCAAAGGTGTTGTGGCTACAACAGATGTTGAGGAAGCTTGTAAAGGTGTCAACATTGCTGTTATGGTTGGTGGATTCCCAAGGAAGGAAGGTATGGAAAGAAAGGATGTGATGTCAAAAAATGTATCAATCTACAAGGGTCAAGCTTCAGCATTGGAAAAGCACGCTGCTTCAGATGTCAAGGTTCTGGTGGTTGCTAACCCAGCAAACACCAATGCACTCATCTTGAAAGAATATGCACCTTCAATTCCAGAGAAAAACATCACATGTCTTACACGACTAGATCATAACCGAGCATTGGGGCAAATCTCTCAGAGGCTCAATGTTCATGTTGGTGATGTAAAGAATGTTATCATCTGGGGAAATCATTCTTCAACTCAGTATCCTGATGTCAATCATGCAACTGTTGGAGACAAACCTGTCAGACAACTTGTAGCTGATGATCAATGGTTGCATACTGAGTTCATCACCACTGTGCAGCAGCGTGGCGCAGCCATTATCAAAGCTCGGAAACTATCAAGTGCTTTGTCTGCTGCAAGTTCTGCCTGTGATCACATACGCGATTGGGTTCTTGGGACTCCTAAGGGGACATATGTTTCCATGGGTGTGTATTCTGATGGTTCTTATGGAATCCAGGAAGGCCTCATTTACTCTTTCCCTGTTACCTGTGAGAAAGGGGAATGGAAAATTGTGCAAGGACTGAAGATTGACGAGTTCTCGAGGAAAAAGCTTGATGCAACTGCACAAGAGCTCATTGAAGAGAAATCGTTGGCCCATTCATGTCTCAACTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003824 GO:0005575 GO:0005622 GO:0005623 GO:0005737 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:0009060 GO:0009117 GO:0009987 GO:0015980 GO:0016020 GO:0016491 GO:0016614 GO:0016615 GO:0016616 GO:0016999 GO:0017144 GO:0019362 GO:0019637 GO:0019674 GO:0019752 GO:0030060 GO:0034641 GO:0043436 GO:0043648 GO:0044237 GO:0044238 GO:0044281 GO:0044424 GO:0044464 GO:0045333 GO:0046483 GO:0046496 GO:0051186 GO:0055086 GO:0055114 GO:0071704 GO:0072350 GO:0072524 GO:1901360 GO:1901564

KEGG Pathways

Metabolic & Signaling

ko00020 ko00270 ko00620 ko00630 ko00710 ko01100 ko01110 ko01120 ko01130 ko01200 ko04964 map00020 map00270 map00620 map00630 map00710 map01100 map01110 map01120 map01130 map01200 map04964

Pfam Domains

Protein Families

Ldh_1_C Ldh_1_N

Protein Analysis

360

Amino Acids

39.37

Weight (kDa)

6.56

Isoelectric Point (pI)

31.34

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Ldh_1_N	PF00056	40 - 185	1.4e-29	lactate/malate dehydrogenase, NAD binding domain
Ldh_1_C	PF02866	189 - 353	3.9e-45	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: OG0009056)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G56720
fragaria_vesca	FvH4_3g14020 FvH4_3g14020 FvH4_3g14020
malus_domestica	MD05G1238800.v1.1 MD10G1216900.v1.1
prunus_persica	Prupe.4G127500_v2.0.a1 Prupe.4G127500_v2.0.a1
pyrus_communis	pycom05g21480 pycom10g18290
rosa_chinensis	RchiOBHm_Chr5g0023331
rosa_laevigata	RLG00000032714
rosa_multiflora	Rmu_sc0004693.1_g000004 Rmu_sc0009954.1_g000015
rosa_roxburghii	Rroxscaffold_1G00056000
rosa_rugosa	Rorug05G0078400 Rorug05G0078500
rosa_samantha	Rh5AG165000 Rh5BG164500 Rh5CG179400 Rh5DG166000
rosa_wichuraiana	Rw5G014870

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	710
AccII	CGCG	1 cut(s)	852
AciI	CCGC	1 cut(s)	279
AclWI	GGATC	2 cut(s)	101, 114
AcsI	RAATTY	1 cut(s)	27
AcuI	CTGAAG	3 cut(s)	423, 447, 1013
AfiI	CCNNNNNNNGG	4 cut(s)	60, 252, 376, 589
AflIII	ACRYGT	2 cut(s)	78, 557
AgsI	TTSAA	7 cut(s)	14, 94, 250, 520, 537, 666, 1049
AjnI	CCWGG	1 cut(s)	924
AleI	CACNNNNGTG	1 cut(s)	764
AluBI	AGCT	9 cut(s)	67, 87, 239, 329, 437, 728, 797, 1021, 1042
AluI	AGCT	9 cut(s)	67, 87, 239, 329, 437, 728, 797, 1021, 1042
Alw21I	GWGCWC	2 cut(s)	9, 1044
Alw26I	GTCTC	2 cut(s)	696, 1079
AlwI	GGATC	2 cut(s)	101, 114
Ama87I	CYCGRG	1 cut(s)	1009
AoxI	GGCC	5 cut(s)	180, 190, 243, 931, 1062
ApeKI	GCWGC	7 cut(s)	134, 236, 458, 769, 772, 782, 824
ApoI	RAATTY	1 cut(s)	27
Asp700I	GAANNNNTTC	2 cut(s)	18, 658
AspLEI	GCGC	1 cut(s)	782
AspS9I	GGNCC	3 cut(s)	180, 191, 1063
AsuHPI	GGTGA	2 cut(s)	638, 751
AvaI	CYCGRG	1 cut(s)	1009
AxyI	CCTNAGG	1 cut(s)	873
BamHI	GGATCC	1 cut(s)	106
BanII	GRGCYC	1 cut(s)	1044
Bbv12I	GWGCWC	2 cut(s)	9, 1044
BbvCI	CCTCAGC	1 cut(s)	240
BbvI	GCAGC	7 cut(s)	121, 248, 445, 781, 784, 794, 811
BccI	CCATC	1 cut(s)	902
BciT130I	CCWGG	1 cut(s)	926
BciVI	GTATCC	1 cut(s)	684
BclI	TGATCA	3 cut(s)	196, 733, 841
BcoDI	GTCTC	2 cut(s)	696, 1079
BfaI	CTAG	2 cut(s)	174, 572
BfmI	CTRYAG	2 cut(s)	135, 234
BfuI	GTATCC	1 cut(s)	684
BisI	GCNGC	8 cut(s)	135, 237, 279, 459, 770, 773, 783, 825
BlsI	GCNGC	8 cut(s)	136, 238, 280, 460, 771, 774, 784, 826
Bme1390I	CCNGG	1 cut(s)	926
BmeT110I	CYCGRG	1 cut(s)	1009
BmgT120I	GGNCC	3 cut(s)	180, 191, 1063
BmiI	GGNNCC	2 cut(s)	108, 181
BmrFI	CCNGG	1 cut(s)	926
BmrI	ACTGGG	1 cut(s)	138
BmsI	GCATC	2 cut(s)	265, 1015
BmuI	ACTGGG	1 cut(s)	138
Bpu10I	CCTNAGC	1 cut(s)	240
BsaBI	GATNNNNATC	1 cut(s)	684
BsaJI	CCNNGG	2 cut(s)	371, 891
Bsc4I	CCNNNNNNNGG	4 cut(s)	60, 252, 376, 589
Bse1I	ACTGG	2 cut(s)	21, 133
Bse21I	CCTNAGG	1 cut(s)	873
Bse3DI	GCAATG	1 cut(s)	345
Bse8I	GATNNNNATC	1 cut(s)	684
BseBI	CCWGG	1 cut(s)	926
BseDI	CCNNGG	2 cut(s)	371, 891
BseGI	GGATG	1 cut(s)	403
BseJI	GATNNNNATC	1 cut(s)	684
BseLI	CCNNNNNNNGG	4 cut(s)	60, 252, 376, 589
BseMI	GCAATG	1 cut(s)	345
BseMII	CTCAG	4 cut(s)	231, 617, 683, 741
BseNI	ACTGG	2 cut(s)	21, 133
BseXI	GCAGC	7 cut(s)	121, 248, 445, 781, 784, 794, 811
BseYI	CCCAGC	1 cut(s)	493
BsgI	GTGCAG	3 cut(s)	197, 788, 1017
Bsh1236I	CGCG	1 cut(s)	852
BshFI	GGCC	5 cut(s)	182, 192, 245, 933, 1064
BsiHKAI	GWGCWC	2 cut(s)	9, 1044
BsiHKCI	CYCGRG	1 cut(s)	1009
BslFI	GGGAC	2 cut(s)	880, 892
BslI	CCNNNNNNNGG	4 cut(s)	60, 252, 376, 589
BsmAI	GTCTC	2 cut(s)	696, 1079
BsmFI	GGGAC	2 cut(s)	880, 892
BsnI	GGCC	5 cut(s)	182, 192, 245, 933, 1064
BsoBI	CYCGRG	1 cut(s)	1009
Bsp1286I	GDGCHC	2 cut(s)	9, 1044
Bsp143I	GATC	5 cut(s)	106, 196, 574, 733, 841
Bsp19I	CCATGG	1 cut(s)	891
BspACI	CCGC	1 cut(s)	279
BspANI	GGCC	5 cut(s)	182, 192, 245, 933, 1064
BspCNI	CTCAG	4 cut(s)	232, 616, 682, 742
BspFNI	CGCG	1 cut(s)	852
BspLI	GGNNCC	2 cut(s)	108, 181
BspMAI	CTGCAG	2 cut(s)	139, 238
BspPI	GGATC	2 cut(s)	101, 114
BsrDI	GCAATG	1 cut(s)	345
BsrI	ACTGG	2 cut(s)	21, 133
BssECI	CCNNGG	2 cut(s)	371, 891
BssMI	GATC	5 cut(s)	106, 196, 574, 733, 841
BssT1I	CCWWGG	2 cut(s)	371, 891
Bst2UI	CCWGG	1 cut(s)	926
Bst4CI	ACNGT	3 cut(s)	49, 697, 766
Bst6I	CTCTTC	2 cut(s)	294, 1044
BstAPI	GCANNNNNTGC	1 cut(s)	833
BstC8I	GCNNGC	1 cut(s)	456
BstDEI	CTNAG	5 cut(s)	240, 603, 669, 750, 873
BstDSI	CCRYGG	1 cut(s)	891
BstF5I	GGATG	1 cut(s)	403
BstFNI	CGCG	1 cut(s)	852
BstHHI	GCGC	1 cut(s)	782
BstKTI	GATC	5 cut(s)	109, 199, 577, 736, 844
BstMAI	GTCTC	2 cut(s)	696, 1079
BstMBI	GATC	5 cut(s)	106, 196, 574, 733, 841
BstMWI	GCNNNNNNNGC	5 cut(s)	179, 242, 494, 821, 833
BstNI	CCWGG	1 cut(s)	926
BstNSI	RCATGY	3 cut(s)	82, 220, 561
BstSCI	CCNGG	1 cut(s)	924
BstSFI	CTRYAG	2 cut(s)	135, 234
BstUI	CGCG	1 cut(s)	852
BstV1I	GCAGC	7 cut(s)	121, 248, 445, 781, 784, 794, 811
BstX2I	RGATCY	1 cut(s)	106
BstYI	RGATCY	1 cut(s)	106
Bsu36I	CCTNAGG	1 cut(s)	873
BsuI	GTATCC	1 cut(s)	684
BsuRI	GGCC	5 cut(s)	182, 192, 245, 933, 1064
BtgI	CCRYGG	1 cut(s)	891
BtsCI	GGATG	1 cut(s)	403
BtsIMutI	CAGTG	2 cut(s)	45, 762
Cac8I	GCNNGC	1 cut(s)	456
CfoI	GCGC	1 cut(s)	782
Cfr13I	GGNCC	3 cut(s)	180, 191, 1063
CviAII	CATG	8 cut(s)	79, 184, 217, 558, 620, 689, 892, 1071
DdeI	CTNAG	5 cut(s)	240, 603, 669, 750, 873
DpnI	GATC	5 cut(s)	108, 198, 576, 735, 843
DpnII	GATC	5 cut(s)	106, 196, 574, 733, 841
DrdI	GACNNNNNNGTC	1 cut(s)	710
DseDI	GACNNNNNNGTC	1 cut(s)	710
Eam1104I	CTCTTC	2 cut(s)	294, 1044
EarI	CTCTTC	2 cut(s)	294, 1044
Ecl136II	GAGCTC	1 cut(s)	1042
Eco130I	CCWWGG	2 cut(s)	371, 891
Eco147I	AGGCCT	2 cut(s)	245, 933
Eco24I	GRGCYC	1 cut(s)	1044
Eco53kI	GAGCTC	1 cut(s)	1042
Eco57I	CTGAAG	3 cut(s)	423, 447, 1013
Eco81I	CCTNAGG	1 cut(s)	873
Eco88I	CYCGRG	1 cut(s)	1009
EcoICRI	GAGCTC	1 cut(s)	1042
EcoRII	CCWGG	1 cut(s)	924
EcoT14I	CCWWGG	2 cut(s)	371, 891
EcoT38I	GRGCYC	1 cut(s)	1044
ErhI	CCWWGG	2 cut(s)	371, 891
FaeI	CATG	8 cut(s)	82, 187, 220, 561, 623, 692, 895, 1074
FaqI	GGGAC	2 cut(s)	880, 892
FatI	CATG	8 cut(s)	78, 183, 216, 557, 619, 688, 891, 1070
FauNDI	CATATG	1 cut(s)	883
FbaI	TGATCA	3 cut(s)	196, 733, 841
Fnu4HI	GCNGC	8 cut(s)	135, 237, 279, 459, 770, 773, 783, 825
FokI	GGATG	1 cut(s)	410
FriOI	GRGCYC	1 cut(s)	1044
Fsp4HI	GCNGC	8 cut(s)	135, 237, 279, 459, 770, 773, 783, 825
FspBI	CTAG	2 cut(s)	174, 572
GlaI	GCGC	1 cut(s)	781
GluI	GCNGC	8 cut(s)	135, 237, 279, 459, 770, 773, 783, 825
GsaI	CCCAGC	1 cut(s)	497
HaeIII	GGCC	5 cut(s)	182, 192, 245, 933, 1064
HhaI	GCGC	1 cut(s)	782
Hin1II	CATG	8 cut(s)	82, 187, 220, 561, 623, 692, 895, 1074
Hin6I	GCGC	1 cut(s)	780
HinP1I	GCGC	1 cut(s)	780
HincII	GTYRAC	1 cut(s)	343
HindII	GTYRAC	1 cut(s)	343
HindIII	AAGCTT	3 cut(s)	327, 435, 1019
HinfI	GANTC	4 cut(s)	208, 366, 868, 921
HphI	GGTGA	2 cut(s)	638, 751
Hpy166II	GTNNAC	1 cut(s)	343
Hpy188I	TCNGA	6 cut(s)	24, 466, 606, 716, 801, 907
Hpy188III	TCNNGA	5 cut(s)	91, 517, 542, 677, 1009
Hpy8I	GTNNAC	1 cut(s)	343
HpyAV	CCTTC	5 cut(s)	64, 370, 374, 543, 923
HpyCH4III	ACNGT	3 cut(s)	49, 697, 766
HpyF10VI	GCNNNNNNNGC	5 cut(s)	179, 242, 494, 821, 833
HpyF3I	CTNAG	5 cut(s)	240, 603, 669, 750, 873
Hsp92II	CATG	8 cut(s)	82, 187, 220, 561, 623, 692, 895, 1074
HspAI	GCGC	1 cut(s)	780
Ksp22I	TGATCA	3 cut(s)	196, 733, 841
Kzo9I	GATC	5 cut(s)	106, 196, 574, 733, 841
LmnI	GCTCC	2 cut(s)	4, 84
Lsp1109I	GCAGC	7 cut(s)	121, 248, 445, 781, 784, 794, 811
LweI	GCATC	2 cut(s)	265, 1015
MaeI	CTAG	2 cut(s)	174, 572
MaeIII	GTNAC	2 cut(s)	124, 952
MalI	GATC	5 cut(s)	108, 198, 576, 735, 843
MboI	GATC	5 cut(s)	106, 196, 574, 733, 841
MboII	GAAGA	4 cut(s)	281, 654, 1006, 1061
MflI	RGATCY	1 cut(s)	106
MhlI	GDGCHC	2 cut(s)	9, 1044
MluCI	AATT	3 cut(s)	27, 537, 978
MlyI	GAGTC	1 cut(s)	862
MmeI	TCCRAC	1 cut(s)	679
MnlI	CCTC	8 cut(s)	96, 235, 240, 297, 316, 600, 944, 1005
MroXI	GAANNNNTTC	2 cut(s)	18, 658
MslI	CAYNNNNRTG	4 cut(s)	79, 624, 764, 896
MspA1I	CMGCKG	1 cut(s)	239
MspR9I	CCNGG	1 cut(s)	926
MvaI	CCWGG	1 cut(s)	926
MvnI	CGCG	1 cut(s)	852
MwoI	GCNNNNNNNGC	5 cut(s)	179, 242, 494, 821, 833
NcoI	CCATGG	1 cut(s)	891
NdeI	CATATG	1 cut(s)	883
NdeII	GATC	5 cut(s)	106, 196, 574, 733, 841
NlaIII	CATG	8 cut(s)	82, 187, 220, 561, 623, 692, 895, 1074
NlaIV	GGNNCC	2 cut(s)	108, 181
NspI	RCATGY	3 cut(s)	82, 220, 561
OliI	CACNNNNGTG	1 cut(s)	764
PaeR7I	CTCGAG	1 cut(s)	1009
PceI	AGGCCT	2 cut(s)	245, 933
PciI	ACATGT	2 cut(s)	78, 557
PdmI	GAANNNNTTC	2 cut(s)	18, 658
PfeI	GAWTC	3 cut(s)	208, 366, 921
PfoI	TCCNGGA	1 cut(s)	924
PkrI	GCNGC	8 cut(s)	136, 238, 280, 460, 771, 774, 784, 826
PleI	GAGTC	1 cut(s)	862
PpsI	GAGTC	1 cut(s)	862
PscI	ACATGT	2 cut(s)	78, 557
Psp124BI	GAGCTC	1 cut(s)	1044
Psp6I	CCWGG	1 cut(s)	924
PspFI	CCCAGC	1 cut(s)	493
PspGI	CCWGG	1 cut(s)	924
PspN4I	GGNNCC	2 cut(s)	108, 181
PspPI	GGNCC	3 cut(s)	180, 191, 1063
PstI	CTGCAG	2 cut(s)	139, 238
PsuI	RGATCY	1 cut(s)	106
PvuII	CAGCTG	1 cut(s)	239
RseI	CAYNNNNRTG	4 cut(s)	79, 624, 764, 896
SacI	GAGCTC	1 cut(s)	1044
SatI	GCNGC	8 cut(s)	135, 237, 279, 459, 770, 773, 783, 825
Sau3AI	GATC	5 cut(s)	106, 196, 574, 733, 841
Sau96I	GGNCC	3 cut(s)	180, 191, 1063
SchI	GAGTC	1 cut(s)	862
ScrFI	CCNGG	1 cut(s)	926
SduI	GDGCHC	2 cut(s)	9, 1044
SfaNI	GCATC	2 cut(s)	265, 1015
SfcI	CTRYAG	2 cut(s)	135, 234
Sfr274I	CTCGAG	1 cut(s)	1009
SlaI	CTCGAG	1 cut(s)	1009
SmiMI	CAYNNNNRTG	4 cut(s)	79, 624, 764, 896
SmlI	CTYRAG	1 cut(s)	1009
SmoI	CTYRAG	1 cut(s)	1009
Sse9I	AATT	3 cut(s)	27, 537, 978
SseBI	AGGCCT	2 cut(s)	245, 933
SsiI	CCGC	1 cut(s)	279
SspMI	CTAG	2 cut(s)	174, 572
SstI	GAGCTC	1 cut(s)	1044
StuI	AGGCCT	2 cut(s)	245, 933
StyD4I	CCNGG	1 cut(s)	924
StyI	CCWWGG	2 cut(s)	371, 891
TaaI	ACNGT	3 cut(s)	49, 697, 766
TaqI	TCGA	1 cut(s)	1010
TasI	AATT	3 cut(s)	27, 537, 978
TauI	GCSGC	1 cut(s)	281
TfiI	GAWTC	3 cut(s)	208, 366, 921
TscAI	CASTG	2 cut(s)	52, 769
TseI	GCWGC	7 cut(s)	134, 236, 458, 769, 772, 782, 824
TspDTI	ATGAA	3 cut(s)	608, 745, 1059
TspRI	CASTG	2 cut(s)	52, 769
XapI	RAATTY	1 cut(s)	27
XceI	RCATGY	3 cut(s)	82, 220, 561
XhoI	CTCGAG	1 cut(s)	1009
XmnI	GAANNNNTTC	2 cut(s)	18, 658
XspI	CTAG	2 cut(s)	174, 572

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