Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000005

Orthogroup ID

OG0013912

Physical Location & Seq

Genomic Coordinates Reverse (-)

6300445 .. 6303241

Gene Structure 2797 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_5G00338110.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 999 bp

ATGGCGAAAGAACCAGCTCGCGTCCTCGTCACCGGAGCCGCAGGTCAAATCGGATATGCTCTTGTACCTATGATCGCAAGGGGAGTGATGCTCGGAGCTGACCAGCCCGTGATCCTTCACCTTCTTGATATCCCATTTGCTGCTGAGGCATTGAATGGTGTCAAGATGGAGTTGATCGATGCCGCTTTCCCTCTTCTCAAAGGTGTCATTGCTACAACTGATGTTGTGGAGGCCTGCACCGGAGTCAACATTGCAGTCATGGTTGGTGGCTTCCCAAGGAAAGAAGGCATGGAAAGGAAAGATGTCATGTCCAAGAATGTTTCTATCTACAAGTCCCAAGCTTCTGCACTAGAGAAGTATGCGGCTGCTAACTGCAAGGTTTTGGTTGTTGCTAATCCTGCAAACACCAACGCTTTGATCTTGAAGGAATTTGCACCATCAATTCCTGAGAAAAACATATCTTGCCTGACTAGACTGGACCATAACAGGGCATTGGGCCAGGTTTCAGAGAGATTGAACGTTCAAGTTTCTGATGTGAAAAATGTCATTATCTGGGGAAACCACTCATCATCTCAGTATCCTGATGTCAACCATGCAACTGTCAAGACACCATCTGGAGAGAAGCCCGTCCGTGAGCTTGTTGCTGATGATGCTTGGTTGAATGGAGAATTCATTGCCACTGTTCAACAACGTGGTGCTGCAATTATCAAGGCCCGAAAGCTATCCAGTGCATTGTCAGCTGCTAGTTCTGCTTGTGATCACATCAGGGATTGGGTACTTGGAACCCCAGAGGGAACTTGGGTTTCCATGGGTGTTTACTCTGATGGCTCGTACAATGTACCAGCTGGTCTCATTTACTCATTCCCAGTCACTTGCTGTAATGGAGATTGGAAGATTGTTCAGGGACTCCCTATTGATGAGTTCTCCAGGAAGAAGTTGGATGCGACCGCCGATGAGCTTTCTGAGGAGAAGGCCTTGGCATACACTTGCATCAATTAA

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: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

332

Amino Acids

35.57

Weight (kDa)

6.01

Isoelectric Point (pI)

31.95

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Ldh_1_N	PF00056	7 - 153	7.6e-32	lactate/malate dehydrogenase, NAD binding domain
Ldh_1_C	PF02866	157 - 325	1.6e-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: OG0013912)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G04410 AT5G43330
fragaria_vesca	FvH4_4g03630
malus_domestica	MD13G1214000.v1.1 MD16G1219000.v1.1
prunus_persica	Prupe.1G039300_v2.0.a1 Prupe.1G039300_v2.0.a1
pyrus_communis	pycom13g18720 pycom16g18250
rosa_chinensis	RchiOBHm_Chr4g0393011
rosa_laevigata	RLG00000009775
rosa_multiflora	Rmu_sc0008339.1_g000014
rosa_roxburghii	Rroxscaffold_5G00338110
rosa_rugosa	Rorug04G0003000
rosa_samantha	Rh4BG041300 Rh4CG048900
rosa_wichuraiana	Rw4G003570

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	32
AccII	CGCG	1 cut(s)	21
AciI	CCGC	4 cut(s)	39, 183, 362, 948
AclI	AACGTT	1 cut(s)	519
AclWI	GGATC	1 cut(s)	106
AcsI	RAATTY	2 cut(s)	428, 668
AfaI	GTAC	4 cut(s)	66, 777, 833, 840
AfiI	CCNNNNNNNGG	1 cut(s)	487
AgsI	TTSAA	6 cut(s)	154, 424, 517, 524, 661, 686
AjnI	CCWGG	2 cut(s)	498, 926
AluBI	AGCT	8 cut(s)	17, 98, 341, 637, 721, 740, 845, 958
AluI	AGCT	8 cut(s)	17, 98, 341, 637, 721, 740, 845, 958
Alw26I	GTCTC	1 cut(s)	854
AlwI	GGATC	1 cut(s)	106
AoxI	GGCC	4 cut(s)	231, 496, 711, 972
ApeKI	GCWGC	4 cut(s)	140, 365, 698, 740
ApoI	RAATTY	2 cut(s)	428, 668
AspS9I	GGNCC	3 cut(s)	478, 496, 712
AsuHPI	GGTGA	2 cut(s)	22, 110
AvaII	GGWCC	1 cut(s)	478
BbvCI	CCTCAGC	1 cut(s)	144
BbvI	GCAGC	4 cut(s)	127, 352, 685, 727
BccI	CCATC	4 cut(s)	160, 445, 619, 818
BciT130I	CCWGG	2 cut(s)	500, 928
BciVI	GTATCC	1 cut(s)	588
BclI	TGATCA	1 cut(s)	757
BcoDI	GTCTC	1 cut(s)	854
BfaI	CTAG	3 cut(s)	350, 471, 744
BfuAI	ACCTGC	1 cut(s)	32
BfuI	GTATCC	1 cut(s)	588
BisI	GCNGC	7 cut(s)	39, 141, 183, 363, 366, 699, 741
BlsI	GCNGC	7 cut(s)	40, 142, 184, 364, 367, 700, 742
Bme1390I	CCNGG	2 cut(s)	500, 928
Bme18I	GGWCC	1 cut(s)	478
BmgT120I	GGNCC	3 cut(s)	478, 496, 712
BmiI	GGNNCC	2 cut(s)	37, 784
BmrFI	CCNGG	2 cut(s)	500, 928
BmrI	ACTGGG	1 cut(s)	860
BmsI	GCATC	4 cut(s)	78, 169, 640, 931
BmuI	ACTGGG	1 cut(s)	860
BplI	GAGNNNNNCTC	2 cut(s)	75, 107
BpmI	CTGGAG	2 cut(s)	636, 910
Bpu10I	CCTNAGC	1 cut(s)	144
Bsa29I	ATCGAT	1 cut(s)	177
BsaI	GGTCTC	1 cut(s)	854
BsaJI	CCNNGG	3 cut(s)	275, 807, 975
BsaWI	WCCGGW	2 cut(s)	32, 239
Bsc4I	CCNNNNNNNGG	1 cut(s)	487
Bse1I	ACTGG	3 cut(s)	480, 726, 866
Bse3DI	GCAATG	3 cut(s)	207, 249, 672
BseBI	CCWGG	2 cut(s)	500, 928
BseCI	ATCGAT	1 cut(s)	177
BseDI	CCNNGG	3 cut(s)	275, 807, 975
BseGI	GGATG	1 cut(s)	946
BseLI	CCNNNNNNNGG	1 cut(s)	487
BseMI	GCAATG	3 cut(s)	207, 249, 672
BseMII	CTCAG	4 cut(s)	135, 438, 587, 954
BseNI	ACTGG	3 cut(s)	480, 726, 866
BseRI	GAGGAG	1 cut(s)	980
BseXI	GCAGC	4 cut(s)	127, 352, 685, 727
BsgI	GTGCAG	2 cut(s)	220, 330
Bsh1236I	CGCG	1 cut(s)	21
Bsh1285I	CGRYCG	1 cut(s)	948
BshFI	GGCC	4 cut(s)	233, 498, 713, 974
BshVI	ATCGAT	1 cut(s)	177
BsiEI	CGRYCG	1 cut(s)	948
BsiSI	CCGG	2 cut(s)	33, 240
BslFI	GGGAC	2 cut(s)	319, 918
BslI	CCNNNNNNNGG	1 cut(s)	487
BsmAI	GTCTC	1 cut(s)	854
BsmFI	GGGAC	2 cut(s)	319, 918
BsnI	GGCC	4 cut(s)	233, 498, 713, 974
Bso31I	GGTCTC	1 cut(s)	854
Bsp143I	GATC	5 cut(s)	72, 111, 174, 417, 757
Bsp19I	CCATGG	1 cut(s)	807
BspACI	CCGC	4 cut(s)	39, 183, 362, 948
BspANI	GGCC	4 cut(s)	233, 498, 713, 974
BspCNI	CTCAG	4 cut(s)	136, 439, 586, 955
BspDI	ATCGAT	1 cut(s)	177
BspFNI	CGCG	1 cut(s)	21
BspLI	GGNNCC	2 cut(s)	37, 784
BspMI	ACCTGC	1 cut(s)	32
BspPI	GGATC	1 cut(s)	106
BspTNI	GGTCTC	1 cut(s)	854
BsrDI	GCAATG	3 cut(s)	207, 249, 672
BsrI	ACTGG	3 cut(s)	480, 726, 866
BssECI	CCNNGG	3 cut(s)	275, 807, 975
BssMI	GATC	5 cut(s)	72, 111, 174, 417, 757
BssT1I	CCWWGG	3 cut(s)	275, 807, 975
Bst2UI	CCWGG	2 cut(s)	500, 928
Bst4CI	ACNGT	2 cut(s)	601, 682
Bst6I	CTCTTC	1 cut(s)	198
BstC8I	GCNNGC	2 cut(s)	19, 235
BstDEI	CTNAG	4 cut(s)	144, 447, 573, 963
BstDSI	CCRYGG	1 cut(s)	807
BstF5I	GGATG	1 cut(s)	946
BstFNI	CGCG	1 cut(s)	21
BstKTI	GATC	5 cut(s)	75, 114, 177, 420, 760
BstMAI	GTCTC	1 cut(s)	854
BstMBI	GATC	5 cut(s)	72, 111, 174, 417, 757
BstMCI	CGRYCG	1 cut(s)	948
BstMWI	GCNNNNNNNGC	5 cut(s)	146, 398, 650, 737, 749
BstNI	CCWGG	2 cut(s)	500, 928
BstSCI	CCNGG	2 cut(s)	498, 926
BstUI	CGCG	1 cut(s)	21
BstV1I	GCAGC	4 cut(s)	127, 352, 685, 727
Bsu15I	ATCGAT	1 cut(s)	177
BsuI	GTATCC	1 cut(s)	588
BsuRI	GGCC	4 cut(s)	233, 498, 713, 974
BsuTUI	ATCGAT	1 cut(s)	177
BtgI	CCRYGG	1 cut(s)	807
BtsCI	GGATG	1 cut(s)	946
BtsIMutI	CAGTG	2 cut(s)	678, 733
BveI	ACCTGC	1 cut(s)	32
Cac8I	GCNNGC	2 cut(s)	19, 235
Cfr13I	GGNCC	3 cut(s)	478, 496, 712
ClaI	ATCGAT	1 cut(s)	177
CseI	GACGC	1 cut(s)	10
Csp6I	GTAC	4 cut(s)	65, 776, 832, 839
CviAII	CATG	5 cut(s)	259, 289, 307, 593, 808
CviQI	GTAC	4 cut(s)	65, 776, 832, 839
DdeI	CTNAG	4 cut(s)	144, 447, 573, 963
DpnI	GATC	5 cut(s)	74, 113, 176, 419, 759
DpnII	GATC	5 cut(s)	72, 111, 174, 417, 757
Eam1104I	CTCTTC	1 cut(s)	198
EarI	CTCTTC	1 cut(s)	198
Eco130I	CCWWGG	3 cut(s)	275, 807, 975
Eco147I	AGGCCT	2 cut(s)	233, 974
Eco31I	GGTCTC	1 cut(s)	854
Eco32I	GATATC	1 cut(s)	130
Eco47I	GGWCC	1 cut(s)	478
EcoRI	GAATTC	1 cut(s)	668
EcoRII	CCWGG	2 cut(s)	498, 926
EcoRV	GATATC	1 cut(s)	130
EcoT14I	CCWWGG	3 cut(s)	275, 807, 975
ErhI	CCWWGG	3 cut(s)	275, 807, 975
FaeI	CATG	5 cut(s)	262, 292, 310, 596, 811
FaqI	GGGAC	2 cut(s)	319, 918
FatI	CATG	5 cut(s)	258, 288, 306, 592, 807
FbaI	TGATCA	1 cut(s)	757
Fnu4HI	GCNGC	7 cut(s)	39, 141, 183, 363, 366, 699, 741
FokI	GGATG	1 cut(s)	953
Fsp4HI	GCNGC	7 cut(s)	39, 141, 183, 363, 366, 699, 741
FspBI	CTAG	3 cut(s)	350, 471, 744
GluI	GCNGC	7 cut(s)	39, 141, 183, 363, 366, 699, 741
GsuI	CTGGAG	2 cut(s)	636, 910
HaeIII	GGCC	4 cut(s)	233, 498, 713, 974
HapII	CCGG	2 cut(s)	33, 240
HgaI	GACGC	1 cut(s)	10
Hin1II	CATG	5 cut(s)	262, 292, 310, 596, 811
HincII	GTYRAC	2 cut(s)	247, 589
HindII	GTYRAC	2 cut(s)	247, 589
HindIII	AAGCTT	1 cut(s)	339
HinfI	GANTC	2 cut(s)	243, 906
HpaII	CCGG	2 cut(s)	33, 240
HphI	GGTGA	2 cut(s)	22, 110
Hpy166II	GTNNAC	3 cut(s)	247, 589, 817
Hpy188I	TCNGA	6 cut(s)	53, 95, 508, 532, 823, 964
Hpy188III	TCNNGA	7 cut(s)	125, 163, 421, 446, 581, 604, 615
Hpy8I	GTNNAC	3 cut(s)	247, 589, 817
HpyAV	CCTTC	5 cut(s)	125, 131, 278, 418, 964
HpyCH4III	ACNGT	2 cut(s)	601, 682
HpyCH4IV	ACGT	2 cut(s)	519, 691
HpyF10VI	GCNNNNNNNGC	5 cut(s)	146, 398, 650, 737, 749
HpyF3I	CTNAG	4 cut(s)	144, 447, 573, 963
HpySE526I	ACGT	2 cut(s)	519, 691
Hsp92II	CATG	5 cut(s)	262, 292, 310, 596, 811
Ksp22I	TGATCA	1 cut(s)	757
Kzo9I	GATC	5 cut(s)	72, 111, 174, 417, 757
LmnI	GCTCC	2 cut(s)	35, 95
Lsp1109I	GCAGC	4 cut(s)	127, 352, 685, 727
LweI	GCATC	4 cut(s)	78, 169, 640, 931
MaeI	CTAG	3 cut(s)	350, 471, 744
MaeII	ACGT	2 cut(s)	519, 691
MaeIII	GTNAC	2 cut(s)	28, 868
MalI	GATC	5 cut(s)	74, 113, 176, 419, 759
MboI	GATC	5 cut(s)	72, 111, 174, 417, 757
MboII	GAAGA	3 cut(s)	185, 904, 943
MluCI	AATT	5 cut(s)	428, 441, 668, 702, 994
MlyI	GAGTC	2 cut(s)	252, 900
MmeI	TCCRAC	1 cut(s)	918
MnlI	CCTC	6 cut(s)	35, 139, 201, 223, 784, 958
MseI	TTAA	1 cut(s)	997
MspA1I	CMGCKG	2 cut(s)	740, 845
MspI	CCGG	2 cut(s)	33, 240
MspR9I	CCNGG	2 cut(s)	500, 928
MvaI	CCWGG	2 cut(s)	500, 928
MvnI	CGCG	1 cut(s)	21
MwoI	GCNNNNNNNGC	5 cut(s)	146, 398, 650, 737, 749
NcoI	CCATGG	1 cut(s)	807
NdeII	GATC	5 cut(s)	72, 111, 174, 417, 757
NlaIII	CATG	5 cut(s)	262, 292, 310, 596, 811
NlaIV	GGNNCC	2 cut(s)	37, 784
NmuCI	GTSAC	2 cut(s)	28, 868
PceI	AGGCCT	2 cut(s)	233, 974
PfoI	TCCNGGA	1 cut(s)	926
PkrI	GCNGC	7 cut(s)	40, 142, 184, 364, 367, 700, 742
PleI	GAGTC	2 cut(s)	251, 900
PpsI	GAGTC	2 cut(s)	251, 900
Psp1406I	AACGTT	1 cut(s)	519
Psp6I	CCWGG	2 cut(s)	498, 926
PspGI	CCWGG	2 cut(s)	498, 926
PspN4I	GGNNCC	2 cut(s)	37, 784
PspPI	GGNCC	3 cut(s)	478, 496, 712
PvuII	CAGCTG	2 cut(s)	740, 845
RsaI	GTAC	4 cut(s)	66, 777, 833, 840
RsaNI	GTAC	4 cut(s)	65, 776, 832, 839
SaqAI	TTAA	1 cut(s)	997
SatI	GCNGC	7 cut(s)	39, 141, 183, 363, 366, 699, 741
Sau3AI	GATC	5 cut(s)	72, 111, 174, 417, 757
Sau96I	GGNCC	3 cut(s)	478, 496, 712
SchI	GAGTC	2 cut(s)	252, 900
ScrFI	CCNGG	2 cut(s)	500, 928
SfaNI	GCATC	4 cut(s)	78, 169, 640, 931
SinI	GGWCC	1 cut(s)	478
Sse9I	AATT	5 cut(s)	428, 441, 668, 702, 994
SseBI	AGGCCT	2 cut(s)	233, 974
SsiI	CCGC	4 cut(s)	39, 183, 362, 948
SspMI	CTAG	3 cut(s)	350, 471, 744
StuI	AGGCCT	2 cut(s)	233, 974
StyD4I	CCNGG	2 cut(s)	498, 926
StyI	CCWWGG	3 cut(s)	275, 807, 975
TaaI	ACNGT	2 cut(s)	601, 682
TaiI	ACGT	2 cut(s)	522, 694
TaqI	TCGA	1 cut(s)	177
TasI	AATT	5 cut(s)	428, 441, 668, 702, 994
TauI	GCSGC	3 cut(s)	41, 185, 365
Tru1I	TTAA	1 cut(s)	997
Tru9I	TTAA	1 cut(s)	997
TscAI	CASTG	2 cut(s)	685, 733
TseFI	GTSAC	2 cut(s)	28, 868
TseI	GCWGC	4 cut(s)	140, 365, 698, 740
Tsp45I	GTSAC	2 cut(s)	28, 868
TspDTI	ATGAA	1 cut(s)	661
TspGWI	ACGGA	1 cut(s)	620
TspRI	CASTG	2 cut(s)	685, 733
VpaK11BI	GGWCC	1 cut(s)	478
XapI	RAATTY	2 cut(s)	428, 668
XcmI	CCANNNNNNNNNTGG	2 cut(s)	795, 934
XspI	CTAG	3 cut(s)	350, 471, 744

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