Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000001

Orthogroup ID

OG0003161

Physical Location & Seq

Genomic Coordinates Reverse (-)

21715595 .. 21721292

Gene Structure 5698 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug01G0127500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1320 bp

ATGGCAGTAGCAGAGCTCTCAACCCCTTCATTCACCAACACCCGCCTTGTTCACCCATCCAAGCTCTCCTTCTCAACCACCCATCTCCACTCTCACCGCCGTCTTGCTTTTCCACCTCTCTCTCGCACCCAAAATGCTAGAATCTCTTGCTCTCTTGCACCCAATCAAGTTCAAGCTCCTGCTCCTGCGCAAACTGAAGAGCCCAAGAACAAGCCCGAGTGTTATGGCGTGTTTTGCCTCACCTATGATCTCAAAGCTGAAGAAGAGACAAAATCCTGGAAGAAATTAATTAATGTTGCGGTCTCAGGTGCAGCTGGAATGATTTCTAATCATCTACTGTTCAAACTTGCGTCGGGTGAGGTTTTTGGGGCAGACCAACCTGTTGCATTGAAACTACTGGGATCTGAAAGATCATTTGAAGCTCTCGAAGGAGTTGCTATGGAATTGGAGGATTCCCTATTTCCTCTGTTGAGGGAGGTGATCATAAGTATTGATCCATATGAGGTGTTCCAAGATGTTGACTGGGCTCTACTAATAGGAGCAAAGCCTAGAGGTCCTGGAATGGAACGAGCTGATTTGTTGGATATAAATGGGCAGATCTTTGCAGCGCAGGGAAAGGCTCTTAATGCTGTTGCATCTCGTAATGTCAAGGTGATTGTGGTTGGCAACCCTTGTAACACAAATGCACTAATTTGTTTGAAAAATGCTCCGAACATTCCTGCTAAAAATTTTCATGCTTTGACACGGCTGGATGAAAATAGAGCAAAATGTCAGCTGGCCCTCAAAGCTGGTGTCTTCTATGATAAAGTTTCAAACGTGACCATCTGGGGAAATCATTCTACCACTCAGGTCCCAGATTTCTTAAATGCTAGAATTGATGGCTTGCCTGTCAAAGAGGTCATCAAGGATCACAAGTGGTTAGAGGAGGAGTTTACACACAAGGTCCAGACGAGAGGAGGTGCTCTCATAAAAAAGTGGGGAAGATCTTCAGCTGCATCAACTTCCGTGTCGATTGTAGATGCCATAAAGTCCTTGGTTAATCCTACCCCTGAGGGCGACTGGTTTTCTTCTGGTGTTTACACCAACGGAAATCCCTATGGTATAGCAGAGGATATAGTATTCAGTATGCCATGCAGATCCAAAGGGGATGGAGATTATGAACTTGTGAAGGACATAAAATTTGACGATTATCTTCTCAAGAGAATAACAAAGAGTGAAGCTGAGTTACTAGCTGAGAAAAGATGTGTTGGTCACTTAATTGGGCAGGGTATTGCTTTTTGTGATTTGCCCGAGGACACTATGCTTCCTGGAGAGATGTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000462 GO:0003674 GO:0003676 GO:0003723 GO:0005488 GO:0005575 GO:0005732 GO:0006139 GO:0006364 GO:0006396 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009987 GO:0010467 GO:0016070 GO:0016072 GO:0022613 GO:0030490 GO:0030515 GO:0030684 GO:0030686 GO:0032040 GO:0032991 GO:0034470 GO:0034641 GO:0034660 GO:0042254 GO:0042274 GO:0043170 GO:0044085 GO:0044237 GO:0044238 GO:0046483 GO:0071704 GO:0071840 GO:0090304 GO:0097159 GO:1901360 GO:1901363 GO:1990904

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

BING4CT WD40

Protein Analysis

439

Amino Acids

48.1

Weight (kDa)

6.24

Isoelectric Point (pI)

28.71

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Ldh_1_N	PF00056	98 - 245	5e-36	lactate/malate dehydrogenase, NAD binding domain
Ldh_1_C	PF02866	248 - 416	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

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: OG0003161)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G10530
fragaria_vesca	FvH4_7g06900 FvH4_7g06900
malus_domestica	MD07G1075700.v1.1 MD13G1165600.v1.1
prunus_persica	Prupe.2G096600_v2.0.a1 Prupe.2G096600_v2.0.a1
pyrus_communis	pycom02g20600 pycom07g05980 pycom13g14170
rosa_chinensis	RchiOBHm_Chr1g0336741 RchiOBHm_Chr1g0336801 RchiOBHm_Chr1g0336811 RchiOBHm_Chr1g0336821
rosa_laevigata	RLG00000029332 RLG00000029335 RLG00000029337
rosa_multiflora	Rmu_sc0000907.1_g000012 Rmu_sc0000907.1_g000017 Rmu_sc0000907.1_g000032 Rmu_sc0000907.1_g000033 Rmu_sc0011778.1_g000010
rosa_roxburghii	Rroxscaffold_4G00315350
rosa_rugosa	Rorug01G0127500 Rorug01G0127800 Rorug01G0127900
rosa_samantha	Rh1AG148700 Rh1AG148900 Rh1BG116800 Rh1BG116900 Rh1CG140100 Rh1DG155500 Rh1DG156000 Rh1DG156100 Rh5AG191600
rosa_wichuraiana	Rw1G012000 Rw1G012010

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc16I	TGCGCA	1 cut(s)	189
AciI	CCGC	3 cut(s)	43, 97, 299
AclWI	GGATC	4 cut(s)	409, 488, 915, 1131
AcsI	RAATTY	2 cut(s)	727, 1178
AcuI	CTGAAG	3 cut(s)	216, 279, 972
AgsI	TTSAA	6 cut(s)	173, 343, 391, 419, 700, 813
AjnI	CCWGG	3 cut(s)	275, 556, 1306
AjuI	GAANNNNNNNTTGG	2 cut(s)	53, 85
Alw21I	GWGCWC	2 cut(s)	18, 964
Alw26I	GTCTC	2 cut(s)	260, 307
AlwI	GGATC	4 cut(s)	409, 488, 915, 1131
Ama87I	CYCGRG	2 cut(s)	215, 1289
AoxI	GGCC	1 cut(s)	777
ApeKI	GCWGC	3 cut(s)	311, 605, 992
ApoI	RAATTY	2 cut(s)	727, 1178
ArsI	GACNNNNNNTTYG	4 cut(s)	777, 809, 1163, 1195
AseI	ATTAAT	2 cut(s)	287, 291
Asp700I	GAANNNNTTC	3 cut(s)	322, 835, 985
AspLEI	GCGC	2 cut(s)	190, 610
AspS9I	GGNCC	4 cut(s)	554, 778, 850, 943
AsuHPI	GGTGA	7 cut(s)	25, 44, 86, 232, 368, 490, 664
AvaI	CYCGRG	2 cut(s)	215, 1289
AvaII	GGWCC	3 cut(s)	554, 850, 943
AxyI	CCTNAGG	1 cut(s)	1050
BanII	GRGCYC	3 cut(s)	18, 204, 529
BarI	GAAGNNNNNNTAC	2 cut(s)	1209, 1241
BbsI	GAAGAC	1 cut(s)	787
Bbv12I	GWGCWC	2 cut(s)	18, 964
BbvI	GCAGC	3 cut(s)	323, 617, 979
BccI	CCATC	5 cut(s)	64, 90, 830, 872, 1142
BceAI	ACGGC	2 cut(s)	84, 761
BcgI	CGANNNNNNTGC	2 cut(s)	416, 450
BciT130I	CCWGG	3 cut(s)	277, 558, 1308
BclI	TGATCA	1 cut(s)	480
BcoDI	GTCTC	2 cut(s)	260, 307
BfaI	CTAG	4 cut(s)	138, 549, 870, 1229
BglII	AGATCT	2 cut(s)	597, 983
BisI	GCNGC	3 cut(s)	312, 606, 993
BlsI	GCNGC	3 cut(s)	313, 607, 994
Bme1390I	CCNGG	3 cut(s)	277, 558, 1308
Bme18I	GGWCC	3 cut(s)	554, 850, 943
BmeT110I	CYCGRG	2 cut(s)	215, 1289
BmgT120I	GGNCC	4 cut(s)	554, 778, 850, 943
BmiI	GGNNCC	1 cut(s)	852
BmrFI	CCNGG	3 cut(s)	277, 558, 1308
BmrI	ACTGGG	2 cut(s)	407, 532
BmsI	GCATC	3 cut(s)	644, 1004, 1009
BmuI	ACTGGG	2 cut(s)	407, 532
BpiI	GAAGAC	1 cut(s)	787
BplI	GAGNNNNNCTC	2 cut(s)	948, 980
BpuEI	CTTGAG	1 cut(s)	1181
BsaI	GGTCTC	1 cut(s)	307
BsaJI	CCNNGG	2 cut(s)	1032, 1290
Bse1I	ACTGG	3 cut(s)	402, 527, 1064
Bse21I	CCTNAGG	1 cut(s)	1050
BseBI	CCWGG	3 cut(s)	277, 558, 1308
BseDI	CCNNGG	2 cut(s)	1032, 1290
BseGI	GGATG	3 cut(s)	56, 757, 1153
BseMII	CTCAG	5 cut(s)	318, 860, 1041, 1212, 1224
BseNI	ACTGG	3 cut(s)	402, 527, 1064
BseRI	GAGGAG	3 cut(s)	938, 941, 969
BseXI	GCAGC	3 cut(s)	323, 617, 979
BsgI	GTGCAG	1 cut(s)	330
BshFI	GGCC	1 cut(s)	779
BsiHKAI	GWGCWC	2 cut(s)	18, 964
BsiHKCI	CYCGRG	2 cut(s)	215, 1289
BslFI	GGGAC	1 cut(s)	836
BsmAI	GTCTC	2 cut(s)	260, 307
BsmFI	GGGAC	1 cut(s)	836
BsnI	GGCC	1 cut(s)	779
Bso31I	GGTCTC	1 cut(s)	307
BsoBI	CYCGRG	2 cut(s)	215, 1289
Bsp1286I	GDGCHC	4 cut(s)	18, 204, 529, 964
Bsp143I	GATC	9 cut(s)	247, 401, 410, 480, 493, 597, 907, 983, 1136
BspACI	CCGC	3 cut(s)	43, 97, 299
BspANI	GGCC	1 cut(s)	779
BspCNI	CTCAG	5 cut(s)	317, 859, 1042, 1213, 1225
BspLI	GGNNCC	1 cut(s)	852
BspPI	GGATC	4 cut(s)	409, 488, 915, 1131
BspQI	GCTCTTC	1 cut(s)	192
BspTNI	GGTCTC	1 cut(s)	307
BsrI	ACTGG	3 cut(s)	402, 527, 1064
BssECI	CCNNGG	2 cut(s)	1032, 1290
BssMI	GATC	9 cut(s)	247, 401, 410, 480, 493, 597, 907, 983, 1136
BssT1I	CCWWGG	1 cut(s)	1032
Bst2UI	CCWGG	3 cut(s)	277, 558, 1308
Bst4CI	ACNGT	1 cut(s)	339
Bst6I	CTCTTC	2 cut(s)	192, 258
BstC8I	GCNNGC	2 cut(s)	777, 884
BstDEI	CTNAG	5 cut(s)	304, 846, 1050, 1221, 1233
BstF5I	GGATG	3 cut(s)	56, 757, 1153
BstHHI	GCGC	2 cut(s)	190, 610
BstKTI	GATC	9 cut(s)	250, 404, 413, 483, 496, 600, 910, 986, 1139
BstMAI	GTCTC	2 cut(s)	260, 307
BstMBI	GATC	9 cut(s)	247, 401, 410, 480, 493, 597, 907, 983, 1136
BstMWI	GCNNNNNNNGC	3 cut(s)	234, 626, 785
BstNI	CCWGG	3 cut(s)	277, 558, 1308
BstSCI	CCNGG	3 cut(s)	275, 556, 1306
BstV1I	GCAGC	3 cut(s)	323, 617, 979
BstV2I	GAAGAC	1 cut(s)	787
BstX2I	RGATCY	4 cut(s)	401, 597, 983, 1136
BstYI	RGATCY	4 cut(s)	401, 597, 983, 1136
Bsu36I	CCTNAGG	1 cut(s)	1050
BsuRI	GGCC	1 cut(s)	779
BtsCI	GGATG	3 cut(s)	56, 757, 1153
Cac8I	GCNNGC	2 cut(s)	777, 884
CfoI	GCGC	2 cut(s)	190, 610
Cfr13I	GGNCC	4 cut(s)	554, 778, 850, 943
CseI	GACGC	1 cut(s)	339
CviAII	CATG	2 cut(s)	734, 1131
DdeI	CTNAG	5 cut(s)	304, 846, 1050, 1221, 1233
DpnI	GATC	9 cut(s)	249, 403, 412, 482, 495, 599, 909, 985, 1138
DpnII	GATC	9 cut(s)	247, 401, 410, 480, 493, 597, 907, 983, 1136
Eam1104I	CTCTTC	2 cut(s)	192, 258
EarI	CTCTTC	2 cut(s)	192, 258
Ecl136II	GAGCTC	1 cut(s)	16
Eco130I	CCWWGG	1 cut(s)	1032
Eco24I	GRGCYC	3 cut(s)	18, 204, 529
Eco31I	GGTCTC	1 cut(s)	307
Eco47I	GGWCC	3 cut(s)	554, 850, 943
Eco53kI	GAGCTC	1 cut(s)	16
Eco57I	CTGAAG	3 cut(s)	216, 279, 972
Eco81I	CCTNAGG	1 cut(s)	1050
Eco88I	CYCGRG	2 cut(s)	215, 1289
EcoICRI	GAGCTC	1 cut(s)	16
EcoO109I	RGGNCCY	2 cut(s)	554, 850
EcoRII	CCWGG	3 cut(s)	275, 556, 1306
EcoT14I	CCWWGG	1 cut(s)	1032
EcoT38I	GRGCYC	3 cut(s)	18, 204, 529
ErhI	CCWWGG	1 cut(s)	1032
FaeI	CATG	2 cut(s)	737, 1134
FalI	AAGNNNNNCTT	2 cut(s)	53, 85
FaqI	GGGAC	1 cut(s)	836
FatI	CATG	2 cut(s)	733, 1130
FauI	CCCGC	1 cut(s)	50
FauNDI	CATATG	1 cut(s)	499
FbaI	TGATCA	1 cut(s)	480
Fnu4HI	GCNGC	3 cut(s)	312, 606, 993
FokI	GGATG	3 cut(s)	43, 764, 1160
FriOI	GRGCYC	3 cut(s)	18, 204, 529
Fsp4HI	GCNGC	3 cut(s)	312, 606, 993
FspBI	CTAG	4 cut(s)	138, 549, 870, 1229
FspI	TGCGCA	1 cut(s)	189
GlaI	GCGC	2 cut(s)	189, 609
GluI	GCNGC	3 cut(s)	312, 606, 993
HaeIII	GGCC	1 cut(s)	779
HgaI	GACGC	1 cut(s)	339
HhaI	GCGC	2 cut(s)	190, 610
Hin1II	CATG	2 cut(s)	737, 1134
Hin6I	GCGC	2 cut(s)	188, 608
HinP1I	GCGC	2 cut(s)	188, 608
HincII	GTYRAC	1 cut(s)	520
HindII	GTYRAC	1 cut(s)	520
HinfI	GANTC	2 cut(s)	141, 452
HphI	GGTGA	7 cut(s)	25, 44, 86, 232, 368, 490, 664
Hpy166II	GTNNAC	4 cut(s)	52, 520, 933, 1078
Hpy188I	TCNGA	2 cut(s)	406, 711
Hpy188III	TCNNGA	3 cut(s)	425, 946, 1198
Hpy8I	GTNNAC	4 cut(s)	52, 520, 933, 1078
Hpy99I	CGWCG	1 cut(s)	355
HpyAV	CCTTC	4 cut(s)	36, 79, 422, 1162
HpyCH4III	ACNGT	1 cut(s)	339
HpyCH4IV	ACGT	1 cut(s)	816
HpyCH4V	TGCA	8 cut(s)	158, 311, 386, 605, 635, 686, 995, 1134
HpyF10VI	GCNNNNNNNGC	3 cut(s)	234, 626, 785
HpyF3I	CTNAG	5 cut(s)	304, 846, 1050, 1221, 1233
HpySE526I	ACGT	1 cut(s)	816
Hsp92II	CATG	2 cut(s)	737, 1134
HspAI	GCGC	2 cut(s)	188, 608
Ksp22I	TGATCA	1 cut(s)	480
Kzo9I	GATC	9 cut(s)	247, 401, 410, 480, 493, 597, 907, 983, 1136
LguI	GCTCTTC	1 cut(s)	192
LmnI	GCTCC	4 cut(s)	181, 187, 539, 712
Lsp1109I	GCAGC	3 cut(s)	323, 617, 979
LweI	GCATC	3 cut(s)	644, 1004, 1009
MaeI	CTAG	4 cut(s)	138, 549, 870, 1229
MaeII	ACGT	1 cut(s)	816
MaeIII	GTNAC	4 cut(s)	674, 817, 1224, 1250
MalI	GATC	9 cut(s)	249, 403, 412, 482, 495, 599, 909, 985, 1138
MboI	GATC	9 cut(s)	247, 401, 410, 480, 493, 597, 907, 983, 1136
MboII	GAAGA	9 cut(s)	209, 272, 275, 292, 787, 978, 993, 1059, 1184
MflI	RGATCY	4 cut(s)	401, 597, 983, 1136
MhlI	GDGCHC	4 cut(s)	18, 204, 529, 964
MluCI	AATT	8 cut(s)	284, 288, 443, 690, 727, 873, 1178, 1257
MmeI	TCCRAC	1 cut(s)	561
MroXI	GAANNNNTTC	3 cut(s)	322, 835, 985
MseI	TTAA	6 cut(s)	287, 291, 624, 863, 1038, 1256
MspA1I	CMGCKG	3 cut(s)	314, 775, 992
MspR9I	CCNGG	3 cut(s)	277, 558, 1308
MvaI	CCWGG	3 cut(s)	277, 558, 1308
MwoI	GCNNNNNNNGC	3 cut(s)	234, 626, 785
NdeI	CATATG	1 cut(s)	499
NdeII	GATC	9 cut(s)	247, 401, 410, 480, 493, 597, 907, 983, 1136
NlaIII	CATG	2 cut(s)	737, 1134
NlaIV	GGNNCC	1 cut(s)	852
NmuCI	GTSAC	2 cut(s)	817, 1250
NsbI	TGCGCA	1 cut(s)	189
PacI	TTAATTAA	1 cut(s)	291
PciSI	GCTCTTC	1 cut(s)	192
PdmI	GAANNNNTTC	3 cut(s)	322, 835, 985
PfeI	GAWTC	2 cut(s)	141, 452
PfoI	TCCNGGA	3 cut(s)	275, 556, 1306
PkrI	GCNGC	3 cut(s)	313, 607, 994
PpuMI	RGGWCCY	2 cut(s)	554, 850
PshBI	ATTAAT	2 cut(s)	287, 291
Psp124BI	GAGCTC	1 cut(s)	18
Psp5II	RGGWCCY	2 cut(s)	554, 850
Psp6I	CCWGG	3 cut(s)	275, 556, 1306
PspGI	CCWGG	3 cut(s)	275, 556, 1306
PspN4I	GGNNCC	1 cut(s)	852
PspPI	GGNCC	4 cut(s)	554, 778, 850, 943
PspPPI	RGGWCCY	2 cut(s)	554, 850
PsuI	RGATCY	4 cut(s)	401, 597, 983, 1136
PvuII	CAGCTG	3 cut(s)	314, 775, 992
SacI	GAGCTC	1 cut(s)	18
SapI	GCTCTTC	1 cut(s)	192
SaqAI	TTAA	6 cut(s)	287, 291, 624, 863, 1038, 1256
SatI	GCNGC	3 cut(s)	312, 606, 993
Sau3AI	GATC	9 cut(s)	247, 401, 410, 480, 493, 597, 907, 983, 1136
Sau96I	GGNCC	4 cut(s)	554, 778, 850, 943
ScrFI	CCNGG	3 cut(s)	277, 558, 1308
SduI	GDGCHC	4 cut(s)	18, 204, 529, 964
SfaNI	GCATC	3 cut(s)	644, 1004, 1009
SinI	GGWCC	3 cut(s)	554, 850, 943
SmlI	CTYRAG	1 cut(s)	1196
SmoI	CTYRAG	1 cut(s)	1196
Sse9I	AATT	8 cut(s)	284, 288, 443, 690, 727, 873, 1178, 1257
SsiI	CCGC	3 cut(s)	43, 97, 299
SspMI	CTAG	4 cut(s)	138, 549, 870, 1229
SstI	GAGCTC	1 cut(s)	18
StyD4I	CCNGG	3 cut(s)	275, 556, 1306
StyI	CCWWGG	1 cut(s)	1032
TaaI	ACNGT	1 cut(s)	339
TaiI	ACGT	1 cut(s)	819
TaqI	TCGA	2 cut(s)	426, 1010
TasI	AATT	8 cut(s)	284, 288, 443, 690, 727, 873, 1178, 1257
TfiI	GAWTC	2 cut(s)	141, 452
Tru1I	TTAA	6 cut(s)	287, 291, 624, 863, 1038, 1256
Tru9I	TTAA	6 cut(s)	287, 291, 624, 863, 1038, 1256
TseFI	GTSAC	2 cut(s)	817, 1250
TseI	GCWGC	3 cut(s)	311, 605, 992
Tsp45I	GTSAC	2 cut(s)	817, 1250
TspDTI	ATGAA	4 cut(s)	18, 722, 768, 1173
TspGWI	ACGGA	2 cut(s)	994, 1101
VpaK11BI	GGWCC	3 cut(s)	554, 850, 943
VspI	ATTAAT	2 cut(s)	287, 291
XapI	RAATTY	2 cut(s)	727, 1178
XcmI	CCANNNNNNNNNTGG	1 cut(s)	1030
XmnI	GAANNNNTTC	3 cut(s)	322, 835, 985
XspI	CTAG	4 cut(s)	138, 549, 870, 1229

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