Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5C

Orthogroup ID

OG0000999

Physical Location & Seq

Genomic Coordinates Forward (+)

30096719 .. 30109094

Gene Structure 12376 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5CG276800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 387 bp

ATGGATCCTCATACTCATGTAGTCCATGGTTACTCAGCATCGATGACTTTTTTGGATGCAGGGCGTTTTACTGCTGCCTGGGAACTTTACAAAGCTCAAGAGGATGCTGTAGCTGCATGCAATGAGTATGATATCAAAGTTACCCTGTTTCATGGGAGAGGAGGAAGTATTGGTCGTGGAGGGGGCCCTACATATCTTGCCATTCAGTCCCAGCCGCCTGGCTCTGATTCGGCTGTTGGTACTGAGGATGCTGCTGCTGCACGTAGGAAGGATGAAGTTGTTGGTAAGAATGTTGTTGTTGGTGGTAGAAAGGTTGTTGTTGCTACTGCTGCGTACAAGGCACATTTGGTGACGATGGTCCAACTTGAGTATGAATATGAGGCCTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003824 GO:0004611 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005829 GO:0006082 GO:0006091 GO:0006099 GO:0006101 GO:0008150 GO:0008152 GO:0008964 GO:0009060 GO:0009987 GO:0015980 GO:0016829 GO:0016830 GO:0016831 GO:0016999 GO:0017144 GO:0019752 GO:0043436 GO:0044237 GO:0044238 GO:0044281 GO:0044424 GO:0044444 GO:0044464 GO:0045333 GO:0055114 GO:0071704 GO:0072350

KEGG Pathways

Metabolic & Signaling

ko00620 ko00680 ko00710 ko00720 ko01100 ko01120 ko01200 map00620 map00680 map00710 map00720 map01100 map01120 map01200

Pfam Domains

Protein Families

PEPcase

Protein Analysis

128

Amino Acids

13.63

Weight (kDa)

5.91

Isoelectric Point (pI)

27.07

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PEPcase	PF00311	6 - 75	8.5e-27	Phosphoenolpyruvate carboxylase

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

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Publication-ready

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0000999)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G68750
fragaria_vesca	FvH4_3g20961 FvH4_4g28350 FvH4_4g28350 FvH4_4g28350 FvH4_4g28350 FvH4_4g28350 FvH4_4g28350 FvH4_4g28350 FvH4_4g28350 FvH4_4g28350 FvH4_4g28350 FvH4_4g28350
malus_domestica	MD13G1049200.v1.1 MD16G1050300.v1.1
prunus_persica	Prupe.1G302700_v2.0.a1 Prupe.1G302700_v2.0.a1
pyrus_communis	pycom16g04410
rosa_chinensis	RchiOBHm_Chr1g0330331 RchiOBHm_Chr1g0355581 RchiOBHm_Chr1g0379911 RchiOBHm_Chr4g0407141 RchiOBHm_Chr4g0436201 RchiOBHm_Chr5g0035501 RchiOBHm_Chr5g0035601 RchiOBHm_Chr5g0035681 RchiOBHm_Chr5g0035861 RchiOBHm_Chr5g0063691 RchiOBHm_Chr6g0312331
rosa_laevigata	RLG00000006529 RLG00000033624 RLG00000033642 RLG00000033654
rosa_multiflora	Rmu_sc0000084.1_g000022 Rmu_sc0006173.1_g000008 Rmu_sc0007205.1_g000021 Rmu_sc0014259.1_g000014
rosa_roxburghii	Rroxscaffold_1G00021870 Rroxscaffold_1G00044830 Rroxscaffold_1G00044890 Rroxscaffold_1G00044970 Rroxscaffold_3G00231670 Rroxscaffold_5G00377400 Rroxscaffold_7G00185100
rosa_rugosa	Rorug03G0294000 Rorug04G0292500 Rorug04G0292600 Rorug04G0292600
rosa_samantha	Rh4AG346800 Rh4BG355700 Rh4CG370400 Rh4DG349400 Rh5AG245000 Rh5BG244800 Rh5CG276300 Rh5CG276800 Rh5DG253900 Rh5DG464900 Rh6BG126500
rosa_wichuraiana	Rw1G008440 Rw4G030310 Rw5G022500

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	1 cut(s)	215
AclWI	GGATC	1 cut(s)	12
AfaI	GTAC	2 cut(s)	241, 335
AjnI	CCWGG	2 cut(s)	77, 217
AluBI	AGCT	2 cut(s)	95, 113
AluI	AGCT	2 cut(s)	95, 113
AlwI	GGATC	1 cut(s)	12
AoxI	GGCC	2 cut(s)	184, 381
ApaI	GGGCCC	1 cut(s)	188
ApeKI	GCWGC	6 cut(s)	74, 113, 251, 254, 257, 329
AspS9I	GGNCC	3 cut(s)	184, 185, 358
AsuHPI	GGTGA	1 cut(s)	361
AvaII	GGWCC	1 cut(s)	358
BaeGI	GKGCMC	1 cut(s)	188
BamHI	GGATCC	1 cut(s)	4
BanII	GRGCYC	1 cut(s)	188
BbvI	GCAGC	6 cut(s)	61, 100, 238, 241, 244, 316
BccI	CCATC	1 cut(s)	349
BciT130I	CCWGG	2 cut(s)	79, 219
BfmI	CTRYAG	1 cut(s)	108
BisI	GCNGC	7 cut(s)	75, 114, 215, 252, 255, 258, 330
BlsI	GCNGC	7 cut(s)	76, 115, 216, 253, 256, 259, 331
Bme1390I	CCNGG	2 cut(s)	79, 219
Bme18I	GGWCC	1 cut(s)	358
BmgT120I	GGNCC	3 cut(s)	184, 185, 358
BmiI	GGNNCC	3 cut(s)	6, 185, 186
BmrFI	CCNGG	2 cut(s)	79, 219
BmsI	GCATC	4 cut(s)	46, 47, 94, 238
BoxI	GACNNNNGTC	1 cut(s)	356
BpuEI	CTTGAG	2 cut(s)	81, 386
Bsa29I	ATCGAT	1 cut(s)	41
BsaAI	YACGTR	1 cut(s)	263
BsaJI	CCNNGG	2 cut(s)	25, 78
Bse3DI	GCAATG	1 cut(s)	127
BseBI	CCWGG	2 cut(s)	79, 219
BseCI	ATCGAT	1 cut(s)	41
BseDI	CCNNGG	2 cut(s)	25, 78
BseGI	GGATG	4 cut(s)	61, 109, 253, 277
BseMI	GCAATG	1 cut(s)	127
BseMII	CTCAG	2 cut(s)	48, 234
BseRI	GAGGAG	1 cut(s)	174
BseSI	GKGCMC	1 cut(s)	188
BseXI	GCAGC	6 cut(s)	61, 100, 238, 241, 244, 316
BseYI	CCCAGC	1 cut(s)	210
BsgI	GTGCAG	1 cut(s)	243
BshFI	GGCC	2 cut(s)	186, 383
BshVI	ATCGAT	1 cut(s)	41
BslFI	GGGAC	1 cut(s)	193
BsmFI	GGGAC	1 cut(s)	193
BsnI	GGCC	2 cut(s)	186, 383
Bsp120I	GGGCCC	1 cut(s)	184
Bsp1286I	GDGCHC	1 cut(s)	188
Bsp143I	GATC	1 cut(s)	4
Bsp19I	CCATGG	1 cut(s)	25
BspACI	CCGC	1 cut(s)	215
BspANI	GGCC	2 cut(s)	186, 383
BspCNI	CTCAG	2 cut(s)	47, 235
BspDI	ATCGAT	1 cut(s)	41
BspLI	GGNNCC	3 cut(s)	6, 185, 186
BspPI	GGATC	1 cut(s)	12
BsrDI	GCAATG	1 cut(s)	127
BssECI	CCNNGG	2 cut(s)	25, 78
BssMI	GATC	1 cut(s)	4
BssT1I	CCWWGG	1 cut(s)	25
Bst2UI	CCWGG	2 cut(s)	79, 219
BstBAI	YACGTR	1 cut(s)	263
BstC8I	GCNNGC	1 cut(s)	118
BstDEI	CTNAG	2 cut(s)	34, 243
BstDSI	CCRYGG	1 cut(s)	25
BstF5I	GGATG	4 cut(s)	61, 109, 253, 277
BstKTI	GATC	1 cut(s)	7
BstMBI	GATC	1 cut(s)	4
BstMWI	GCNNNNNNNGC	4 cut(s)	113, 257, 329, 338
BstNI	CCWGG	2 cut(s)	79, 219
BstNSI	RCATGY	1 cut(s)	120
BstPAI	GACNNNNGTC	1 cut(s)	356
BstSCI	CCNGG	2 cut(s)	77, 217
BstSFI	CTRYAG	1 cut(s)	108
BstSLI	GKGCMC	1 cut(s)	188
BstV1I	GCAGC	6 cut(s)	61, 100, 238, 241, 244, 316
BstX2I	RGATCY	1 cut(s)	4
BstXI	CCANNNNNNTGG	1 cut(s)	218
BstYI	RGATCY	1 cut(s)	4
Bsu15I	ATCGAT	1 cut(s)	41
BsuRI	GGCC	2 cut(s)	186, 383
BsuTUI	ATCGAT	1 cut(s)	41
BtgI	CCRYGG	1 cut(s)	25
BtsCI	GGATG	4 cut(s)	61, 109, 253, 277
Cac8I	GCNNGC	1 cut(s)	118
Cfr13I	GGNCC	3 cut(s)	184, 185, 358
ClaI	ATCGAT	1 cut(s)	41
Csp6I	GTAC	2 cut(s)	240, 334
CviAII	CATG	4 cut(s)	17, 26, 117, 152
CviJI	RGCY	7 cut(s)	95, 113, 186, 214, 222, 233, 383
CviKI_1	RGCY	7 cut(s)	95, 113, 186, 214, 222, 233, 383
CviQI	GTAC	2 cut(s)	240, 334
DdeI	CTNAG	2 cut(s)	34, 243
DpnI	GATC	1 cut(s)	6
DpnII	GATC	1 cut(s)	4
Eco130I	CCWWGG	1 cut(s)	25
Eco147I	AGGCCT	1 cut(s)	383
Eco24I	GRGCYC	1 cut(s)	188
Eco32I	GATATC	1 cut(s)	133
Eco47I	GGWCC	1 cut(s)	358
EcoO109I	RGGNCCY	2 cut(s)	184, 185
EcoRII	CCWGG	2 cut(s)	77, 217
EcoRV	GATATC	1 cut(s)	133
EcoT14I	CCWWGG	1 cut(s)	25
EcoT38I	GRGCYC	1 cut(s)	188
ErhI	CCWWGG	1 cut(s)	25
FaeI	CATG	4 cut(s)	20, 29, 120, 155
FaiI	YATR	9 cut(s)	12, 18, 27, 118, 129, 153, 193, 372, 378
FaqI	GGGAC	1 cut(s)	193
FatI	CATG	4 cut(s)	16, 25, 116, 151
Fnu4HI	GCNGC	7 cut(s)	75, 114, 215, 252, 255, 258, 330
FokI	GGATG	4 cut(s)	68, 116, 260, 284
FriOI	GRGCYC	1 cut(s)	188
Fsp4HI	GCNGC	7 cut(s)	75, 114, 215, 252, 255, 258, 330
GluI	GCNGC	7 cut(s)	75, 114, 215, 252, 255, 258, 330
GsaI	CCCAGC	1 cut(s)	214
HaeIII	GGCC	2 cut(s)	186, 383
Hin1II	CATG	4 cut(s)	20, 29, 120, 155
HinfI	GANTC	1 cut(s)	227
HphI	GGTGA	1 cut(s)	361
Hpy188I	TCNGA	1 cut(s)	226
Hpy188III	TCNNGA	1 cut(s)	98
HpyAV	CCTTC	1 cut(s)	262
HpyCH4IV	ACGT	1 cut(s)	262
HpyCH4V	TGCA	4 cut(s)	59, 116, 120, 260
HpyF10VI	GCNNNNNNNGC	4 cut(s)	113, 257, 329, 338
HpyF3I	CTNAG	2 cut(s)	34, 243
HpySE526I	ACGT	1 cut(s)	262
Hsp92II	CATG	4 cut(s)	20, 29, 120, 155
Kzo9I	GATC	1 cut(s)	4
LpnPI	CCDG	7 cut(s)	45, 64, 91, 158, 204, 224, 231
Lsp1109I	GCAGC	6 cut(s)	61, 100, 238, 241, 244, 316
LweI	GCATC	4 cut(s)	46, 47, 94, 238
MaeII	ACGT	1 cut(s)	262
MaeIII	GTNAC	3 cut(s)	29, 139, 349
MalI	GATC	1 cut(s)	6
MboI	GATC	1 cut(s)	4
MflI	RGATCY	1 cut(s)	4
MhlI	GDGCHC	1 cut(s)	188
MmeI	TCCRAC	1 cut(s)	385
MnlI	CCTC	7 cut(s)	18, 94, 152, 155, 173, 238, 373
MslI	CAYNNNNRTG	1 cut(s)	15
MspR9I	CCNGG	2 cut(s)	79, 219
MvaI	CCWGG	2 cut(s)	79, 219
MwoI	GCNNNNNNNGC	4 cut(s)	113, 257, 329, 338
NcoI	CCATGG	1 cut(s)	25
NdeII	GATC	1 cut(s)	4
NlaIII	CATG	4 cut(s)	20, 29, 120, 155
NlaIV	GGNNCC	3 cut(s)	6, 185, 186
NmuCI	GTSAC	1 cut(s)	349
NspI	RCATGY	1 cut(s)	120
PaeI	GCATGC	1 cut(s)	120
PceI	AGGCCT	1 cut(s)	383
PfeI	GAWTC	1 cut(s)	227
PkrI	GCNGC	7 cut(s)	76, 115, 216, 253, 256, 259, 331
Ppu21I	YACGTR	1 cut(s)	263
PshAI	GACNNNNGTC	1 cut(s)	356
Psp6I	CCWGG	2 cut(s)	77, 217
PspFI	CCCAGC	1 cut(s)	210
PspGI	CCWGG	2 cut(s)	77, 217
PspN4I	GGNNCC	3 cut(s)	6, 185, 186
PspOMI	GGGCCC	1 cut(s)	184
PspPI	GGNCC	3 cut(s)	184, 185, 358
PsuI	RGATCY	1 cut(s)	4
RsaI	GTAC	2 cut(s)	241, 335
RsaNI	GTAC	2 cut(s)	240, 334
RseI	CAYNNNNRTG	1 cut(s)	15
SatI	GCNGC	7 cut(s)	75, 114, 215, 252, 255, 258, 330
Sau3AI	GATC	1 cut(s)	4
Sau96I	GGNCC	3 cut(s)	184, 185, 358
ScrFI	CCNGG	2 cut(s)	79, 219
SduI	GDGCHC	1 cut(s)	188
SetI	ASST	4 cut(s)	97, 115, 265, 315
SfaNI	GCATC	4 cut(s)	46, 47, 94, 238
SfcI	CTRYAG	1 cut(s)	108
SinI	GGWCC	1 cut(s)	358
SmiMI	CAYNNNNRTG	1 cut(s)	15
SmlI	CTYRAG	2 cut(s)	96, 365
SmoI	CTYRAG	2 cut(s)	96, 365
SphI	GCATGC	1 cut(s)	120
SseBI	AGGCCT	1 cut(s)	383
SsiI	CCGC	1 cut(s)	215
StuI	AGGCCT	1 cut(s)	383
StyD4I	CCNGG	2 cut(s)	77, 217
StyI	CCWWGG	1 cut(s)	25
TaiI	ACGT	1 cut(s)	265
TaqI	TCGA	1 cut(s)	41
TauI	GCSGC	1 cut(s)	217
TfiI	GAWTC	1 cut(s)	227
TseFI	GTSAC	1 cut(s)	349
TseI	GCWGC	6 cut(s)	74, 113, 251, 254, 257, 329
Tsp45I	GTSAC	1 cut(s)	349
TspDTI	ATGAA	3 cut(s)	140, 288, 387
VpaK11BI	GGWCC	1 cut(s)	358
XceI	RCATGY	1 cut(s)	120

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