Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3B

Orthogroup ID

OG0005740

Physical Location & Seq

Genomic Coordinates Reverse (-)

46710540 .. 46718125

Gene Structure 7586 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3BG370700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 981 bp

ATGGTGATGATGAGGAGTGTGGTGACGCCGTGGCAGACCTGCCCGCTATTCTCCTTGTTACCCTTAAATGCCCGTAATACCCCTCTCATCCTACGCTCAGCTCCCCACTCTGGTCATTTATCCATGGCTGCTTCCTCACAGTCAACGACTTTTCAGAATCAGAATCAGAATGAGAATGTTCCCGCCGGCGCCGGAGCTGATGACAATATGTTTCAGTTGATTCAGTCTCATCAGGAAAAGGCTTCTCGTCTTCCCCCGATTCAGGAAATCCGAACTCTGCTCGATCGTAGTGTTCGTGGAGTGCTCTCTACTATTTCACAGAAGCATGAGGGTTATCCATCAGGATCCATGGTCGACTTTGCATGTGATGCAGATGGATCTCCCATTTTAGCTGTTAGCAGTTTGGCATTTCATACCAAGGATTTAACTCAAAATCCCAAGTGCTCATTGCTCGTGGCTAGAGATCCTGAGGACAGGACTGATTTGTTGGTCACTCTGCATGGTGATGCAATTCCTGTTTCTGAGAAGGATCAAGCAGCCATTCGGACTGCTTATTTGGCCAGGCATCCCGATGCATTTTGGGTTGACTTTGGTGACTTCCAATTCATGCGTATTGAACCAAAAGTTGTGCGATATGTGTCAGGGGTTGCAACAGCTTTATTAGGATCAGGAGAGTTCAACAACGAGGAGTATAAAGCTGCAAAAGTTGATCCAATTGCTCAATTTTCAAAGCCTGTTGCATCTCACATGAATAAGGATCATGCTGAAGATACAAAAGCCATTGTGCAGCATTCAACTTCAATTCCGGTAGACTTTGCTTACATTTTGGACTTGGATGCCCTTGGTTTTAATGTCAAGGCTGCTTATCAGGGTAATACTTTCAAGCTTCGAATACCGTTTCCCAGACGTGCAGTGGATCGAAAGGATGTGAAGACTCTAATTGTGGAAATGCTTCATGCGGCGAAGCCTCAAGTGAGTTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

DUF2470 Putative_PNPOx Pyrid_oxidase_2

Protein Analysis

326

Amino Acids

35.92

Weight (kDa)

6.59

Isoelectric Point (pI)

32.3

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PNPOx_N	PF01243	88 - 213	1.9e-13	Pyridoxamine 5'-phosphate oxidase
CREG_beta-barrel	PF13883	91 - 214	7.1e-17	CREG, beta-barrel
DUF2470	PF10615	244 - 317	1.5e-17	Domain of unknown function (DUF2470)

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: OG0005740)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G03890 AT3G03890
fragaria_vesca	FvH4_1g28200 FvH4_1g28200 FvH4_1g28200 FvH4_1g28200
malus_domestica	MD12G1004000.v1.1 MD12G1004200.v1.1 MD14G1002900.v1.1
prunus_persica	Prupe.7G004600_v2.0.a1 Prupe.7G004600_v2.0.a1 Prupe.7G004600_v2.0.a1
pyrus_communis	pycom12g00350 pycom14g00080
rosa_chinensis	RchiOBHm_Chr3g0497041
rosa_laevigata	RLG00000022486
rosa_multiflora	Rmu_sc0008737.1_g000002 Rmu_sc0009312.1_g000002 Rmu_sc0035985.1_g000001 Rmu_sc0036941.1_g000001
rosa_roxburghii	Rroxscaffold_6G00388440
rosa_rugosa	Rorug03G0289000 Rorug03G0289100
rosa_samantha	Rh3AG333400 Rh3BG370700 Rh3CG367400 Rh3DG368700
rosa_wichuraiana	Rw3G029290

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	47
AccB1I	GGYRCC	1 cut(s)	188
AccI	GTMKAC	2 cut(s)	354, 810
AciI	CCGC	3 cut(s)	44, 183, 959
AclWI	GGATC	9 cut(s)	339, 352, 385, 458, 537, 673, 704, 765, 924
AcoI	YGGCCR	1 cut(s)	558
AcuI	CTGAAG	1 cut(s)	786
AcyI	GRCGYC	2 cut(s)	26, 189
AfiI	CCNNNNNNNGG	2 cut(s)	110, 262
AgsI	TTSAA	6 cut(s)	617, 679, 729, 795, 801, 883
AjiI	CACGTC	1 cut(s)	908
AjnI	CCWGG	1 cut(s)	560
AluBI	AGCT	6 cut(s)	101, 197, 392, 656, 698, 886
AluI	AGCT	6 cut(s)	101, 197, 392, 656, 698, 886
Alw21I	GWGCWC	2 cut(s)	306, 446
Alw26I	GTCTC	1 cut(s)	231
AlwI	GGATC	9 cut(s)	339, 352, 385, 458, 537, 673, 704, 765, 924
AoxI	GGCC	1 cut(s)	558
ApeKI	GCWGC	5 cut(s)	128, 536, 698, 787, 860
ArsI	GACNNNNNNTTYG	2 cut(s)	538, 570
Asp700I	GAANNNNTTC	1 cut(s)	951
AspLEI	GCGC	1 cut(s)	191
AsuHPI	GGTGA	4 cut(s)	16, 34, 515, 605
AsuII	TTCGAA	1 cut(s)	889
AxyI	CCTNAGG	1 cut(s)	468
BalI	TGGCCA	1 cut(s)	560
BamHI	GGATCC	1 cut(s)	344
BanI	GGYRCC	1 cut(s)	188
BauI	CACGAG	1 cut(s)	452
BbsI	GAAGAC	2 cut(s)	242, 938
Bbv12I	GWGCWC	2 cut(s)	306, 446
BbvI	GCAGC	5 cut(s)	115, 548, 685, 799, 847
BccI	CCATC	2 cut(s)	346, 368
BceAI	ACGGC	1 cut(s)	13
BciT130I	CCWGG	1 cut(s)	562
BcoDI	GTCTC	1 cut(s)	231
BfaI	CTAG	1 cut(s)	459
BfoI	RGCGCY	1 cut(s)	192
BfuAI	ACCTGC	1 cut(s)	47
BisI	GCNGC	6 cut(s)	129, 537, 699, 788, 861, 960
BlpI	GCTNAGC	1 cut(s)	97
BlsI	GCNGC	6 cut(s)	130, 538, 700, 789, 862, 961
Bme1390I	CCNGG	1 cut(s)	562
BmgBI	CACGTC	1 cut(s)	908
BmiI	GGNNCC	2 cut(s)	190, 346
BmrFI	CCNGG	1 cut(s)	562
BmsI	GCATC	6 cut(s)	358, 496, 562, 574, 749, 826
BpiI	GAAGAC	2 cut(s)	242, 938
Bpu1102I	GCTNAGC	1 cut(s)	97
Bpu14I	TTCGAA	1 cut(s)	889
BpuEI	CTTGAG	1 cut(s)	954
BsaHI	GRCGYC	2 cut(s)	26, 189
BsaJI	CCNNGG	5 cut(s)	29, 123, 348, 417, 841
BsaWI	WCCGGW	1 cut(s)	805
Bsc4I	CCNNNNNNNGG	2 cut(s)	110, 262
Bse118I	RCCGGY	1 cut(s)	185
Bse21I	CCTNAGG	1 cut(s)	468
Bse3DI	GCAATG	1 cut(s)	446
BseBI	CCWGG	1 cut(s)	562
BseDI	CCNNGG	5 cut(s)	29, 123, 348, 417, 841
BseGI	GGATG	4 cut(s)	87, 565, 841, 931
BseLI	CCNNNNNNNGG	2 cut(s)	110, 262
BseMI	GCAATG	1 cut(s)	446
BseMII	CTCAG	3 cut(s)	111, 459, 513
BseRI	GAGGAG	2 cut(s)	28, 701
BseXI	GCAGC	5 cut(s)	115, 548, 685, 799, 847
BsgI	GTGCAG	2 cut(s)	806, 930
Bsh1285I	CGRYCG	1 cut(s)	286
BshFI	GGCC	1 cut(s)	560
BshNI	GGYRCC	1 cut(s)	188
BsiEI	CGRYCG	1 cut(s)	286
BsiHKAI	GWGCWC	2 cut(s)	306, 446
BsiSI	CCGG	3 cut(s)	186, 192, 806
BslI	CCNNNNNNNGG	2 cut(s)	110, 262
BsmAI	GTCTC	1 cut(s)	231
BsmI	GAATGC	1 cut(s)	790
BsnI	GGCC	1 cut(s)	560
Bsp119I	TTCGAA	1 cut(s)	889
Bsp1286I	GDGCHC	2 cut(s)	306, 446
Bsp143I	GATC	9 cut(s)	283, 344, 377, 463, 529, 665, 709, 757, 916
Bsp1720I	GCTNAGC	1 cut(s)	97
Bsp19I	CCATGG	2 cut(s)	123, 348
BspACI	CCGC	3 cut(s)	44, 183, 959
BspANI	GGCC	1 cut(s)	560
BspCNI	CTCAG	3 cut(s)	110, 460, 514
BspLI	GGNNCC	2 cut(s)	190, 346
BspMI	ACCTGC	1 cut(s)	47
BspPI	GGATC	9 cut(s)	339, 352, 385, 458, 537, 673, 704, 765, 924
BspT104I	TTCGAA	1 cut(s)	889
BspT107I	GGYRCC	1 cut(s)	188
BsrDI	GCAATG	1 cut(s)	446
BsrFI	RCCGGY	1 cut(s)	185
BssAI	RCCGGY	1 cut(s)	185
BssECI	CCNNGG	5 cut(s)	29, 123, 348, 417, 841
BssMI	GATC	9 cut(s)	283, 344, 377, 463, 529, 665, 709, 757, 916
BssNI	GRCGYC	2 cut(s)	26, 189
BssSI	CACGAG	1 cut(s)	452
BssT1I	CCWWGG	4 cut(s)	123, 348, 417, 841
Bst2BI	CACGAG	1 cut(s)	452
Bst2UI	CCWGG	1 cut(s)	562
Bst4CI	ACNGT	2 cut(s)	141, 897
BstACI	GRCGYC	2 cut(s)	26, 189
BstAPI	GCANNNNNTGC	1 cut(s)	368
BstBI	TTCGAA	1 cut(s)	889
BstC8I	GCNNGC	2 cut(s)	44, 187
BstDEI	CTNAG	3 cut(s)	97, 468, 522
BstDSI	CCRYGG	3 cut(s)	29, 123, 348
BstF5I	GGATG	4 cut(s)	87, 565, 841, 931
BstH2I	RGCGCY	1 cut(s)	192
BstHHI	GCGC	1 cut(s)	191
BstKTI	GATC	9 cut(s)	286, 347, 380, 466, 532, 668, 712, 760, 919
BstMAI	GTCTC	1 cut(s)	231
BstMBI	GATC	9 cut(s)	283, 344, 377, 463, 529, 665, 709, 757, 916
BstMCI	CGRYCG	1 cut(s)	286
BstMWI	GCNNNNNNNGC	2 cut(s)	368, 557
BstNI	CCWGG	1 cut(s)	562
BstNSI	RCATGY	1 cut(s)	366
BstSCI	CCNGG	1 cut(s)	560
BstV1I	GCAGC	5 cut(s)	115, 548, 685, 799, 847
BstV2I	GAAGAC	2 cut(s)	242, 938
BstX2I	RGATCY	3 cut(s)	344, 377, 463
BstYI	RGATCY	3 cut(s)	344, 377, 463
Bsu36I	CCTNAGG	1 cut(s)	468
BsuRI	GGCC	1 cut(s)	560
BtgI	CCRYGG	3 cut(s)	29, 123, 348
BtrI	CACGTC	1 cut(s)	908
BtsCI	GGATG	4 cut(s)	87, 565, 841, 931
BtsI	GCAGTG	1 cut(s)	918
BtsIMutI	CAGTG	1 cut(s)	918
BveI	ACCTGC	1 cut(s)	47
Cac8I	GCNNGC	2 cut(s)	44, 187
CfoI	GCGC	1 cut(s)	191
Cfr10I	RCCGGY	1 cut(s)	185
CseI	GACGC	1 cut(s)	34
CviAII	CATG	9 cut(s)	124, 326, 349, 363, 500, 607, 748, 761, 956
DdeI	CTNAG	3 cut(s)	97, 468, 522
DinI	GGCGCC	1 cut(s)	190
DpnI	GATC	9 cut(s)	285, 346, 379, 465, 531, 667, 711, 759, 918
DpnII	GATC	9 cut(s)	283, 344, 377, 463, 529, 665, 709, 757, 916
EaeI	YGGCCR	1 cut(s)	558
Eco130I	CCWWGG	4 cut(s)	123, 348, 417, 841
Eco57I	CTGAAG	1 cut(s)	786
Eco81I	CCTNAGG	1 cut(s)	468
EcoRII	CCWGG	1 cut(s)	560
EcoT14I	CCWWGG	4 cut(s)	123, 348, 417, 841
EcoT22I	ATGCAT	1 cut(s)	577
EgeI	GGCGCC	1 cut(s)	190
EheI	GGCGCC	1 cut(s)	190
ErhI	CCWWGG	4 cut(s)	123, 348, 417, 841
FaeI	CATG	9 cut(s)	127, 329, 352, 366, 503, 610, 751, 764, 959
FatI	CATG	9 cut(s)	123, 325, 348, 362, 499, 606, 747, 760, 955
FauI	CCCGC	2 cut(s)	51, 190
FblI	GTMKAC	2 cut(s)	354, 810
Fnu4HI	GCNGC	6 cut(s)	129, 537, 699, 788, 861, 960
FokI	GGATG	4 cut(s)	74, 552, 848, 938
Fsp4HI	GCNGC	6 cut(s)	129, 537, 699, 788, 861, 960
FspBI	CTAG	1 cut(s)	459
GlaI	GCGC	1 cut(s)	190
GluI	GCNGC	6 cut(s)	129, 537, 699, 788, 861, 960
HaeII	RGCGCY	1 cut(s)	192
HaeIII	GGCC	1 cut(s)	560
HapII	CCGG	3 cut(s)	186, 192, 806
HgaI	GACGC	1 cut(s)	34
HhaI	GCGC	1 cut(s)	191
Hin1I	GRCGYC	2 cut(s)	26, 189
Hin1II	CATG	9 cut(s)	127, 329, 352, 366, 503, 610, 751, 764, 959
Hin6I	GCGC	1 cut(s)	189
HinP1I	GCGC	1 cut(s)	189
HincII	GTYRAC	3 cut(s)	144, 355, 586
HindII	GTYRAC	3 cut(s)	144, 355, 586
HindIII	AAGCTT	1 cut(s)	884
HinfI	GANTC	5 cut(s)	157, 163, 220, 259, 934
HpaII	CCGG	3 cut(s)	186, 192, 806
HphI	GGTGA	4 cut(s)	16, 34, 515, 605
Hpy166II	GTNNAC	4 cut(s)	144, 355, 586, 811
Hpy188I	TCNGA	6 cut(s)	156, 162, 168, 272, 523, 546
Hpy188III	TCNNGA	6 cut(s)	233, 263, 342, 467, 569, 669
Hpy8I	GTNNAC	4 cut(s)	144, 355, 586, 811
HpyAV	CCTTC	1 cut(s)	520
HpyCH4III	ACNGT	2 cut(s)	141, 897
HpyCH4IV	ACGT	1 cut(s)	907
HpyF10VI	GCNNNNNNNGC	2 cut(s)	368, 557
HpyF3I	CTNAG	3 cut(s)	97, 468, 522
HpySE526I	ACGT	1 cut(s)	907
Hsp92I	GRCGYC	2 cut(s)	26, 189
Hsp92II	CATG	9 cut(s)	127, 329, 352, 366, 503, 610, 751, 764, 959
HspAI	GCGC	1 cut(s)	189
KasI	GGCGCC	1 cut(s)	188
KroI	GCCGGC	1 cut(s)	185
KroNI	GCCGGC	1 cut(s)	187
Kzo9I	GATC	9 cut(s)	283, 344, 377, 463, 529, 665, 709, 757, 916
LmnI	GCTCC	2 cut(s)	106, 194
Lsp1109I	GCAGC	5 cut(s)	115, 548, 685, 799, 847
LweI	GCATC	6 cut(s)	358, 496, 562, 574, 749, 826
MaeI	CTAG	1 cut(s)	459
MaeII	ACGT	1 cut(s)	907
MaeIII	GTNAC	4 cut(s)	22, 57, 490, 593
MalI	GATC	9 cut(s)	285, 346, 379, 465, 531, 667, 711, 759, 918
MboI	GATC	9 cut(s)	283, 344, 377, 463, 529, 665, 709, 757, 916
MboII	GAAGA	3 cut(s)	242, 779, 943
MfeI	CAATTG	1 cut(s)	714
MflI	RGATCY	3 cut(s)	344, 377, 463
MhlI	GDGCHC	2 cut(s)	306, 446
MlsI	TGGCCA	1 cut(s)	560
MluCI	AATT	6 cut(s)	510, 602, 714, 722, 801, 939
MluNI	TGGCCA	1 cut(s)	560
Mly113I	GGCGCC	1 cut(s)	189
MlyI	GAGTC	1 cut(s)	928
MnlI	CCTC	7 cut(s)	6, 93, 145, 322, 463, 679, 978
Mox20I	TGGCCA	1 cut(s)	560
Mph1103I	ATGCAT	1 cut(s)	577
MreI	CGCCGGCG	1 cut(s)	185
MroNI	GCCGGC	1 cut(s)	185
MroXI	GAANNNNTTC	1 cut(s)	951
MscI	TGGCCA	1 cut(s)	560
MseI	TTAA	4 cut(s)	65, 425, 849, 979
MslI	CAYNNNNRTG	2 cut(s)	504, 570
Msp20I	TGGCCA	1 cut(s)	560
MspI	CCGG	3 cut(s)	186, 192, 806
MspR9I	CCNGG	1 cut(s)	562
MunI	CAATTG	1 cut(s)	714
Mva1269I	GAATGC	1 cut(s)	790
MvaI	CCWGG	1 cut(s)	562
MwoI	GCNNNNNNNGC	2 cut(s)	368, 557
NaeI	GCCGGC	1 cut(s)	187
NarI	GGCGCC	1 cut(s)	189
NcoI	CCATGG	2 cut(s)	123, 348
NdeII	GATC	9 cut(s)	283, 344, 377, 463, 529, 665, 709, 757, 916
NgoMIV	GCCGGC	1 cut(s)	185
NlaIII	CATG	9 cut(s)	127, 329, 352, 366, 503, 610, 751, 764, 959
NlaIV	GGNNCC	2 cut(s)	190, 346
NmuCI	GTSAC	3 cut(s)	22, 490, 593
NsiI	ATGCAT	1 cut(s)	577
NspI	RCATGY	1 cut(s)	366
NspV	TTCGAA	1 cut(s)	889
PcsI	WCGNNNNNNNCGW	1 cut(s)	292
PctI	GAATGC	1 cut(s)	790
PdiI	GCCGGC	1 cut(s)	187
PdmI	GAANNNNTTC	1 cut(s)	951
PfeI	GAWTC	4 cut(s)	157, 163, 220, 259
PkrI	GCNGC	6 cut(s)	130, 538, 700, 789, 862, 961
Ple19I	CGATCG	1 cut(s)	286
PleI	GAGTC	1 cut(s)	928
PluTI	GGCGCC	1 cut(s)	192
PpsI	GAGTC	1 cut(s)	928
Psp6I	CCWGG	1 cut(s)	560
PspGI	CCWGG	1 cut(s)	560
PspN4I	GGNNCC	2 cut(s)	190, 346
PsuI	RGATCY	3 cut(s)	344, 377, 463
PvuI	CGATCG	1 cut(s)	286
RseI	CAYNNNNRTG	2 cut(s)	504, 570
SalI	GTCGAC	1 cut(s)	353
SaqAI	TTAA	4 cut(s)	65, 425, 849, 979
SatI	GCNGC	6 cut(s)	129, 537, 699, 788, 861, 960
Sau3AI	GATC	9 cut(s)	283, 344, 377, 463, 529, 665, 709, 757, 916
SchI	GAGTC	1 cut(s)	928
ScrFI	CCNGG	1 cut(s)	562
SduI	GDGCHC	2 cut(s)	306, 446
SetI	ASST	8 cut(s)	41, 103, 199, 394, 658, 700, 888, 910
SfaNI	GCATC	6 cut(s)	358, 496, 562, 574, 749, 826
SfoI	GGCGCC	1 cut(s)	190
SfuI	TTCGAA	1 cut(s)	889
SgrAI	CRCCGGYG	1 cut(s)	185
SmiMI	CAYNNNNRTG	2 cut(s)	504, 570
SmlI	CTYRAG	1 cut(s)	969
SmoI	CTYRAG	1 cut(s)	969
Sse9I	AATT	6 cut(s)	510, 602, 714, 722, 801, 939
SsiI	CCGC	3 cut(s)	44, 183, 959
SspDI	GGCGCC	1 cut(s)	188
SspMI	CTAG	1 cut(s)	459
StyD4I	CCNGG	1 cut(s)	560
StyI	CCWWGG	4 cut(s)	123, 348, 417, 841
TaaI	ACNGT	2 cut(s)	141, 897
TaiI	ACGT	1 cut(s)	910
TaqI	TCGA	4 cut(s)	282, 354, 889, 919
TasI	AATT	6 cut(s)	510, 602, 714, 722, 801, 939
TauI	GCSGC	1 cut(s)	962
TfiI	GAWTC	4 cut(s)	157, 163, 220, 259
Tru1I	TTAA	4 cut(s)	65, 425, 849, 979
Tru9I	TTAA	4 cut(s)	65, 425, 849, 979
TscAI	CASTG	1 cut(s)	918
TseFI	GTSAC	3 cut(s)	22, 490, 593
TseI	GCWGC	5 cut(s)	128, 536, 698, 787, 860
Tsp45I	GTSAC	3 cut(s)	22, 490, 593
TspDTI	ATGAA	4 cut(s)	401, 595, 764, 944
TspRI	CASTG	1 cut(s)	918
XceI	RCATGY	1 cut(s)	366
XcmI	CCANNNNNNNNNTGG	1 cut(s)	910
XmiI	GTMKAC	2 cut(s)	354, 810
XmnI	GAANNNNTTC	1 cut(s)	951
XspI	CTAG	1 cut(s)	459
Zsp2I	ATGCAT	1 cut(s)	577

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