Basic Information

Type: gene

Biological Identity

Species

arabidopsis_thaliana

Chromosome

Orthogroup ID

OG0005740

Physical Location & Seq

Genomic Coordinates Reverse (-)

999350 .. 1002595

Gene Structure 3246 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

AT3G03890.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 966 bp

ATGAAGTCGCTTGTGGCTCATTTCTCAACGCCTTTAATCACCGCTAGATTAGTTCCTAGATGTATCATCCATCGAGCTTCAATCTCCGCCGTCTCTTTTTCCACCGTCCGCCGTCGATTTTCTCCTCTCACCATGGCCTCAGCAGCTCAGTCTTCTTCTCAGGCTGTGTCTTACGGGAGTGGCAACAGTGATACAGATGTTTTTAAATTGATTCAAGCTCACGAGGAGAAGGCTGCTCGTCTTTCCCCAGTCGAAGAAATCCGAACTGTGCTTAATGGTAGCATATGCGGTATGCTTTCCACTTTTTCTCAGAAGTATGAGGGTTATCCTTCAGGGTCAATGGTTGATTTTGCATGTGATGCTGATGGTTCTCCGATTCTGGCAGTTAGTAGCTTGGCAGTTCATACAAAGGATCTCTTAGCTAATCCAAAATGCTCATTACTAATTGCTAGAGACCCAGAGGATAGGACTGGTTTGAGGATCACCTTACATGGTGATGCAGTGTTGGTTTCTGAAAAAGATCAAGCAGCTGTTCGATCTGCCTATTTAGCCAAGCATCCCAAAGCTTTCTGGGTTGATTTTGGGGACTTCAGCTTTATGCGAATTGAACCGAAAGTGGTCAGATATGTTTCAGGGGTTGCAACTGCTTTTCTTGGATCTGGAGAATTTAGCAAAGAGGAGTACCAAGCAGCCAAAGTCGATCCTATAGCTCAGTATGCAAAACCTGTAACGTCTCACATGAATAAAGACCATGAAGAGGATACCAAAGCCATTGTACATAATATAACATCCATACCTGTGGAAAGCGCCTTGATGCTGGATTTGGATAGCCTTGGTTTCAATGTTAAGGCTACTCTTCAAGGGAACACCTTCAAACTCCGAGTTCCGTTTCCAAGACGCGCACAAGACAGAAAGGATGTAAAGACATTGATTGTGGAAATGCTTCAAGCTGCCAAGTCCAATTAG

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

321

Amino Acids

35.05

Weight (kDa)

8.78

Isoelectric Point (pI)

39.42

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PNPOx_N	PF01243	85 - 210	2.7e-16	Pyridoxamine 5'-phosphate oxidase
CREG_beta-barrel	PF13883	88 - 212	2.9e-15	CREG, beta-barrel
DUF2470	PF10615	241 - 314	3.9e-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)

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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: 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)
AccII	CGCG	1 cut(s)	900
AciI	CCGC	4 cut(s)	42, 87, 109, 288
AclWI	GGATC	4 cut(s)	420, 488, 664, 695
AcsI	RAATTY	1 cut(s)	665
AcuI	CTGAAG	2 cut(s)	315, 574
AfaI	GTAC	2 cut(s)	683, 777
AfiI	CCNNNNNNNGG	1 cut(s)	757
AgsI	TTSAA	7 cut(s)	81, 215, 608, 841, 860, 874, 947
Alw26I	GTCTC	3 cut(s)	97, 447, 738
AlwI	GGATC	4 cut(s)	420, 488, 664, 695
AoxI	GGCC	1 cut(s)	135
ApeKI	GCWGC	5 cut(s)	143, 233, 527, 689, 950
ApoI	RAATTY	1 cut(s)	665
Asp700I	GAANNNNTTC	2 cut(s)	869, 942
AspLEI	GCGC	2 cut(s)	809, 902
AsuHPI	GGTGA	4 cut(s)	31, 121, 475, 506
BaeI	ACNNNNGTAYC	2 cut(s)	183, 216
BauI	CACGAG	1 cut(s)	221
BbsI	GAAGAC	1 cut(s)	144
BbvCI	CCTCAGC	1 cut(s)	139
BbvI	GCAGC	5 cut(s)	155, 220, 539, 701, 937
BccI	CCATC	2 cut(s)	78, 359
BceAI	ACGGC	2 cut(s)	74, 96
BciVI	GTATCC	1 cut(s)	754
BcoDI	GTCTC	3 cut(s)	97, 447, 738
BfaI	CTAG	3 cut(s)	45, 57, 450
BfmI	CTRYAG	1 cut(s)	705
BfoI	RGCGCY	1 cut(s)	810
BfuI	GTATCC	1 cut(s)	754
BisI	GCNGC	5 cut(s)	144, 234, 528, 690, 951
BlsI	GCNGC	5 cut(s)	145, 235, 529, 691, 952
BmrI	ACTGGG	1 cut(s)	242
BmsI	GCATC	4 cut(s)	349, 487, 565, 804
BmuI	ACTGGG	1 cut(s)	242
BpiI	GAAGAC	1 cut(s)	144
BpmI	CTGGAG	1 cut(s)	681
Bpu10I	CCTNAGC	1 cut(s)	139
BsaI	GGTCTC	1 cut(s)	447
BsaJI	CCNNGG	2 cut(s)	132, 832
Bsc4I	CCNNNNNNNGG	1 cut(s)	757
Bse1I	ACTGG	2 cut(s)	248, 475
BseDI	CCNNGG	2 cut(s)	132, 832
BseGI	GGATG	4 cut(s)	66, 556, 788, 922
BseLI	CCNNNNNNNGG	1 cut(s)	757
BseMII	CTCAG	5 cut(s)	153, 161, 173, 323, 725
BseNI	ACTGG	2 cut(s)	248, 475
BseRI	GAGGAG	3 cut(s)	114, 239, 692
BseXI	GCAGC	5 cut(s)	155, 220, 539, 701, 937
Bsh1236I	CGCG	1 cut(s)	900
BshFI	GGCC	1 cut(s)	137
BslFI	GGGAC	1 cut(s)	599
BslI	CCNNNNNNNGG	1 cut(s)	757
BsmAI	GTCTC	3 cut(s)	97, 447, 738
BsmBI	CGTCTC	2 cut(s)	97, 738
BsmFI	GGGAC	1 cut(s)	599
BsnI	GGCC	1 cut(s)	137
Bso31I	GGTCTC	1 cut(s)	447
Bsp1407I	TGTACA	1 cut(s)	775
Bsp143I	GATC	6 cut(s)	412, 480, 520, 536, 656, 700
Bsp19I	CCATGG	1 cut(s)	132
BspACI	CCGC	4 cut(s)	42, 87, 109, 288
BspANI	GGCC	1 cut(s)	137
BspCNI	CTCAG	5 cut(s)	152, 160, 172, 322, 724
BspFNI	CGCG	1 cut(s)	900
BspPI	GGATC	4 cut(s)	420, 488, 664, 695
BspTNI	GGTCTC	1 cut(s)	447
BsrGI	TGTACA	1 cut(s)	775
BsrI	ACTGG	2 cut(s)	248, 475
BssECI	CCNNGG	2 cut(s)	132, 832
BssMI	GATC	6 cut(s)	412, 480, 520, 536, 656, 700
BssSI	CACGAG	1 cut(s)	221
BssT1I	CCWWGG	2 cut(s)	132, 832
Bst2BI	CACGAG	1 cut(s)	221
Bst4CI	ACNGT	3 cut(s)	106, 188, 268
Bst6I	CTCTTC	2 cut(s)	750, 861
BstAPI	GCANNNNNTGC	1 cut(s)	359
BstAUI	TGTACA	1 cut(s)	775
BstDEI	CTNAG	6 cut(s)	139, 147, 159, 309, 418, 711
BstDSI	CCRYGG	1 cut(s)	132
BstF5I	GGATG	4 cut(s)	66, 556, 788, 922
BstFNI	CGCG	1 cut(s)	900
BstH2I	RGCGCY	1 cut(s)	810
BstHHI	GCGC	2 cut(s)	809, 902
BstKTI	GATC	6 cut(s)	415, 483, 523, 539, 659, 703
BstMAI	GTCTC	3 cut(s)	97, 447, 738
BstMBI	GATC	6 cut(s)	412, 480, 520, 536, 656, 700
BstMWI	GCNNNNNNNGC	4 cut(s)	143, 359, 548, 716
BstNSI	RCATGY	1 cut(s)	357
BstSFI	CTRYAG	1 cut(s)	705
BstUI	CGCG	1 cut(s)	900
BstV1I	GCAGC	5 cut(s)	155, 220, 539, 701, 937
BstV2I	GAAGAC	1 cut(s)	144
BstX2I	RGATCY	2 cut(s)	412, 656
BstXI	CCANNNNNNTGG	1 cut(s)	799
BstYI	RGATCY	2 cut(s)	412, 656
BsuI	GTATCC	1 cut(s)	754
BsuRI	GGCC	1 cut(s)	137
BtgI	CCRYGG	1 cut(s)	132
BtsCI	GGATG	4 cut(s)	66, 556, 788, 922
BtsI	GCAGTG	1 cut(s)	507
BtsIMutI	CAGTG	2 cut(s)	193, 507
CfoI	GCGC	2 cut(s)	809, 902
CseI	GACGC	1 cut(s)	906
Csp6I	GTAC	2 cut(s)	682, 776
CviAII	CATG	5 cut(s)	133, 354, 491, 739, 752
CviQI	GTAC	2 cut(s)	682, 776
DdeI	CTNAG	6 cut(s)	139, 147, 159, 309, 418, 711
DpnI	GATC	6 cut(s)	414, 482, 522, 538, 658, 702
DpnII	GATC	6 cut(s)	412, 480, 520, 536, 656, 700
DraI	TTTAAA	1 cut(s)	205
Eam1104I	CTCTTC	2 cut(s)	750, 861
EarI	CTCTTC	2 cut(s)	750, 861
EciI	GGCGGA	2 cut(s)	76, 98
Eco130I	CCWWGG	2 cut(s)	132, 832
Eco31I	GGTCTC	1 cut(s)	447
Eco57I	CTGAAG	2 cut(s)	315, 574
EcoT14I	CCWWGG	2 cut(s)	132, 832
ErhI	CCWWGG	2 cut(s)	132, 832
Esp3I	CGTCTC	2 cut(s)	97, 738
FaeI	CATG	5 cut(s)	136, 357, 494, 742, 755
FalI	AAGNNNNNCTT	2 cut(s)	401, 433
FaqI	GGGAC	1 cut(s)	599
FatI	CATG	5 cut(s)	132, 353, 490, 738, 751
FauNDI	CATATG	1 cut(s)	284
Fnu4HI	GCNGC	5 cut(s)	144, 234, 528, 690, 951
FokI	GGATG	4 cut(s)	53, 543, 775, 929
Fsp4HI	GCNGC	5 cut(s)	144, 234, 528, 690, 951
FspBI	CTAG	3 cut(s)	45, 57, 450
GlaI	GCGC	2 cut(s)	808, 901
GluI	GCNGC	5 cut(s)	144, 234, 528, 690, 951
GsuI	CTGGAG	1 cut(s)	681
HaeII	RGCGCY	1 cut(s)	810
HaeIII	GGCC	1 cut(s)	137
HgaI	GACGC	1 cut(s)	906
HhaI	GCGC	2 cut(s)	809, 902
Hin1II	CATG	5 cut(s)	136, 357, 494, 742, 755
Hin6I	GCGC	2 cut(s)	807, 900
HinP1I	GCGC	2 cut(s)	807, 900
HindIII	AAGCTT	1 cut(s)	564
HinfI	GANTC	2 cut(s)	211, 376
HphI	GGTGA	4 cut(s)	31, 121, 475, 506
Hpy188I	TCNGA	6 cut(s)	263, 312, 375, 514, 623, 881
Hpy188III	TCNNGA	2 cut(s)	221, 660
Hpy99I	CGWCG	1 cut(s)	117
HpyAV	CCTTC	3 cut(s)	223, 339, 880
HpyCH4III	ACNGT	3 cut(s)	106, 188, 268
HpyCH4IV	ACGT	1 cut(s)	731
HpyCH4V	TGCA	4 cut(s)	353, 500, 641, 719
HpyF10VI	GCNNNNNNNGC	4 cut(s)	143, 359, 548, 716
HpyF3I	CTNAG	6 cut(s)	139, 147, 159, 309, 418, 711
HpySE526I	ACGT	1 cut(s)	731
Hsp92II	CATG	5 cut(s)	136, 357, 494, 742, 755
HspAI	GCGC	2 cut(s)	807, 900
Kzo9I	GATC	6 cut(s)	412, 480, 520, 536, 656, 700
Lsp1109I	GCAGC	5 cut(s)	155, 220, 539, 701, 937
LweI	GCATC	4 cut(s)	349, 487, 565, 804
MaeI	CTAG	3 cut(s)	45, 57, 450
MaeII	ACGT	1 cut(s)	731
MaeIII	GTNAC	1 cut(s)	727
MalI	GATC	6 cut(s)	414, 482, 522, 538, 658, 702
MboI	GATC	6 cut(s)	412, 480, 520, 536, 656, 700
MboII	GAAGA	5 cut(s)	144, 147, 266, 767, 848
MflI	RGATCY	2 cut(s)	412, 656
MluCI	AATT	5 cut(s)	206, 444, 603, 665, 961
MnlI	CCTC	8 cut(s)	135, 148, 217, 313, 454, 471, 670, 751
MroXI	GAANNNNTTC	2 cut(s)	869, 942
MseI	TTAA	4 cut(s)	35, 204, 273, 846
MslI	CAYNNNNRTG	2 cut(s)	495, 797
MspA1I	CMGCKG	1 cut(s)	530
MvnI	CGCG	1 cut(s)	900
MwoI	GCNNNNNNNGC	4 cut(s)	143, 359, 548, 716
NcoI	CCATGG	1 cut(s)	132
NdeI	CATATG	1 cut(s)	284
NdeII	GATC	6 cut(s)	412, 480, 520, 536, 656, 700
NlaIII	CATG	5 cut(s)	136, 357, 494, 742, 755
NspI	RCATGY	1 cut(s)	357
PdmI	GAANNNNTTC	2 cut(s)	869, 942
PfeI	GAWTC	2 cut(s)	211, 376
PkrI	GCNGC	5 cut(s)	145, 235, 529, 691, 952
PsuI	RGATCY	2 cut(s)	412, 656
PvuII	CAGCTG	1 cut(s)	530
RsaI	GTAC	2 cut(s)	683, 777
RsaNI	GTAC	2 cut(s)	682, 776
RseI	CAYNNNNRTG	2 cut(s)	495, 797
SaqAI	TTAA	4 cut(s)	35, 204, 273, 846
SatI	GCNGC	5 cut(s)	144, 234, 528, 690, 951
Sau3AI	GATC	6 cut(s)	412, 480, 520, 536, 656, 700
SfaNI	GCATC	4 cut(s)	349, 487, 565, 804
SfcI	CTRYAG	1 cut(s)	705
SmiMI	CAYNNNNRTG	2 cut(s)	495, 797
Sse9I	AATT	5 cut(s)	206, 444, 603, 665, 961
SsiI	CCGC	4 cut(s)	42, 87, 109, 288
SspMI	CTAG	3 cut(s)	45, 57, 450
StyI	CCWWGG	2 cut(s)	132, 832
TaaI	ACNGT	3 cut(s)	106, 188, 268
TaiI	ACGT	1 cut(s)	734
TaqI	TCGA	5 cut(s)	73, 115, 252, 535, 699
TasI	AATT	5 cut(s)	206, 444, 603, 665, 961
TatI	WGTACW	1 cut(s)	775
TfiI	GAWTC	2 cut(s)	211, 376
Tru1I	TTAA	4 cut(s)	35, 204, 273, 846
Tru9I	TTAA	4 cut(s)	35, 204, 273, 846
TscAI	CASTG	2 cut(s)	193, 507
TseI	GCWGC	5 cut(s)	143, 233, 527, 689, 950
TspDTI	ATGAA	4 cut(s)	17, 392, 755, 768
TspGWI	ACGGA	1 cut(s)	876
TspRI	CASTG	2 cut(s)	193, 507
XapI	RAATTY	1 cut(s)	665
XceI	RCATGY	1 cut(s)	357
XmnI	GAANNNNTTC	2 cut(s)	869, 942
XspI	CTAG	3 cut(s)	45, 57, 450

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