Basic Information

Type: gene

Biological Identity

Species

malus_domestica

Chromosome

Chr12

Orthogroup ID

OG0005740

Physical Location & Seq

Genomic Coordinates Forward (+)

579909 .. 586860

Gene Structure 6952 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

MD12G1004000.v1.1.491

Sequence Viewer

CDS Protein Promoter (2k)

Length: 957 bp

ATGGGATCAAAATCAAATAGCCTTCATGATCAAACGAACTCATCTTCGAGTGTACCATCGGAAAGTGTTTCAACTGGAGATGATGCCAGTGTTTCAACTGGAGATGGTGCCAGTGTTTTTCAGTTGATCCAATCTCATCAGGAAAAGGCTGCTCGGCTTCCCCCAGTTGAGGAAATCCGAACTCTACTTCATCTTAGTTTTCACGGAATGCTCTCCACTTTTTCTCAGAAGCATGAGGGTTATCCATCAGGATCAATGGTTGACTTTGCATGTGATGCAGATGGATCTCCAATTTTAGCAGTTAGCAGCTTGGCAGTTCATACAAAGGACCTAGCCCTTAATCCCAAGTGCTCATTGCTTGTGGCTAGAAACCCTGAAGACAGGACTGATTTGGTGGTCACGCTGCATGGTGATGCTATTCCTGTTTCCGAGAAGGATCAAGCAGCCATACGCACTGCATATTTGGCTAAGCATCCCAATGCATTTTCGGTTGACTTTGGCGACTTCCAATTCATGCGCATTGAACCAAAAGTTGTGCGATACGTGTCAGGGGTTGCAACAGCCTTGTTAGGATCAGGAGAGTTCGGAAGTGAGGAGTATAAAGCTGCAAAAGTTGATCCAGTTGCTCAATTGAAGGCTTATATGGCTCATGCTAACCATACAATAGCCATTGTGCAACAGTCGATGTCTATTCCGGTGGACTCTGCTTACATGTTGGACTTGGATAGCCTGGGTTTCAATGTTAAGGCTCGCTATCAGGGGAATAATTTCAAGCTCCGCATACCTTTTCCTAGACGTGCAGAGGATCAAAAATTGGGATGTGAAGACTTTAATGATGGAAATGATTGCGGCTGCAATGGCTCGAGGTTGTTATCCTCCCAGTCCATAAGGATATTTCCGTACCTCGGAACTGCCATCGCAGAGATATGGAAAATTTTGGACTCAAAAGAGGTGTAA

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

319

Amino Acids

34.44

Weight (kDa)

5.56

Isoelectric Point (pI)

39.29

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PNPOx_N	PF01243	57 - 182	3.2e-13	Pyridoxamine 5'-phosphate oxidase
CREG_beta-barrel	PF13883	60 - 183	7e-13	CREG, beta-barrel

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

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)
Acc16I	TGCGCA	1 cut(s)	518
AccB1I	GGYRCC	1 cut(s)	107
AciI	CCGC	2 cut(s)	778, 849
AclWI	GGATC	8 cut(s)	13, 121, 259, 292, 444, 580, 611, 813
AcsI	RAATTY	1 cut(s)	933
AcuI	CTGAAG	1 cut(s)	396
AfaI	GTAC	2 cut(s)	54, 902
AfiI	CCNNNNNNNGG	2 cut(s)	169, 905
AflIII	ACRYGT	2 cut(s)	543, 711
AgsI	TTSAA	6 cut(s)	72, 96, 524, 634, 739, 772
AjiI	CACGTC	1 cut(s)	797
AjnI	CCWGG	1 cut(s)	729
AluBI	AGCT	3 cut(s)	309, 605, 775
AluI	AGCT	3 cut(s)	309, 605, 775
Alw21I	GWGCWC	1 cut(s)	353
AlwI	GGATC	8 cut(s)	13, 121, 259, 292, 444, 580, 611, 813
Ama87I	CYCGRG	1 cut(s)	862
ApeKI	GCWGC	6 cut(s)	149, 306, 403, 443, 605, 852
ApoI	RAATTY	1 cut(s)	933
Asp700I	GAANNNNTTC	1 cut(s)	767
AspLEI	GCGC	1 cut(s)	519
AspS9I	GGNCC	1 cut(s)	328
AsuHPI	GGTGA	1 cut(s)	422
AvaI	CYCGRG	1 cut(s)	862
AvaII	GGWCC	1 cut(s)	328
BanI	GGYRCC	1 cut(s)	107
BbsI	GAAGAC	2 cut(s)	384, 831
Bbv12I	GWGCWC	1 cut(s)	353
BbvI	GCAGC	6 cut(s)	136, 318, 390, 455, 592, 839
BccI	CCATC	6 cut(s)	64, 98, 253, 275, 830, 923
BciT130I	CCWGG	1 cut(s)	731
BclI	TGATCA	1 cut(s)	28
BfaI	CTAG	3 cut(s)	332, 366, 792
BisI	GCNGC	7 cut(s)	150, 307, 404, 444, 606, 850, 853
BlpI	GCTNAGC	1 cut(s)	468
BlsI	GCNGC	7 cut(s)	151, 308, 405, 445, 607, 851, 854
Bme1390I	CCNGG	1 cut(s)	731
Bme18I	GGWCC	1 cut(s)	328
BmeT110I	CYCGRG	1 cut(s)	862
BmgBI	CACGTC	1 cut(s)	797
BmgT120I	GGNCC	1 cut(s)	328
BmiI	GGNNCC	1 cut(s)	109
BmrFI	CCNGG	1 cut(s)	731
BmrI	ACTGGG	2 cut(s)	158, 874
BmsI	GCATC	4 cut(s)	73, 265, 403, 481
BmuI	ACTGGG	2 cut(s)	158, 874
BpiI	GAAGAC	2 cut(s)	384, 831
BpmI	CTGGAG	2 cut(s)	96, 120
Bpu1102I	GCTNAGC	1 cut(s)	468
BsaAI	YACGTR	1 cut(s)	544
BsaBI	GATNNNNATC	1 cut(s)	10
BsaJI	CCNNGG	2 cut(s)	730, 904
BsaWI	WCCGGW	1 cut(s)	694
Bsc4I	CCNNNNNNNGG	2 cut(s)	169, 905
Bse1I	ACTGG	7 cut(s)	79, 87, 103, 111, 164, 620, 880
Bse3DI	GCAATG	2 cut(s)	353, 862
Bse8I	GATNNNNATC	1 cut(s)	10
BseBI	CCWGG	1 cut(s)	731
BseDI	CCNNGG	2 cut(s)	730, 904
BseGI	GGATG	2 cut(s)	472, 824
BseJI	GATNNNNATC	1 cut(s)	10
BseLI	CCNNNNNNNGG	2 cut(s)	169, 905
BseMI	GCAATG	2 cut(s)	353, 862
BseMII	CTCAG	1 cut(s)	239
BseNI	ACTGG	7 cut(s)	79, 87, 103, 111, 164, 620, 880
BseRI	GAGGAG	1 cut(s)	608
BseXI	GCAGC	6 cut(s)	136, 318, 390, 455, 592, 839
BsgI	GTGCAG	1 cut(s)	819
BshNI	GGYRCC	1 cut(s)	107
BsiHKAI	GWGCWC	1 cut(s)	353
BsiHKCI	CYCGRG	1 cut(s)	862
BsiSI	CCGG	1 cut(s)	695
BslI	CCNNNNNNNGG	2 cut(s)	169, 905
BsmI	GAATGC	1 cut(s)	213
BsoBI	CYCGRG	1 cut(s)	862
Bsp1286I	GDGCHC	1 cut(s)	353
Bsp143I	GATC	9 cut(s)	5, 28, 126, 251, 284, 436, 572, 616, 805
Bsp1720I	GCTNAGC	1 cut(s)	468
BspACI	CCGC	2 cut(s)	778, 849
BspCNI	CTCAG	1 cut(s)	238
BspHI	TCATGA	1 cut(s)	25
BspLI	GGNNCC	1 cut(s)	109
BspPI	GGATC	8 cut(s)	13, 121, 259, 292, 444, 580, 611, 813
BspT107I	GGYRCC	1 cut(s)	107
BsrDI	GCAATG	2 cut(s)	353, 862
BsrI	ACTGG	7 cut(s)	79, 87, 103, 111, 164, 620, 880
BssECI	CCNNGG	2 cut(s)	730, 904
BssMI	GATC	9 cut(s)	5, 28, 126, 251, 284, 436, 572, 616, 805
Bst2UI	CCWGG	1 cut(s)	731
Bst4CI	ACNGT	1 cut(s)	681
BstAPI	GCANNNNNTGC	1 cut(s)	275
BstBAI	YACGTR	1 cut(s)	544
BstC8I	GCNNGC	1 cut(s)	751
BstDEI	CTNAG	3 cut(s)	194, 225, 468
BstF5I	GGATG	2 cut(s)	472, 824
BstHHI	GCGC	1 cut(s)	519
BstKTI	GATC	9 cut(s)	8, 31, 129, 254, 287, 439, 575, 619, 808
BstMBI	GATC	9 cut(s)	5, 28, 126, 251, 284, 436, 572, 616, 805
BstMWI	GCNNNNNNNGC	4 cut(s)	275, 464, 644, 858
BstNI	CCWGG	1 cut(s)	731
BstNSI	RCATGY	2 cut(s)	273, 715
BstSCI	CCNGG	1 cut(s)	729
BstV1I	GCAGC	6 cut(s)	136, 318, 390, 455, 592, 839
BstV2I	GAAGAC	2 cut(s)	384, 831
BstX2I	RGATCY	1 cut(s)	284
BstYI	RGATCY	1 cut(s)	284
BtgZI	GCGATG	1 cut(s)	901
BtrI	CACGTC	1 cut(s)	797
BtsCI	GGATG	2 cut(s)	472, 824
BtsI	GCAGTG	1 cut(s)	453
BtsIMutI	CAGTG	3 cut(s)	94, 118, 453
Cac8I	GCNNGC	1 cut(s)	751
CciI	TCATGA	1 cut(s)	25
CfoI	GCGC	1 cut(s)	519
Cfr13I	GGNCC	1 cut(s)	328
Csp6I	GTAC	2 cut(s)	53, 901
CviAII	CATG	7 cut(s)	26, 233, 270, 407, 514, 650, 712
CviQI	GTAC	2 cut(s)	53, 901
DdeI	CTNAG	3 cut(s)	194, 225, 468
DpnI	GATC	9 cut(s)	7, 30, 128, 253, 286, 438, 574, 618, 807
DpnII	GATC	9 cut(s)	5, 28, 126, 251, 284, 436, 572, 616, 805
Eco47I	GGWCC	1 cut(s)	328
Eco57I	CTGAAG	1 cut(s)	396
Eco88I	CYCGRG	1 cut(s)	862
EcoO109I	RGGNCCY	1 cut(s)	328
EcoRII	CCWGG	1 cut(s)	729
EcoT22I	ATGCAT	1 cut(s)	484
FaeI	CATG	7 cut(s)	29, 236, 273, 410, 517, 653, 715
FatI	CATG	7 cut(s)	25, 232, 269, 406, 513, 649, 711
FbaI	TGATCA	1 cut(s)	28
Fnu4HI	GCNGC	7 cut(s)	150, 307, 404, 444, 606, 850, 853
FokI	GGATG	2 cut(s)	459, 831
Fsp4HI	GCNGC	7 cut(s)	150, 307, 404, 444, 606, 850, 853
FspAI	RTGCGCAY	1 cut(s)	518
FspBI	CTAG	3 cut(s)	332, 366, 792
FspI	TGCGCA	1 cut(s)	518
GlaI	GCGC	1 cut(s)	518
GluI	GCNGC	7 cut(s)	150, 307, 404, 444, 606, 850, 853
GsuI	CTGGAG	2 cut(s)	96, 120
HapII	CCGG	1 cut(s)	695
HhaI	GCGC	1 cut(s)	519
Hin1II	CATG	7 cut(s)	29, 236, 273, 410, 517, 653, 715
Hin6I	GCGC	1 cut(s)	517
HinP1I	GCGC	1 cut(s)	517
HincII	GTYRAC	2 cut(s)	262, 493
HindII	GTYRAC	2 cut(s)	262, 493
HinfI	GANTC	2 cut(s)	701, 941
HpaII	CCGG	1 cut(s)	695
HphI	GGTGA	1 cut(s)	422
Hpy166II	GTNNAC	4 cut(s)	53, 262, 493, 700
Hpy188I	TCNGA	6 cut(s)	61, 179, 228, 430, 587, 908
Hpy188III	TCNNGA	4 cut(s)	26, 140, 249, 576
Hpy8I	GTNNAC	4 cut(s)	53, 262, 493, 700
HpyAV	CCTTC	3 cut(s)	32, 427, 628
HpyCH4III	ACNGT	1 cut(s)	681
HpyCH4IV	ACGT	2 cut(s)	543, 796
HpyF10VI	GCNNNNNNNGC	4 cut(s)	275, 464, 644, 858
HpyF3I	CTNAG	3 cut(s)	194, 225, 468
HpySE526I	ACGT	2 cut(s)	543, 796
Hsp92II	CATG	7 cut(s)	29, 236, 273, 410, 517, 653, 715
HspAI	GCGC	1 cut(s)	517
Ksp22I	TGATCA	1 cut(s)	28
Kzo9I	GATC	9 cut(s)	5, 28, 126, 251, 284, 436, 572, 616, 805
LmnI	GCTCC	1 cut(s)	780
Lsp1109I	GCAGC	6 cut(s)	136, 318, 390, 455, 592, 839
LweI	GCATC	4 cut(s)	73, 265, 403, 481
MaeI	CTAG	3 cut(s)	332, 366, 792
MaeII	ACGT	2 cut(s)	543, 796
MaeIII	GTNAC	1 cut(s)	397
MalI	GATC	9 cut(s)	7, 30, 128, 253, 286, 438, 574, 618, 807
MboI	GATC	9 cut(s)	5, 28, 126, 251, 284, 436, 572, 616, 805
MboII	GAAGA	3 cut(s)	36, 389, 836
MfeI	CAATTG	1 cut(s)	629
MflI	RGATCY	1 cut(s)	284
MhlI	GDGCHC	1 cut(s)	353
MluCI	AATT	6 cut(s)	291, 509, 629, 766, 812, 933
MlyI	GAGTC	2 cut(s)	695, 935
MmeI	TCCRAC	1 cut(s)	696
MnlI	CCTC	8 cut(s)	163, 229, 586, 796, 858, 886, 914, 943
Mph1103I	ATGCAT	1 cut(s)	484
MroXI	GAANNNNTTC	1 cut(s)	767
MseI	TTAA	3 cut(s)	339, 744, 831
MslI	CAYNNNNRTG	2 cut(s)	411, 477
MspI	CCGG	1 cut(s)	695
MspR9I	CCNGG	1 cut(s)	731
MunI	CAATTG	1 cut(s)	629
Mva1269I	GAATGC	1 cut(s)	213
MvaI	CCWGG	1 cut(s)	731
MwoI	GCNNNNNNNGC	4 cut(s)	275, 464, 644, 858
NdeII	GATC	9 cut(s)	5, 28, 126, 251, 284, 436, 572, 616, 805
NlaIII	CATG	7 cut(s)	29, 236, 273, 410, 517, 653, 715
NlaIV	GGNNCC	1 cut(s)	109
NmeAIII	GCCGAG	1 cut(s)	133
NmuCI	GTSAC	1 cut(s)	397
NsbI	TGCGCA	1 cut(s)	518
NsiI	ATGCAT	1 cut(s)	484
NspI	RCATGY	2 cut(s)	273, 715
PaeR7I	CTCGAG	1 cut(s)	862
PagI	TCATGA	1 cut(s)	25
PciI	ACATGT	1 cut(s)	711
PctI	GAATGC	1 cut(s)	213
PdmI	GAANNNNTTC	1 cut(s)	767
PkrI	GCNGC	7 cut(s)	151, 308, 405, 445, 607, 851, 854
PleI	GAGTC	2 cut(s)	695, 935
PpsI	GAGTC	2 cut(s)	695, 935
Ppu21I	YACGTR	1 cut(s)	544
PpuMI	RGGWCCY	1 cut(s)	328
PscI	ACATGT	1 cut(s)	711
Psp5II	RGGWCCY	1 cut(s)	328
Psp6I	CCWGG	1 cut(s)	729
PspGI	CCWGG	1 cut(s)	729
PspN4I	GGNNCC	1 cut(s)	109
PspPI	GGNCC	1 cut(s)	328
PspPPI	RGGWCCY	1 cut(s)	328
PspXI	VCTCGAGB	1 cut(s)	862
PsuI	RGATCY	1 cut(s)	284
RsaI	GTAC	2 cut(s)	54, 902
RsaNI	GTAC	2 cut(s)	53, 901
RseI	CAYNNNNRTG	2 cut(s)	411, 477
SaqAI	TTAA	3 cut(s)	339, 744, 831
SatI	GCNGC	7 cut(s)	150, 307, 404, 444, 606, 850, 853
Sau3AI	GATC	9 cut(s)	5, 28, 126, 251, 284, 436, 572, 616, 805
Sau96I	GGNCC	1 cut(s)	328
SchI	GAGTC	2 cut(s)	695, 935
ScrFI	CCNGG	1 cut(s)	731
SduI	GDGCHC	1 cut(s)	353
SfaNI	GCATC	4 cut(s)	73, 265, 403, 481
Sfr274I	CTCGAG	1 cut(s)	862
SinI	GGWCC	1 cut(s)	328
SlaI	CTCGAG	1 cut(s)	862
SmiMI	CAYNNNNRTG	2 cut(s)	411, 477
SmlI	CTYRAG	1 cut(s)	862
SmoI	CTYRAG	1 cut(s)	862
Sse9I	AATT	6 cut(s)	291, 509, 629, 766, 812, 933
SsiI	CCGC	2 cut(s)	778, 849
SspMI	CTAG	3 cut(s)	332, 366, 792
StyD4I	CCNGG	1 cut(s)	729
TaaI	ACNGT	1 cut(s)	681
TaiI	ACGT	2 cut(s)	546, 799
TaqI	TCGA	3 cut(s)	47, 683, 863
TasI	AATT	6 cut(s)	291, 509, 629, 766, 812, 933
TauI	GCSGC	1 cut(s)	852
Tru1I	TTAA	3 cut(s)	339, 744, 831
Tru9I	TTAA	3 cut(s)	339, 744, 831
TscAI	CASTG	3 cut(s)	94, 118, 460
TseFI	GTSAC	1 cut(s)	397
TseI	GCWGC	6 cut(s)	149, 306, 403, 443, 605, 852
Tsp45I	GTSAC	1 cut(s)	397
TspDTI	ATGAA	4 cut(s)	14, 179, 308, 502
TspGWI	ACGGA	2 cut(s)	219, 888
TspRI	CASTG	3 cut(s)	94, 118, 460
VpaK11BI	GGWCC	1 cut(s)	328
XapI	RAATTY	1 cut(s)	933
XceI	RCATGY	2 cut(s)	273, 715
XhoI	CTCGAG	1 cut(s)	862
XmnI	GAANNNNTTC	1 cut(s)	767
XspI	CTAG	3 cut(s)	332, 366, 792
Zsp2I	ATGCAT	1 cut(s)	484

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