Basic Information

Type: gene

Biological Identity

Species

malus_domestica

Chromosome

Chr13

Orthogroup ID

OG0005840

Physical Location & Seq

Genomic Coordinates Reverse (-)

9504853 .. 9505681

Gene Structure 829 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

MD13G1127000.v1.1.491

Sequence Viewer

CDS Protein Promoter (2k)

Length: 780 bp

ATGGCATTTCCACGATTAAATAATATTTCATTCTGGTTGTTGCCACCTAGTCTCTTGCTCCTATTAAGCTCAGCATTAGTAGAAGTGGGTAGCGGCACTGGGTGGACGGTCTATCCGCCCTTAAGTGGTATTACCAGCCATTCTGGAGGAGCTGTTGATTTAGCAATTTCTAGTCTTCATCTATCTGGTGTTTCATCCATTTTAGGTTCTATCAATTTTATAATAACTATCTCCAACATGCGTGGACCTGGAATGACTATGCATAGATCACCCATATTTGTGTGGTCCGTTCTAGTGACAGCATTCCTACTTTTATTATCACTTCCGGTATTGGCGGGGGCAATTACCATGTTATTAACCGATCGAAACTTTAATACAACCTTTTCTGATCCCCGCTGGAGGGGGAGACCCCATATTATACCAGCATCTCTTTCGGTTCTTTTGGTCATCCAGAAGTGTATATTCCCATTCTGGCCTGGATCCGGTATCATAAGTCATATCGTTTCGACTTTTTCGGGAAAACCGGTCTTTCGGGTATCTAGGCATGGTTTATGCCATGATCAGTACAGGTACGTTGATACCCGTGCCTACTTTACCGCAGCTACCATGATCATAGCCGTCCCCATTGGAATAAAAATCTTTAGTTGGATCGCTACCATGTGGGAGGGGGGCTCGATACAATACATAACACCCATGTTATTTGTTGTAGGGTTCATCTTTTTGTTCACCATAGGAGGACGCTTAGCCAATTGGTCGTTTCGGTGTTGTTCCAATAACTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005739 GO:0005740 GO:0005743 GO:0006091 GO:0006119 GO:0006123 GO:0006139 GO:0006163 GO:0006725 GO:0006753 GO:0006793 GO:0006796 GO:0006807 GO:0006810 GO:0006811 GO:0006812 GO:0008150 GO:0008152 GO:0009060 GO:0009117 GO:0009123 GO:0009126 GO:0009141 GO:0009144 GO:0009150 GO:0009161 GO:0009167 GO:0009199 GO:0009205 GO:0009259 GO:0009987 GO:0015672 GO:0015980 GO:0015988 GO:0015990 GO:0016020 GO:0016310 GO:0017144 GO:0019637 GO:0019646 GO:0019693 GO:0019866 GO:0022900 GO:0022904 GO:0031090 GO:0031966 GO:0031967 GO:0031975 GO:0034220 GO:0034641 GO:0042773 GO:0042775 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044237 GO:0044238 GO:0044281 GO:0044422 GO:0044424 GO:0044429 GO:0044444 GO:0044446 GO:0044464 GO:0045333 GO:0046034 GO:0046483 GO:0051179 GO:0051234 GO:0055085 GO:0055086 GO:0055114 GO:0071704 GO:0072521 GO:0098655 GO:0098660 GO:0098662 GO:1901135 GO:1901360 GO:1901564 GO:1902600

KEGG Pathways

Metabolic & Signaling

ko00190 ko01100 ko04260 ko04714 ko04932 ko05010 ko05012 ko05016 map00190 map01100 map04260 map04714 map04932 map05010 map05012 map05016

Pfam Domains

Protein Families

COX1

Protein Analysis

260

Amino Acids

28.42

Weight (kDa)

10.04

Isoelectric Point (pI)

29.38

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
COX1	PF00115	1 - 177	1.5e-37	Cytochrome C and Quinol oxidase polypeptide I
COX1	PF00115	194 - 246	4.2e-13	Cytochrome C and Quinol oxidase polypeptide I

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

Font Size (px)

Line Width

Align Labels (Cladogram)

Image

Tree File

Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready

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

Orthologous Genes (Group: OG0005840)

Species	Orthologous Gene IDs
arabidopsis_thaliana	ATMG01360
malus_domestica	MD13G1127000.v1.1
pyrus_communis	pycom461g00250
rosa_chinensis	RchiOBHm_Chr6g0256731 RchiOBHm_Chr6g0263801 RchiOBHm_MTg0498781 RchiOBHm_MTg0498791
rosa_laevigata	RLG00000000130 RLG00000000185 RLG00000000436 RLG00000000473 RLG00000000496 RLG00000002909
rosa_multiflora	Rmu_sc0000046.1_g000012 Rmu_sc0009290.1_g000004
rosa_roxburghii	Rroxscaffold_2G00118940 Rroxscaffold_2G00119310
rosa_rugosa	Rorug05G0209600
rosa_samantha	Rh1BG209200 Rh1BG209300 Rh1DG235800 Rh5CG352000 Rh6BG284800 Rh6CG178300 Rh6CG178400 Rh6DG170100 Rh6DG170200
rosa_wichuraiana	Rw4G000200

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	221
AciI	CCGC	5 cut(s)	93, 116, 335, 394, 597
AclWI	GGATC	4 cut(s)	383, 474, 487, 656
AdeI	CACNNNGTG	1 cut(s)	102
AfaI	GTAC	2 cut(s)	566, 572
AfiI	CCNNNNNNNGG	4 cut(s)	125, 399, 400, 482
AflII	CTTAAG	1 cut(s)	121
AgeI	ACCGGT	1 cut(s)	523
AjnI	CCWGG	2 cut(s)	247, 475
AluBI	AGCT	3 cut(s)	69, 152, 602
AluI	AGCT	3 cut(s)	69, 152, 602
Alw26I	GTCTC	2 cut(s)	56, 400
AlwI	GGATC	4 cut(s)	383, 474, 487, 656
AoxI	GGCC	1 cut(s)	473
ApeKI	GCWGC	1 cut(s)	599
AsiGI	ACCGGT	1 cut(s)	523
AspS9I	GGNCC	2 cut(s)	245, 285
AsuHPI	GGTGA	2 cut(s)	261, 718
AvaII	GGWCC	2 cut(s)	245, 285
BamHI	GGATCC	1 cut(s)	479
BanII	GRGCYC	1 cut(s)	674
BbsI	GAAGAC	1 cut(s)	167
BbvI	GCAGC	1 cut(s)	611
BceAI	ACGGC	1 cut(s)	602
BcgI	CGANNNNNNTGC	2 cut(s)	414, 448
BciT130I	CCWGG	2 cut(s)	249, 477
BclI	TGATCA	2 cut(s)	559, 609
BcoDI	GTCTC	2 cut(s)	56, 400
BfaI	CTAG	4 cut(s)	48, 171, 293, 540
BfrI	CTTAAG	1 cut(s)	121
BisI	GCNGC	2 cut(s)	94, 600
BlpI	GCTNAGC	2 cut(s)	70, 742
BlsI	GCNGC	2 cut(s)	95, 601
Bme1390I	CCNGG	2 cut(s)	249, 477
Bme18I	GGWCC	2 cut(s)	245, 285
BmgT120I	GGNCC	2 cut(s)	245, 285
BmiI	GGNNCC	1 cut(s)	481
BmrFI	CCNGG	2 cut(s)	249, 477
BmrI	ACTGGG	1 cut(s)	108
BmsI	GCATC	1 cut(s)	434
BmuI	ACTGGG	1 cut(s)	108
BpiI	GAAGAC	1 cut(s)	167
BplI	GAGNNNNNCTC	2 cut(s)	656, 688
BpmI	CTGGAG	2 cut(s)	165, 418
Bpu1102I	GCTNAGC	2 cut(s)	70, 742
BsaI	GGTCTC	1 cut(s)	400
BsaWI	WCCGGW	3 cut(s)	325, 482, 523
BsaXI	ACNNNNNCTCC	2 cut(s)	138, 168
Bsc4I	CCNNNNNNNGG	4 cut(s)	125, 399, 400, 482
Bse118I	RCCGGY	1 cut(s)	523
Bse1I	ACTGG	1 cut(s)	103
BseBI	CCWGG	2 cut(s)	249, 477
BseGI	GGATG	2 cut(s)	194, 447
BseLI	CCNNNNNNNGG	4 cut(s)	125, 399, 400, 482
BseMII	CTCAG	1 cut(s)	84
BseNI	ACTGG	1 cut(s)	103
BseRI	GAGGAG	1 cut(s)	162
BseXI	GCAGC	1 cut(s)	611
Bsh1285I	CGRYCG	1 cut(s)	364
BshFI	GGCC	1 cut(s)	475
BshTI	ACCGGT	1 cut(s)	523
BsiEI	CGRYCG	1 cut(s)	364
BsiSI	CCGG	3 cut(s)	326, 483, 524
BslFI	GGGAC	1 cut(s)	605
BslI	CCNNNNNNNGG	4 cut(s)	125, 399, 400, 482
BsmAI	GTCTC	2 cut(s)	56, 400
BsmFI	GGGAC	1 cut(s)	605
BsmI	GAATGC	1 cut(s)	302
BsnI	GGCC	1 cut(s)	475
Bso31I	GGTCTC	1 cut(s)	400
Bsp1286I	GDGCHC	1 cut(s)	674
Bsp143I	GATC	7 cut(s)	266, 361, 388, 479, 559, 609, 648
Bsp1720I	GCTNAGC	2 cut(s)	70, 742
BspACI	CCGC	5 cut(s)	93, 116, 335, 394, 597
BspANI	GGCC	1 cut(s)	475
BspCNI	CTCAG	1 cut(s)	83
BspLI	GGNNCC	1 cut(s)	481
BspPI	GGATC	4 cut(s)	383, 474, 487, 656
BspTI	CTTAAG	1 cut(s)	121
BspTNI	GGTCTC	1 cut(s)	400
BsrFI	RCCGGY	1 cut(s)	523
BsrI	ACTGG	1 cut(s)	103
BssAI	RCCGGY	1 cut(s)	523
BssMI	GATC	7 cut(s)	266, 361, 388, 479, 559, 609, 648
Bst2UI	CCWGG	2 cut(s)	249, 477
Bst4CI	ACNGT	1 cut(s)	109
BstAFI	CTTAAG	1 cut(s)	121
BstDEI	CTNAG	2 cut(s)	70, 742
BstF5I	GGATG	2 cut(s)	194, 447
BstKTI	GATC	7 cut(s)	269, 364, 391, 482, 562, 612, 651
BstMAI	GTCTC	2 cut(s)	56, 400
BstMBI	GATC	7 cut(s)	266, 361, 388, 479, 559, 609, 648
BstMCI	CGRYCG	1 cut(s)	364
BstNI	CCWGG	2 cut(s)	249, 477
BstNSI	RCATGY	1 cut(s)	241
BstSCI	CCNGG	2 cut(s)	247, 475
BstV1I	GCAGC	1 cut(s)	611
BstV2I	GAAGAC	1 cut(s)	167
BstX2I	RGATCY	1 cut(s)	479
BstYI	RGATCY	1 cut(s)	479
BsuRI	GGCC	1 cut(s)	475
BtsCI	GGATG	2 cut(s)	194, 447
BtsIMutI	CAGTG	1 cut(s)	96
Cfr10I	RCCGGY	1 cut(s)	523
Cfr13I	GGNCC	2 cut(s)	245, 285
CseI	GACGC	1 cut(s)	747
Csp6I	GTAC	2 cut(s)	565, 571
CspAI	ACCGGT	1 cut(s)	523
CspCI	CAANNNNNGTGG	2 cut(s)	223, 258
CviAII	CATG	7 cut(s)	238, 349, 545, 557, 607, 658, 694
CviJI	RGCY	8 cut(s)	69, 138, 152, 475, 602, 617, 672, 746
CviKI_1	RGCY	8 cut(s)	69, 138, 152, 475, 602, 617, 672, 746
CviQI	GTAC	2 cut(s)	565, 571
DdeI	CTNAG	2 cut(s)	70, 742
DpnI	GATC	7 cut(s)	268, 363, 390, 481, 561, 611, 650
DpnII	GATC	7 cut(s)	266, 361, 388, 479, 559, 609, 648
DraIII	CACNNNGTG	1 cut(s)	102
EciI	GGCGGA	1 cut(s)	105
Eco24I	GRGCYC	1 cut(s)	674
Eco31I	GGTCTC	1 cut(s)	400
Eco47I	GGWCC	2 cut(s)	245, 285
EcoRII	CCWGG	2 cut(s)	247, 475
EcoT22I	ATGCAT	1 cut(s)	264
EcoT38I	GRGCYC	1 cut(s)	674
FaeI	CATG	7 cut(s)	241, 352, 548, 560, 610, 661, 697
FaqI	GGGAC	1 cut(s)	605
FatI	CATG	7 cut(s)	237, 348, 544, 556, 606, 657, 693
FauI	CCCGC	2 cut(s)	328, 401
FbaI	TGATCA	2 cut(s)	559, 609
Fnu4HI	GCNGC	2 cut(s)	94, 600
FokI	GGATG	2 cut(s)	181, 434
FriOI	GRGCYC	1 cut(s)	674
Fsp4HI	GCNGC	2 cut(s)	94, 600
FspBI	CTAG	4 cut(s)	48, 171, 293, 540
GluI	GCNGC	2 cut(s)	94, 600
GsuI	CTGGAG	2 cut(s)	165, 418
HaeIII	GGCC	1 cut(s)	475
HapII	CCGG	3 cut(s)	326, 483, 524
HgaI	GACGC	1 cut(s)	747
Hin1II	CATG	7 cut(s)	241, 352, 548, 560, 610, 661, 697
HpaII	CCGG	3 cut(s)	326, 483, 524
HphI	GGTGA	2 cut(s)	261, 718
Hpy166II	GTNNAC	3 cut(s)	105, 245, 726
Hpy188I	TCNGA	1 cut(s)	388
Hpy188III	TCNNGA	3 cut(s)	144, 451, 516
Hpy8I	GTNNAC	3 cut(s)	105, 245, 726
HpyCH4III	ACNGT	1 cut(s)	109
HpyCH4IV	ACGT	1 cut(s)	573
HpyCH4V	TGCA	1 cut(s)	262
HpyF3I	CTNAG	2 cut(s)	70, 742
HpySE526I	ACGT	1 cut(s)	573
Hsp92II	CATG	7 cut(s)	241, 352, 548, 560, 610, 661, 697
Ksp22I	TGATCA	2 cut(s)	559, 609
Kzo9I	GATC	7 cut(s)	266, 361, 388, 479, 559, 609, 648
LmnI	GCTCC	2 cut(s)	63, 149
Lsp1109I	GCAGC	1 cut(s)	611
LweI	GCATC	1 cut(s)	434
MaeI	CTAG	4 cut(s)	48, 171, 293, 540
MaeII	ACGT	1 cut(s)	573
MaeIII	GTNAC	1 cut(s)	295
MalI	GATC	7 cut(s)	268, 363, 390, 481, 561, 611, 650
MboI	GATC	7 cut(s)	266, 361, 388, 479, 559, 609, 648
MboII	GAAGA	1 cut(s)	167
MfeI	CAATTG	1 cut(s)	748
MflI	RGATCY	1 cut(s)	479
MhlI	GDGCHC	1 cut(s)	674
MluCI	AATT	4 cut(s)	165, 214, 342, 748
MmeI	TCCRAC	2 cut(s)	258, 626
MnlI	CCTC	4 cut(s)	140, 393, 658, 728
Mph1103I	ATGCAT	1 cut(s)	264
MseI	TTAA	5 cut(s)	17, 65, 122, 356, 372
MslI	CAYNNNNRTG	1 cut(s)	278
MspA1I	CMGCKG	1 cut(s)	396
MspCI	CTTAAG	1 cut(s)	121
MspI	CCGG	3 cut(s)	326, 483, 524
MspR9I	CCNGG	2 cut(s)	249, 477
MunI	CAATTG	1 cut(s)	748
Mva1269I	GAATGC	1 cut(s)	302
MvaI	CCWGG	2 cut(s)	249, 477
NdeII	GATC	7 cut(s)	266, 361, 388, 479, 559, 609, 648
NlaIII	CATG	7 cut(s)	241, 352, 548, 560, 610, 661, 697
NlaIV	GGNNCC	1 cut(s)	481
NmuCI	GTSAC	1 cut(s)	295
NsiI	ATGCAT	1 cut(s)	264
NspI	RCATGY	1 cut(s)	241
PctI	GAATGC	1 cut(s)	302
PinAI	ACCGGT	1 cut(s)	523
PkrI	GCNGC	2 cut(s)	95, 601
Ple19I	CGATCG	1 cut(s)	364
PsiI	TTATAA	1 cut(s)	221
Psp6I	CCWGG	2 cut(s)	247, 475
PspGI	CCWGG	2 cut(s)	247, 475
PspN4I	GGNNCC	1 cut(s)	481
PspPI	GGNCC	2 cut(s)	245, 285
PsuI	RGATCY	1 cut(s)	479
PvuI	CGATCG	1 cut(s)	364
RsaI	GTAC	2 cut(s)	566, 572
RsaNI	GTAC	2 cut(s)	565, 571
RseI	CAYNNNNRTG	1 cut(s)	278
SaqAI	TTAA	5 cut(s)	17, 65, 122, 356, 372
SatI	GCNGC	2 cut(s)	94, 600
Sau3AI	GATC	7 cut(s)	266, 361, 388, 479, 559, 609, 648
Sau96I	GGNCC	2 cut(s)	245, 285
ScrFI	CCNGG	2 cut(s)	249, 477
SduI	GDGCHC	1 cut(s)	674
SetI	ASST	9 cut(s)	49, 71, 154, 208, 250, 383, 572, 576, 604
SfaNI	GCATC	1 cut(s)	434
SinI	GGWCC	2 cut(s)	245, 285
SmiMI	CAYNNNNRTG	1 cut(s)	278
SmlI	CTYRAG	1 cut(s)	121
SmoI	CTYRAG	1 cut(s)	121
Sse9I	AATT	4 cut(s)	165, 214, 342, 748
SsiI	CCGC	5 cut(s)	93, 116, 335, 394, 597
SspI	AATATT	1 cut(s)	25
SspMI	CTAG	4 cut(s)	48, 171, 293, 540
StyD4I	CCNGG	2 cut(s)	247, 475
TaaI	ACNGT	1 cut(s)	109
TaiI	ACGT	1 cut(s)	576
TaqI	TCGA	3 cut(s)	364, 506, 674
TasI	AATT	4 cut(s)	165, 214, 342, 748
TatI	WGTACW	1 cut(s)	564
TauI	GCSGC	1 cut(s)	96
Tru1I	TTAA	5 cut(s)	17, 65, 122, 356, 372
Tru9I	TTAA	5 cut(s)	17, 65, 122, 356, 372
TscAI	CASTG	1 cut(s)	103
TseFI	GTSAC	1 cut(s)	295
TseI	GCWGC	1 cut(s)	599
Tsp45I	GTSAC	1 cut(s)	295
TspDTI	ATGAA	4 cut(s)	18, 167, 183, 703
TspGWI	ACGGA	1 cut(s)	277
TspRI	CASTG	1 cut(s)	103
Vha464I	CTTAAG	1 cut(s)	121
VpaK11BI	GGWCC	2 cut(s)	245, 285
XceI	RCATGY	1 cut(s)	241
XspI	CTAG	4 cut(s)	48, 171, 293, 540
Zsp2I	ATGCAT	1 cut(s)	264

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