Basic Information

Type: gene

Biological Identity

Species

malus_domestica

Chromosome

Chr03

Orthogroup ID

OG0007428

Physical Location & Seq

Genomic Coordinates Reverse (-)

33126595 .. 33131390

Gene Structure 4796 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

MD03G1244600.v1.1.491

Sequence Viewer

CDS Protein Promoter (2k)

Length: 927 bp

ATGGAAACCCTGGGAATCATCCAAGACATCGAAACCCTCGTATCCAATCAACTTCAAGTGGTTTCGTACAAGTGGCTGAGTCGAAATTACTTTGTGTCTTCCAATGCTGCAAAGAGGTTACTCCAGGAGTTTGTTGAAAAACATGGAAATGGGTTCGAAGTGGTGTATGTTTTGGCTGGCTGGTTGAAGAGCGATCCTTCGAGCTACCATATAAGGCTTGTTTCTGGGCCTAAACTTGCAGAAGCAAAAGAAGAATTTGATGGCAACTGCTCGGTCGGGGTTTATAGTGTGCAAGCTTGCATCCCAAAGGATCCAGCTGCACTGTGGAATGCTGAATTTGTGCAAGCGGAAAAGCTCTTTAAGCAGGCTCCTATGGTTGAGAATTGCTTGAGAGATAACAGGTTTTGTGGGATTTCCAATTCCTTTGTTAAGCGTAATGTGGACGGAGCACCATTGAGCACTGAATCTCCGCAACTTAACTCTGAGGCAGTAATAGGGCAACCAGAAACTCATCAAAGTATCCCAATTCCAAAACATGTCAAGAATAAAGGACAGCAATCTAGCCCAAAAATCAGTTTACAGCCTACTAATGTGGTCAAAGATGTCAAAAGTGAAATTAATGGAACAAGAGTTTTTGGTCAGGCTAACAAACGTCCTGCAGACAAAGAAAAAGTCCAGAATGAGAATAGCTCCTCTGCTTCTGGAGGTTCATTGGCGAATTTCTGGGGCCAGGCATCTGTGAAGTCAAAGTCAGATGCTCCAGAGAAATATAATAATTCCATTCCTGATCATACTGGAGCTAGTGCAGAGCCTCAAACTTGTGCTCGAGAAGCAGTAGCGGGTAGCAGCGACGATGATGGTCAACAAGTTAATCTTAAGAGATCTTCCAACAGTGGGGGGCACTCGGAAAAGGAGGGTTGTCTTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006139 GO:0006259 GO:0006260 GO:0006261 GO:0006281 GO:0006289 GO:0006297 GO:0006725 GO:0006807 GO:0006950 GO:0006974 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009987 GO:0033554 GO:0034641 GO:0034645 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044424 GO:0044464 GO:0046483 GO:0050896 GO:0051716 GO:0071704 GO:0090304 GO:1901360 GO:1901576

KEGG Pathways

Metabolic & Signaling

ko00230 ko00240 ko01100 ko03030 ko03410 ko03420 ko03430 ko03440 ko05166 map00230 map00240 map01100 map03030 map03410 map03420 map03430 map03440 map05166

Pfam Domains

Protein Families

CDC27

Protein Analysis

309

Amino Acids

33.47

Weight (kDa)

6.61

Isoelectric Point (pI)

47.14

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
CDC27	PF09507	20 - 289	8.3e-18	DNA polymerase subunit Cdc27

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

Font Size (px)

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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: OG0007428)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G78650
fragaria_vesca	FvH4_3g18120 FvH4_3g18120
malus_domestica	MD03G1244500.v1.1 MD03G1244600.v1.1 MD11G1266100.v1.1
prunus_persica	Prupe.4G160000_v2.0.a1
pyrus_communis	pycom03g19400 pycom11g23420
rosa_chinensis	RchiOBHm_Chr5g0030181 RchiOBHm_Chr5g0030251 RchiOBHm_Chr5g0030351 RchiOBHm_Chr5g0030441 RchiOBHm_Chr5g0030521
rosa_laevigata	RLG00000033222
rosa_multiflora	Rmu_sc0013101.1_g000006 Rmu_sc0036102.1_g000002
rosa_roxburghii	Rroxscaffold_1G00049780
rosa_rugosa	Rorug05G0118200
rosa_samantha	Rh5AG210400 Rh5BG209600 Rh5CG233000 Rh5DG213800 Rh5DG214100
rosa_wichuraiana	Rw5G019220

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	3 cut(s)	347, 470, 839
AclWI	GGATC	3 cut(s)	188, 305, 318
AcsI	RAATTY	3 cut(s)	254, 335, 718
AfaI	GTAC	1 cut(s)	68
AfiI	CCNNNNNNNGG	1 cut(s)	894
AflII	CTTAAG	1 cut(s)	875
AflIII	ACRYGT	1 cut(s)	535
AgsI	TTSAA	3 cut(s)	56, 137, 187
AjnI	CCWGG	3 cut(s)	9, 123, 729
AluBI	AGCT	6 cut(s)	204, 296, 317, 355, 690, 800
AluI	AGCT	6 cut(s)	204, 296, 317, 355, 690, 800
Alw21I	GWGCWC	3 cut(s)	451, 461, 826
AlwI	GGATC	3 cut(s)	188, 305, 318
Ama87I	CYCGRG	1 cut(s)	825
AoxI	GGCC	2 cut(s)	227, 727
ApeKI	GCWGC	3 cut(s)	107, 317, 846
ApoI	RAATTY	3 cut(s)	254, 335, 718
ArsI	GACNNNNNNTTYG	2 cut(s)	657, 689
AseI	ATTAAT	1 cut(s)	618
AspS9I	GGNCC	2 cut(s)	227, 727
AsuII	TTCGAA	1 cut(s)	156
AvaI	CYCGRG	1 cut(s)	825
BaeGI	GKGCMC	1 cut(s)	903
BaeI	ACNNNNGTAYC	2 cut(s)	24, 57
BamHI	GGATCC	1 cut(s)	310
BbsI	GAAGAC	1 cut(s)	90
Bbv12I	GWGCWC	3 cut(s)	451, 461, 826
BbvI	GCAGC	3 cut(s)	94, 304, 858
BccI	CCATC	2 cut(s)	254, 851
BciT130I	CCWGG	3 cut(s)	11, 125, 731
BciVI	GTATCC	2 cut(s)	52, 530
BclI	TGATCA	1 cut(s)	787
BfaI	CTAG	2 cut(s)	561, 801
BfmI	CTRYAG	1 cut(s)	657
BfrI	CTTAAG	1 cut(s)	875
BfuI	GTATCC	2 cut(s)	52, 530
BglII	AGATCT	1 cut(s)	881
BisI	GCNGC	3 cut(s)	108, 318, 847
BlsI	GCNGC	3 cut(s)	109, 319, 848
Bme1390I	CCNGG	3 cut(s)	11, 125, 731
BmeT110I	CYCGRG	1 cut(s)	825
BmgT120I	GGNCC	2 cut(s)	227, 727
BmiI	GGNNCC	3 cut(s)	312, 369, 728
BmrFI	CCNGG	3 cut(s)	11, 125, 731
BmsI	GCATC	3 cut(s)	309, 743, 745
BpiI	GAAGAC	1 cut(s)	90
BplI	GAGNNNNNCTC	2 cut(s)	674, 706
BpmI	CTGGAG	4 cut(s)	107, 723, 744, 816
Bpu14I	TTCGAA	1 cut(s)	156
BpuEI	CTTGAG	1 cut(s)	409
BsaJI	CCNNGG	2 cut(s)	9, 10
BsaXI	ACNNNNNCTCC	2 cut(s)	451, 481
Bsc4I	CCNNNNNNNGG	1 cut(s)	894
Bse1I	ACTGG	1 cut(s)	799
BseBI	CCWGG	3 cut(s)	11, 125, 731
BseDI	CCNNGG	2 cut(s)	9, 10
BseGI	GGATG	2 cut(s)	18, 300
BseLI	CCNNNNNNNGG	1 cut(s)	894
BseMII	CTCAG	2 cut(s)	68, 474
BseNI	ACTGG	1 cut(s)	799
BseRI	GAGGAG	1 cut(s)	682
BseSI	GKGCMC	1 cut(s)	903
BseXI	GCAGC	3 cut(s)	94, 304, 858
BsgI	GTGCAG	2 cut(s)	303, 825
Bsh1285I	CGRYCG	1 cut(s)	276
BshFI	GGCC	2 cut(s)	229, 729
BsiEI	CGRYCG	1 cut(s)	276
BsiHKAI	GWGCWC	3 cut(s)	451, 461, 826
BsiHKCI	CYCGRG	1 cut(s)	825
BslI	CCNNNNNNNGG	1 cut(s)	894
BsmI	GAATGC	1 cut(s)	334
BsnI	GGCC	2 cut(s)	229, 729
BsoBI	CYCGRG	1 cut(s)	825
Bsp119I	TTCGAA	1 cut(s)	156
Bsp1286I	GDGCHC	4 cut(s)	451, 461, 826, 903
Bsp143I	GATC	4 cut(s)	193, 310, 787, 881
BspACI	CCGC	3 cut(s)	347, 470, 839
BspANI	GGCC	2 cut(s)	229, 729
BspCNI	CTCAG	2 cut(s)	69, 475
BspLI	GGNNCC	3 cut(s)	312, 369, 728
BspMAI	CTGCAG	1 cut(s)	661
BspPI	GGATC	3 cut(s)	188, 305, 318
BspQI	GCTCTTC	1 cut(s)	182
BspT104I	TTCGAA	1 cut(s)	156
BspTI	CTTAAG	1 cut(s)	875
BsrI	ACTGG	1 cut(s)	799
BssECI	CCNNGG	2 cut(s)	9, 10
BssMI	GATC	4 cut(s)	193, 310, 787, 881
Bst2UI	CCWGG	3 cut(s)	11, 125, 731
Bst4CI	ACNGT	2 cut(s)	324, 893
Bst6I	CTCTTC	1 cut(s)	182
BstAFI	CTTAAG	1 cut(s)	875
BstBI	TTCGAA	1 cut(s)	156
BstC8I	GCNNGC	5 cut(s)	178, 294, 298, 345, 366
BstDEI	CTNAG	2 cut(s)	77, 483
BstF5I	GGATG	2 cut(s)	18, 300
BstKTI	GATC	4 cut(s)	196, 313, 790, 884
BstMBI	GATC	4 cut(s)	193, 310, 787, 881
BstMCI	CGRYCG	1 cut(s)	276
BstMWI	GCNNNNNNNGC	2 cut(s)	361, 830
BstNI	CCWGG	3 cut(s)	11, 125, 731
BstNSI	RCATGY	1 cut(s)	539
BstSCI	CCNGG	3 cut(s)	9, 123, 729
BstSFI	CTRYAG	1 cut(s)	657
BstSLI	GKGCMC	1 cut(s)	903
BstV1I	GCAGC	3 cut(s)	94, 304, 858
BstV2I	GAAGAC	1 cut(s)	90
BstX2I	RGATCY	2 cut(s)	310, 881
BstYI	RGATCY	2 cut(s)	310, 881
BsuI	GTATCC	2 cut(s)	52, 530
BsuRI	GGCC	2 cut(s)	229, 729
BtsCI	GGATG	2 cut(s)	18, 300
BtsIMutI	CAGTG	3 cut(s)	320, 459, 898
Cac8I	GCNNGC	5 cut(s)	178, 294, 298, 345, 366
Cfr13I	GGNCC	2 cut(s)	227, 727
Csp6I	GTAC	1 cut(s)	67
CviAII	CATG	2 cut(s)	143, 536
CviQI	GTAC	1 cut(s)	67
DdeI	CTNAG	2 cut(s)	77, 483
DpnI	GATC	4 cut(s)	195, 312, 789, 883
DpnII	GATC	4 cut(s)	193, 310, 787, 881
Eam1104I	CTCTTC	1 cut(s)	182
EarI	CTCTTC	1 cut(s)	182
Eco88I	CYCGRG	1 cut(s)	825
EcoRII	CCWGG	3 cut(s)	9, 123, 729
FaeI	CATG	2 cut(s)	146, 539
FaiI	YATR	9 cut(s)	144, 168, 210, 212, 285, 374, 537, 771, 792
FalI	AAGNNNNNCTT	2 cut(s)	858, 890
FatI	CATG	2 cut(s)	142, 535
FauI	CCCGC	1 cut(s)	832
FbaI	TGATCA	1 cut(s)	787
Fnu4HI	GCNGC	3 cut(s)	108, 318, 847
FokI	GGATG	2 cut(s)	5, 287
Fsp4HI	GCNGC	3 cut(s)	108, 318, 847
FspBI	CTAG	2 cut(s)	561, 801
GluI	GCNGC	3 cut(s)	108, 318, 847
GsuI	CTGGAG	4 cut(s)	107, 723, 744, 816
HaeIII	GGCC	2 cut(s)	229, 729
Hin1II	CATG	2 cut(s)	146, 539
HincII	GTYRAC	1 cut(s)	863
HindII	GTYRAC	1 cut(s)	863
HindIII	AAGCTT	1 cut(s)	294
HinfI	GANTC	3 cut(s)	15, 79, 464
Hpy166II	GTNNAC	3 cut(s)	442, 578, 863
Hpy188I	TCNGA	3 cut(s)	484, 754, 907
Hpy188III	TCNNGA	6 cut(s)	541, 676, 702, 761, 785, 827
Hpy8I	GTNNAC	3 cut(s)	442, 578, 863
Hpy99I	CGWCG	1 cut(s)	854
HpyAV	CCTTC	1 cut(s)	207
HpyCH4III	ACNGT	2 cut(s)	324, 893
HpyCH4IV	ACGT	1 cut(s)	652
HpyCH4V	TGCA	8 cut(s)	110, 239, 292, 300, 320, 343, 659, 806
HpyF10VI	GCNNNNNNNGC	2 cut(s)	361, 830
HpyF3I	CTNAG	2 cut(s)	77, 483
HpySE526I	ACGT	1 cut(s)	652
Hsp92II	CATG	2 cut(s)	146, 539
Ksp22I	TGATCA	1 cut(s)	787
Kzo9I	GATC	4 cut(s)	193, 310, 787, 881
LguI	GCTCTTC	1 cut(s)	182
LmnI	GCTCC	5 cut(s)	373, 446, 695, 763, 797
Lsp1109I	GCAGC	3 cut(s)	94, 304, 858
LweI	GCATC	3 cut(s)	309, 743, 745
MaeI	CTAG	2 cut(s)	561, 801
MaeII	ACGT	1 cut(s)	652
MaeIII	GTNAC	1 cut(s)	117
MalI	GATC	4 cut(s)	195, 312, 789, 883
MboI	GATC	4 cut(s)	193, 310, 787, 881
MboII	GAAGA	4 cut(s)	90, 199, 263, 876
MflI	RGATCY	2 cut(s)	310, 881
MhlI	GDGCHC	4 cut(s)	451, 461, 826, 903
MluCI	AATT	9 cut(s)	85, 254, 335, 382, 418, 525, 615, 718, 775
MlyI	GAGTC	1 cut(s)	88
MmeI	TCCRAC	1 cut(s)	912
MnlI	CCTC	7 cut(s)	47, 108, 478, 698, 703, 822, 907
MseI	TTAA	6 cut(s)	360, 429, 477, 618, 870, 876
MslI	CAYNNNNRTG	1 cut(s)	147
MspA1I	CMGCKG	1 cut(s)	317
MspCI	CTTAAG	1 cut(s)	875
MspR9I	CCNGG	3 cut(s)	11, 125, 731
Mva1269I	GAATGC	1 cut(s)	334
MvaI	CCWGG	3 cut(s)	11, 125, 731
MwoI	GCNNNNNNNGC	2 cut(s)	361, 830
NdeII	GATC	4 cut(s)	193, 310, 787, 881
NlaIII	CATG	2 cut(s)	146, 539
NlaIV	GGNNCC	3 cut(s)	312, 369, 728
NspI	RCATGY	1 cut(s)	539
NspV	TTCGAA	1 cut(s)	156
PaeR7I	CTCGAG	1 cut(s)	825
PasI	CCCWGGG	1 cut(s)	10
PciI	ACATGT	1 cut(s)	535
PciSI	GCTCTTC	1 cut(s)	182
PcsI	WCGNNNNNNNCGW	1 cut(s)	36
PctI	GAATGC	1 cut(s)	334
PfeI	GAWTC	2 cut(s)	15, 464
PfoI	TCCNGGA	1 cut(s)	123
PkrI	GCNGC	3 cut(s)	109, 319, 848
PleI	GAGTC	1 cut(s)	87
PpsI	GAGTC	1 cut(s)	87
PscI	ACATGT	1 cut(s)	535
PshBI	ATTAAT	1 cut(s)	618
Psp6I	CCWGG	3 cut(s)	9, 123, 729
PspGI	CCWGG	3 cut(s)	9, 123, 729
PspN4I	GGNNCC	3 cut(s)	312, 369, 728
PspPI	GGNCC	2 cut(s)	227, 727
PstI	CTGCAG	1 cut(s)	661
PsuI	RGATCY	2 cut(s)	310, 881
PvuII	CAGCTG	1 cut(s)	317
RsaI	GTAC	1 cut(s)	68
RsaNI	GTAC	1 cut(s)	67
RseI	CAYNNNNRTG	1 cut(s)	147
SapI	GCTCTTC	1 cut(s)	182
SaqAI	TTAA	6 cut(s)	360, 429, 477, 618, 870, 876
SatI	GCNGC	3 cut(s)	108, 318, 847
Sau3AI	GATC	4 cut(s)	193, 310, 787, 881
Sau96I	GGNCC	2 cut(s)	227, 727
SchI	GAGTC	1 cut(s)	88
ScrFI	CCNGG	3 cut(s)	11, 125, 731
SduI	GDGCHC	4 cut(s)	451, 461, 826, 903
SfaNI	GCATC	3 cut(s)	309, 743, 745
SfcI	CTRYAG	1 cut(s)	657
Sfr274I	CTCGAG	1 cut(s)	825
SfuI	TTCGAA	1 cut(s)	156
SlaI	CTCGAG	1 cut(s)	825
SmiMI	CAYNNNNRTG	1 cut(s)	147
SmlI	CTYRAG	3 cut(s)	388, 825, 875
SmoI	CTYRAG	3 cut(s)	388, 825, 875
Sse9I	AATT	9 cut(s)	85, 254, 335, 382, 418, 525, 615, 718, 775
SsiI	CCGC	3 cut(s)	347, 470, 839
SspMI	CTAG	2 cut(s)	561, 801
StyD4I	CCNGG	3 cut(s)	9, 123, 729
TaaI	ACNGT	2 cut(s)	324, 893
TaiI	ACGT	1 cut(s)	655
TaqI	TCGA	5 cut(s)	30, 82, 156, 200, 826
TaqII	GACCGA	1 cut(s)	262
TasI	AATT	9 cut(s)	85, 254, 335, 382, 418, 525, 615, 718, 775
TfiI	GAWTC	2 cut(s)	15, 464
Tru1I	TTAA	6 cut(s)	360, 429, 477, 618, 870, 876
Tru9I	TTAA	6 cut(s)	360, 429, 477, 618, 870, 876
TscAI	CASTG	3 cut(s)	327, 466, 898
TseI	GCWGC	3 cut(s)	107, 317, 846
TspDTI	ATGAA	1 cut(s)	699
TspGWI	ACGGA	1 cut(s)	459
TspRI	CASTG	3 cut(s)	327, 466, 898
Vha464I	CTTAAG	1 cut(s)	875
VspI	ATTAAT	1 cut(s)	618
XapI	RAATTY	3 cut(s)	254, 335, 718
XceI	RCATGY	1 cut(s)	539
XcmI	CCANNNNNNNNNTGG	1 cut(s)	321
XhoI	CTCGAG	1 cut(s)	825
XspI	CTAG	2 cut(s)	561, 801

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