Basic Information

Type: gene

Biological Identity

Species

malus_domestica

Chromosome

Chr00

Orthogroup ID

OG0008505

Physical Location & Seq

Genomic Coordinates Reverse (-)

4732978 .. 4737281

Gene Structure 4304 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

MD00G1028800.v1.1.491

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1101 bp

ATGGCGGAGCCAATCACTCTCATGGACATCGACGACGATGACAACCCATCTGTACAACCCAACAACAAAGGCAAAAACGTCGTCGTCTCCGCCGCCGCCCCTTCCCACGGCAAAGCCACGCCGTGGGTCGAGAAGTACCGCCCTCAATCCCTCGCGGACGTCGCTGCTCACCGCGACATTGTCGACACCATTGATAGGCTTACTAGTGAGAACAGATTGCCGCACCTCCTACTATATGGCCCTCCTGGTACTGGCAAAACTTCAACTATTCTTGCTGTGGCACGCAAGCTCTATGGAGTGCAGTACCACAATATGATTCTGGAGTTGAATGCATCCGATGACAGGGGGATCAATGTTGTGCGACAACAGATTCAAGATTTTGCTAGCACGCAGAGTTTCTCGTTTGGGGGTGATAGTGCAAAGTCATCTGTAAAAATGGTATTGCTGGATGAGGCGGATGCTATGACAAAGGATGCTCAATTTGCTTTGCGAAGGGTGATTGAGAAATACACAAAGAATACTAGGTTTTCACTAATTTGTAATCATGTCAACAAGATCATTCCAGCATTACAATCACGATGTACTCGTTTCCGATTTGCTCCACTTGAGGAGTTTCATGTCTCAGAGAGACTCAAACATGTTATAGAAGCTGAAGGGCTTGATGTGCCTGCGAGTGGCTTAGCGGCAGTTATACGGCTTAGCAATGGTGACATGAGAAGGGCTCTGAACATTTTGCAGTCAACTCATATGGCTTCACAGCAGATAACTGAAGAAGCGGTATATCTTTGCACAGGAAATCCATTGCCCAAAGATATTGAGCAAATATCTTACTGGCTTTTGAACGAATCATTTGCTGAGAGTTTCAAACGAATATCTGACATGAAAGCAAGAAAAGGGTTGGCTTTGATAGATATTGTAAGAGAAGTGACCATGTTCGTTTTTAAGATTATGATGCCCGCAGAAGTTCGAGTTAAATTGATTAATGATTTAGCTGACATAGAGTACAGGTTGACGTTTGGGTGCAATGATAAGTTGCAACTCGGATCACTGATAGCCACCTTCACAAAAGCTCGATCTGCACTTGTTGCTGCTGCGAAGTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005657 GO:0005663 GO:0005694 GO:0006139 GO:0006259 GO:0006260 GO:0006261 GO:0006275 GO:0006281 GO:0006725 GO:0006807 GO:0006950 GO:0006974 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009889 GO:0009891 GO:0009893 GO:0009987 GO:0010556 GO:0010557 GO:0010604 GO:0019219 GO:0019222 GO:0019899 GO:0031323 GO:0031325 GO:0031326 GO:0031328 GO:0031347 GO:0031348 GO:0031390 GO:0032991 GO:0033554 GO:0034641 GO:0034645 GO:0043085 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0044093 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044422 GO:0044424 GO:0044427 GO:0044446 GO:0044464 GO:0045935 GO:0046483 GO:0048518 GO:0048519 GO:0048522 GO:0048583 GO:0048585 GO:0050789 GO:0050790 GO:0050794 GO:0050896 GO:0051052 GO:0051054 GO:0051171 GO:0051173 GO:0051338 GO:0051347 GO:0051716 GO:0060255 GO:0065007 GO:0065009 GO:0071704 GO:0080090 GO:0080134 GO:0090304 GO:0090329 GO:1900262 GO:1900264 GO:1901360 GO:1901576 GO:2000112 GO:2000278 GO:2000573

KEGG Pathways

Metabolic & Signaling

ko03030 ko03420 ko03430 map03030 map03420 map03430

Pfam Domains

Protein Families

AAA Rep_fac_C

Protein Analysis

367

Amino Acids

40.73

Weight (kDa)

8.24

Isoelectric Point (pI)

43.21

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Rad17	PF03215	39 - 179	1.3e-10	Rad17 P-loop domain
DNA_pol3_delta2	PF13177	61 - 202	3.6e-09	DNA polymerase III, delta subunit
AAA	PF00004	76 - 201	3.6e-15	ATPase family associated with various cellular activities (AAA)
AAA_lid_RFC1	PF25361	207 - 257	2.7e-06	RFC1-like, AAA+ ATPase lid domain
RCF1-5-like_lid	PF21960	210 - 249	2.1e-06	RCF1/5-like, AAA+ ATPase lid domain
Rep_fac_C	PF08542	267 - 352	7.1e-22	Replication factor C C-terminal domain

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: OG0008505)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G77470
fragaria_vesca	FvH4_2g27410 FvH4_2g27410 FvH4_2g27410
malus_domestica	MD00G1028800.v1.1 MD15G1345300.v1.1
prunus_persica	Prupe.1G493300_v2.0.a1 Prupe.1G493300_v2.0.a1 Prupe.1G493300_v2.0.a1
pyrus_communis	pycom08g13720 pycom15g30980
rosa_chinensis	RchiOBHm_Chr6g0296261
rosa_laevigata	RLG00000011712
rosa_multiflora	Rmu_sc0004708.1_g000011
rosa_roxburghii	Rroxscaffold_7G00171690 Rroxscaffold_7G00178370
rosa_rugosa	Rorug06G0260300.1 Rorug06G0260400.1
rosa_samantha	Rh6AG372100 Rh6BG380100 Rh6CG385500 Rh6DG372700
rosa_wichuraiana	Rw6G032440

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AatII	GACGTC	1 cut(s)	162
AccB7I	CCANNNNNTGG	1 cut(s)	123
AccI	GTMKAC	1 cut(s)	183
AccII	CGCG	2 cut(s)	155, 174
AclWI	GGATC	2 cut(s)	356, 1051
AcuI	CTGAAG	2 cut(s)	672, 789
AcyI	GRCGYC	1 cut(s)	159
AdeI	CACNNNGTG	1 cut(s)	123
AfaI	GTAC	6 cut(s)	54, 137, 250, 305, 583, 1004
AfiI	CCNNNNNNNGG	6 cut(s)	107, 123, 195, 251, 342, 674
AflIII	ACRYGT	1 cut(s)	637
AgsI	TTSAA	5 cut(s)	264, 328, 374, 841, 865
AhlI	ACTAGT	1 cut(s)	203
AjnI	CCWGG	1 cut(s)	244
AluBI	AGCT	4 cut(s)	289, 650, 992, 1070
AluI	AGCT	4 cut(s)	289, 650, 992, 1070
Alw26I	GTCTC	3 cut(s)	91, 622, 625
AlwI	GGATC	2 cut(s)	356, 1051
AoxI	GGCC	1 cut(s)	238
ApeKI	GCWGC	3 cut(s)	164, 1088, 1091
ArsI	GACNNNNNNTTYG	2 cut(s)	66, 98
AseI	ATTAAT	1 cut(s)	981
AspS9I	GGNCC	1 cut(s)	239
AsuHPI	GGTGA	4 cut(s)	161, 422, 508, 719
AsuNHI	GCTAGC	1 cut(s)	383
BanII	GRGCYC	1 cut(s)	724
BbvI	GCAGC	3 cut(s)	151, 1075, 1078
BccI	CCATC	1 cut(s)	55
BceAI	ACGGC	3 cut(s)	106, 124, 710
BcgI	CGANNNNNNTGC	4 cut(s)	61, 95, 833, 867
BciT130I	CCWGG	1 cut(s)	246
BcoDI	GTCTC	3 cut(s)	91, 622, 625
BcuI	ACTAGT	1 cut(s)	203
BfaI	CTAG	3 cut(s)	204, 384, 522
BisI	GCNGC	7 cut(s)	93, 96, 165, 221, 684, 1089, 1092
BlpI	GCTNAGC	2 cut(s)	679, 698
BlsI	GCNGC	7 cut(s)	94, 97, 166, 222, 685, 1090, 1093
Bme1390I	CCNGG	1 cut(s)	246
BmgT120I	GGNCC	1 cut(s)	239
BmiI	GGNNCC	1 cut(s)	9
BmrFI	CCNGG	1 cut(s)	246
BmsI	GCATC	4 cut(s)	341, 448, 463, 942
BmtI	GCTAGC	1 cut(s)	387
BplI	GAGNNNNNCTC	2 cut(s)	706, 738
BpmI	CTGGAG	1 cut(s)	341
Bpu1102I	GCTNAGC	2 cut(s)	679, 698
BpuEI	CTTGAG	1 cut(s)	626
BsaHI	GRCGYC	1 cut(s)	159
BsaJI	CCNNGG	2 cut(s)	106, 122
Bsc4I	CCNNNNNNNGG	6 cut(s)	107, 123, 195, 251, 342, 674
Bse1I	ACTGG	2 cut(s)	256, 836
Bse3DI	GCAATG	3 cut(s)	709, 800, 1030
BseBI	CCWGG	1 cut(s)	246
BseDI	CCNNGG	2 cut(s)	106, 122
BseGI	GGATG	4 cut(s)	332, 454, 463, 478
BseLI	CCNNNNNNNGG	6 cut(s)	107, 123, 195, 251, 342, 674
BseMI	GCAATG	3 cut(s)	709, 800, 1030
BseMII	CTCAG	2 cut(s)	636, 846
BseNI	ACTGG	2 cut(s)	256, 836
BseRI	GAGGAG	1 cut(s)	623
BseXI	GCAGC	3 cut(s)	151, 1075, 1078
BsgI	GTGCAG	2 cut(s)	320, 1062
Bsh1236I	CGCG	2 cut(s)	155, 174
BshFI	GGCC	1 cut(s)	240
BslI	CCNNNNNNNGG	6 cut(s)	107, 123, 195, 251, 342, 674
BsmAI	GTCTC	3 cut(s)	91, 622, 625
BsmBI	CGTCTC	1 cut(s)	91
BsmI	GAATGC	1 cut(s)	334
BsnI	GGCC	1 cut(s)	240
Bsp1286I	GDGCHC	1 cut(s)	724
Bsp1407I	TGTACA	1 cut(s)	52
Bsp143I	GATC	4 cut(s)	348, 555, 1043, 1073
Bsp1720I	GCTNAGC	2 cut(s)	679, 698
BspANI	GGCC	1 cut(s)	240
BspCNI	CTCAG	2 cut(s)	635, 847
BspFNI	CGCG	2 cut(s)	155, 174
BspLI	GGNNCC	1 cut(s)	9
BspOI	GCTAGC	1 cut(s)	387
BspPI	GGATC	2 cut(s)	356, 1051
BsrDI	GCAATG	3 cut(s)	709, 800, 1030
BsrGI	TGTACA	1 cut(s)	52
BsrI	ACTGG	2 cut(s)	256, 836
BssECI	CCNNGG	2 cut(s)	106, 122
BssMI	GATC	4 cut(s)	348, 555, 1043, 1073
BssNI	GRCGYC	1 cut(s)	159
Bst2UI	CCWGG	1 cut(s)	246
BstACI	GRCGYC	1 cut(s)	159
BstAPI	GCANNNNNTGC	1 cut(s)	1085
BstAUI	TGTACA	1 cut(s)	52
BstC8I	GCNNGC	6 cut(s)	283, 287, 385, 389, 669, 957
BstDEI	CTNAG	4 cut(s)	622, 679, 698, 855
BstDSI	CCRYGG	2 cut(s)	106, 122
BstF5I	GGATG	4 cut(s)	332, 454, 463, 478
BstFNI	CGCG	2 cut(s)	155, 174
BstKTI	GATC	4 cut(s)	351, 558, 1046, 1076
BstMAI	GTCTC	3 cut(s)	91, 622, 625
BstMBI	GATC	4 cut(s)	348, 555, 1043, 1073
BstMWI	GCNNNNNNNGC	5 cut(s)	161, 482, 664, 1076, 1085
BstNI	CCWGG	1 cut(s)	246
BstNSI	RCATGY	1 cut(s)	641
BstSCI	CCNGG	1 cut(s)	244
BstUI	CGCG	2 cut(s)	155, 174
BstV1I	GCAGC	3 cut(s)	151, 1075, 1078
BsuRI	GGCC	1 cut(s)	240
BtgI	CCRYGG	2 cut(s)	106, 122
BtsCI	GGATG	4 cut(s)	332, 454, 463, 478
BtsIMutI	CAGTG	1 cut(s)	1046
Cac8I	GCNNGC	6 cut(s)	283, 287, 385, 389, 669, 957
Cfr13I	GGNCC	1 cut(s)	239
Csp6I	GTAC	6 cut(s)	53, 136, 249, 304, 582, 1003
CviAII	CATG	7 cut(s)	22, 545, 617, 638, 712, 880, 931
CviQI	GTAC	6 cut(s)	53, 136, 249, 304, 582, 1003
DdeI	CTNAG	4 cut(s)	622, 679, 698, 855
DpnI	GATC	4 cut(s)	350, 557, 1045, 1075
DpnII	GATC	4 cut(s)	348, 555, 1043, 1073
DraIII	CACNNNGTG	1 cut(s)	123
EciI	GGCGGA	3 cut(s)	20, 79, 470
Eco24I	GRGCYC	1 cut(s)	724
Eco57I	CTGAAG	2 cut(s)	672, 789
EcoRII	CCWGG	1 cut(s)	244
EcoT22I	ATGCAT	1 cut(s)	334
EcoT38I	GRGCYC	1 cut(s)	724
Esp3I	CGTCTC	1 cut(s)	91
FaeI	CATG	7 cut(s)	25, 548, 620, 641, 715, 883, 934
FatI	CATG	7 cut(s)	21, 544, 616, 637, 711, 879, 930
FauI	CCCGC	1 cut(s)	964
FauNDI	CATATG	1 cut(s)	747
FblI	GTMKAC	1 cut(s)	183
Fnu4HI	GCNGC	7 cut(s)	93, 96, 165, 221, 684, 1089, 1092
FokI	GGATG	4 cut(s)	319, 461, 470, 485
FriOI	GRGCYC	1 cut(s)	724
Fsp4HI	GCNGC	7 cut(s)	93, 96, 165, 221, 684, 1089, 1092
FspBI	CTAG	3 cut(s)	204, 384, 522
GluI	GCNGC	7 cut(s)	93, 96, 165, 221, 684, 1089, 1092
GsuI	CTGGAG	1 cut(s)	341
HaeIII	GGCC	1 cut(s)	240
Hin1I	GRCGYC	1 cut(s)	159
Hin1II	CATG	7 cut(s)	25, 548, 620, 641, 715, 883, 934
HincII	GTYRAC	4 cut(s)	184, 550, 741, 1011
HindII	GTYRAC	4 cut(s)	184, 550, 741, 1011
HinfI	GANTC	4 cut(s)	316, 370, 630, 845
HphI	GGTGA	4 cut(s)	161, 422, 508, 719
Hpy166II	GTNNAC	4 cut(s)	184, 550, 741, 1011
Hpy188I	TCNGA	6 cut(s)	337, 593, 625, 726, 877, 1043
Hpy188III	TCNNGA	4 cut(s)	130, 320, 374, 576
Hpy8I	GTNNAC	4 cut(s)	184, 550, 741, 1011
Hpy99I	CGWCG	5 cut(s)	35, 38, 83, 86, 164
HpyAV	CCTTC	5 cut(s)	111, 486, 647, 711, 1069
HpyCH4IV	ACGT	3 cut(s)	78, 159, 1013
HpyCH4V	TGCA	8 cut(s)	301, 332, 419, 736, 789, 1023, 1036, 1079
HpyF10VI	GCNNNNNNNGC	5 cut(s)	161, 482, 664, 1076, 1085
HpyF3I	CTNAG	4 cut(s)	622, 679, 698, 855
HpySE526I	ACGT	3 cut(s)	78, 159, 1013
Hsp92I	GRCGYC	1 cut(s)	159
Hsp92II	CATG	7 cut(s)	25, 548, 620, 641, 715, 883, 934
Kzo9I	GATC	4 cut(s)	348, 555, 1043, 1073
LmnI	GCTCC	2 cut(s)	7, 604
Lsp1109I	GCAGC	3 cut(s)	151, 1075, 1078
LweI	GCATC	4 cut(s)	341, 448, 463, 942
MaeI	CTAG	3 cut(s)	204, 384, 522
MaeII	ACGT	3 cut(s)	78, 159, 1013
MaeIII	GTNAC	2 cut(s)	707, 925
MalI	GATC	4 cut(s)	350, 557, 1045, 1075
MboI	GATC	4 cut(s)	348, 555, 1043, 1073
MboII	GAAGA	1 cut(s)	782
MhlI	GDGCHC	1 cut(s)	724
MluCI	AATT	3 cut(s)	479, 534, 974
MlyI	GAGTC	1 cut(s)	624
MnlI	CCTC	6 cut(s)	153, 161, 236, 252, 445, 601
Mph1103I	ATGCAT	1 cut(s)	334
MseI	TTAA	3 cut(s)	942, 972, 981
MslI	CAYNNNNRTG	1 cut(s)	20
MspR9I	CCNGG	1 cut(s)	246
Mva1269I	GAATGC	1 cut(s)	334
MvaI	CCWGG	1 cut(s)	246
MvnI	CGCG	2 cut(s)	155, 174
MwoI	GCNNNNNNNGC	5 cut(s)	161, 482, 664, 1076, 1085
NdeI	CATATG	1 cut(s)	747
NdeII	GATC	4 cut(s)	348, 555, 1043, 1073
NheI	GCTAGC	1 cut(s)	383
NlaIII	CATG	7 cut(s)	25, 548, 620, 641, 715, 883, 934
NlaIV	GGNNCC	1 cut(s)	9
NmuCI	GTSAC	2 cut(s)	707, 925
NsiI	ATGCAT	1 cut(s)	334
NspI	RCATGY	1 cut(s)	641
PciI	ACATGT	1 cut(s)	637
PcsI	WCGNNNNNNNCGW	1 cut(s)	583
PctI	GAATGC	1 cut(s)	334
PfeI	GAWTC	3 cut(s)	316, 370, 845
PflFI	GACNNNGTC	1 cut(s)	179
PflMI	CCANNNNNTGG	1 cut(s)	123
PkrI	GCNGC	7 cut(s)	94, 97, 166, 222, 685, 1090, 1093
PleI	GAGTC	1 cut(s)	624
PpsI	GAGTC	1 cut(s)	624
PscI	ACATGT	1 cut(s)	637
PshBI	ATTAAT	1 cut(s)	981
Psp6I	CCWGG	1 cut(s)	244
PspGI	CCWGG	1 cut(s)	244
PspN4I	GGNNCC	1 cut(s)	9
PspPI	GGNCC	1 cut(s)	239
PsyI	GACNNNGTC	1 cut(s)	179
RsaI	GTAC	6 cut(s)	54, 137, 250, 305, 583, 1004
RsaNI	GTAC	6 cut(s)	53, 136, 249, 304, 582, 1003
RseI	CAYNNNNRTG	1 cut(s)	20
SalI	GTCGAC	1 cut(s)	182
SaqAI	TTAA	3 cut(s)	942, 972, 981
SatI	GCNGC	7 cut(s)	93, 96, 165, 221, 684, 1089, 1092
Sau3AI	GATC	4 cut(s)	348, 555, 1043, 1073
Sau96I	GGNCC	1 cut(s)	239
SchI	GAGTC	1 cut(s)	624
ScrFI	CCNGG	1 cut(s)	246
SduI	GDGCHC	1 cut(s)	724
SfaNI	GCATC	4 cut(s)	341, 448, 463, 942
SmiMI	CAYNNNNRTG	1 cut(s)	20
SmlI	CTYRAG	1 cut(s)	605
SmoI	CTYRAG	1 cut(s)	605
SpeI	ACTAGT	1 cut(s)	203
Sse9I	AATT	3 cut(s)	479, 534, 974
SspMI	CTAG	3 cut(s)	204, 384, 522
StyD4I	CCNGG	1 cut(s)	244
TaiI	ACGT	3 cut(s)	81, 162, 1016
TaqI	TCGA	5 cut(s)	30, 129, 183, 967, 1072
TasI	AATT	3 cut(s)	479, 534, 974
TatI	WGTACW	3 cut(s)	52, 581, 1002
TauI	GCSGC	4 cut(s)	95, 98, 223, 686
TfiI	GAWTC	3 cut(s)	316, 370, 845
Tru1I	TTAA	3 cut(s)	942, 972, 981
Tru9I	TTAA	3 cut(s)	942, 972, 981
TscAI	CASTG	1 cut(s)	1053
TseFI	GTSAC	2 cut(s)	707, 925
TseI	GCWGC	3 cut(s)	164, 1088, 1091
Tsp45I	GTSAC	2 cut(s)	707, 925
TspDTI	ATGAA	2 cut(s)	605, 896
TspRI	CASTG	1 cut(s)	1053
Tth111I	GACNNNGTC	1 cut(s)	179
Van91I	CCANNNNNTGG	1 cut(s)	123
VspI	ATTAAT	1 cut(s)	981
XceI	RCATGY	1 cut(s)	641
XmiI	GTMKAC	1 cut(s)	183
XspI	CTAG	3 cut(s)	204, 384, 522
ZraI	GACGTC	1 cut(s)	160
Zsp2I	ATGCAT	1 cut(s)	334

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