Basic Information

Type: gene

Biological Identity

Species

malus_domestica

Chromosome

Chr10

Orthogroup ID

OG0002529

Physical Location & Seq

Genomic Coordinates Reverse (-)

40664274 .. 40669040

Gene Structure 4767 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

MD10G1326500.v1.1.491

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1182 bp

ATGGAAGGTGGTGGTGCCAATGGCACCTGTAGTATGATGGCCTTTGGAGAAAACAGCAGTAATGGAGGAGGAATGTGTCCAAGGATGATGATGCCTCTAATGACTTCCTCACATCATGCTCATCACTCTCATCATCACCTTCATCAACATCATATGAATCTTAATCCTAATGCAGACACGCATGATACTAGTACGACTCATCAGTTTCGCCAGCTTCCCCAGCTTCCCCAGCTGCCTCCGTCCAACAACCATCACGACCACCAAAACCCCCATAACACTAGTGGCGGCTCCTCCTTCCTTCTCCACAACCCAGCTGCAGCTGCCGCCTCCTATTTCATGGACAACAACAACAATGATGGTGTTGGCGGCAGCTCTTCTTCTTCGCCTTCAACTGTCAAGGCTAAGATCATGGCTCATCCTCACTATCACCGTCTCTTGGCCTCCTATATCAACTGTCAAAAGGTTGGTGCGCCGCCTGAAGTGGTGGCGAGACTGGAAGAAGCGTGCGCATCGGCGGCGACTGTAGGTCAAATGGTGAGTAGTAGTAGTGAATCAGGATCTCTCGGTGAAGATCCAGCTCTGGATCAGTTCATGGAGGCCTATTGCGAGATGCTTACCAAGTATGAGCAAGAAATCTCTAAACCCTTCAAGGAAGCCATGATCTTCCTCCAAAGAATCGAGTCCCAATTCAAAGCGCTCACTCTTTCTTGTTCTTCTGATTCTGCAGGTTATGGCGATGGAATTGATAGGAACCATGTATCATCTGAGGAAGAGGTTGATGTTAATAACAACTTCATAGATCCCCAAGCGGAAGACAGGGAGCTTAAAGGGCAGCTATTGCGCAAGTACAGTGGATATTTGGGTAGTTTGAAGCAGGAGTTCATGAAGAAACGGAAGAAAGGGAAGCTGCCTAAAGAAGCCAGGCAACAGTTGCTAGATTGGTGGAGTCGACATTACAAATGGCCTTATCCATCGGAATCACAGAAACTAGCTCTTGCAGAATCAACAGGGCTGGACCAGAAGCAGATAAACAACTGGTTCATCAACCAAAGGAAGCGACATTGGAAGCCGTCAGAGGATATGCAGTTTGTGGTGATGGATGCTAGCCACCAAGGCCACTATTACATGGACAGTGTCATGGGAAATCCATTTCCCATGGATATCTCTCCCACATTGCTCTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0003006 GO:0003674 GO:0003676 GO:0003700 GO:0003723 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005737 GO:0005856 GO:0005911 GO:0006355 GO:0006725 GO:0006807 GO:0006810 GO:0007275 GO:0008150 GO:0008152 GO:0009058 GO:0009308 GO:0009506 GO:0009690 GO:0009691 GO:0009791 GO:0009889 GO:0009908 GO:0009934 GO:0009987 GO:0010468 GO:0010496 GO:0010497 GO:0010556 GO:0010817 GO:0015630 GO:0019219 GO:0019222 GO:0019827 GO:0022414 GO:0022603 GO:0030054 GO:0031323 GO:0031326 GO:0032501 GO:0032502 GO:0034754 GO:0042445 GO:0042446 GO:0042802 GO:0042803 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0044237 GO:0044249 GO:0044424 GO:0044464 GO:0046483 GO:0046983 GO:0048367 GO:0048437 GO:0048438 GO:0048440 GO:0048467 GO:0048509 GO:0048608 GO:0048731 GO:0048827 GO:0048856 GO:0050789 GO:0050793 GO:0050794 GO:0051171 GO:0051179 GO:0051234 GO:0051252 GO:0055044 GO:0060255 GO:0061458 GO:0065007 GO:0065008 GO:0071704 GO:0080090 GO:0090567 GO:0097159 GO:0098727 GO:0099402 GO:0140110 GO:1901363 GO:1901564 GO:1903506 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

ELK Homeobox_KN KNOX1 KNOX2

Protein Analysis

394

Amino Acids

43.91

Weight (kDa)

6.32

Isoelectric Point (pI)

48.21

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
KNOX1	PF03790	132 - 170	6.3e-21	KNOX1 domain
KNOX2	PF03791	188 - 234	4.3e-21	KNOX2 domain
ELK	PF03789	274 - 295	4.7e-11	ELK domain
Homeobox_KN	PF05920	314 - 353	1.1e-18	Homeobox KN domain
Homeodomain	PF00046	321 - 354	9.5e-07	Homeodomain

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

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Orthologous Genes (Group: OG0002529)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G62360
fragaria_vesca	FvH4_3g01400 FvH4_3g01400 FvH4_3g01400 FvH4_3g01400 FvH4_6g42570 FvH4_6g42570
malus_domestica	MD05G1352500.v1.1 MD09G1112500.v1.1 MD10G1276200.v1.1 MD10G1326500.v1.1 MD17G1102600.v1.1
prunus_persica	Prupe.3G212100_v2.0.a1 Prupe.4G015200_v2.0.a1 Prupe.4G015200_v2.0.a1
pyrus_communis	pycom05g31940 pycom09g03690 pycom10g27650 pycom17g09700
rosa_chinensis	RchiOBHm_Chr2g0158421 RchiOBHm_Chr5g0002121
rosa_laevigata	RLG00000021086 RLG00000030997
rosa_multiflora	Rmu_sc0004855.1_g000009 Rmu_ssc0000001.1_g000013
rosa_roxburghii	Rroxscaffold_1G00073790 Rroxscaffold_2G00091400
rosa_rugosa	Rorug02G0468500 Rorug02G0468600 Rorug04G0394500 Rorug04G0394500
rosa_samantha	Rh2AG534700 Rh2BG548100 Rh2CG518500 Rh2DG557700 Rh5AG016200 Rh5BG019600 Rh5CG017500 Rh5DG017700
rosa_wichuraiana	Rw2G044280 Rw5G001580

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc16I	TGCGCA	2 cut(s)	508, 842
Acc36I	ACCTGC	1 cut(s)	716
AccB1I	GGYRCC	2 cut(s)	14, 23
AccI	GTMKAC	1 cut(s)	949
AciI	CCGC	6 cut(s)	285, 324, 366, 473, 515, 809
AclWI	GGATC	4 cut(s)	565, 566, 591, 794
AcuI	CTGAAG	1 cut(s)	498
AfaI	GTAC	2 cut(s)	193, 848
AfeI	AGCGCT	1 cut(s)	696
AfiI	CCNNNNNNNGG	1 cut(s)	436
AgsI	TTSAA	4 cut(s)	390, 649, 691, 871
AhdI	GACNNNNNGTC	1 cut(s)	525
AhlI	ACTAGT	2 cut(s)	188, 278
AjnI	CCWGG	1 cut(s)	920
Alw26I	GTCTC	2 cut(s)	437, 484
AlwI	GGATC	4 cut(s)	565, 566, 591, 794
Aor51HI	AGCGCT	1 cut(s)	696
AoxI	GGCC	5 cut(s)	39, 438, 597, 962, 1114
ApeKI	GCWGC	7 cut(s)	232, 314, 317, 320, 369, 832, 907
AspLEI	GCGC	4 cut(s)	472, 509, 697, 843
AspS9I	GGNCC	1 cut(s)	1015
AsuHPI	GGTGA	5 cut(s)	128, 419, 547, 578, 1105
AsuNHI	GCTAGC	1 cut(s)	1103
AvaII	GGWCC	1 cut(s)	1015
BanI	GGYRCC	2 cut(s)	14, 23
BbsI	GAAGAC	1 cut(s)	819
BbvI	GCAGC	7 cut(s)	219, 301, 307, 329, 381, 844, 894
BccI	CCATC	6 cut(s)	31, 258, 350, 731, 979, 1090
BceAI	ACGGC	1 cut(s)	1054
BciT130I	CCWGG	1 cut(s)	922
BcoDI	GTCTC	2 cut(s)	437, 484
BcuI	ACTAGT	2 cut(s)	188, 278
BfaI	CTAG	5 cut(s)	189, 279, 935, 989, 1104
BfmI	CTRYAG	4 cut(s)	28, 315, 522, 723
BfoI	RGCGCY	1 cut(s)	698
BfuAI	ACCTGC	1 cut(s)	716
BglI	GCCNNNNNGGC	1 cut(s)	1113
Bme1390I	CCNGG	1 cut(s)	922
Bme18I	GGWCC	1 cut(s)	1015
BmeRI	GACNNNNNGTC	1 cut(s)	525
BmgT120I	GGNCC	1 cut(s)	1015
BmiI	GGNNCC	4 cut(s)	16, 25, 289, 752
BmrFI	CCNGG	1 cut(s)	922
BmsI	GCATC	4 cut(s)	81, 518, 600, 1090
BmtI	GCTAGC	1 cut(s)	1107
BpiI	GAAGAC	1 cut(s)	819
BsaJI	CCNNGG	3 cut(s)	80, 1111, 1155
Bsc4I	CCNNNNNNNGG	1 cut(s)	436
Bse1I	ACTGG	2 cut(s)	498, 1040
Bse3DI	GCAATG	1 cut(s)	1172
BseBI	CCWGG	1 cut(s)	922
BseDI	CCNNGG	3 cut(s)	80, 1111, 1155
BseGI	GGATG	3 cut(s)	90, 415, 1105
BseLI	CCNNNNNNNGG	1 cut(s)	436
BseMI	GCAATG	1 cut(s)	1172
BseMII	CTCAG	1 cut(s)	756
BseNI	ACTGG	2 cut(s)	498, 1040
BseRI	GAGGAG	2 cut(s)	81, 280
BseXI	GCAGC	7 cut(s)	219, 301, 307, 329, 381, 844, 894
BseYI	CCCAGC	3 cut(s)	219, 228, 310
BshFI	GGCC	5 cut(s)	41, 440, 599, 964, 1116
BshNI	GGYRCC	2 cut(s)	14, 23
BslFI	GGGAC	1 cut(s)	667
BslI	CCNNNNNNNGG	1 cut(s)	436
BsmAI	GTCTC	2 cut(s)	437, 484
BsmBI	CGTCTC	1 cut(s)	437
BsmFI	GGGAC	1 cut(s)	667
BsnI	GGCC	5 cut(s)	41, 440, 599, 964, 1116
Bsp143I	GATC	6 cut(s)	405, 557, 571, 583, 660, 799
Bsp19I	CCATGG	1 cut(s)	1155
BspACI	CCGC	6 cut(s)	285, 324, 366, 473, 515, 809
BspANI	GGCC	5 cut(s)	41, 440, 599, 964, 1116
BspCNI	CTCAG	1 cut(s)	757
BspHI	TCATGA	1 cut(s)	882
BspLI	GGNNCC	4 cut(s)	16, 25, 289, 752
BspMAI	CTGCAG	2 cut(s)	319, 727
BspMI	ACCTGC	1 cut(s)	716
BspOI	GCTAGC	1 cut(s)	1107
BspPI	GGATC	4 cut(s)	565, 566, 591, 794
BspQI	GCTCTTC	1 cut(s)	379
BspT107I	GGYRCC	2 cut(s)	14, 23
BsrDI	GCAATG	1 cut(s)	1172
BsrI	ACTGG	2 cut(s)	498, 1040
BssECI	CCNNGG	3 cut(s)	80, 1111, 1155
BssMI	GATC	6 cut(s)	405, 557, 571, 583, 660, 799
BssT1I	CCWWGG	3 cut(s)	80, 1111, 1155
Bst2UI	CCWGG	1 cut(s)	922
Bst4CI	ACNGT	7 cut(s)	394, 431, 455, 523, 851, 930, 1133
Bst6I	CTCTTC	2 cut(s)	379, 765
BstAPI	GCANNNNNTGC	2 cut(s)	838, 931
BstC8I	GCNNGC	3 cut(s)	212, 505, 1105
BstDEI	CTNAG	2 cut(s)	402, 765
BstDSI	CCRYGG	1 cut(s)	1155
BstF5I	GGATG	3 cut(s)	90, 415, 1105
BstH2I	RGCGCY	1 cut(s)	698
BstHHI	GCGC	4 cut(s)	472, 509, 697, 843
BstKTI	GATC	6 cut(s)	408, 560, 574, 586, 663, 802
BstMAI	GTCTC	2 cut(s)	437, 484
BstMBI	GATC	6 cut(s)	405, 557, 571, 583, 660, 799
BstMWI	GCNNNNNNNGC	9 cut(s)	220, 229, 320, 323, 515, 829, 838, 931, 1113
BstNI	CCWGG	1 cut(s)	922
BstSCI	CCNGG	1 cut(s)	920
BstSFI	CTRYAG	4 cut(s)	28, 315, 522, 723
BstV1I	GCAGC	7 cut(s)	219, 301, 307, 329, 381, 844, 894
BstV2I	GAAGAC	1 cut(s)	819
BstX2I	RGATCY	3 cut(s)	557, 571, 799
BstYI	RGATCY	3 cut(s)	557, 571, 799
BsuRI	GGCC	5 cut(s)	41, 440, 599, 964, 1116
BtgI	CCRYGG	1 cut(s)	1155
BtgZI	GCGATG	1 cut(s)	750
BtsCI	GGATG	3 cut(s)	90, 415, 1105
BtsIMutI	CAGTG	2 cut(s)	856, 1138
BveI	ACCTGC	1 cut(s)	716
Cac8I	GCNNGC	3 cut(s)	212, 505, 1105
CciI	TCATGA	1 cut(s)	882
CfoI	GCGC	4 cut(s)	472, 509, 697, 843
Cfr13I	GGNCC	1 cut(s)	1015
Csp6I	GTAC	2 cut(s)	192, 847
CspCI	CAANNNNNGTGG	2 cut(s)	832, 867
CviQI	GTAC	2 cut(s)	192, 847
DdeI	CTNAG	2 cut(s)	402, 765
DpnI	GATC	6 cut(s)	407, 559, 573, 585, 662, 801
DpnII	GATC	6 cut(s)	405, 557, 571, 583, 660, 799
DriI	GACNNNNNGTC	1 cut(s)	525
Eam1104I	CTCTTC	2 cut(s)	379, 765
Eam1105I	GACNNNNNGTC	1 cut(s)	525
EarI	CTCTTC	2 cut(s)	379, 765
Eco130I	CCWWGG	3 cut(s)	80, 1111, 1155
Eco147I	AGGCCT	1 cut(s)	599
Eco32I	GATATC	1 cut(s)	1162
Eco47I	GGWCC	1 cut(s)	1015
Eco47III	AGCGCT	1 cut(s)	696
Eco57I	CTGAAG	1 cut(s)	498
EcoRII	CCWGG	1 cut(s)	920
EcoRV	GATATC	1 cut(s)	1162
EcoT14I	CCWWGG	3 cut(s)	80, 1111, 1155
ErhI	CCWWGG	3 cut(s)	80, 1111, 1155
Esp3I	CGTCTC	1 cut(s)	437
FaqI	GGGAC	1 cut(s)	667
FauNDI	CATATG	1 cut(s)	153
FblI	GTMKAC	1 cut(s)	949
FokI	GGATG	3 cut(s)	97, 402, 1112
FspAI	RTGCGCAY	1 cut(s)	508
FspBI	CTAG	5 cut(s)	189, 279, 935, 989, 1104
FspI	TGCGCA	2 cut(s)	508, 842
GlaI	GCGC	4 cut(s)	471, 508, 696, 842
GsaI	CCCAGC	3 cut(s)	223, 232, 314
HaeII	RGCGCY	1 cut(s)	698
HaeIII	GGCC	5 cut(s)	41, 440, 599, 964, 1116
HhaI	GCGC	4 cut(s)	472, 509, 697, 843
Hin6I	GCGC	4 cut(s)	470, 507, 695, 841
HinP1I	GCGC	4 cut(s)	470, 507, 695, 841
HincII	GTYRAC	1 cut(s)	950
HindII	GTYRAC	1 cut(s)	950
HinfI	GANTC	9 cut(s)	157, 196, 551, 675, 680, 719, 946, 977, 1001
HphI	GGTGA	5 cut(s)	128, 419, 547, 578, 1105
Hpy166II	GTNNAC	1 cut(s)	950
Hpy188I	TCNGA	5 cut(s)	718, 766, 976, 1075, 1181
Hpy188III	TCNNGA	4 cut(s)	254, 555, 581, 883
Hpy8I	GTNNAC	1 cut(s)	950
HpyAV	CCTTC	5 cut(s)	149, 304, 308, 396, 655
HpyCH4III	ACNGT	7 cut(s)	394, 431, 455, 523, 851, 930, 1133
HpyCH4V	TGCA	5 cut(s)	173, 317, 725, 998, 1084
HpyF10VI	GCNNNNNNNGC	9 cut(s)	220, 229, 320, 323, 515, 829, 838, 931, 1113
HpyF3I	CTNAG	2 cut(s)	402, 765
HspAI	GCGC	4 cut(s)	470, 507, 695, 841
Kzo9I	GATC	6 cut(s)	405, 557, 571, 583, 660, 799
LguI	GCTCTTC	1 cut(s)	379
LmnI	GCTCC	2 cut(s)	293, 820
Lsp1109I	GCAGC	7 cut(s)	219, 301, 307, 329, 381, 844, 894
LweI	GCATC	4 cut(s)	81, 518, 600, 1090
MaeI	CTAG	5 cut(s)	189, 279, 935, 989, 1104
MalI	GATC	6 cut(s)	407, 559, 573, 585, 662, 801
MboI	GATC	6 cut(s)	405, 557, 571, 583, 660, 799
MflI	RGATCY	3 cut(s)	557, 571, 799
MluCI	AATT	2 cut(s)	686, 741
MlyI	GAGTC	3 cut(s)	190, 689, 955
MmeI	TCCRAC	1 cut(s)	267
MseI	TTAA	3 cut(s)	162, 783, 825
MspA1I	CMGCKG	3 cut(s)	232, 314, 320
MspR9I	CCNGG	1 cut(s)	922
MvaI	CCWGG	1 cut(s)	922
MwoI	GCNNNNNNNGC	9 cut(s)	220, 229, 320, 323, 515, 829, 838, 931, 1113
NcoI	CCATGG	1 cut(s)	1155
NdeI	CATATG	1 cut(s)	153
NdeII	GATC	6 cut(s)	405, 557, 571, 583, 660, 799
NheI	GCTAGC	1 cut(s)	1103
NlaIV	GGNNCC	4 cut(s)	16, 25, 289, 752
NsbI	TGCGCA	2 cut(s)	508, 842
PagI	TCATGA	1 cut(s)	882
PceI	AGGCCT	1 cut(s)	599
PciSI	GCTCTTC	1 cut(s)	379
PfeI	GAWTC	6 cut(s)	157, 551, 675, 719, 977, 1001
PflFI	GACNNNGTC	1 cut(s)	1133
PleI	GAGTC	3 cut(s)	190, 688, 954
PpsI	GAGTC	3 cut(s)	190, 688, 954
Psp6I	CCWGG	1 cut(s)	920
PspFI	CCCAGC	3 cut(s)	219, 228, 310
PspGI	CCWGG	1 cut(s)	920
PspN4I	GGNNCC	4 cut(s)	16, 25, 289, 752
PspPI	GGNCC	1 cut(s)	1015
PstI	CTGCAG	2 cut(s)	319, 727
PsuI	RGATCY	3 cut(s)	557, 571, 799
PsyI	GACNNNGTC	1 cut(s)	1133
PvuII	CAGCTG	3 cut(s)	232, 314, 320
RsaI	GTAC	2 cut(s)	193, 848
RsaNI	GTAC	2 cut(s)	192, 847
SalI	GTCGAC	1 cut(s)	948
SapI	GCTCTTC	1 cut(s)	379
SaqAI	TTAA	3 cut(s)	162, 783, 825
Sau3AI	GATC	6 cut(s)	405, 557, 571, 583, 660, 799
Sau96I	GGNCC	1 cut(s)	1015
SchI	GAGTC	3 cut(s)	190, 689, 955
ScrFI	CCNGG	1 cut(s)	922
SfaNI	GCATC	4 cut(s)	81, 518, 600, 1090
SfcI	CTRYAG	4 cut(s)	28, 315, 522, 723
SinI	GGWCC	1 cut(s)	1015
SpeI	ACTAGT	2 cut(s)	188, 278
Sse9I	AATT	2 cut(s)	686, 741
SseBI	AGGCCT	1 cut(s)	599
SsiI	CCGC	6 cut(s)	285, 324, 366, 473, 515, 809
SspMI	CTAG	5 cut(s)	189, 279, 935, 989, 1104
StuI	AGGCCT	1 cut(s)	599
StyD4I	CCNGG	1 cut(s)	920
StyI	CCWWGG	3 cut(s)	80, 1111, 1155
TaaI	ACNGT	7 cut(s)	394, 431, 455, 523, 851, 930, 1133
TaqI	TCGA	2 cut(s)	678, 949
TasI	AATT	2 cut(s)	686, 741
TatI	WGTACW	1 cut(s)	846
TauI	GCSGC	5 cut(s)	288, 326, 369, 475, 518
TfiI	GAWTC	6 cut(s)	157, 551, 675, 719, 977, 1001
Tru1I	TTAA	3 cut(s)	162, 783, 825
Tru9I	TTAA	3 cut(s)	162, 783, 825
TscAI	CASTG	2 cut(s)	856, 1138
TseI	GCWGC	7 cut(s)	232, 314, 317, 320, 369, 832, 907
TspDTI	ATGAA	8 cut(s)	131, 170, 325, 580, 784, 871, 899, 1030
TspGWI	ACGGA	2 cut(s)	228, 907
TspRI	CASTG	2 cut(s)	856, 1138
Tth111I	GACNNNGTC	1 cut(s)	1133
VpaK11BI	GGWCC	1 cut(s)	1015
XcmI	CCANNNNNNNNNTGG	1 cut(s)	278
XmiI	GTMKAC	1 cut(s)	949
XspI	CTAG	5 cut(s)	189, 279, 935, 989, 1104

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