Basic Information

Type: gene

Biological Identity

Species

arabidopsis_thaliana

Chromosome

Orthogroup ID

OG0007642

Physical Location & Seq

Genomic Coordinates Forward (+)

8735944 .. 8738601

Gene Structure 2658 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

AT5G25220.2

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1296 bp

ATGGCGTTTCATCACAATCATCTCTCACAAGACCTCTCCTTCAATCATTTCACCGACCAACACCAACCTCCACCTCCGCAACCGCCTCCTCCTCCTCCGCAACAGCAACAACATTTCCAAGAAGCACCGCCTCCTAATTGGTTAAACACAGCGCTTCTTCGTTCCTCAGATAACAACAATAACTTCCTCAACCTCCACACAGCCACCGCTAACACCACAACCGCAAGCAGCTCCGATTCTCCTTCCTCCGCCGCCGCCGCCGCCGCTGCTAACCAGTGGCTATCTCGCTCCTCCTCTTTCCTCCAACGAAACAACAACAACAACGCTTCCATAGTCGGAGATGGGATCGATGATGTCACCGGAGGAGCAGACACTATGATTCAGGGAGAGATGAAAACCGGCGGTGGAGAAAACAAAAACGACGGCGGAGGAGCTACGGCGGCGGATGGAGTAGTGAGCTGGCAGAATGCGAGACACAAGGCGGAGATCCTTTCGCATCCTCTTTACGAGCAGCTTTTGTCGGCGCACGTTGCTTGTTTGAGAATCGCGACTCCGGTTGATCAGCTTCCGAGAATCGATGCTCAGCTTGCTCAGTCTCAACACGTCGTCGCTAAATACTCAGCTTTAGGCGCCGCCGCTCAAGGTCTCGTCGGCGACGATAAAGAACTTGACCAGTTCATGACACATTATGTGTTGCTACTGTGTTCATTTAAAGAGCAATTGCAACAACATGTGCGTGTTCATGCAATGGAAGCTGTGATGGCTTGTTGGGAGATTGAGCAGTCTCTTCAAAGCTTAACAGGAGTGTCTCCTGGAGAAGGGATGGGAGCAACAATGTCTGACGATGAAGATGAACAAGTAGAGAGTGATGCTAATATGTTCGATGGGGGATTAGATGTGTTGGGTTTTGGTCCTTTGATTCCTACTGAGAGTGAGAGGTCGTTGATGGAAAGAGTTAGACAAGAACTTAAACATGAACTCAAACAGGGTTACAAGGAGAAGATAGTAGACATAAGAGAGGAGATATTAAGGAAGAGAAGAGCTGGGAAGTTACCAGGAGATACCACCTCTGTTCTCAAAGCTTGGTGGCAATCTCATTCCAAATGGCCTTACCCTACTGAGGAAGATAAGGCGAGGTTGGTGCAAGAGACAGGTTTGCAGCTAAAACAGATAAACAATTGGTTCATCAATCAGAGAAAGAGGAACTGGCATAGCAATCCATCTTCTTCCACTGTATTGAAGAACAAACGCAAAAGCAATGCAGGTGACAATAGCGGAAGAGAGCGGTTCGCGTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003700 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005737 GO:0005829 GO:0006355 GO:0008150 GO:0009314 GO:0009416 GO:0009593 GO:0009628 GO:0009719 GO:0009720 GO:0009722 GO:0009723 GO:0009725 GO:0009726 GO:0009727 GO:0009735 GO:0009889 GO:0009987 GO:0010033 GO:0010468 GO:0010556 GO:0019219 GO:0019222 GO:0031323 GO:0031326 GO:0032870 GO:0034097 GO:0042221 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044444 GO:0044464 GO:0050789 GO:0050794 GO:0050896 GO:0051171 GO:0051252 GO:0051606 GO:0051716 GO:0060255 GO:0065007 GO:0070887 GO:0071310 GO:0071345 GO:0071369 GO:0071495 GO:0080090 GO:0140110 GO:1903506 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

ELK Homeobox_KN KNOX1 KNOX2

Protein Analysis

431

Amino Acids

47.6

Weight (kDa)

5.86

Isoelectric Point (pI)

57.27

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
KNOX1	PF03790	160 - 200	1.2e-18	KNOX1 domain
KNOX2	PF03791	217 - 267	2.5e-19	KNOX2 domain
ELK	PF03789	322 - 343	7.2e-07	ELK domain
Homeobox_KN	PF05920	362 - 401	9.2e-19	Homeobox KN domain

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: OG0007642)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G11060 AT5G25220 AT5G25220
fragaria_vesca	FvH4_2g28300 FvH4_2g28300
malus_domestica	MD08G1153600.v1.1 MD15G1130800.v1.1
prunus_persica	Prupe.1G486200_v2.0.a1 Prupe.1G486200_v2.0.a1
pyrus_communis	pycom08g13300 pycom15g11790
rosa_chinensis	RchiOBHm_Chr6g0297211
rosa_laevigata	RLG00000011621
rosa_multiflora	Rmu_co8344329.1_g000001 Rmu_sc0013249.1_g000001 Rmu_sc0029393.1_g000001
rosa_roxburghii	Rroxscaffold_7G00170780
rosa_rugosa	Rorug06G0269900 Rorug06G0270000
rosa_samantha	Rh6AG381000 Rh6BG389200 Rh6CG394400 Rh6DG381100
rosa_wichuraiana	Rw6G033180

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	1253
Acc36I	ACCTGC	1 cut(s)	1253
AccB1I	GGYRCC	1 cut(s)	629
AccBSI	CCGCTC	2 cut(s)	638, 1285
AccI	GTMKAC	1 cut(s)	1008
AccII	CGCG	2 cut(s)	548, 1292
AclWI	GGATC	2 cut(s)	353, 481
AcyI	GRCGYC	1 cut(s)	630
AfeI	AGCGCT	1 cut(s)	153
AfiI	CCNNNNNNNGG	2 cut(s)	818, 1120
AflIII	ACRYGT	2 cut(s)	601, 730
AgsI	TTSAA	3 cut(s)	43, 791, 1240
AjiI	CACGTC	1 cut(s)	604
AjnI	CCWGG	2 cut(s)	811, 1054
Alw26I	GTCTC	6 cut(s)	466, 600, 650, 789, 813, 1142
AlwI	GGATC	2 cut(s)	353, 481
Aor51HI	AGCGCT	1 cut(s)	153
AoxI	GGCC	1 cut(s)	1106
ApeKI	GCWGC	4 cut(s)	228, 266, 511, 1159
AspLEI	GCGC	3 cut(s)	154, 526, 632
AspS9I	GGNCC	1 cut(s)	911
AsuHPI	GGTGA	3 cut(s)	43, 349, 1277
AvaII	GGWCC	1 cut(s)	911
BanI	GGYRCC	1 cut(s)	629
BbvI	GCAGC	4 cut(s)	240, 253, 523, 1171
BccI	CCATC	7 cut(s)	335, 440, 754, 817, 878, 940, 1228
BceAI	ACGGC	2 cut(s)	439, 453
BcgI	CGANNNNNNTGC	2 cut(s)	1123, 1157
BciT130I	CCWGG	2 cut(s)	813, 1056
BclI	TGATCA	1 cut(s)	559
BcoDI	GTCTC	6 cut(s)	466, 600, 650, 789, 813, 1142
BfoI	RGCGCY	2 cut(s)	155, 633
BfuAI	ACCTGC	1 cut(s)	1253
BlpI	GCTNAGC	1 cut(s)	582
Bme1390I	CCNGG	2 cut(s)	813, 1056
Bme18I	GGWCC	1 cut(s)	911
BmgBI	CACGTC	1 cut(s)	604
BmgT120I	GGNCC	1 cut(s)	911
BmiI	GGNNCC	1 cut(s)	631
BmrFI	CCNGG	2 cut(s)	813, 1056
BmsI	GCATC	3 cut(s)	505, 568, 859
BpmI	CTGGAG	1 cut(s)	834
Bpu1102I	GCTNAGC	1 cut(s)	582
BpuEI	CTTGAG	1 cut(s)	624
Bsa29I	ATCGAT	2 cut(s)	348, 576
BsaHI	GRCGYC	1 cut(s)	630
BsaI	GGTCTC	1 cut(s)	650
BsaWI	WCCGGW	2 cut(s)	359, 553
Bsc4I	CCNNNNNNNGG	2 cut(s)	818, 1120
Bse118I	RCCGGY	1 cut(s)	398
Bse1I	ACTGG	3 cut(s)	274, 673, 1211
Bse3DI	GCAATG	2 cut(s)	753, 1264
BseBI	CCWGG	2 cut(s)	813, 1056
BseCI	ATCGAT	2 cut(s)	348, 576
BseGI	GGATG	3 cut(s)	451, 496, 828
BseLI	CCNNNNNNNGG	2 cut(s)	818, 1120
BseMI	GCAATG	2 cut(s)	753, 1264
BseMII	CTCAG	6 cut(s)	180, 596, 605, 633, 918, 1110
BseNI	ACTGG	3 cut(s)	274, 673, 1211
BseRI	GAGGAG	8 cut(s)	78, 81, 84, 280, 283, 378, 444, 1034
BseXI	GCAGC	4 cut(s)	240, 253, 523, 1171
BseYI	CCCAGC	1 cut(s)	1043
Bsh1236I	CGCG	2 cut(s)	548, 1292
BshFI	GGCC	1 cut(s)	1108
BshNI	GGYRCC	1 cut(s)	629
BshVI	ATCGAT	2 cut(s)	348, 576
BsiSI	CCGG	3 cut(s)	360, 399, 554
BslI	CCNNNNNNNGG	2 cut(s)	818, 1120
BsmAI	GTCTC	6 cut(s)	466, 600, 650, 789, 813, 1142
BsmI	GAATGC	1 cut(s)	472
BsnI	GGCC	1 cut(s)	1108
Bso31I	GGTCTC	1 cut(s)	650
Bsp143I	GATC	3 cut(s)	345, 486, 559
Bsp1720I	GCTNAGC	1 cut(s)	582
Bsp68I	TCGCGA	1 cut(s)	548
BspANI	GGCC	1 cut(s)	1108
BspCNI	CTCAG	6 cut(s)	179, 595, 604, 632, 919, 1111
BspDI	ATCGAT	2 cut(s)	348, 576
BspFNI	CGCG	2 cut(s)	548, 1292
BspHI	TCATGA	1 cut(s)	678
BspLI	GGNNCC	1 cut(s)	631
BspMI	ACCTGC	1 cut(s)	1253
BspPI	GGATC	2 cut(s)	353, 481
BspQI	GCTCTTC	1 cut(s)	1033
BspT107I	GGYRCC	1 cut(s)	629
BspTNI	GGTCTC	1 cut(s)	650
BsrBI	CCGCTC	2 cut(s)	638, 1285
BsrDI	GCAATG	2 cut(s)	753, 1264
BsrFI	RCCGGY	1 cut(s)	398
BsrI	ACTGG	3 cut(s)	274, 673, 1211
BssAI	RCCGGY	1 cut(s)	398
BssMI	GATC	3 cut(s)	345, 486, 559
BssNI	GRCGYC	1 cut(s)	630
Bst2UI	CCWGG	2 cut(s)	813, 1056
Bst4CI	ACNGT	2 cut(s)	702, 1234
Bst6I	CTCTTC	4 cut(s)	792, 1028, 1033, 1273
BstACI	GRCGYC	1 cut(s)	630
BstC8I	GCNNGC	3 cut(s)	226, 461, 588
BstDEI	CTNAG	6 cut(s)	166, 582, 591, 619, 927, 1119
BstENI	CCTNNNNNAGG	1 cut(s)	816
BstF5I	GGATG	3 cut(s)	451, 496, 828
BstFNI	CGCG	2 cut(s)	548, 1292
BstH2I	RGCGCY	2 cut(s)	155, 633
BstHHI	GCGC	3 cut(s)	154, 526, 632
BstKTI	GATC	3 cut(s)	348, 489, 562
BstMAI	GTCTC	6 cut(s)	466, 600, 650, 789, 813, 1142
BstMBI	GATC	3 cut(s)	345, 486, 559
BstNI	CCWGG	2 cut(s)	813, 1056
BstNSI	RCATGY	1 cut(s)	734
BstSCI	CCNGG	2 cut(s)	811, 1054
BstUI	CGCG	2 cut(s)	548, 1292
BstV1I	GCAGC	4 cut(s)	240, 253, 523, 1171
BstX2I	RGATCY	1 cut(s)	486
BstYI	RGATCY	1 cut(s)	486
Bsu15I	ATCGAT	2 cut(s)	348, 576
BsuRI	GGCC	1 cut(s)	1108
BsuTUI	ATCGAT	2 cut(s)	348, 576
BtrI	CACGTC	1 cut(s)	604
BtsCI	GGATG	3 cut(s)	451, 496, 828
BtsIMutI	CAGTG	2 cut(s)	281, 1230
BtuMI	TCGCGA	1 cut(s)	548
BveI	ACCTGC	1 cut(s)	1253
Cac8I	GCNNGC	3 cut(s)	226, 461, 588
CciI	TCATGA	1 cut(s)	678
CfoI	GCGC	3 cut(s)	154, 526, 632
Cfr10I	RCCGGY	1 cut(s)	398
Cfr13I	GGNCC	1 cut(s)	911
ClaI	ATCGAT	2 cut(s)	348, 576
CviAII	CATG	4 cut(s)	679, 731, 743, 974
DdeI	CTNAG	6 cut(s)	166, 582, 591, 619, 927, 1119
DinI	GGCGCC	1 cut(s)	631
DpnI	GATC	3 cut(s)	347, 488, 561
DpnII	GATC	3 cut(s)	345, 486, 559
DraI	TTTAAA	1 cut(s)	712
Eam1104I	CTCTTC	4 cut(s)	792, 1028, 1033, 1273
EarI	CTCTTC	4 cut(s)	792, 1028, 1033, 1273
EciI	GGCGGA	4 cut(s)	238, 441, 458, 497
Eco31I	GGTCTC	1 cut(s)	650
Eco47I	GGWCC	1 cut(s)	911
Eco47III	AGCGCT	1 cut(s)	153
EcoNI	CCTNNNNNAGG	1 cut(s)	816
EcoRII	CCWGG	2 cut(s)	811, 1054
EgeI	GGCGCC	1 cut(s)	631
EheI	GGCGCC	1 cut(s)	631
FaeI	CATG	4 cut(s)	682, 734, 746, 977
FatI	CATG	4 cut(s)	678, 730, 742, 973
FbaI	TGATCA	1 cut(s)	559
FblI	GTMKAC	1 cut(s)	1008
FokI	GGATG	3 cut(s)	458, 483, 835
GlaI	GCGC	3 cut(s)	153, 525, 631
GsaI	CCCAGC	1 cut(s)	1047
GsuI	CTGGAG	1 cut(s)	834
HaeII	RGCGCY	2 cut(s)	155, 633
HaeIII	GGCC	1 cut(s)	1108
HapII	CCGG	3 cut(s)	360, 399, 554
HhaI	GCGC	3 cut(s)	154, 526, 632
Hin1I	GRCGYC	1 cut(s)	630
Hin1II	CATG	4 cut(s)	682, 734, 746, 977
Hin6I	GCGC	3 cut(s)	152, 524, 630
HinP1I	GCGC	3 cut(s)	152, 524, 630
HindIII	AAGCTT	2 cut(s)	793, 1080
HinfI	GANTC	6 cut(s)	236, 379, 543, 550, 573, 919
HpaII	CCGG	3 cut(s)	360, 399, 554
HphI	GGTGA	3 cut(s)	43, 349, 1277
Hpy166II	GTNNAC	1 cut(s)	1009
Hpy188I	TCNGA	6 cut(s)	169, 235, 338, 570, 841, 1194
Hpy188III	TCNNGA	2 cut(s)	547, 679
Hpy8I	GTNNAC	1 cut(s)	1009
Hpy99I	CGWCG	5 cut(s)	425, 608, 611, 653, 659
HpyAV	CCTTC	3 cut(s)	49, 252, 812
HpyCH4III	ACNGT	2 cut(s)	702, 1234
HpyCH4IV	ACGT	2 cut(s)	528, 603
HpyCH4V	TGCA	5 cut(s)	724, 746, 1144, 1159, 1262
HpyF3I	CTNAG	6 cut(s)	166, 582, 591, 619, 927, 1119
HpySE526I	ACGT	2 cut(s)	528, 603
Hsp92I	GRCGYC	1 cut(s)	630
Hsp92II	CATG	4 cut(s)	682, 734, 746, 977
HspAI	GCGC	3 cut(s)	152, 524, 630
KasI	GGCGCC	1 cut(s)	629
Ksp22I	TGATCA	1 cut(s)	559
Kzo9I	GATC	3 cut(s)	345, 486, 559
LguI	GCTCTTC	1 cut(s)	1033
LmnI	GCTCC	5 cut(s)	236, 293, 365, 431, 827
Lsp1109I	GCAGC	4 cut(s)	240, 253, 523, 1171
LweI	GCATC	3 cut(s)	505, 568, 859
MaeII	ACGT	2 cut(s)	528, 603
MaeIII	GTNAC	4 cut(s)	355, 989, 1050, 1265
MalI	GATC	3 cut(s)	347, 488, 561
MbiI	CCGCTC	2 cut(s)	638, 1285
MboI	GATC	3 cut(s)	345, 486, 559
MfeI	CAATTG	2 cut(s)	719, 1177
MflI	RGATCY	1 cut(s)	486
MluCI	AATT	3 cut(s)	136, 719, 1177
Mly113I	GGCGCC	1 cut(s)	630
MlyI	GAGTC	1 cut(s)	544
MmeI	TCCRAC	2 cut(s)	316, 328
MseI	TTAA	5 cut(s)	143, 711, 797, 969, 1028
MslI	CAYNNNNRTG	1 cut(s)	735
MspA1I	CMGCKG	1 cut(s)	266
MspI	CCGG	3 cut(s)	360, 399, 554
MspR9I	CCNGG	2 cut(s)	813, 1056
MunI	CAATTG	2 cut(s)	719, 1177
Mva1269I	GAATGC	1 cut(s)	472
MvaI	CCWGG	2 cut(s)	813, 1056
MvnI	CGCG	2 cut(s)	548, 1292
NarI	GGCGCC	1 cut(s)	630
NdeII	GATC	3 cut(s)	345, 486, 559
NlaIII	CATG	4 cut(s)	682, 734, 746, 977
NlaIV	GGNNCC	1 cut(s)	631
NmuCI	GTSAC	2 cut(s)	355, 1265
NruI	TCGCGA	1 cut(s)	548
NspI	RCATGY	1 cut(s)	734
PagI	TCATGA	1 cut(s)	678
PaqCI	CACCTGC	1 cut(s)	1253
PciI	ACATGT	1 cut(s)	730
PciSI	GCTCTTC	1 cut(s)	1033
PcsI	WCGNNNNNNNCGW	1 cut(s)	654
PctI	GAATGC	1 cut(s)	472
PfeI	GAWTC	5 cut(s)	236, 379, 543, 573, 919
PfoI	TCCNGGA	1 cut(s)	811
PleI	GAGTC	1 cut(s)	544
PluTI	GGCGCC	1 cut(s)	633
PpsI	GAGTC	1 cut(s)	544
PscI	ACATGT	1 cut(s)	730
Psp6I	CCWGG	2 cut(s)	811, 1054
PspFI	CCCAGC	1 cut(s)	1043
PspGI	CCWGG	2 cut(s)	811, 1054
PspN4I	GGNNCC	1 cut(s)	631
PspPI	GGNCC	1 cut(s)	911
PsuI	RGATCY	1 cut(s)	486
RruI	TCGCGA	1 cut(s)	548
RseI	CAYNNNNRTG	1 cut(s)	735
SapI	GCTCTTC	1 cut(s)	1033
SaqAI	TTAA	5 cut(s)	143, 711, 797, 969, 1028
Sau3AI	GATC	3 cut(s)	345, 486, 559
Sau96I	GGNCC	1 cut(s)	911
SchI	GAGTC	1 cut(s)	544
ScrFI	CCNGG	2 cut(s)	813, 1056
SfaNI	GCATC	3 cut(s)	505, 568, 859
SfoI	GGCGCC	1 cut(s)	631
SinI	GGWCC	1 cut(s)	911
SmiMI	CAYNNNNRTG	1 cut(s)	735
SmlI	CTYRAG	1 cut(s)	639
SmoI	CTYRAG	1 cut(s)	639
Sse9I	AATT	3 cut(s)	136, 719, 1177
SspDI	GGCGCC	1 cut(s)	629
StyD4I	CCNGG	2 cut(s)	811, 1054
TaaI	ACNGT	2 cut(s)	702, 1234
TaiI	ACGT	2 cut(s)	531, 606
TaqI	TCGA	3 cut(s)	348, 576, 882
TasI	AATT	3 cut(s)	136, 719, 1177
TauI	GCSGC	8 cut(s)	254, 257, 260, 263, 266, 443, 635, 638
TfiI	GAWTC	5 cut(s)	236, 379, 543, 573, 919
Tru1I	TTAA	5 cut(s)	143, 711, 797, 969, 1028
Tru9I	TTAA	5 cut(s)	143, 711, 797, 969, 1028
TscAI	CASTG	2 cut(s)	281, 1237
TseFI	GTSAC	2 cut(s)	355, 1265
TseI	GCWGC	4 cut(s)	228, 266, 511, 1159
Tsp45I	GTSAC	2 cut(s)	355, 1265
TspDTI	ATGAA	8 cut(s)	407, 667, 696, 731, 861, 867, 990, 1174
TspRI	CASTG	2 cut(s)	281, 1237
VpaK11BI	GGWCC	1 cut(s)	911
XagI	CCTNNNNNAGG	1 cut(s)	816
XceI	RCATGY	1 cut(s)	734
XmiI	GTMKAC	1 cut(s)	1008

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