Basic Information

Type: gene

Biological Identity

Species

arabidopsis_thaliana

Chromosome

Orthogroup ID

OG0002443

Physical Location & Seq

Genomic Coordinates Forward (+)

9396272 .. 9397766

Gene Structure 1495 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

AT3G25730.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1002 bp

ATGGATGCCATGAGTAGCGTAGACGAGAGCTCTACAACTACAGATTCCATTCCGGCGAGAAAGTCATCGTCTCCGGCGAGTTTACTATATAGAATGGGAAGCGGAACAAGCGTGGTACTTGATTCAGAGAACGGTGTCGAAGTCGAAGTCGAAGCCGAATCAAGAAAGCTTCCTTCTTCAAGATTCAAAGGTGTTGTTCCTCAACCAAATGGAAGATGGGGAGCTCAGATTTACGAGAAACATCAACGCGTGTGGCTTGGTACTTTCAACGAGGAAGACGAAGCAGCTCGTGCTTACGACGTCGCGGCTCACCGTTTCCGTGGCCGCGATGCCGTTACTAATTTCAAAGACACGACGTTCGAAGAAGAGGTTGAGTTCTTAAACGCGCATTCGAAATCAGAGATCGTAGATATGTTGAGAAAACACACTTACAAAGAAGAGTTAGACCAAAGGAAACGTAACCGTGACGGTAACGGAAAAGAGACGACGGCGTTTGCTTTGGCTTCGATGGTGGTTATGACGGGGTTTAAAACGGCGGAGTTACTGTTTGAGAAAACGGTAACGCCAAGTGACGTCGGGAAACTAAACCGTTTAGTTATACCAAAACACCAAGCGGAGAAACATTTTCCGTTACCGTTAGGTAATAATAACGTCTCCGTTAAAGGTATGCTGTTGAATTTCGAAGACGTTAACGGGAAAGTGTGGAGGTTCCGTTACTCTTATTGGAATAGTAGTCAAAGTTATGTGTTGACCAAAGGTTGGAGTAGATTCGTTAAAGAGAAGAGACTTTGTGCTGGTGATTTGATCAGTTTTAAAAGATCCAACGATCAAGATCAAAAATTCTTTATCGGGTGGAAATCGAAATCCGGGTTGGATCTAGAGACGGGTCGGGTTATGAGATTGTTTGGGGTTGATATTTCTTTAAACGCCGTCGTTGTAGTGAAGGAAACAACGGAGGTGTTAATGTCGTCGTTAAGGTGTAAGAAGCAACGAGTTTTGTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0001067 GO:0003006 GO:0003674 GO:0003676 GO:0003677 GO:0003700 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006355 GO:0007275 GO:0008150 GO:0009314 GO:0009416 GO:0009628 GO:0009648 GO:0009719 GO:0009725 GO:0009741 GO:0009791 GO:0009889 GO:0009890 GO:0009892 GO:0009909 GO:0009910 GO:0010033 GO:0010228 GO:0010468 GO:0010556 GO:0010558 GO:0010605 GO:0010629 GO:0014070 GO:0019219 GO:0019222 GO:0022414 GO:0022622 GO:0031323 GO:0031324 GO:0031326 GO:0031327 GO:0032501 GO:0032502 GO:0033993 GO:0042221 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043565 GO:0044212 GO:0044424 GO:0044464 GO:0045892 GO:0045934 GO:0048364 GO:0048366 GO:0048367 GO:0048519 GO:0048523 GO:0048527 GO:0048528 GO:0048573 GO:0048580 GO:0048581 GO:0048608 GO:0048731 GO:0048827 GO:0048831 GO:0048856 GO:0050789 GO:0050793 GO:0050794 GO:0050896 GO:0051093 GO:0051171 GO:0051172 GO:0051239 GO:0051241 GO:0051252 GO:0051253 GO:0060255 GO:0061458 GO:0065007 GO:0080090 GO:0090696 GO:0097159 GO:0099402 GO:0140110 GO:1901363 GO:1901700 GO:1902679 GO:1903506 GO:1903507 GO:2000026 GO:2000112 GO:2000113 GO:2000241 GO:2000242 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

AP2 B3

Protein Analysis

333

Amino Acids

37.76

Weight (kDa)

9.21

Isoelectric Point (pI)

33.32

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
AP2	PF00847	60 - 108	1.2e-08	AP2 domain
B3	PF02362	183 - 288	1.8e-26	B3 DNA binding 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: OG0002443)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G13260 AT1G25560 AT1G68840 AT1G68840 AT3G25730
fragaria_vesca	FvH4_4g28030 FvH4_6g45390
malus_domestica	MD09G1070900.v1.1 MD09G1083900.v1.1 MD09G1084000.v1.1 MD09G1084100.v1.1 MD09G1088400.v1.1 MD13G1046100.v1.1 MD16G1047700.v1.1 MD17G1073700.v1.1 MD17G1073800.v1.1
prunus_persica	Prupe.1G305900_v2.0.a1 Prupe.3G240000_v2.0.a1
pyrus_communis	pycom09g01430 pycom16g04170
rosa_chinensis	RchiOBHm_Chr2g0163201 RchiOBHm_Chr4g0435771
rosa_laevigata	RLG00000006560 RLG00000021381
rosa_multiflora	Rmu_sc0002045.1_g000037 Rmu_ssc0000471.1_g000001
rosa_roxburghii	Rroxscaffold_2G00087470 Rroxscaffold_5G00376950
rosa_rugosa	Rorug02G0501100 Rorug02G0501200 Rorug04G0289500
rosa_samantha	Rh2AG567700 Rh2BG579800 Rh2CG549700 Rh2DG590100 Rh4AG343800 Rh4BG352500 Rh4CG367000 Rh4DG346400
rosa_wichuraiana	Rw2G047000 Rw4G030020

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AatII	GACGTC	2 cut(s)	303, 576
AccB7I	CCANNNNNTGG	1 cut(s)	759
AccI	GTMKAC	1 cut(s)	21
AccII	CGCG	4 cut(s)	249, 305, 327, 386
AciI	CCGC	5 cut(s)	102, 305, 325, 536, 614
AclWI	GGATC	2 cut(s)	813, 882
AcoI	YGGCCR	1 cut(s)	322
AcsI	RAATTY	2 cut(s)	676, 839
AcyI	GRCGYC	2 cut(s)	300, 573
AfaI	GTAC	2 cut(s)	117, 262
AfiI	CCNNNNNNNGG	1 cut(s)	759
AflIII	ACRYGT	1 cut(s)	247
AgsI	TTSAA	5 cut(s)	180, 187, 268, 346, 676
AjuI	GAANNNNNNNTTGG	2 cut(s)	854, 886
AluBI	AGCT	4 cut(s)	30, 169, 224, 287
AluI	AGCT	4 cut(s)	30, 169, 224, 287
Alw21I	GWGCWC	2 cut(s)	32, 226
Alw26I	GTCTC	5 cut(s)	75, 476, 658, 778, 875
AlwI	GGATC	2 cut(s)	813, 882
AoxI	GGCC	1 cut(s)	322
ApeKI	GCWGC	1 cut(s)	284
ApoI	RAATTY	2 cut(s)	676, 839
ArsI	GACNNNNNNTTYG	4 cut(s)	132, 164, 341, 373
AspLEI	GCGC	1 cut(s)	388
AsuC2I	CCSGG	1 cut(s)	868
AsuHPI	GGTGA	2 cut(s)	302, 809
AsuII	TTCGAA	3 cut(s)	360, 392, 681
BanII	GRGCYC	2 cut(s)	32, 226
BauI	CACGAG	1 cut(s)	288
BbsI	GAAGAC	2 cut(s)	282, 690
Bbv12I	GWGCWC	2 cut(s)	32, 226
BbvI	GCAGC	1 cut(s)	296
BccI	CCATC	2 cut(s)	210, 502
BceAI	ACGGC	4 cut(s)	317, 504, 549, 914
BclI	TGATCA	1 cut(s)	804
BcnI	CCSGG	1 cut(s)	868
BcoDI	GTCTC	5 cut(s)	75, 476, 658, 778, 875
BfaI	CTAG	1 cut(s)	878
BfmI	CTRYAG	1 cut(s)	39
BisI	GCNGC	3 cut(s)	285, 306, 325
BlsI	GCNGC	3 cut(s)	286, 307, 326
Bme1390I	CCNGG	1 cut(s)	868
BmiI	GGNNCC	1 cut(s)	710
BmrFI	CCNGG	1 cut(s)	868
BmsI	GCATC	1 cut(s)	319
BpiI	GAAGAC	2 cut(s)	282, 690
Bpu14I	TTCGAA	3 cut(s)	360, 392, 681
BpuMI	CCSGG	1 cut(s)	868
BsaBI	GATNNNNATC	1 cut(s)	831
BsaHI	GRCGYC	2 cut(s)	300, 573
BsaJI	CCNNGG	1 cut(s)	319
BsaXI	ACNNNNNCTCC	4 cut(s)	530, 560, 697, 727
Bsc4I	CCNNNNNNNGG	1 cut(s)	759
Bse8I	GATNNNNATC	1 cut(s)	831
BseDI	CCNNGG	1 cut(s)	319
BseGI	GGATG	1 cut(s)	10
BseJI	GATNNNNATC	1 cut(s)	831
BseLI	CCNNNNNNNGG	1 cut(s)	759
BseMII	CTCAG	1 cut(s)	239
BseXI	GCAGC	1 cut(s)	296
Bsh1236I	CGCG	4 cut(s)	249, 305, 327, 386
BshFI	GGCC	1 cut(s)	324
BsiHKAI	GWGCWC	2 cut(s)	32, 226
BsiSI	CCGG	3 cut(s)	53, 74, 867
BslI	CCNNNNNNNGG	1 cut(s)	759
BsmAI	GTCTC	5 cut(s)	75, 476, 658, 778, 875
BsmBI	CGTCTC	4 cut(s)	75, 476, 658, 875
BsmI	GAATGC	1 cut(s)	388
BsnI	GGCC	1 cut(s)	324
Bsp119I	TTCGAA	3 cut(s)	360, 392, 681
Bsp1286I	GDGCHC	2 cut(s)	32, 226
Bsp143I	GATC	6 cut(s)	402, 804, 818, 826, 832, 874
BspACI	CCGC	5 cut(s)	102, 305, 325, 536, 614
BspANI	GGCC	1 cut(s)	324
BspCNI	CTCAG	1 cut(s)	238
BspFNI	CGCG	4 cut(s)	249, 305, 327, 386
BspLI	GGNNCC	1 cut(s)	710
BspPI	GGATC	2 cut(s)	813, 882
BspT104I	TTCGAA	3 cut(s)	360, 392, 681
BssECI	CCNNGG	1 cut(s)	319
BssMI	GATC	6 cut(s)	402, 804, 818, 826, 832, 874
BssNI	GRCGYC	2 cut(s)	300, 573
BssSI	CACGAG	1 cut(s)	288
Bst2BI	CACGAG	1 cut(s)	288
Bst4CI	ACNGT	8 cut(s)	134, 314, 464, 470, 546, 559, 590, 636
Bst6I	CTCTTC	3 cut(s)	360, 432, 776
BstACI	GRCGYC	2 cut(s)	300, 573
BstAPI	GCANNNNNTGC	1 cut(s)	290
BstBI	TTCGAA	3 cut(s)	360, 392, 681
BstDEI	CTNAG	1 cut(s)	225
BstDSI	CCRYGG	1 cut(s)	319
BstF5I	GGATG	1 cut(s)	10
BstFNI	CGCG	4 cut(s)	249, 305, 327, 386
BstHHI	GCGC	1 cut(s)	388
BstKTI	GATC	6 cut(s)	405, 807, 821, 829, 835, 877
BstMAI	GTCTC	5 cut(s)	75, 476, 658, 778, 875
BstMBI	GATC	6 cut(s)	402, 804, 818, 826, 832, 874
BstMWI	GCNNNNNNNGC	2 cut(s)	108, 290
BstSCI	CCNGG	1 cut(s)	866
BstSFI	CTRYAG	1 cut(s)	39
BstUI	CGCG	4 cut(s)	249, 305, 327, 386
BstV1I	GCAGC	1 cut(s)	296
BstV2I	GAAGAC	2 cut(s)	282, 690
BstX2I	RGATCY	2 cut(s)	818, 874
BstYI	RGATCY	2 cut(s)	818, 874
BsuRI	GGCC	1 cut(s)	324
BtgI	CCRYGG	1 cut(s)	319
BtgZI	GCGATG	1 cut(s)	342
BtsCI	GGATG	1 cut(s)	10
CfoI	GCGC	1 cut(s)	388
Csp6I	GTAC	2 cut(s)	116, 261
CspCI	CAANNNNNGTGG	2 cut(s)	233, 268
CviAII	CATG	1 cut(s)	10
CviJI	RGCY	9 cut(s)	30, 155, 169, 224, 256, 287, 308, 324, 503
CviKI_1	RGCY	9 cut(s)	30, 155, 169, 224, 256, 287, 308, 324, 503
CviQI	GTAC	2 cut(s)	116, 261
DdeI	CTNAG	1 cut(s)	225
DpnI	GATC	6 cut(s)	404, 806, 820, 828, 834, 876
DpnII	GATC	6 cut(s)	402, 804, 818, 826, 832, 874
DraI	TTTAAA	3 cut(s)	529, 814, 924
EaeI	YGGCCR	1 cut(s)	322
Eam1104I	CTCTTC	3 cut(s)	360, 432, 776
EarI	CTCTTC	3 cut(s)	360, 432, 776
EciI	GGCGGA	1 cut(s)	551
Ecl136II	GAGCTC	2 cut(s)	30, 224
Eco24I	GRGCYC	2 cut(s)	32, 226
Eco53kI	GAGCTC	2 cut(s)	30, 224
EcoICRI	GAGCTC	2 cut(s)	30, 224
EcoT38I	GRGCYC	2 cut(s)	32, 226
Esp3I	CGTCTC	4 cut(s)	75, 476, 658, 875
FaeI	CATG	1 cut(s)	13
FaiI	YATR	9 cut(s)	11, 88, 90, 413, 518, 599, 668, 744, 896
FatI	CATG	1 cut(s)	9
FbaI	TGATCA	1 cut(s)	804
FblI	GTMKAC	1 cut(s)	21
Fnu4HI	GCNGC	3 cut(s)	285, 306, 325
FokI	GGATG	1 cut(s)	17
FriOI	GRGCYC	2 cut(s)	32, 226
Fsp4HI	GCNGC	3 cut(s)	285, 306, 325
FspBI	CTAG	1 cut(s)	878
GlaI	GCGC	1 cut(s)	387
GluI	GCNGC	3 cut(s)	285, 306, 325
HaeIII	GGCC	1 cut(s)	324
HapII	CCGG	3 cut(s)	53, 74, 867
HhaI	GCGC	1 cut(s)	388
Hin1I	GRCGYC	2 cut(s)	300, 573
Hin1II	CATG	1 cut(s)	13
Hin6I	GCGC	1 cut(s)	386
HinP1I	GCGC	1 cut(s)	386
HincII	GTYRAC	2 cut(s)	691, 750
HindII	GTYRAC	2 cut(s)	691, 750
HindIII	AAGCTT	1 cut(s)	167
HinfI	GANTC	5 cut(s)	44, 122, 158, 183, 768
HpaI	GTTAAC	1 cut(s)	691
HpaII	CCGG	3 cut(s)	53, 74, 867
HphI	GGTGA	2 cut(s)	302, 809
Hpy166II	GTNNAC	4 cut(s)	22, 83, 691, 750
Hpy188I	TCNGA	3 cut(s)	127, 228, 400
Hpy188III	TCNNGA	5 cut(s)	162, 180, 577, 830, 878
Hpy8I	GTNNAC	4 cut(s)	22, 83, 691, 750
Hpy99I	CGWCG	7 cut(s)	302, 305, 358, 490, 578, 935, 973
HpyAV	CCTTC	2 cut(s)	183, 937
HpyCH4III	ACNGT	8 cut(s)	134, 314, 464, 470, 546, 559, 590, 636
HpyCH4IV	ACGT	6 cut(s)	300, 356, 457, 573, 651, 687
HpyF10VI	GCNNNNNNNGC	2 cut(s)	108, 290
HpyF3I	CTNAG	1 cut(s)	225
HpySE526I	ACGT	6 cut(s)	300, 356, 457, 573, 651, 687
Hsp92I	GRCGYC	2 cut(s)	300, 573
Hsp92II	CATG	1 cut(s)	13
HspAI	GCGC	1 cut(s)	386
Ksp22I	TGATCA	1 cut(s)	804
KspAI	GTTAAC	1 cut(s)	691
Kzo9I	GATC	6 cut(s)	402, 804, 818, 826, 832, 874
LmnI	GCTCC	1 cut(s)	221
LpnPI	CCDG	4 cut(s)	66, 87, 780, 880
Lsp1109I	GCAGC	1 cut(s)	296
LweI	GCATC	1 cut(s)	319
MaeI	CTAG	1 cut(s)	878
MaeII	ACGT	6 cut(s)	300, 356, 457, 573, 651, 687
MaeIII	GTNAC	9 cut(s)	334, 458, 464, 470, 540, 559, 569, 630, 713
MalI	GATC	6 cut(s)	404, 806, 820, 828, 834, 876
MboI	GATC	6 cut(s)	402, 804, 818, 826, 832, 874
MboII	GAAGA	8 cut(s)	168, 225, 287, 374, 377, 449, 695, 793
MflI	RGATCY	2 cut(s)	818, 874
MhlI	GDGCHC	2 cut(s)	32, 226
MluCI	AATT	3 cut(s)	340, 676, 839
MluI	ACGCGT	1 cut(s)	247
MmeI	TCCRAC	3 cut(s)	740, 846, 852
MnlI	CCTC	5 cut(s)	210, 265, 361, 699, 949
MseI	TTAA	9 cut(s)	380, 528, 660, 690, 774, 813, 923, 962, 974
MspI	CCGG	3 cut(s)	53, 74, 867
MspR9I	CCNGG	1 cut(s)	868
Mva1269I	GAATGC	1 cut(s)	388
MvnI	CGCG	4 cut(s)	249, 305, 327, 386
MwoI	GCNNNNNNNGC	2 cut(s)	108, 290
NciI	CCSGG	1 cut(s)	868
NdeII	GATC	6 cut(s)	402, 804, 818, 826, 832, 874
NlaIII	CATG	1 cut(s)	13
NlaIV	GGNNCC	1 cut(s)	710
NmuCI	GTSAC	2 cut(s)	464, 569
NspV	TTCGAA	3 cut(s)	360, 392, 681
PcsI	WCGNNNNNNNCGW	2 cut(s)	74, 276
PctI	GAATGC	1 cut(s)	388
PfeI	GAWTC	5 cut(s)	44, 122, 158, 183, 768
PflMI	CCANNNNNTGG	1 cut(s)	759
PkrI	GCNGC	3 cut(s)	286, 307, 326
Psp124BI	GAGCTC	2 cut(s)	32, 226
PspN4I	GGNNCC	1 cut(s)	710
PsuI	RGATCY	2 cut(s)	818, 874
RsaI	GTAC	2 cut(s)	117, 262
RsaNI	GTAC	2 cut(s)	116, 261
SacI	GAGCTC	2 cut(s)	32, 226
SaqAI	TTAA	9 cut(s)	380, 528, 660, 690, 774, 813, 923, 962, 974
SatI	GCNGC	3 cut(s)	285, 306, 325
Sau3AI	GATC	6 cut(s)	402, 804, 818, 826, 832, 874
ScrFI	CCNGG	1 cut(s)	868
SduI	GDGCHC	2 cut(s)	32, 226
SfaNI	GCATC	1 cut(s)	319
SfcI	CTRYAG	1 cut(s)	39
SfuI	TTCGAA	3 cut(s)	360, 392, 681
Sse9I	AATT	3 cut(s)	340, 676, 839
SsiI	CCGC	5 cut(s)	102, 305, 325, 536, 614
SspMI	CTAG	1 cut(s)	878
SstI	GAGCTC	2 cut(s)	32, 226
StyD4I	CCNGG	1 cut(s)	866
TaaI	ACNGT	8 cut(s)	134, 314, 464, 470, 546, 559, 590, 636
TaiI	ACGT	6 cut(s)	303, 359, 460, 576, 654, 690
TaqI	TCGA	8 cut(s)	138, 144, 150, 360, 392, 506, 681, 860
TasI	AATT	3 cut(s)	340, 676, 839
TauI	GCSGC	2 cut(s)	308, 327
TfiI	GAWTC	5 cut(s)	44, 122, 158, 183, 768
Tru1I	TTAA	9 cut(s)	380, 528, 660, 690, 774, 813, 923, 962, 974
Tru9I	TTAA	9 cut(s)	380, 528, 660, 690, 774, 813, 923, 962, 974
TseFI	GTSAC	2 cut(s)	464, 569
TseI	GCWGC	1 cut(s)	284
Tsp45I	GTSAC	2 cut(s)	464, 569
TspGWI	ACGGA	6 cut(s)	308, 489, 618, 646, 701, 968
Van91I	CCANNNNNTGG	1 cut(s)	759
XapI	RAATTY	2 cut(s)	676, 839
XbaI	TCTAGA	1 cut(s)	877
XcmI	CCANNNNNNNNNTGG	1 cut(s)	213
XmiI	GTMKAC	1 cut(s)	21
XspI	CTAG	1 cut(s)	878
ZraI	GACGTC	2 cut(s)	301, 574

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