Basic Information

Type: gene

Biological Identity

Species

arabidopsis_thaliana

Chromosome

Orthogroup ID

OG0004308

Physical Location & Seq

Genomic Coordinates Forward (+)

5847312 .. 5849763

Gene Structure 2452 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

AT4G09180.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 789 bp

ATGCAACCAACATCCGTCGGTAGTAGCGGCGGTGGTGACGACGGAGGAGGCAGAGGAGGAGGAGGAGGGCTAAGTAGAAGTGGACTATCTCGGATCCGTTCAGCTCCAGCGACTTGGCTTGAAGCTTTACTTGAGGAAGATGAAGAAGAGTCTTTGAAACCTAATCTTGGTCTCACCGATTTGCTTACCGGGAACTCGAACGATTTACCGACAAGTCGCGGCTCGTTCGAGTTCCCGATTCCTGTTGAGCAAGGGTTGTATCAACAAGGTGGGTTTCACCGACAGAATAGTACTCCGGCGGATTTTCTTAGTGGTTCTGATGGATTTATCCAAAGCTTTGGGATTCAGGCGAATTACGATTACTTATCGGGGAATATCGATGTTTCTCCGGGAAGTAAGCGGTCTAGAGAAATGGAAGCACTCTTCTCTTCTCCTGAGTTTACTTCTCAAATGAAAGGAGAGCAAAGCAGCGGTCAAGTTCCTACCGGAGTATCAAGCATGTCGGATATGAACATGGAGAACCTTATGGAGGACTCTGTTGCTTTTAGGGTTCGGGCTAAACGTGGTTGCGCAACTCATCCCCGCAGCATTGCCGAGAGGGTACGAAGGACGCGGATTAGTGATCGGATAAGGAAGCTACAAGAGCTTGTACCTAACATGGACAAGCAAACCAACACTGCAGACATGTTAGAAGAAGCAGTAGAATACGTGAAAGTTCTTCAAAGGCAGATCCAGGAGTTAACAGAAGAACAGAAGAGGTGCACATGCATACCTAAGGAAGAACAATAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000976 GO:0000981 GO:0001046 GO:0001047 GO:0001067 GO:0001228 GO:0003674 GO:0003676 GO:0003677 GO:0003690 GO:0003700 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006139 GO:0006351 GO:0006355 GO:0006357 GO:0006366 GO:0006725 GO:0006807 GO:0007275 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009889 GO:0009891 GO:0009893 GO:0009987 GO:0010467 GO:0010468 GO:0010556 GO:0010557 GO:0010604 GO:0010628 GO:0016070 GO:0018130 GO:0019219 GO:0019222 GO:0019438 GO:0031323 GO:0031325 GO:0031326 GO:0031328 GO:0032501 GO:0032502 GO:0032774 GO:0034641 GO:0034645 GO:0034654 GO:0042335 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043565 GO:0044212 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044271 GO:0044424 GO:0044464 GO:0045893 GO:0045935 GO:0045944 GO:0046483 GO:0048518 GO:0048522 GO:0048856 GO:0050789 GO:0050794 GO:0051171 GO:0051173 GO:0051252 GO:0051254 GO:0060255 GO:0065007 GO:0071704 GO:0080090 GO:0090304 GO:0097159 GO:0097659 GO:0140110 GO:1901360 GO:1901362 GO:1901363 GO:1901576 GO:1902680 GO:1903506 GO:1903508 GO:1990837 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

HLH

Protein Analysis

262

Amino Acids

28.69

Weight (kDa)

4.96

Isoelectric Point (pI)

65.44

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
HLH	PF00010	196 - 241	3e-09	Helix-loop-helix DNA-binding 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: OG0004308)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G35460 AT1G35460 AT4G09180
fragaria_vesca	FvH4_5g31910 FvH4_5g31910 FvH4_5g31910
malus_domestica	MD08G1218800.v1.1 MD15G1407200.v1.1
prunus_persica	Prupe.1G554600_v2.0.a1 Prupe.1G554600_v2.0.a1 Prupe.1G554600_v2.0.a1 Prupe.1G554600_v2.0.a1 Prupe.1G554600_v2.0.a1 Prupe.1G554600_v2.0.a1 Prupe.1G554600_v2.0.a1 Prupe.1G554600_v2.0.a1 Prupe.1G554600_v2.0.a1 Prupe.1G554600_v2.0.a1
pyrus_communis	pycom08g18940 pycom15g36340
rosa_chinensis	RchiOBHm_Chr7g0227911
rosa_laevigata	RLG00000001604
rosa_multiflora	Rmu_co8004144.1_g000001 Rmu_sc0007737.1_g000003
rosa_roxburghii	Rroxscaffold_3G00231770
rosa_rugosa	Rorug07G0244500.1
rosa_samantha	Rh1CG340400 Rh1DG357700 Rh7AG397700 Rh7BG379200 Rh7CG415900 Rh7DG393200

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc16I	TGCGCA	1 cut(s)	571
AccII	CGCG	2 cut(s)	219, 613
AciI	CCGC	8 cut(s)	27, 30, 219, 299, 400, 471, 583, 613
AclWI	GGATC	3 cut(s)	88, 101, 724
AfaI	GTAC	3 cut(s)	292, 603, 651
AfiI	CCNNNNNNNGG	2 cut(s)	167, 529
AflIII	ACRYGT	1 cut(s)	684
AgsI	TTSAA	3 cut(s)	122, 157, 722
AjnI	CCWGG	1 cut(s)	732
AluBI	AGCT	5 cut(s)	104, 125, 336, 637, 646
AluI	AGCT	5 cut(s)	104, 125, 336, 637, 646
Alw21I	GWGCWC	1 cut(s)	764
Alw26I	GTCTC	1 cut(s)	176
Alw44I	GTGCAC	1 cut(s)	760
AlwI	GGATC	3 cut(s)	88, 101, 724
ApaLI	GTGCAC	1 cut(s)	760
ApeKI	GCWGC	2 cut(s)	468, 585
ArsI	GACNNNNNNTTYG	2 cut(s)	457, 489
AspLEI	GCGC	1 cut(s)	572
AsuC2I	CCSGG	2 cut(s)	190, 390
AsuHPI	GGTGA	3 cut(s)	47, 166, 269
AxyI	CCTNAGG	1 cut(s)	774
BaeGI	GKGCMC	1 cut(s)	764
BaeI	ACNNNNGTAYC	2 cut(s)	474, 507
BamHI	GGATCC	1 cut(s)	93
Bbv12I	GWGCWC	1 cut(s)	764
BbvI	GCAGC	2 cut(s)	480, 597
BccI	CCATC	1 cut(s)	314
BciT130I	CCWGG	1 cut(s)	734
BcnI	CCSGG	2 cut(s)	190, 390
BcoDI	GTCTC	1 cut(s)	176
BfaI	CTAG	1 cut(s)	405
BfmI	CTRYAG	1 cut(s)	678
BisI	GCNGC	4 cut(s)	28, 220, 469, 586
BlsI	GCNGC	4 cut(s)	29, 221, 470, 587
BmcAI	AGTACT	1 cut(s)	292
Bme1390I	CCNGG	3 cut(s)	190, 390, 734
BmiI	GGNNCC	1 cut(s)	95
BmrFI	CCNGG	3 cut(s)	190, 390, 734
BpmI	CTGGAG	1 cut(s)	90
BpuEI	CTTGAG	1 cut(s)	152
BpuMI	CCSGG	2 cut(s)	190, 390
Bsa29I	ATCGAT	1 cut(s)	378
BsaAI	YACGTR	1 cut(s)	709
BsaI	GGTCTC	1 cut(s)	176
BsaWI	WCCGGW	1 cut(s)	485
Bsc4I	CCNNNNNNNGG	2 cut(s)	167, 529
Bse21I	CCTNAGG	1 cut(s)	774
Bse3DI	GCAATG	1 cut(s)	588
BseBI	CCWGG	1 cut(s)	734
BseCI	ATCGAT	1 cut(s)	378
BseGI	GGATG	2 cut(s)	11, 577
BseLI	CCNNNNNNNGG	2 cut(s)	167, 529
BseMI	GCAATG	1 cut(s)	588
BseMII	CTCAG	1 cut(s)	426
BseRI	GAGGAG	5 cut(s)	60, 69, 72, 75, 78
BseSI	GKGCMC	1 cut(s)	764
BseXI	GCAGC	2 cut(s)	480, 597
Bsh1236I	CGCG	2 cut(s)	219, 613
BshVI	ATCGAT	1 cut(s)	378
BsiHKAI	GWGCWC	1 cut(s)	764
BsiSI	CCGG	4 cut(s)	189, 296, 389, 486
BslI	CCNNNNNNNGG	2 cut(s)	167, 529
BsmAI	GTCTC	1 cut(s)	176
Bso31I	GGTCTC	1 cut(s)	176
Bsp1286I	GDGCHC	1 cut(s)	764
Bsp143I	GATC	3 cut(s)	93, 622, 729
BspACI	CCGC	8 cut(s)	27, 30, 219, 299, 400, 471, 583, 613
BspCNI	CTCAG	1 cut(s)	427
BspDI	ATCGAT	1 cut(s)	378
BspFNI	CGCG	2 cut(s)	219, 613
BspLI	GGNNCC	1 cut(s)	95
BspMAI	CTGCAG	1 cut(s)	682
BspPI	GGATC	3 cut(s)	88, 101, 724
BspTNI	GGTCTC	1 cut(s)	176
BsrDI	GCAATG	1 cut(s)	588
BssMI	GATC	3 cut(s)	93, 622, 729
Bst2UI	CCWGG	1 cut(s)	734
Bst6I	CTCTTC	4 cut(s)	141, 428, 433, 749
BstBAI	YACGTR	1 cut(s)	709
BstDEI	CTNAG	4 cut(s)	71, 308, 435, 774
BstENI	CCTNNNNNAGG	1 cut(s)	527
BstF5I	GGATG	2 cut(s)	11, 577
BstFNI	CGCG	2 cut(s)	219, 613
BstHHI	GCGC	1 cut(s)	572
BstKTI	GATC	3 cut(s)	96, 625, 732
BstMAI	GTCTC	1 cut(s)	176
BstMBI	GATC	3 cut(s)	93, 622, 729
BstMWI	GCNNNNNNNGC	1 cut(s)	643
BstNI	CCWGG	1 cut(s)	734
BstNSI	RCATGY	3 cut(s)	502, 688, 768
BstSCI	CCNGG	3 cut(s)	188, 388, 732
BstSFI	CTRYAG	1 cut(s)	678
BstSLI	GKGCMC	1 cut(s)	764
BstUI	CGCG	2 cut(s)	219, 613
BstV1I	GCAGC	2 cut(s)	480, 597
BstX2I	RGATCY	2 cut(s)	93, 729
BstXI	CCANNNNNNTGG	2 cut(s)	114, 338
BstYI	RGATCY	2 cut(s)	93, 729
Bsu15I	ATCGAT	1 cut(s)	378
Bsu36I	CCTNAGG	1 cut(s)	774
BsuTUI	ATCGAT	1 cut(s)	378
BtsCI	GGATG	2 cut(s)	11, 577
BtsI	GCAGTG	1 cut(s)	675
BtsIMutI	CAGTG	1 cut(s)	675
CfoI	GCGC	1 cut(s)	572
ClaI	ATCGAT	1 cut(s)	378
CseI	GACGC	1 cut(s)	619
Csp6I	GTAC	3 cut(s)	291, 602, 650
CviAII	CATG	5 cut(s)	499, 514, 658, 685, 765
CviJI	RGCY	9 cut(s)	70, 104, 118, 125, 222, 336, 557, 637, 646
CviKI_1	RGCY	9 cut(s)	70, 104, 118, 125, 222, 336, 557, 637, 646
CviQI	GTAC	3 cut(s)	291, 602, 650
DdeI	CTNAG	4 cut(s)	71, 308, 435, 774
DpnI	GATC	3 cut(s)	95, 624, 731
DpnII	GATC	3 cut(s)	93, 622, 729
Eam1104I	CTCTTC	4 cut(s)	141, 428, 433, 749
EarI	CTCTTC	4 cut(s)	141, 428, 433, 749
EciI	GGCGGA	1 cut(s)	314
Eco31I	GGTCTC	1 cut(s)	176
Eco81I	CCTNAGG	1 cut(s)	774
EcoNI	CCTNNNNNAGG	1 cut(s)	527
EcoRII	CCWGG	1 cut(s)	732
EcoT22I	ATGCAT	1 cut(s)	770
FaeI	CATG	5 cut(s)	502, 517, 661, 688, 768
FaiI	YATR	8 cut(s)	500, 509, 515, 527, 659, 686, 766, 770
FalI	AAGNNNNNCTT	2 cut(s)	114, 146
FatI	CATG	5 cut(s)	498, 513, 657, 684, 764
FauI	CCCGC	1 cut(s)	590
Fnu4HI	GCNGC	4 cut(s)	28, 220, 469, 586
FokI	GGATG	1 cut(s)	564
Fsp4HI	GCNGC	4 cut(s)	28, 220, 469, 586
FspBI	CTAG	1 cut(s)	405
FspI	TGCGCA	1 cut(s)	571
GlaI	GCGC	1 cut(s)	571
GluI	GCNGC	4 cut(s)	28, 220, 469, 586
GsuI	CTGGAG	1 cut(s)	90
HapII	CCGG	4 cut(s)	189, 296, 389, 486
HgaI	GACGC	1 cut(s)	619
HhaI	GCGC	1 cut(s)	572
Hin1II	CATG	5 cut(s)	502, 517, 661, 688, 768
Hin6I	GCGC	1 cut(s)	570
HinP1I	GCGC	1 cut(s)	570
HincII	GTYRAC	1 cut(s)	741
HindII	GTYRAC	1 cut(s)	741
HindIII	AAGCTT	2 cut(s)	123, 334
HinfI	GANTC	4 cut(s)	149, 238, 343, 533
HpaI	GTTAAC	1 cut(s)	741
HpaII	CCGG	4 cut(s)	189, 296, 389, 486
HphI	GGTGA	3 cut(s)	47, 166, 269
Hpy166II	GTNNAC	4 cut(s)	83, 441, 741, 762
Hpy188I	TCNGA	4 cut(s)	93, 319, 505, 627
Hpy188III	TCNNGA	3 cut(s)	235, 405, 434
Hpy8I	GTNNAC	4 cut(s)	83, 441, 741, 762
Hpy99I	CGWCG	2 cut(s)	20, 44
HpyAV	CCTTC	1 cut(s)	600
HpyCH4IV	ACGT	2 cut(s)	562, 708
HpyCH4V	TGCA	4 cut(s)	4, 680, 762, 768
HpyF10VI	GCNNNNNNNGC	1 cut(s)	643
HpyF3I	CTNAG	4 cut(s)	71, 308, 435, 774
HpySE526I	ACGT	2 cut(s)	562, 708
Hsp92II	CATG	5 cut(s)	502, 517, 661, 688, 768
HspAI	GCGC	1 cut(s)	570
KspAI	GTTAAC	1 cut(s)	741
Kzo9I	GATC	3 cut(s)	93, 622, 729
LmnI	GCTCC	1 cut(s)	109
Lsp1109I	GCAGC	2 cut(s)	480, 597
MaeI	CTAG	1 cut(s)	405
MaeII	ACGT	2 cut(s)	562, 708
MaeIII	GTNAC	1 cut(s)	35
MalI	GATC	3 cut(s)	95, 624, 731
MboI	GATC	3 cut(s)	93, 622, 729
MboII	GAAGA	9 cut(s)	149, 155, 158, 415, 420, 704, 710, 758, 766
MflI	RGATCY	2 cut(s)	93, 729
MhlI	GDGCHC	1 cut(s)	764
MluCI	AATT	1 cut(s)	352
MlyI	GAGTC	2 cut(s)	158, 527
MmeI	TCCRAC	1 cut(s)	483
Mph1103I	ATGCAT	1 cut(s)	770
MseI	TTAA	1 cut(s)	740
MspA1I	CMGCKG	1 cut(s)	471
MspI	CCGG	4 cut(s)	189, 296, 389, 486
MspR9I	CCNGG	3 cut(s)	190, 390, 734
MvaI	CCWGG	1 cut(s)	734
MvnI	CGCG	2 cut(s)	219, 613
MwoI	GCNNNNNNNGC	1 cut(s)	643
NciI	CCSGG	2 cut(s)	190, 390
NdeII	GATC	3 cut(s)	93, 622, 729
NlaIII	CATG	5 cut(s)	502, 517, 661, 688, 768
NlaIV	GGNNCC	1 cut(s)	95
NmeAIII	GCCGAG	1 cut(s)	619
NmuCI	GTSAC	1 cut(s)	35
NsbI	TGCGCA	1 cut(s)	571
NsiI	ATGCAT	1 cut(s)	770
NspI	RCATGY	3 cut(s)	502, 688, 768
PciI	ACATGT	1 cut(s)	684
PcsI	WCGNNNNNNNCGW	1 cut(s)	559
PfeI	GAWTC	2 cut(s)	238, 343
PfoI	TCCNGGA	2 cut(s)	388, 732
PkrI	GCNGC	4 cut(s)	29, 221, 470, 587
PleI	GAGTC	2 cut(s)	157, 527
PpsI	GAGTC	2 cut(s)	157, 527
Ppu21I	YACGTR	1 cut(s)	709
PscI	ACATGT	1 cut(s)	684
Psp6I	CCWGG	1 cut(s)	732
PspGI	CCWGG	1 cut(s)	732
PspN4I	GGNNCC	1 cut(s)	95
PstI	CTGCAG	1 cut(s)	682
PsuI	RGATCY	2 cut(s)	93, 729
RsaI	GTAC	3 cut(s)	292, 603, 651
RsaNI	GTAC	3 cut(s)	291, 602, 650
SaqAI	TTAA	1 cut(s)	740
SatI	GCNGC	4 cut(s)	28, 220, 469, 586
Sau3AI	GATC	3 cut(s)	93, 622, 729
ScaI	AGTACT	1 cut(s)	292
SchI	GAGTC	2 cut(s)	158, 527
ScrFI	CCNGG	3 cut(s)	190, 390, 734
SduI	GDGCHC	1 cut(s)	764
SfcI	CTRYAG	1 cut(s)	678
SmlI	CTYRAG	1 cut(s)	131
SmoI	CTYRAG	1 cut(s)	131
Sse9I	AATT	1 cut(s)	352
SsiI	CCGC	8 cut(s)	27, 30, 219, 299, 400, 471, 583, 613
SspMI	CTAG	1 cut(s)	405
StyD4I	CCNGG	3 cut(s)	188, 388, 732
TaiI	ACGT	2 cut(s)	565, 711
TaqI	TCGA	3 cut(s)	197, 228, 378
TasI	AATT	1 cut(s)	352
TatI	WGTACW	1 cut(s)	290
TauI	GCSGC	2 cut(s)	30, 222
TfiI	GAWTC	2 cut(s)	238, 343
Tru1I	TTAA	1 cut(s)	740
Tru9I	TTAA	1 cut(s)	740
TscAI	CASTG	1 cut(s)	682
TseFI	GTSAC	1 cut(s)	35
TseI	GCWGC	2 cut(s)	468, 585
Tsp45I	GTSAC	1 cut(s)	35
TspDTI	ATGAA	3 cut(s)	156, 467, 524
TspGWI	ACGGA	3 cut(s)	4, 57, 86
TspRI	CASTG	1 cut(s)	682
VneI	GTGCAC	1 cut(s)	760
XagI	CCTNNNNNAGG	1 cut(s)	527
XbaI	TCTAGA	1 cut(s)	404
XceI	RCATGY	3 cut(s)	502, 688, 768
XspI	CTAG	1 cut(s)	405
ZrmI	AGTACT	1 cut(s)	292
Zsp2I	ATGCAT	1 cut(s)	770

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