Basic Information

Type: gene

Biological Identity

Species

arabidopsis_thaliana

Chromosome

Orthogroup ID

OG0002737

Physical Location & Seq

Genomic Coordinates Reverse (-)

20760419 .. 20763056

Gene Structure 2638 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

AT3G55960.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 918 bp

ATGGCCGAGTTGACTCAGGCCGATGTTGTATACTCTCCTCGTTCGTTTCAAGTGTGGAAGACTTTGGTGAACTGGCTCGCTTTTTTCTATCAGATCTTTCTTCAGATCCTTCGTGCCGTTGGTTATCATCCTCTTCTCTCTTCTTCTGCTAAAGCCTCCGCTGATGGTTTTAAACCTTTGCCGGCTATTGAGTTGCTTGATAGGGCTTCCGAATCTCCCACCACCGTTGAAATCGCAGCCACGACGACTTCTGATTCCTGCAGCGATGGTGCACGCAGCCGTTTTCAGAGGCTTAAGGTAGTTCTAGACTTGGATGAGACGTTAGTTTGTGCATATGAGACGTCGAGTTTACCCGCTGCTTTACGCAATCAAGCAATTGAAGCCGGATTAAAGTGGTTTGAGCTGGAGTGCTTATCAACAGACAAGGAATATGATGGGAAGCCTAAGATCAATTATGTCACGGTGTTTGAGCGTCCTGGATTGCACGAGTTCCTAGAGCAACTCAGCGAGTTTGCAGATCTTATTCTGTTTACAGCTGGTCTTGAAGGATATGCGAGGCCGCTTGTGGATAGGATAGATACCAGGAAAGTGCTCACCAACCGACTTTATCGACCCTCAACAGTCAGCACGCAATACCGAGATCACGTGAAGGATCTGTTAAGCACATCAAAGAATATGTGTAGGACAGTAATTGTTGACAACAATCCTTTCAGCTTTTTGTTGCAACCATCAAATGGAATTCCATGTATTGCATTTTCCGCAGGGCAGCCAAATGATACTCAGCTCTTGGATGTTATTCTACCGCTTCTGAAGCAACTGTCAGAGGAAGACGATGTACGACCGACACTTTATGATCGGTTCCGCATGCCTGAATGGTTTGAGAAGCAAGGCATACCACCTTCGTGCTGGAAGCCTTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003824 GO:0004721 GO:0006464 GO:0006470 GO:0006793 GO:0006796 GO:0006807 GO:0008150 GO:0008152 GO:0009987 GO:0016311 GO:0016787 GO:0016788 GO:0016791 GO:0019538 GO:0036211 GO:0042578 GO:0043170 GO:0043412 GO:0044237 GO:0044238 GO:0044260 GO:0044267 GO:0071704 GO:0140096 GO:1901564

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

NIF

Protein Analysis

305

Amino Acids

34.51

Weight (kDa)

5.18

Isoelectric Point (pI)

41.11

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
NIF	PF03031	99 - 280	4.5e-41	NLI interacting factor-like phosphatase

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

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0002737)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G55960
fragaria_vesca	FvH4_6g11400 FvH4_6g11400 FvH4_7g24520
malus_domestica	MD01G1153200.v1.1 MD04G1153700.v1.1 MD07G1222200.v1.1 MD12G1166900.v1.1
prunus_persica	Prupe.2G250400_v2.0.a1 Prupe.6G277800_v2.0.a1
pyrus_communis	pycom01g17080 pycom07g20080 pycom12g15890
rosa_chinensis	RchiOBHm_Chr1g0370271 RchiOBHm_Chr1g0370291 RchiOBHm_Chr3g0463021
rosa_laevigata	RLG00000024816 RLG00000027058 RLG00000027059 RLG00000027062
rosa_multiflora	Rmu_sc0000766.1_g000029 Rmu_sc0001657.1_g000001 Rmu_sc0006707.1_g000006 Rmu_sc0008124.1_g000028
rosa_roxburghii	Rroxscaffold_4G00286680 Rroxscaffold_4G00287340 Rroxscaffold_6G00417040
rosa_rugosa	Rorug01G0355600 Rorug03G0061100 Rorug03G0061200 Rorug03G0061200
rosa_samantha	Rh1AG363900 Rh1BG327000 Rh1BG327100 Rh1DG357400 Rh3AG118800 Rh3DG124700
rosa_wichuraiana	Rw1G032030 Rw3G010090

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AatII	GACGTC	1 cut(s)	344
AccB7I	CCANNNNNTGG	1 cut(s)	734
AccI	GTMKAC	1 cut(s)	30
AciI	CCGC	6 cut(s)	159, 354, 560, 759, 803, 862
AclWI	GGATC	2 cut(s)	100, 660
AcoI	YGGCCR	1 cut(s)	3
AcsI	RAATTY	1 cut(s)	738
AcuI	CTGAAG	2 cut(s)	86, 830
AcvI	CACGTG	1 cut(s)	646
AcyI	GRCGYC	1 cut(s)	341
AfaI	GTAC	1 cut(s)	837
AfiI	CCNNNNNNNGG	1 cut(s)	734
AflII	CTTAAG	1 cut(s)	293
AgsI	TTSAA	4 cut(s)	50, 230, 380, 545
AjnI	CCWGG	2 cut(s)	475, 581
AleI	CACNNNNGTG	1 cut(s)	901
AluBI	AGCT	4 cut(s)	403, 536, 714, 784
AluI	AGCT	4 cut(s)	403, 536, 714, 784
Alw21I	GWGCWC	2 cut(s)	274, 594
Alw26I	GTCTC	2 cut(s)	311, 332
Alw44I	GTGCAC	1 cut(s)	270
AlwI	GGATC	2 cut(s)	100, 660
AoxI	GGCC	3 cut(s)	3, 18, 557
ApaLI	GTGCAC	1 cut(s)	270
ApeKI	GCWGC	5 cut(s)	236, 261, 276, 356, 766
ApoI	RAATTY	1 cut(s)	738
AsuHPI	GGTGA	2 cut(s)	79, 586
BaeGI	GKGCMC	1 cut(s)	274
BarI	GAAGNNNNNNTAC	2 cut(s)	819, 851
BauI	CACGAG	1 cut(s)	485
BbrPI	CACGTG	1 cut(s)	646
BbsI	GAAGAC	2 cut(s)	65, 834
Bbv12I	GWGCWC	2 cut(s)	274, 594
BbvI	GCAGC	5 cut(s)	248, 273, 288, 343, 778
BccI	CCATC	4 cut(s)	158, 260, 428, 736
BceAI	ACGGC	2 cut(s)	101, 264
BciT130I	CCWGG	2 cut(s)	477, 583
BcoDI	GTCTC	2 cut(s)	311, 332
BfaI	CTAG	2 cut(s)	305, 494
BfmI	CTRYAG	1 cut(s)	259
BfrI	CTTAAG	1 cut(s)	293
BglII	AGATCT	2 cut(s)	93, 517
BisI	GCNGC	6 cut(s)	237, 262, 277, 357, 560, 767
BlsI	GCNGC	6 cut(s)	238, 263, 278, 358, 561, 768
Bme1390I	CCNGG	2 cut(s)	477, 583
BmiI	GGNNCC	1 cut(s)	860
BmrFI	CCNGG	2 cut(s)	477, 583
BpiI	GAAGAC	2 cut(s)	65, 834
BpmI	CTGGAG	1 cut(s)	425
BsaAI	YACGTR	1 cut(s)	646
BsaHI	GRCGYC	1 cut(s)	341
Bsc4I	CCNNNNNNNGG	1 cut(s)	734
Bse118I	RCCGGY	1 cut(s)	181
Bse1I	ACTGG	1 cut(s)	77
BseBI	CCWGG	2 cut(s)	477, 583
BseGI	GGATG	3 cut(s)	127, 319, 796
BseLI	CCNNNNNNNGG	1 cut(s)	734
BseMII	CTCAG	3 cut(s)	29, 517, 794
BseNI	ACTGG	1 cut(s)	77
BseRI	GAGGAG	1 cut(s)	27
BseSI	GKGCMC	1 cut(s)	274
BseXI	GCAGC	5 cut(s)	248, 273, 288, 343, 778
Bsh1285I	CGRYCG	1 cut(s)	842
BshFI	GGCC	3 cut(s)	5, 20, 559
BsiEI	CGRYCG	1 cut(s)	842
BsiHKAI	GWGCWC	2 cut(s)	274, 594
BsiSI	CCGG	2 cut(s)	182, 384
BslI	CCNNNNNNNGG	1 cut(s)	734
BsmAI	GTCTC	2 cut(s)	311, 332
BsmBI	CGTCTC	2 cut(s)	311, 332
BsnI	GGCC	3 cut(s)	5, 20, 559
Bsp1286I	GDGCHC	2 cut(s)	274, 594
Bsp143I	GATC	7 cut(s)	93, 105, 447, 517, 640, 652, 853
BspACI	CCGC	6 cut(s)	159, 354, 560, 759, 803, 862
BspANI	GGCC	3 cut(s)	5, 20, 559
BspCNI	CTCAG	3 cut(s)	28, 516, 793
BspLI	GGNNCC	1 cut(s)	860
BspMAI	CTGCAG	1 cut(s)	263
BspPI	GGATC	2 cut(s)	100, 660
BspTI	CTTAAG	1 cut(s)	293
BsrFI	RCCGGY	1 cut(s)	181
BsrI	ACTGG	1 cut(s)	77
BssAI	RCCGGY	1 cut(s)	181
BssMI	GATC	7 cut(s)	93, 105, 447, 517, 640, 652, 853
BssNAI	GTATAC	1 cut(s)	31
BssNI	GRCGYC	1 cut(s)	341
BssSI	CACGAG	1 cut(s)	485
Bst1107I	GTATAC	1 cut(s)	31
Bst2BI	CACGAG	1 cut(s)	485
Bst2UI	CCWGG	2 cut(s)	477, 583
Bst4CI	ACNGT	5 cut(s)	226, 463, 622, 688, 819
Bst6I	CTCTTC	2 cut(s)	138, 145
BstACI	GRCGYC	1 cut(s)	341
BstAFI	CTTAAG	1 cut(s)	293
BstBAI	YACGTR	1 cut(s)	646
BstC8I	GCNNGC	5 cut(s)	78, 183, 274, 629, 866
BstDEI	CTNAG	4 cut(s)	15, 444, 503, 780
BstF5I	GGATG	3 cut(s)	127, 319, 796
BstKTI	GATC	7 cut(s)	96, 108, 450, 520, 643, 655, 856
BstMAI	GTCTC	2 cut(s)	311, 332
BstMBI	GATC	7 cut(s)	93, 105, 447, 517, 640, 652, 853
BstMCI	CGRYCG	1 cut(s)	842
BstMWI	GCNNNNNNNGC	3 cut(s)	380, 758, 811
BstNI	CCWGG	2 cut(s)	477, 583
BstNSI	RCATGY	1 cut(s)	868
BstSCI	CCNGG	2 cut(s)	475, 581
BstSFI	CTRYAG	1 cut(s)	259
BstSLI	GKGCMC	1 cut(s)	274
BstV1I	GCAGC	5 cut(s)	248, 273, 288, 343, 778
BstV2I	GAAGAC	2 cut(s)	65, 834
BstX2I	RGATCY	4 cut(s)	93, 105, 517, 652
BstYI	RGATCY	4 cut(s)	93, 105, 517, 652
BstZ17I	GTATAC	1 cut(s)	31
BsuRI	GGCC	3 cut(s)	5, 20, 559
BtgZI	GCGATG	1 cut(s)	279
BtsCI	GGATG	3 cut(s)	127, 319, 796
Cac8I	GCNNGC	5 cut(s)	78, 183, 274, 629, 866
Cfr10I	RCCGGY	1 cut(s)	181
CseI	GACGC	1 cut(s)	461
Csp6I	GTAC	1 cut(s)	836
CspCI	CAANNNNNGTGG	2 cut(s)	208, 243
CviAII	CATG	2 cut(s)	744, 865
CviQI	GTAC	1 cut(s)	836
DdeI	CTNAG	4 cut(s)	15, 444, 503, 780
DpnI	GATC	7 cut(s)	95, 107, 449, 519, 642, 654, 855
DpnII	GATC	7 cut(s)	93, 105, 447, 517, 640, 652, 853
DraI	TTTAAA	1 cut(s)	172
EaeI	YGGCCR	1 cut(s)	3
Eam1104I	CTCTTC	2 cut(s)	138, 145
EarI	CTCTTC	2 cut(s)	138, 145
Eco57I	CTGAAG	2 cut(s)	86, 830
Eco72I	CACGTG	1 cut(s)	646
EcoRI	GAATTC	1 cut(s)	738
EcoRII	CCWGG	2 cut(s)	475, 581
Esp3I	CGTCTC	2 cut(s)	311, 332
FaeI	CATG	2 cut(s)	747, 868
FatI	CATG	2 cut(s)	743, 864
FauI	CCCGC	1 cut(s)	361
FauNDI	CATATG	1 cut(s)	334
FblI	GTMKAC	1 cut(s)	30
Fnu4HI	GCNGC	6 cut(s)	237, 262, 277, 357, 560, 767
FokI	GGATG	3 cut(s)	114, 326, 803
Fsp4HI	GCNGC	6 cut(s)	237, 262, 277, 357, 560, 767
FspBI	CTAG	2 cut(s)	305, 494
GluI	GCNGC	6 cut(s)	237, 262, 277, 357, 560, 767
GsuI	CTGGAG	1 cut(s)	425
HaeIII	GGCC	3 cut(s)	5, 20, 559
HapII	CCGG	2 cut(s)	182, 384
HgaI	GACGC	1 cut(s)	461
Hin1I	GRCGYC	1 cut(s)	341
Hin1II	CATG	2 cut(s)	747, 868
HincII	GTYRAC	2 cut(s)	12, 697
HindII	GTYRAC	2 cut(s)	12, 697
HinfI	GANTC	3 cut(s)	13, 212, 254
HpaII	CCGG	2 cut(s)	182, 384
HphI	GGTGA	2 cut(s)	79, 586
Hpy166II	GTNNAC	7 cut(s)	12, 31, 70, 272, 350, 531, 697
Hpy188I	TCNGA	7 cut(s)	93, 105, 211, 253, 288, 810, 823
Hpy188III	TCNNGA	2 cut(s)	305, 542
Hpy8I	GTNNAC	7 cut(s)	12, 31, 70, 272, 350, 531, 697
Hpy99I	CGWCG	2 cut(s)	247, 346
HpyAV	CCTTC	4 cut(s)	119, 539, 643, 909
HpyCH4III	ACNGT	5 cut(s)	226, 463, 622, 688, 819
HpyCH4IV	ACGT	3 cut(s)	320, 341, 645
HpyCH4V	TGCA	7 cut(s)	261, 272, 332, 484, 515, 724, 752
HpyF10VI	GCNNNNNNNGC	3 cut(s)	380, 758, 811
HpyF3I	CTNAG	4 cut(s)	15, 444, 503, 780
HpySE526I	ACGT	3 cut(s)	320, 341, 645
Hsp92I	GRCGYC	1 cut(s)	341
Hsp92II	CATG	2 cut(s)	747, 868
KroI	GCCGGC	1 cut(s)	181
KroNI	GCCGGC	1 cut(s)	183
Kzo9I	GATC	7 cut(s)	93, 105, 447, 517, 640, 652, 853
Lsp1109I	GCAGC	5 cut(s)	248, 273, 288, 343, 778
MaeI	CTAG	2 cut(s)	305, 494
MaeII	ACGT	3 cut(s)	320, 341, 645
MaeIII	GTNAC	1 cut(s)	457
MalI	GATC	7 cut(s)	95, 107, 449, 519, 642, 654, 855
MboI	GATC	7 cut(s)	93, 105, 447, 517, 640, 652, 853
MboII	GAAGA	6 cut(s)	70, 92, 125, 132, 135, 839
MfeI	CAATTG	1 cut(s)	375
MflI	RGATCY	4 cut(s)	93, 105, 517, 652
MhlI	GDGCHC	2 cut(s)	274, 594
MluCI	AATT	4 cut(s)	375, 451, 690, 738
MlyI	GAGTC	1 cut(s)	7
MnlI	CCTC	7 cut(s)	48, 141, 166, 282, 549, 625, 817
MroNI	GCCGGC	1 cut(s)	181
MseI	TTAA	5 cut(s)	171, 294, 389, 659, 916
MslI	CAYNNNNRTG	1 cut(s)	901
MspA1I	CMGCKG	3 cut(s)	161, 356, 536
MspCI	CTTAAG	1 cut(s)	293
MspI	CCGG	2 cut(s)	182, 384
MspR9I	CCNGG	2 cut(s)	477, 583
MunI	CAATTG	1 cut(s)	375
MvaI	CCWGG	2 cut(s)	477, 583
MwoI	GCNNNNNNNGC	3 cut(s)	380, 758, 811
NaeI	GCCGGC	1 cut(s)	183
NdeI	CATATG	1 cut(s)	334
NdeII	GATC	7 cut(s)	93, 105, 447, 517, 640, 652, 853
NgoMIV	GCCGGC	1 cut(s)	181
NlaIII	CATG	2 cut(s)	747, 868
NlaIV	GGNNCC	1 cut(s)	860
NmeAIII	GCCGAG	1 cut(s)	31
NmuCI	GTSAC	1 cut(s)	457
NspI	RCATGY	1 cut(s)	868
OliI	CACNNNNGTG	1 cut(s)	901
PaeI	GCATGC	1 cut(s)	868
PdiI	GCCGGC	1 cut(s)	183
PfeI	GAWTC	2 cut(s)	212, 254
PflMI	CCANNNNNTGG	1 cut(s)	734
PfoI	TCCNGGA	1 cut(s)	475
PkrI	GCNGC	6 cut(s)	238, 263, 278, 358, 561, 768
PleI	GAGTC	1 cut(s)	7
PmaCI	CACGTG	1 cut(s)	646
PmlI	CACGTG	1 cut(s)	646
PpsI	GAGTC	1 cut(s)	7
Ppu21I	YACGTR	1 cut(s)	646
Psp6I	CCWGG	2 cut(s)	475, 581
PspCI	CACGTG	1 cut(s)	646
PspGI	CCWGG	2 cut(s)	475, 581
PspN4I	GGNNCC	1 cut(s)	860
PstI	CTGCAG	1 cut(s)	263
PsuI	RGATCY	4 cut(s)	93, 105, 517, 652
PvuII	CAGCTG	1 cut(s)	536
RsaI	GTAC	1 cut(s)	837
RsaNI	GTAC	1 cut(s)	836
RseI	CAYNNNNRTG	1 cut(s)	901
SaqAI	TTAA	5 cut(s)	171, 294, 389, 659, 916
SatI	GCNGC	6 cut(s)	237, 262, 277, 357, 560, 767
Sau3AI	GATC	7 cut(s)	93, 105, 447, 517, 640, 652, 853
SchI	GAGTC	1 cut(s)	7
ScrFI	CCNGG	2 cut(s)	477, 583
SduI	GDGCHC	2 cut(s)	274, 594
SfcI	CTRYAG	1 cut(s)	259
SmiMI	CAYNNNNRTG	1 cut(s)	901
SmlI	CTYRAG	1 cut(s)	293
SmoI	CTYRAG	1 cut(s)	293
SphI	GCATGC	1 cut(s)	868
Sse9I	AATT	4 cut(s)	375, 451, 690, 738
SsiI	CCGC	6 cut(s)	159, 354, 560, 759, 803, 862
SspMI	CTAG	2 cut(s)	305, 494
StyD4I	CCNGG	2 cut(s)	475, 581
TaaI	ACNGT	5 cut(s)	226, 463, 622, 688, 819
TaiI	ACGT	3 cut(s)	323, 344, 648
TaqI	TCGA	2 cut(s)	344, 610
TaqII	GACCGA	1 cut(s)	856
TasI	AATT	4 cut(s)	375, 451, 690, 738
TauI	GCSGC	1 cut(s)	562
TfiI	GAWTC	2 cut(s)	212, 254
Tru1I	TTAA	5 cut(s)	171, 294, 389, 659, 916
Tru9I	TTAA	5 cut(s)	171, 294, 389, 659, 916
TseFI	GTSAC	1 cut(s)	457
TseI	GCWGC	5 cut(s)	236, 261, 276, 356, 766
Tsp45I	GTSAC	1 cut(s)	457
Van91I	CCANNNNNTGG	1 cut(s)	734
Vha464I	CTTAAG	1 cut(s)	293
VneI	GTGCAC	1 cut(s)	270
XapI	RAATTY	1 cut(s)	738
XbaI	TCTAGA	1 cut(s)	304
XceI	RCATGY	1 cut(s)	868
XcmI	CCANNNNNNNNNTGG	1 cut(s)	903
XmiI	GTMKAC	1 cut(s)	30
XspI	CTAG	2 cut(s)	305, 494
ZraI	GACGTC	1 cut(s)	342

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