Basic Information

Type: gene

Biological Identity

Species

arabidopsis_thaliana

Chromosome

Orthogroup ID

OG0009922

Physical Location & Seq

Genomic Coordinates Reverse (-)

4231395 .. 4234206

Gene Structure 2812 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

AT3G13170.2

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1089 bp

ATGGAGGGAAAATTCGCTATTTCAGAATCGACTAATTTGCTTCAAAGGATCAAAGATTTTACTCAATCGGTCGTTGTAGATCTGGCTGAAGGAAGATCTCCAAAAATTTCCATCAATCAATTCAGGAACTATTGCATGAATCCAGAAGCTGATTGCTTATGCAGCTCTGATAAACCAAAGGGTCAGGAAATTTTCACTCTTAAGAAGGAACCACAAACCTACAGAATCGATATGTTGCTAAGAGTATTGTTGATAGTCCAACAACTTCTGCAAGAAAATAGACATGCTTCGAAAAGAGATATCTACTACATGCATCCATCAGCTTTCAAAGCACAATCCATTGTGGACCGTGCAATTGGTGATATATGCATTCTTTTTCAGTGTAGTCGGTACAACTTGAATGTGGTTTCTGTTGGAAACGGGTTGGTGATGGGTTGGTTAAAATTTAGGGAAGCTGGAAGGAAATTTGATTGTTTAAACAGCTTGAACACTGCATATCCCGTTCCTGTTCTTGTAGAGGAAGTCGAAGATATTGTTAGCTTAGCTGAGTACATACTGGTTGTGGAAAAAGAAACAGTATTCCAGCGTTTAGCAAATGACATGTTTTGCAAGACGAACCGCTGCATTGTTATCACAGGAAGAGGATATCCAGATGTCTCAACAAGAAGGTTCTTGCGACTCCTGATGGAGAAGTTGCATCTACCTGTGCATTGTCTAGTCGACTGTGATCCATATGGCTTTGAGATCCTAGCCACATACCGTTTTGGCTCCATGCAAATGGCCTATGATATTGAATCATTACGAGCACCAGATATGAAATGGTTGGGAGCTTTTCCTTCAGACTCTGAGGTATATAGTGTTCCCAAACAGTGTCTTTTGCCACTGACAGAAGAAGATAAGAAAAGAACTGAAGCAATGTTGCTTAGATGCTACCTGAAGCGTGAAATGCCACAATGGAGGTTGGAACTTGAAACGATGTTGAAAAGAGGGGTCAAGTTTGAGATCGAAGCACTCTCAGTTCACTCACTGTCCTTTTTGTCAGAGGTATATATTCCTTCTAAGATTCGTCGTGAAGTAAGCTCTCCTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0000228 GO:0000280 GO:0000706 GO:0000724 GO:0000725 GO:0000729 GO:0003674 GO:0003676 GO:0003677 GO:0003824 GO:0003916 GO:0003918 GO:0004518 GO:0004519 GO:0004520 GO:0004536 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005694 GO:0006139 GO:0006259 GO:0006281 GO:0006302 GO:0006310 GO:0006725 GO:0006807 GO:0006950 GO:0006974 GO:0006996 GO:0007049 GO:0007059 GO:0007127 GO:0007129 GO:0007131 GO:0008094 GO:0008150 GO:0008152 GO:0009987 GO:0016043 GO:0016462 GO:0016787 GO:0016788 GO:0016817 GO:0016818 GO:0016853 GO:0016887 GO:0016889 GO:0016894 GO:0017111 GO:0022402 GO:0022414 GO:0022607 GO:0031974 GO:0031981 GO:0033554 GO:0034641 GO:0035825 GO:0042138 GO:0042623 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0044085 GO:0044237 GO:0044238 GO:0044260 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0045132 GO:0045143 GO:0046483 GO:0048285 GO:0050896 GO:0051026 GO:0051276 GO:0051321 GO:0051716 GO:0061505 GO:0061982 GO:0070013 GO:0070192 GO:0071704 GO:0071840 GO:0090304 GO:0090305 GO:0097159 GO:0098813 GO:0140013 GO:0140097 GO:1901360 GO:1901363 GO:1903046

KEGG Pathways

Metabolic & Signaling

ko04113 map04113

Pfam Domains

Protein Families

TP6A_N

Protein Analysis

362

Amino Acids

41.8

Weight (kDa)

7.91

Isoelectric Point (pI)

50.44

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
TP6A_N	PF04406	75 - 135	9.7e-21	Type IIB DNA topoisomerase
TOP6A-Spo11_Toprim	PF21180	184 - 258	1.4e-33	Topoisomerase 6 subunit A/Spo11, Toprim 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: OG0009922)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G13170 AT3G13170 AT3G13170
fragaria_vesca	FvH4_3g29420
malus_domestica	MD03G1184400.v1.1 MD03G1184700.v1.1
prunus_persica	Prupe.4G241800_v2.0.a1 Prupe.4G241800_v2.0.a1
pyrus_communis	pycom03g13780
rosa_chinensis	RchiOBHm_Chr5g0053841
rosa_laevigata	RLG00000034906
rosa_multiflora	Rmu_sc0007356.1_g000010
rosa_roxburghii	Rroxscaffold_1G00026760
rosa_rugosa	Rorug05G0283600 Rorug05G0283700
rosa_samantha	Rh5AG353400 Rh5BG365000 Rh5CG390100 Rh5DG380000
rosa_wichuraiana	Rw0G002140 Rw0G009550

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccI	GTMKAC	1 cut(s)	720
AciI	CCGC	1 cut(s)	619
AclWI	GGATC	3 cut(s)	56, 722, 739
AcsI	RAATTY	5 cut(s)	11, 105, 189, 443, 464
AcuI	CTGAAG	4 cut(s)	108, 822, 930, 956
AfaI	GTAC	2 cut(s)	392, 551
AflII	CTTAAG	1 cut(s)	200
AflIII	ACRYGT	1 cut(s)	600
AgsI	TTSAA	7 cut(s)	44, 328, 400, 487, 794, 971, 982
AluBI	AGCT	9 cut(s)	149, 165, 323, 455, 483, 540, 545, 830, 1080
AluI	AGCT	9 cut(s)	149, 165, 323, 455, 483, 540, 545, 830, 1080
Alw21I	GWGCWC	1 cut(s)	808
Alw26I	GTCTC	1 cut(s)	661
AlwI	GGATC	3 cut(s)	56, 722, 739
AlwNI	CAGNNNCTG	2 cut(s)	149, 845
AoxI	GGCC	1 cut(s)	780
ApeKI	GCWGC	2 cut(s)	162, 621
ApoI	RAATTY	5 cut(s)	11, 105, 189, 443, 464
AspS9I	GGNCC	1 cut(s)	346
AsuHPI	GGTGA	2 cut(s)	371, 439
AsuII	TTCGAA	1 cut(s)	290
AvaII	GGWCC	1 cut(s)	346
Bbv12I	GWGCWC	1 cut(s)	808
BbvI	GCAGC	2 cut(s)	174, 608
BccI	CCATC	4 cut(s)	119, 325, 424, 679
BcgI	CGANNNNNNTGC	2 cut(s)	19, 53
BcoDI	GTCTC	1 cut(s)	661
BfaI	CTAG	2 cut(s)	716, 749
BfmI	CTRYAG	1 cut(s)	220
BfrI	CTTAAG	1 cut(s)	200
BglII	AGATCT	2 cut(s)	79, 95
BisI	GCNGC	2 cut(s)	163, 622
BlpI	GCTNAGC	1 cut(s)	541
BlsI	GCNGC	2 cut(s)	164, 623
Bme18I	GGWCC	1 cut(s)	346
BmgT120I	GGNCC	1 cut(s)	346
BmiI	GGNNCC	2 cut(s)	210, 769
BmsI	GCATC	3 cut(s)	322, 706, 917
Bpu1102I	GCTNAGC	1 cut(s)	541
Bpu14I	TTCGAA	1 cut(s)	290
Bsa29I	ATCGAT	1 cut(s)	228
Bse1I	ACTGG	1 cut(s)	561
Bse3DI	GCAATG	1 cut(s)	921
BseCI	ATCGAT	1 cut(s)	228
BseGI	GGATG	1 cut(s)	313
BseMI	GCAATG	1 cut(s)	921
BseMII	CTCAG	3 cut(s)	537, 837, 1029
BseNI	ACTGG	1 cut(s)	561
BseXI	GCAGC	2 cut(s)	174, 608
Bsh1285I	CGRYCG	1 cut(s)	72
BshFI	GGCC	1 cut(s)	782
BshVI	ATCGAT	1 cut(s)	228
BsiEI	CGRYCG	1 cut(s)	72
BsiHKAI	GWGCWC	1 cut(s)	808
BsmAI	GTCTC	1 cut(s)	661
BsmI	GAATGC	1 cut(s)	369
BsnI	GGCC	1 cut(s)	782
Bsp119I	TTCGAA	1 cut(s)	290
Bsp1286I	GDGCHC	1 cut(s)	808
Bsp143I	GATC	6 cut(s)	48, 79, 95, 727, 744, 1002
Bsp1720I	GCTNAGC	1 cut(s)	541
BspACI	CCGC	1 cut(s)	619
BspANI	GGCC	1 cut(s)	782
BspCNI	CTCAG	3 cut(s)	538, 838, 1028
BspDI	ATCGAT	1 cut(s)	228
BspLI	GGNNCC	2 cut(s)	210, 769
BspPI	GGATC	3 cut(s)	56, 722, 739
BspT104I	TTCGAA	1 cut(s)	290
BspTI	CTTAAG	1 cut(s)	200
BsrDI	GCAATG	1 cut(s)	921
BsrI	ACTGG	1 cut(s)	561
BssMI	GATC	6 cut(s)	48, 79, 95, 727, 744, 1002
Bst4CI	ACNGT	6 cut(s)	350, 577, 725, 761, 870, 1029
Bst6I	CTCTTC	1 cut(s)	634
BstAFI	CTTAAG	1 cut(s)	200
BstBI	TTCGAA	1 cut(s)	290
BstDEI	CTNAG	7 cut(s)	239, 541, 546, 846, 923, 1015, 1059
BstF5I	GGATG	1 cut(s)	313
BstKTI	GATC	6 cut(s)	51, 82, 98, 730, 747, 1005
BstMAI	GTCTC	1 cut(s)	661
BstMBI	GATC	6 cut(s)	48, 79, 95, 727, 744, 1002
BstMCI	CGRYCG	1 cut(s)	72
BstMWI	GCNNNNNNNGC	3 cut(s)	162, 329, 946
BstNSI	RCATGY	3 cut(s)	287, 313, 604
BstSFI	CTRYAG	1 cut(s)	220
BstV1I	GCAGC	2 cut(s)	174, 608
BstX2I	RGATCY	3 cut(s)	79, 95, 744
BstXI	CCANNNNNNTGG	1 cut(s)	778
BstYI	RGATCY	3 cut(s)	79, 95, 744
Bsu15I	ATCGAT	1 cut(s)	228
BsuRI	GGCC	1 cut(s)	782
BsuTUI	ATCGAT	1 cut(s)	228
BtsCI	GGATG	1 cut(s)	313
BtsI	GCAGTG	1 cut(s)	489
BtsIMutI	CAGTG	5 cut(s)	386, 489, 875, 881, 1025
CaiI	CAGNNNCTG	2 cut(s)	149, 845
Cfr13I	GGNCC	1 cut(s)	346
ClaI	ATCGAT	1 cut(s)	228
Csp6I	GTAC	2 cut(s)	391, 550
CviAII	CATG	5 cut(s)	136, 284, 310, 601, 772
CviQI	GTAC	2 cut(s)	391, 550
DdeI	CTNAG	7 cut(s)	239, 541, 546, 846, 923, 1015, 1059
DpnI	GATC	6 cut(s)	50, 81, 97, 729, 746, 1004
DpnII	GATC	6 cut(s)	48, 79, 95, 727, 744, 1002
DraI	TTTAAA	1 cut(s)	477
Eam1104I	CTCTTC	1 cut(s)	634
EarI	CTCTTC	1 cut(s)	634
Eco32I	GATATC	2 cut(s)	301, 647
Eco47I	GGWCC	1 cut(s)	346
Eco57I	CTGAAG	4 cut(s)	108, 822, 930, 956
EcoRV	GATATC	2 cut(s)	301, 647
EcoT22I	ATGCAT	2 cut(s)	315, 371
FaeI	CATG	5 cut(s)	139, 287, 313, 604, 775
FalI	AAGNNNNNCTT	1 cut(s)	1069
FatI	CATG	5 cut(s)	135, 283, 309, 600, 771
FauNDI	CATATG	1 cut(s)	733
FblI	GTMKAC	1 cut(s)	720
Fnu4HI	GCNGC	2 cut(s)	163, 622
FokI	GGATG	1 cut(s)	300
Fsp4HI	GCNGC	2 cut(s)	163, 622
FspBI	CTAG	2 cut(s)	716, 749
GluI	GCNGC	2 cut(s)	163, 622
HaeIII	GGCC	1 cut(s)	782
Hin1II	CATG	5 cut(s)	139, 287, 313, 604, 775
HincII	GTYRAC	1 cut(s)	721
HindII	GTYRAC	1 cut(s)	721
HinfI	GANTC	7 cut(s)	26, 139, 225, 678, 794, 842, 1063
HphI	GGTGA	2 cut(s)	371, 439
Hpy166II	GTNNAC	3 cut(s)	346, 721, 1021
Hpy188I	TCNGA	5 cut(s)	25, 169, 841, 847, 1042
Hpy188III	TCNNGA	6 cut(s)	124, 143, 185, 650, 682, 1070
Hpy8I	GTNNAC	3 cut(s)	346, 721, 1021
Hpy99I	CGWCG	1 cut(s)	1071
HpyAV	CCTTC	6 cut(s)	83, 199, 453, 660, 846, 1065
HpyCH4III	ACNGT	6 cut(s)	350, 577, 725, 761, 870, 1029
HpyF10VI	GCNNNNNNNGC	3 cut(s)	162, 329, 946
HpyF3I	CTNAG	7 cut(s)	239, 541, 546, 846, 923, 1015, 1059
Hsp92II	CATG	5 cut(s)	139, 287, 313, 604, 775
Kzo9I	GATC	6 cut(s)	48, 79, 95, 727, 744, 1002
LmnI	GCTCC	2 cut(s)	773, 827
Lsp1109I	GCAGC	2 cut(s)	174, 608
LweI	GCATC	3 cut(s)	322, 706, 917
MaeI	CTAG	2 cut(s)	716, 749
MalI	GATC	6 cut(s)	50, 81, 97, 729, 746, 1004
MboI	GATC	6 cut(s)	48, 79, 95, 727, 744, 1002
MboII	GAAGA	5 cut(s)	105, 539, 651, 902, 905
MfeI	CAATTG	1 cut(s)	354
MflI	RGATCY	3 cut(s)	79, 95, 744
MhlI	GDGCHC	1 cut(s)	808
MluCI	AATT	8 cut(s)	11, 34, 105, 119, 189, 354, 443, 464
MlyI	GAGTC	2 cut(s)	672, 836
MmeI	TCCRAC	3 cut(s)	283, 394, 942
MnlI	CCTC	6 cut(s)	511, 635, 841, 951, 980, 1036
Mph1103I	ATGCAT	2 cut(s)	315, 371
MseI	TTAA	3 cut(s)	201, 440, 476
MslI	CAYNNNNRTG	1 cut(s)	776
MspA1I	CMGCKG	1 cut(s)	621
MspCI	CTTAAG	1 cut(s)	200
MssI	GTTTAAAC	1 cut(s)	477
MunI	CAATTG	1 cut(s)	354
Mva1269I	GAATGC	1 cut(s)	369
MwoI	GCNNNNNNNGC	3 cut(s)	162, 329, 946
NdeI	CATATG	1 cut(s)	733
NdeII	GATC	6 cut(s)	48, 79, 95, 727, 744, 1002
NlaIII	CATG	5 cut(s)	139, 287, 313, 604, 775
NlaIV	GGNNCC	2 cut(s)	210, 769
NsiI	ATGCAT	2 cut(s)	315, 371
NspI	RCATGY	3 cut(s)	287, 313, 604
NspV	TTCGAA	1 cut(s)	290
PciI	ACATGT	1 cut(s)	600
PctI	GAATGC	1 cut(s)	369
PfeI	GAWTC	5 cut(s)	26, 139, 225, 794, 1063
PkrI	GCNGC	2 cut(s)	164, 623
PleI	GAGTC	2 cut(s)	672, 836
PmeI	GTTTAAAC	1 cut(s)	477
PpsI	GAGTC	2 cut(s)	672, 836
PscI	ACATGT	1 cut(s)	600
PspN4I	GGNNCC	2 cut(s)	210, 769
PspPI	GGNCC	1 cut(s)	346
PsrI	GAACNNNNNNTAC	2 cut(s)	843, 875
PstNI	CAGNNNCTG	2 cut(s)	149, 845
PsuI	RGATCY	3 cut(s)	79, 95, 744
RsaI	GTAC	2 cut(s)	392, 551
RsaNI	GTAC	2 cut(s)	391, 550
RseI	CAYNNNNRTG	1 cut(s)	776
SalI	GTCGAC	1 cut(s)	719
SaqAI	TTAA	3 cut(s)	201, 440, 476
SatI	GCNGC	2 cut(s)	163, 622
Sau3AI	GATC	6 cut(s)	48, 79, 95, 727, 744, 1002
Sau96I	GGNCC	1 cut(s)	346
SchI	GAGTC	2 cut(s)	672, 836
SduI	GDGCHC	1 cut(s)	808
SfaNI	GCATC	3 cut(s)	322, 706, 917
SfcI	CTRYAG	1 cut(s)	220
SfuI	TTCGAA	1 cut(s)	290
SinI	GGWCC	1 cut(s)	346
SmiMI	CAYNNNNRTG	1 cut(s)	776
SmlI	CTYRAG	1 cut(s)	200
SmoI	CTYRAG	1 cut(s)	200
Sse9I	AATT	8 cut(s)	11, 34, 105, 119, 189, 354, 443, 464
SsiI	CCGC	1 cut(s)	619
SspMI	CTAG	2 cut(s)	716, 749
TaaI	ACNGT	6 cut(s)	350, 577, 725, 761, 870, 1029
TaqI	TCGA	6 cut(s)	29, 228, 290, 525, 720, 1005
TaqII	GACCGA	1 cut(s)	58
TasI	AATT	8 cut(s)	11, 34, 105, 119, 189, 354, 443, 464
TatI	WGTACW	1 cut(s)	549
TfiI	GAWTC	5 cut(s)	26, 139, 225, 794, 1063
Tru1I	TTAA	3 cut(s)	201, 440, 476
Tru9I	TTAA	3 cut(s)	201, 440, 476
TscAI	CASTG	5 cut(s)	386, 496, 875, 888, 1032
TseI	GCWGC	2 cut(s)	162, 621
TspDTI	ATGAA	2 cut(s)	152, 830
TspRI	CASTG	5 cut(s)	386, 496, 875, 888, 1032
Vha464I	CTTAAG	1 cut(s)	200
VpaK11BI	GGWCC	1 cut(s)	346
XapI	RAATTY	5 cut(s)	11, 105, 189, 443, 464
XceI	RCATGY	3 cut(s)	287, 313, 604
XcmI	CCANNNNNNNNNTGG	1 cut(s)	816
XmiI	GTMKAC	1 cut(s)	720
XspI	CTAG	2 cut(s)	716, 749
Zsp2I	ATGCAT	2 cut(s)	315, 371

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