Basic Information

Type: gene

Biological Identity

Species

arabidopsis_thaliana

Chromosome

Orthogroup ID

OG0002443

Physical Location & Seq

Genomic Coordinates Forward (+)

4542168 .. 4543970

Gene Structure 1803 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

AT1G13260.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1035 bp

ATGGAATCGAGTAGCGTTGATGAGAGTACTACAAGTACAGGTTCCATCTGTGAAACCCCGGCGATAACTCCGGCGAAAAAGTCGTCGGTAGGTAACTTATACAGGATGGGAAGCGGATCAAGCGTTGTGTTAGATTCAGAGAACGGCGTAGAAGCTGAATCTAGGAAGCTTCCGTCGTCAAAATACAAAGGTGTGGTGCCACAACCAAACGGAAGATGGGGAGCTCAGATTTACGAGAAACACCAGCGCGTGTGGCTCGGGACATTCAACGAAGAAGACGAAGCCGCTCGTGCCTACGACGTCGCGGTTCACAGGTTCCGTCGCCGTGACGCCGTCACAAATTTCAAAGACGTGAAGATGGACGAAGACGAGGTCGATTTCTTGAATTCTCATTCGAAATCTGAGATCGTTGATATGTTGAGGAAACATACTTATAACGAAGAGTTAGAGCAGAGTAAACGGCGTCGTAATGGTAACGGAAACATGACTAGGACGTTGTTAACGTCGGGGTTGAGTAATGATGGTGTTTCTACGACGGGGTTTAGATCGGCGGAGGCACTGTTTGAGAAAGCGGTAACGCCAAGCGACGTTGGGAAGCTAAACCGTTTGGTTATACCGAAACATCACGCAGAGAAACATTTTCCGTTACCGTCAAGTAACGTTTCCGTGAAAGGAGTGTTGTTGAACTTTGAGGACGTTAACGGGAAAGTGTGGAGGTTCCGTTACTCGTATTGGAACAGTAGTCAGAGTTATGTTTTGACTAAAGGTTGGAGCAGGTTCGTTAAGGAGAAGAATCTACGTGCTGGTGACGTGGTTAGTTTCAGTAGATCTAACGGTCAGGATCAACAGTTGTACATTGGGTGGAAGTCGAGATCCGGGTCAGATTTAGATGCGGGTCGGGTTTTGAGATTGTTCGGAGTTAACATTTCACCGGAGAGTTCAAGAAACGACGTCGTAGGAAACAAAAGAGTGAACGATACTGAGATGTTATCGTTGGTGTGTAGCAAGAAGCAACGCATCTTTCACGCCTCGTAA

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

344

Amino Acids

38.6

Weight (kDa)

9.39

Isoelectric Point (pI)

46.89

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
AP2	PF00847	60 - 107	4.6e-08	AP2 domain
B3	PF02362	188 - 291	1.7e-27	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)
AanI	TTATAA	1 cut(s)	435
AatII	GACGTC	2 cut(s)	303, 954
Acc36I	ACCTGC	1 cut(s)	765
AccB1I	GGYRCC	1 cut(s)	196
AccBSI	CCGCTC	1 cut(s)	287
AccII	CGCG	2 cut(s)	249, 305
AciI	CCGC	6 cut(s)	114, 285, 305, 551, 572, 893
AclI	AACGTT	1 cut(s)	660
AclWI	GGATC	3 cut(s)	124, 849, 867
AcsI	RAATTY	2 cut(s)	340, 385
AcyI	GRCGYC	4 cut(s)	300, 330, 463, 951
AfaI	GTAC	3 cut(s)	28, 37, 854
AgsI	TTSAA	5 cut(s)	268, 346, 385, 685, 942
AjiI	CACGTC	2 cut(s)	352, 811
AluBI	AGCT	4 cut(s)	155, 169, 224, 598
AluI	AGCT	4 cut(s)	155, 169, 224, 598
Alw21I	GWGCWC	1 cut(s)	226
AlwI	GGATC	3 cut(s)	124, 849, 867
Ama87I	CYCGRG	1 cut(s)	257
ApoI	RAATTY	2 cut(s)	340, 385
ArsI	GACNNNNNNTTYG	4 cut(s)	68, 100, 357, 389
AspLEI	GCGC	1 cut(s)	249
AsuC2I	CCSGG	2 cut(s)	59, 877
AsuHPI	GGTGA	2 cut(s)	818, 921
AsuII	TTCGAA	1 cut(s)	395
AvaI	CYCGRG	1 cut(s)	257
BanI	GGYRCC	1 cut(s)	196
BanII	GRGCYC	1 cut(s)	226
BauI	CACGAG	1 cut(s)	288
BbsI	GAAGAC	2 cut(s)	282, 372
Bbv12I	GWGCWC	1 cut(s)	226
BccI	CCATC	5 cut(s)	53, 100, 210, 352, 515
BceAI	ACGGC	4 cut(s)	160, 309, 317, 476
BcnI	CCSGG	2 cut(s)	59, 877
BfaI	CTAG	2 cut(s)	162, 489
BfuAI	ACCTGC	1 cut(s)	765
BglII	AGATCT	1 cut(s)	827
BisI	GCNGC	1 cut(s)	285
BlsI	GCNGC	1 cut(s)	286
BmcAI	AGTACT	1 cut(s)	28
Bme1390I	CCNGG	2 cut(s)	59, 877
BmeT110I	CYCGRG	1 cut(s)	257
BmgBI	CACGTC	2 cut(s)	352, 811
BmiI	GGNNCC	4 cut(s)	43, 198, 317, 719
BmrFI	CCNGG	2 cut(s)	59, 877
BmsI	GCATC	2 cut(s)	880, 1026
BpiI	GAAGAC	2 cut(s)	282, 372
Bpu14I	TTCGAA	1 cut(s)	395
BpuMI	CCSGG	2 cut(s)	59, 877
BsaAI	YACGTR	1 cut(s)	800
BsaHI	GRCGYC	4 cut(s)	300, 330, 463, 951
BsaJI	CCNNGG	1 cut(s)	57
BsaWI	WCCGGW	1 cut(s)	931
BsaXI	ACNNNNNCTCC	4 cut(s)	545, 575, 706, 736
BseDI	CCNNGG	1 cut(s)	57
BseGI	GGATG	1 cut(s)	111
BseMII	CTCAG	3 cut(s)	239, 393, 972
Bsh1236I	CGCG	2 cut(s)	249, 305
BshNI	GGYRCC	1 cut(s)	196
BsiHKAI	GWGCWC	1 cut(s)	226
BsiHKCI	CYCGRG	1 cut(s)	257
BsiSI	CCGG	4 cut(s)	59, 71, 876, 932
BslFI	GGGAC	1 cut(s)	274
BsmFI	GGGAC	1 cut(s)	274
BsoBI	CYCGRG	1 cut(s)	257
Bsp119I	TTCGAA	1 cut(s)	395
Bsp1286I	GDGCHC	1 cut(s)	226
Bsp1407I	TGTACA	1 cut(s)	852
Bsp143I	GATC	6 cut(s)	116, 405, 545, 827, 841, 872
BspACI	CCGC	6 cut(s)	114, 285, 305, 551, 572, 893
BspCNI	CTCAG	3 cut(s)	238, 394, 973
BspFNI	CGCG	2 cut(s)	249, 305
BspLI	GGNNCC	4 cut(s)	43, 198, 317, 719
BspMI	ACCTGC	1 cut(s)	765
BspPI	GGATC	3 cut(s)	124, 849, 867
BspT104I	TTCGAA	1 cut(s)	395
BspT107I	GGYRCC	1 cut(s)	196
BsrBI	CCGCTC	1 cut(s)	287
BsrGI	TGTACA	1 cut(s)	852
BssECI	CCNNGG	1 cut(s)	57
BssMI	GATC	6 cut(s)	116, 405, 545, 827, 841, 872
BssNI	GRCGYC	4 cut(s)	300, 330, 463, 951
BssSI	CACGAG	1 cut(s)	288
Bst2BI	CACGAG	1 cut(s)	288
Bst4CI	ACNGT	6 cut(s)	561, 605, 651, 740, 836, 849
Bst6I	CTCTTC	1 cut(s)	435
BstACI	GRCGYC	4 cut(s)	300, 330, 463, 951
BstAUI	TGTACA	1 cut(s)	852
BstBAI	YACGTR	1 cut(s)	800
BstBI	TTCGAA	1 cut(s)	395
BstDEI	CTNAG	3 cut(s)	225, 402, 981
BstF5I	GGATG	1 cut(s)	111
BstFNI	CGCG	2 cut(s)	249, 305
BstHHI	GCGC	1 cut(s)	249
BstKTI	GATC	6 cut(s)	119, 408, 548, 830, 844, 875
BstMBI	GATC	6 cut(s)	116, 405, 545, 827, 841, 872
BstMWI	GCNNNNNNNGC	3 cut(s)	120, 253, 290
BstSCI	CCNGG	2 cut(s)	57, 875
BstUI	CGCG	2 cut(s)	249, 305
BstV2I	GAAGAC	2 cut(s)	282, 372
BstX2I	RGATCY	2 cut(s)	827, 872
BstYI	RGATCY	2 cut(s)	827, 872
BtrI	CACGTC	2 cut(s)	352, 811
BtsCI	GGATG	1 cut(s)	111
BtsIMutI	CAGTG	1 cut(s)	557
BveI	ACCTGC	1 cut(s)	765
CfoI	GCGC	1 cut(s)	249
CseI	GACGC	2 cut(s)	338, 452
Csp6I	GTAC	3 cut(s)	27, 36, 853
CviAII	CATG	1 cut(s)	484
CviJI	RGCY	6 cut(s)	155, 169, 224, 256, 284, 598
CviKI_1	RGCY	6 cut(s)	155, 169, 224, 256, 284, 598
CviQI	GTAC	3 cut(s)	27, 36, 853
DdeI	CTNAG	3 cut(s)	225, 402, 981
DpnI	GATC	6 cut(s)	118, 407, 547, 829, 843, 874
DpnII	GATC	6 cut(s)	116, 405, 545, 827, 841, 872
Eam1104I	CTCTTC	1 cut(s)	435
EarI	CTCTTC	1 cut(s)	435
EciI	GGCGGA	1 cut(s)	566
Ecl136II	GAGCTC	1 cut(s)	224
Eco24I	GRGCYC	1 cut(s)	226
Eco53kI	GAGCTC	1 cut(s)	224
Eco88I	CYCGRG	1 cut(s)	257
EcoICRI	GAGCTC	1 cut(s)	224
EcoRI	GAATTC	1 cut(s)	385
EcoT38I	GRGCYC	1 cut(s)	226
FaeI	CATG	1 cut(s)	487
FaiI	YATR	7 cut(s)	100, 416, 429, 435, 485, 614, 753
FaqI	GGGAC	1 cut(s)	274
FatI	CATG	1 cut(s)	483
FauI	CCCGC	1 cut(s)	886
Fnu4HI	GCNGC	1 cut(s)	285
FokI	GGATG	1 cut(s)	118
FriOI	GRGCYC	1 cut(s)	226
Fsp4HI	GCNGC	1 cut(s)	285
FspBI	CTAG	2 cut(s)	162, 489
GlaI	GCGC	1 cut(s)	248
GluI	GCNGC	1 cut(s)	285
HapII	CCGG	4 cut(s)	59, 71, 876, 932
HgaI	GACGC	2 cut(s)	338, 452
HhaI	GCGC	1 cut(s)	249
Hin1I	GRCGYC	4 cut(s)	300, 330, 463, 951
Hin1II	CATG	1 cut(s)	487
Hin6I	GCGC	1 cut(s)	247
HinP1I	GCGC	1 cut(s)	247
HincII	GTYRAC	3 cut(s)	501, 700, 922
HindII	GTYRAC	3 cut(s)	501, 700, 922
HindIII	AAGCTT	1 cut(s)	167
HinfI	GANTC	4 cut(s)	5, 134, 158, 793
HpaI	GTTAAC	3 cut(s)	501, 700, 922
HpaII	CCGG	4 cut(s)	59, 71, 876, 932
HphI	GGTGA	2 cut(s)	818, 921
Hpy166II	GTNNAC	6 cut(s)	310, 458, 501, 700, 922, 973
Hpy188I	TCNGA	6 cut(s)	139, 228, 403, 747, 883, 917
Hpy188III	TCNNGA	5 cut(s)	259, 382, 839, 870, 942
Hpy8I	GTNNAC	6 cut(s)	310, 458, 501, 700, 922, 973
HpyCH4III	ACNGT	6 cut(s)	561, 605, 651, 740, 836, 849
HpyF10VI	GCNNNNNNNGC	3 cut(s)	120, 253, 290
HpyF3I	CTNAG	3 cut(s)	225, 402, 981
Hsp92I	GRCGYC	4 cut(s)	300, 330, 463, 951
Hsp92II	CATG	1 cut(s)	487
HspAI	GCGC	1 cut(s)	247
KspAI	GTTAAC	3 cut(s)	501, 700, 922
Kzo9I	GATC	6 cut(s)	116, 405, 545, 827, 841, 872
LmnI	GCTCC	2 cut(s)	221, 771
LweI	GCATC	2 cut(s)	880, 1026
MaeI	CTAG	2 cut(s)	162, 489
MaeIII	GTNAC	9 cut(s)	92, 326, 334, 473, 574, 645, 656, 722, 806
MalI	GATC	6 cut(s)	118, 407, 547, 829, 843, 874
MbiI	CCGCTC	1 cut(s)	287
MboI	GATC	6 cut(s)	116, 405, 545, 827, 841, 872
MboII	GAAGA	7 cut(s)	225, 284, 287, 367, 377, 452, 802
MflI	RGATCY	2 cut(s)	827, 872
MhlI	GDGCHC	1 cut(s)	226
MluCI	AATT	2 cut(s)	340, 385
MmeI	TCCRAC	1 cut(s)	749
MnlI	CCTC	5 cut(s)	364, 414, 547, 685, 708
MseI	TTAA	4 cut(s)	500, 699, 783, 921
MspI	CCGG	4 cut(s)	59, 71, 876, 932
MspR9I	CCNGG	2 cut(s)	59, 877
MvnI	CGCG	2 cut(s)	249, 305
MwoI	GCNNNNNNNGC	3 cut(s)	120, 253, 290
NciI	CCSGG	2 cut(s)	59, 877
NdeII	GATC	6 cut(s)	116, 405, 545, 827, 841, 872
NlaIII	CATG	1 cut(s)	487
NlaIV	GGNNCC	4 cut(s)	43, 198, 317, 719
NmuCI	GTSAC	3 cut(s)	326, 334, 806
NspV	TTCGAA	1 cut(s)	395
PcsI	WCGNNNNNNNCGW	2 cut(s)	276, 500
PfeI	GAWTC	4 cut(s)	5, 134, 158, 793
PflFI	GACNNNGTC	2 cut(s)	332, 371
PkrI	GCNGC	1 cut(s)	286
Ppu21I	YACGTR	1 cut(s)	800
PsiI	TTATAA	1 cut(s)	435
Psp124BI	GAGCTC	1 cut(s)	226
Psp1406I	AACGTT	1 cut(s)	660
PspN4I	GGNNCC	4 cut(s)	43, 198, 317, 719
PsuI	RGATCY	2 cut(s)	827, 872
PsyI	GACNNNGTC	2 cut(s)	332, 371
RsaI	GTAC	3 cut(s)	28, 37, 854
RsaNI	GTAC	3 cut(s)	27, 36, 853
SacI	GAGCTC	1 cut(s)	226
SaqAI	TTAA	4 cut(s)	500, 699, 783, 921
SatI	GCNGC	1 cut(s)	285
Sau3AI	GATC	6 cut(s)	116, 405, 545, 827, 841, 872
ScaI	AGTACT	1 cut(s)	28
ScrFI	CCNGG	2 cut(s)	59, 877
SduI	GDGCHC	1 cut(s)	226
SfaNI	GCATC	2 cut(s)	880, 1026
SfuI	TTCGAA	1 cut(s)	395
Sse9I	AATT	2 cut(s)	340, 385
SsiI	CCGC	6 cut(s)	114, 285, 305, 551, 572, 893
SspMI	CTAG	2 cut(s)	162, 489
SstI	GAGCTC	1 cut(s)	226
StyD4I	CCNGG	2 cut(s)	57, 875
TaaI	ACNGT	6 cut(s)	561, 605, 651, 740, 836, 849
TaqI	TCGA	4 cut(s)	8, 375, 395, 869
TasI	AATT	2 cut(s)	340, 385
TatI	WGTACW	3 cut(s)	26, 35, 852
TauI	GCSGC	1 cut(s)	287
TfiI	GAWTC	4 cut(s)	5, 134, 158, 793
Tru1I	TTAA	4 cut(s)	500, 699, 783, 921
Tru9I	TTAA	4 cut(s)	500, 699, 783, 921
TscAI	CASTG	1 cut(s)	564
TseFI	GTSAC	3 cut(s)	326, 334, 806
Tsp45I	GTSAC	3 cut(s)	326, 334, 806
TspGWI	ACGGA	7 cut(s)	162, 225, 308, 492, 633, 655, 710
TspRI	CASTG	1 cut(s)	564
Tth111I	GACNNNGTC	2 cut(s)	332, 371
XapI	RAATTY	2 cut(s)	340, 385
XcmI	CCANNNNNNNNNTGG	1 cut(s)	213
XspI	CTAG	2 cut(s)	162, 489
ZraI	GACGTC	2 cut(s)	301, 952
ZrmI	AGTACT	1 cut(s)	28

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