Basic Information

Type: gene

Biological Identity

Species

arabidopsis_thaliana

Chromosome

Orthogroup ID

N/A

Physical Location & Seq

Genomic Coordinates Forward (+)

20180610 .. 20182374

Gene Structure 1765 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

AT1G54060.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1152 bp

ATGGAGGACGACGACGAGATTCAGTCAATTCCATCTCCGGGAGATTCTTCCCTTTCACCACAAGCTCCTCCTTCTCCGCCGATTTTGCCAACAAACGACGTGACGGTGGCCGTCGTGAAGAAACCACAACCGGGGCTTTCTTCTCAATCTCCGTCCATGAACGCTTTAGCGTTAGTGGTTCATACTCCTTCTGTAACCGGTGGTGGTGGTAGCGGAAACAGAAACGGACGAGGAGGAGGAGGAGGAAGCGGTGGTGGTGGAGGAGGAAGAGATGATTGTTGGAGCGAAGAAGCTACAAAGGTTCTAATCGAAGCTTGGGGAGATCGATTCTCTGAACCAGGTAAAGGAACTTTGAAGCAACAACATTGGAAAGAAGTAGCTGAGATTGTGAACAAGAGTCGTCAATGCAAATACCCTAAAACTGATATTCAGTGTAAGAACAGAATTGATACGGTGAAGAAGAAGTATAAGCAAGAGAAAGCTAAGATTGCTTCTGGTGATGGACCTAGTAAATGGGTTTTCTTCAAGAAGCTTGAGAGTTTGATTGGTGGTACTACAACATTCATTGCTTCTTCAAAAGCTTCAGAGAAGGCTCCTATGGGAGGAGCTCTTGGGAATAGCCGTTCGAGTATGTTTAAACGGCAAACTAAAGGTAATCAGATTGTGCAGCAACAACAAGAGAAGAGAGGCTCTGATTCGATGCGGTGGCATTTTAGGAAACGTAGTGCTTCTGAGACTGAGTCTGAGTCTGATCCTGAACCTGAGGCTTCTCCTGAGGAATCTGCTGAGAGTCTCCCACCTTTGCAACCGATTCAACCGCTTTCGTTTCATATGCCAAAGCGGTTGAAGGTGGATAAGAGTGGAGGTGGAGGGAGTGGAGTTGGAGATGTGGCGAGGGCGATACTTGGATTTACGGAAGCTTATGAGAAGGCGGAAACTGCTAAGCTTAAGTTAATGGCGGAACTGGAAAAGGAGAGGATGAAATTTGCTAAAGAGATGGAGTTGCAGAGAATGCAGTTCTTGAAAACTCAATTGGAGATAACACAGAACAATCAAGAAGAGGAAGAGAGGAGCAGGCAGCGAGGAGAAAGGAGGATCGTTGATGATGATGATGATCGCAATGGCAAGAATAACGGCAATGTAAGTAGCTGA

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:0005730 GO:0006355 GO:0007275 GO:0008150 GO:0009719 GO:0009725 GO:0009733 GO:0009790 GO:0009791 GO:0009793 GO:0009889 GO:0010029 GO:0010033 GO:0010154 GO:0010431 GO:0010468 GO:0010556 GO:0019219 GO:0019222 GO:0021700 GO:0022414 GO:0031323 GO:0031326 GO:0031974 GO:0031981 GO:0032501 GO:0032502 GO:0032504 GO:0042221 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0043565 GO:0044212 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0048316 GO:0048580 GO:0048608 GO:0048609 GO:0048731 GO:0048831 GO:0048856 GO:0050789 GO:0050793 GO:0050794 GO:0050896 GO:0051171 GO:0051239 GO:0051252 GO:0060255 GO:0061458 GO:0065007 GO:0070013 GO:0071695 GO:0080090 GO:0097159 GO:0140110 GO:1900140 GO:1901363 GO:1903506 GO:2000026 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Myb_DNA-bind_4

Protein Analysis

383

Amino Acids

41.73

Weight (kDa)

8.73

Isoelectric Point (pI)

61.96

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Myb_DNA-bind_4	PF13837	92 - 181	1.4e-19	Myb/SANT-like 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

No orthologs found for this gene in the current database.

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	8 cut(s)	77, 213, 249, 703, 818, 841, 932, 959
AclWI	GGATC	2 cut(s)	746, 1103
AcoI	YGGCCR	1 cut(s)	108
AcsI	RAATTY	1 cut(s)	983
AcuI	CTGAAG	1 cut(s)	567
AfaI	GTAC	1 cut(s)	553
AfiI	CCNNNNNNNGG	4 cut(s)	38, 131, 344, 602
AflII	CTTAAG	1 cut(s)	947
AgeI	ACCGGT	1 cut(s)	197
AgsI	TTSAA	6 cut(s)	355, 526, 576, 815, 847, 1024
AjiI	CACGTC	1 cut(s)	100
AjnI	CCWGG	1 cut(s)	337
AjuI	GAANNNNNNNTTGG	2 cut(s)	1016, 1048
AloI	GAACNNNNNNTCC	2 cut(s)	607, 639
Alw21I	GWGCWC	1 cut(s)	610
Alw26I	GTCTC	2 cut(s)	728, 797
AlwI	GGATC	2 cut(s)	746, 1103
AoxI	GGCC	1 cut(s)	108
ApeKI	GCWGC	2 cut(s)	667, 1078
ApoI	RAATTY	1 cut(s)	983
AsiGI	ACCGGT	1 cut(s)	197
AspS9I	GGNCC	1 cut(s)	503
AsuC2I	CCSGG	2 cut(s)	39, 132
AsuHPI	GGTGA	3 cut(s)	48, 466, 509
AvaII	GGWCC	1 cut(s)	503
AxyI	CCTNAGG	2 cut(s)	762, 774
BanII	GRGCYC	1 cut(s)	610
Bbv12I	GWGCWC	1 cut(s)	610
BbvI	GCAGC	2 cut(s)	679, 1090
BccI	CCATC	3 cut(s)	40, 494, 991
BceAI	ACGGC	4 cut(s)	95, 606, 656, 1150
BciT130I	CCWGG	1 cut(s)	339
BcnI	CCSGG	2 cut(s)	39, 132
BcoDI	GTCTC	2 cut(s)	728, 797
BfaI	CTAG	1 cut(s)	507
BfrI	CTTAAG	1 cut(s)	947
BisI	GCNGC	2 cut(s)	668, 1079
BlpI	GCTNAGC	1 cut(s)	942
BlsI	GCNGC	2 cut(s)	669, 1080
Bme1390I	CCNGG	3 cut(s)	39, 132, 339
Bme18I	GGWCC	1 cut(s)	503
BmgBI	CACGTC	1 cut(s)	100
BmgT120I	GGNCC	1 cut(s)	503
BmiI	GGNNCC	1 cut(s)	594
BmrFI	CCNGG	3 cut(s)	39, 132, 339
BmsI	GCATC	1 cut(s)	690
Bpu1102I	GCTNAGC	1 cut(s)	942
BpuEI	CTTGAG	1 cut(s)	554
BpuMI	CCSGG	2 cut(s)	39, 132
Bsa29I	ATCGAT	1 cut(s)	325
BsaBI	GATNNNNATC	1 cut(s)	1113
BsaJI	CCNNGG	1 cut(s)	131
BsaWI	WCCGGW	1 cut(s)	197
Bsc4I	CCNNNNNNNGG	4 cut(s)	38, 131, 344, 602
Bse118I	RCCGGY	1 cut(s)	197
Bse1I	ACTGG	1 cut(s)	969
Bse21I	CCTNAGG	2 cut(s)	762, 774
Bse3DI	GCAATG	3 cut(s)	564, 1126, 1144
Bse8I	GATNNNNATC	1 cut(s)	1113
BseBI	CCWGG	1 cut(s)	339
BseCI	ATCGAT	1 cut(s)	325
BseDI	CCNNGG	1 cut(s)	131
BseGI	GGATG	1 cut(s)	984
BseJI	GATNNNNATC	1 cut(s)	1113
BseLI	CCNNNNNNNGG	4 cut(s)	38, 131, 344, 602
BseMI	GCAATG	3 cut(s)	564, 1126, 1144
BseMII	CTCAG	7 cut(s)	372, 723, 729, 735, 753, 765, 777
BseNI	ACTGG	1 cut(s)	969
BseRI	GAGGAG	9 cut(s)	57, 246, 249, 252, 255, 276, 618, 1084, 1098
BseXI	GCAGC	2 cut(s)	679, 1090
BsgI	GTGCAG	1 cut(s)	686
BshFI	GGCC	1 cut(s)	110
BshTI	ACCGGT	1 cut(s)	197
BshVI	ATCGAT	1 cut(s)	325
BsiHKAI	GWGCWC	1 cut(s)	610
BsiSI	CCGG	3 cut(s)	38, 131, 198
BslI	CCNNNNNNNGG	4 cut(s)	38, 131, 344, 602
BsmAI	GTCTC	2 cut(s)	728, 797
BsmI	GAATGC	1 cut(s)	1017
BsnI	GGCC	1 cut(s)	110
Bsp1286I	GDGCHC	1 cut(s)	610
Bsp143I	GATC	4 cut(s)	322, 751, 1095, 1114
Bsp1720I	GCTNAGC	1 cut(s)	942
BspACI	CCGC	8 cut(s)	77, 213, 249, 703, 818, 841, 932, 959
BspANI	GGCC	1 cut(s)	110
BspCNI	CTCAG	7 cut(s)	373, 724, 730, 736, 754, 766, 778
BspDI	ATCGAT	1 cut(s)	325
BspLI	GGNNCC	1 cut(s)	594
BspPI	GGATC	2 cut(s)	746, 1103
BspTI	CTTAAG	1 cut(s)	947
BsrDI	GCAATG	3 cut(s)	564, 1126, 1144
BsrFI	RCCGGY	1 cut(s)	197
BsrI	ACTGG	1 cut(s)	969
BssAI	RCCGGY	1 cut(s)	197
BssECI	CCNNGG	1 cut(s)	131
BssMI	GATC	4 cut(s)	322, 751, 1095, 1114
Bst2UI	CCWGG	1 cut(s)	339
Bst4CI	ACNGT	2 cut(s)	106, 454
Bst6I	CTCTTC	4 cut(s)	262, 677, 1053, 1059
BstAFI	CTTAAG	1 cut(s)	947
BstAPI	GCANNNNNTGC	1 cut(s)	1012
BstC8I	GCNNGC	1 cut(s)	1076
BstDEI	CTNAG	9 cut(s)	381, 483, 732, 738, 744, 762, 774, 786, 942
BstENI	CCTNNNNNAGG	1 cut(s)	600
BstF5I	GGATG	1 cut(s)	984
BstKTI	GATC	4 cut(s)	325, 754, 1098, 1117
BstMAI	GTCTC	2 cut(s)	728, 797
BstMBI	GATC	4 cut(s)	322, 751, 1095, 1114
BstMWI	GCNNNNNNNGC	4 cut(s)	85, 488, 938, 1012
BstNI	CCWGG	1 cut(s)	339
BstSCI	CCNGG	3 cut(s)	37, 130, 337
BstV1I	GCAGC	2 cut(s)	679, 1090
Bsu15I	ATCGAT	1 cut(s)	325
Bsu36I	CCTNAGG	2 cut(s)	762, 774
BsuRI	GGCC	1 cut(s)	110
BsuTUI	ATCGAT	1 cut(s)	325
BtrI	CACGTC	1 cut(s)	100
BtsCI	GGATG	1 cut(s)	984
BtsIMutI	CAGTG	1 cut(s)	437
Cac8I	GCNNGC	1 cut(s)	1076
Cfr10I	RCCGGY	1 cut(s)	197
Cfr13I	GGNCC	1 cut(s)	503
ClaI	ATCGAT	1 cut(s)	325
CsiI	ACCWGGT	1 cut(s)	337
Csp6I	GTAC	1 cut(s)	552
CspAI	ACCGGT	1 cut(s)	197
CviAII	CATG	1 cut(s)	157
CviQI	GTAC	1 cut(s)	552
DdeI	CTNAG	9 cut(s)	381, 483, 732, 738, 744, 762, 774, 786, 942
DpnI	GATC	4 cut(s)	324, 753, 1097, 1116
DpnII	GATC	4 cut(s)	322, 751, 1095, 1114
DraI	TTTAAA	1 cut(s)	637
EaeI	YGGCCR	1 cut(s)	108
Eam1104I	CTCTTC	4 cut(s)	262, 677, 1053, 1059
EarI	CTCTTC	4 cut(s)	262, 677, 1053, 1059
EciI	GGCGGA	3 cut(s)	66, 947, 974
Ecl136II	GAGCTC	1 cut(s)	608
Eco24I	GRGCYC	1 cut(s)	610
Eco47I	GGWCC	1 cut(s)	503
Eco53kI	GAGCTC	1 cut(s)	608
Eco57I	CTGAAG	1 cut(s)	567
Eco81I	CCTNAGG	2 cut(s)	762, 774
EcoICRI	GAGCTC	1 cut(s)	608
EcoNI	CCTNNNNNAGG	1 cut(s)	600
EcoRII	CCWGG	1 cut(s)	337
EcoT38I	GRGCYC	1 cut(s)	610
FaeI	CATG	1 cut(s)	160
FaiI	YATR	8 cut(s)	158, 183, 468, 599, 632, 831, 833, 924
FatI	CATG	1 cut(s)	156
FauNDI	CATATG	1 cut(s)	831
Fnu4HI	GCNGC	2 cut(s)	668, 1079
FokI	GGATG	1 cut(s)	991
FriOI	GRGCYC	1 cut(s)	610
Fsp4HI	GCNGC	2 cut(s)	668, 1079
FspBI	CTAG	1 cut(s)	507
GluI	GCNGC	2 cut(s)	668, 1079
HaeIII	GGCC	1 cut(s)	110
HapII	CCGG	3 cut(s)	38, 131, 198
Hin1II	CATG	1 cut(s)	160
HindIII	AAGCTT	5 cut(s)	312, 530, 579, 918, 944
HpaII	CCGG	3 cut(s)	38, 131, 198
HphI	GGTGA	3 cut(s)	48, 466, 509
Hpy166II	GTNNAC	1 cut(s)	391
Hpy188I	TCNGA	7 cut(s)	334, 586, 660, 694, 733, 745, 751
Hpy188III	TCNNGA	6 cut(s)	115, 526, 755, 773, 1021, 1055
Hpy8I	GTNNAC	1 cut(s)	391
Hpy99I	CGWCG	4 cut(s)	14, 17, 101, 116
HpyAV	CCTTC	5 cut(s)	81, 198, 583, 841, 922
HpyCH4III	ACNGT	2 cut(s)	106, 454
HpyCH4IV	ACGT	2 cut(s)	99, 721
HpyCH4V	TGCA	5 cut(s)	408, 667, 805, 1006, 1015
HpyF10VI	GCNNNNNNNGC	4 cut(s)	85, 488, 938, 1012
HpyF3I	CTNAG	9 cut(s)	381, 483, 732, 738, 744, 762, 774, 786, 942
HpySE526I	ACGT	2 cut(s)	99, 721
Hsp92II	CATG	1 cut(s)	160
Kzo9I	GATC	4 cut(s)	322, 751, 1095, 1114
LmnI	GCTCC	5 cut(s)	70, 282, 598, 605, 1071
Lsp1109I	GCAGC	2 cut(s)	679, 1090
LweI	GCATC	1 cut(s)	690
MabI	ACCWGGT	1 cut(s)	337
MaeI	CTAG	1 cut(s)	507
MaeII	ACGT	2 cut(s)	99, 721
MaeIII	GTNAC	2 cut(s)	100, 193
MalI	GATC	4 cut(s)	324, 753, 1097, 1116
MboI	GATC	4 cut(s)	322, 751, 1095, 1114
MfeI	CAATTG	1 cut(s)	1031
MhlI	GDGCHC	1 cut(s)	610
MluCI	AATT	4 cut(s)	27, 444, 983, 1031
MlyI	GAGTC	4 cut(s)	406, 749, 755, 799
MmeI	TCCRAC	2 cut(s)	260, 862
MseI	TTAA	3 cut(s)	636, 948, 953
MspCI	CTTAAG	1 cut(s)	947
MspI	CCGG	3 cut(s)	38, 131, 198
MspR9I	CCNGG	3 cut(s)	39, 132, 339
MssI	GTTTAAAC	1 cut(s)	637
MunI	CAATTG	1 cut(s)	1031
Mva1269I	GAATGC	1 cut(s)	1017
MvaI	CCWGG	1 cut(s)	339
MwoI	GCNNNNNNNGC	4 cut(s)	85, 488, 938, 1012
NciI	CCSGG	2 cut(s)	39, 132
NdeI	CATATG	1 cut(s)	831
NdeII	GATC	4 cut(s)	322, 751, 1095, 1114
NlaIII	CATG	1 cut(s)	160
NlaIV	GGNNCC	1 cut(s)	594
NmuCI	GTSAC	1 cut(s)	100
PctI	GAATGC	1 cut(s)	1017
PfeI	GAWTC	6 cut(s)	19, 44, 327, 695, 779, 811
PflFI	GACNNNGTC	1 cut(s)	739
PfoI	TCCNGGA	1 cut(s)	37
PinAI	ACCGGT	1 cut(s)	197
PkrI	GCNGC	2 cut(s)	669, 1080
PleI	GAGTC	4 cut(s)	405, 748, 754, 798
PmeI	GTTTAAAC	1 cut(s)	637
PpsI	GAGTC	4 cut(s)	405, 748, 754, 798
Psp124BI	GAGCTC	1 cut(s)	610
Psp6I	CCWGG	1 cut(s)	337
PspGI	CCWGG	1 cut(s)	337
PspN4I	GGNNCC	1 cut(s)	594
PspPI	GGNCC	1 cut(s)	503
PsyI	GACNNNGTC	1 cut(s)	739
RsaI	GTAC	1 cut(s)	553
RsaNI	GTAC	1 cut(s)	552
SacI	GAGCTC	1 cut(s)	610
SaqAI	TTAA	3 cut(s)	636, 948, 953
SatI	GCNGC	2 cut(s)	668, 1079
Sau3AI	GATC	4 cut(s)	322, 751, 1095, 1114
Sau96I	GGNCC	1 cut(s)	503
SchI	GAGTC	4 cut(s)	406, 749, 755, 799
ScrFI	CCNGG	3 cut(s)	39, 132, 339
SduI	GDGCHC	1 cut(s)	610
SexAI	ACCWGGT	1 cut(s)	337
SfaNI	GCATC	1 cut(s)	690
SinI	GGWCC	1 cut(s)	503
SmlI	CTYRAG	2 cut(s)	533, 947
SmoI	CTYRAG	2 cut(s)	533, 947
Sse9I	AATT	4 cut(s)	27, 444, 983, 1031
SsiI	CCGC	8 cut(s)	77, 213, 249, 703, 818, 841, 932, 959
SspMI	CTAG	1 cut(s)	507
SstI	GAGCTC	1 cut(s)	610
StyD4I	CCNGG	3 cut(s)	37, 130, 337
TaaI	ACNGT	2 cut(s)	106, 454
TaiI	ACGT	2 cut(s)	102, 724
TaqI	TCGA	4 cut(s)	309, 325, 626, 698
TasI	AATT	4 cut(s)	27, 444, 983, 1031
TfiI	GAWTC	6 cut(s)	19, 44, 327, 695, 779, 811
Tru1I	TTAA	3 cut(s)	636, 948, 953
Tru9I	TTAA	3 cut(s)	636, 948, 953
TscAI	CASTG	1 cut(s)	437
TseFI	GTSAC	1 cut(s)	100
TseI	GCWGC	2 cut(s)	667, 1078
Tsp45I	GTSAC	1 cut(s)	100
TspDTI	ATGAA	5 cut(s)	170, 173, 553, 818, 995
TspGWI	ACGGA	3 cut(s)	141, 240, 929
TspRI	CASTG	1 cut(s)	437
Tth111I	GACNNNGTC	1 cut(s)	739
Vha464I	CTTAAG	1 cut(s)	947
VpaK11BI	GGWCC	1 cut(s)	503
XagI	CCTNNNNNAGG	1 cut(s)	600
XapI	RAATTY	1 cut(s)	983
XspI	CTAG	1 cut(s)	507

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