Basic Information

Type: gene

Biological Identity

Species

arabidopsis_thaliana

Chromosome

Orthogroup ID

OG0003249

Physical Location & Seq

Genomic Coordinates Reverse (-)

6399532 .. 6403392

Gene Structure 3861 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

AT3G18600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1707 bp

ATGGTTGAATCGGACAAGTCATCCGTTGAAGAGCTGAAGAAGAGGGTTAGGAAGAGAAGCCGTGGGAAGAAGAATGAGCAGCAAAAGGCTGAAGAAAAAACCCACACTGTAGAGGAAAACGCTGATGAAACGCAGAAGAAGAGTGAAAAGAAGGTTAAGAAAGTGAGAGGCAAAATCGAGGAAGAGGAAGAAAAGGTGGAAGCAATGGAAGATGGTGAAGATGAGAAGAATATTGTGATTGTCGGGAAAGGGATAATGACTAATGTGACTTTTGATTCCCTCGACTTATCTGAGCAAACTTCTATAGCTATCAAGGAGATGGGCTTTCAGTACATGACGCAAATTCAAGCTGGATCAATTCAGCCCCTTTTGGAGGGGAAGGATGTTCTTGGTGCTGCCAGAACTGGTTCTGGTAAAACTCTTGCTTTTCTCATTCCGGCTGTTGAGTTGCTGTTTAAAGAGCGTTTCTCTCCTCGCAACGGGACTGGTGTGATTGTTATTTGCCCCACAAGGGAACTTGCTATCCAGACTAAAAATGTGGCGGAGGAGTTACTCAAGCATCATTCACAGACAGTCAGCATGGTTATTGGTGGCAATAACAGAAGGTCGGAAGCACAACGCATTGCCAGTGGTTCAAACTTGGTGATAGCAACTCCTGGTCGTCTTCTTGACCATCTTCAGAATACAAAGGCTTTCATTTATAAACACTTGAAGTGCCTTGTGATCGATGAAGCTGATAGGATACTGGAAGAGAATTTTGAGGAAGACATGAATAAGATTCTAAAGATTTTACCAAAGACTAGGCAAACTGCGTTATTCTCTGCCACCCAGACCTCTAAGGTTAAAGATCTTGCTCGGGTGTCATTGACATCACCTGTTCATGTGGATGTCGATGATGGCAGACGCAAGGTGACAAATGAAGGATTGGAGCAAGGCTATTGTGTTGTTCCGAGCAAACAAAGACTTATCCTTCTAATTTCCTTTTTGAAAAAGAACCTAAATAAAAAGATTATGGTATTTTTCTCGACTTGCAAGTCGGTACAATTCCATACGGAAATCATGAAAATAAGCGACGTGGATGTCTCTGATATTCATGGAGGCATGGATCAGAACAGAAGAACTAAAACCTTTTTCGACTTCATGAAAGCAAAGAAAGGTATCTTGTTATGTACTGATGTTGCTGCTCGTGGTCTCGATATTCCTTCCGTGGACTGGATTATACAGTATGATCCACCAGACAAGCCAACGGAATATATCCATAGGGTTGGTCGAACAGCCCGTGGAGAAGGAGCAAAGGGAAAGGCATTACTTGTCTTGATTCCTGAAGAACTTCAGTTTATTCGCTACCTGAAGGCTGCGAAAGTACCTGTTAAAGAGCTTGAGTTCAATGAGAAGAGGCTTAGTAATGTTCAATCTGCGCTGGAGAAATGTGTTGCCAAGGACTACAATCTGAACAAGTTAGCCAAAGATGCGTACAGGGCTTATCTCTCAGCATACAATTCACACTCTTTGAAAGACATCTTTAATGTTCACCGACTTGACCTCCTGGCTGTTGCTGAATCGTTCTGCTTCTCTTCGCCGCCTAAAGTGAATCTGAACATAGAAAGTGGAGCTGGGAAGGTGAGGAAGGCGAGAAAGCAGCAAGGTCGCAATGGCTTCAGTCCTTACAGTCCCTATGGCAAGTCCACACCTACAAAGGAGGCATAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003724 GO:0003824 GO:0004004 GO:0004386 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005730 GO:0005737 GO:0006139 GO:0006725 GO:0006807 GO:0008026 GO:0008150 GO:0008152 GO:0008186 GO:0009987 GO:0010501 GO:0016070 GO:0016462 GO:0016787 GO:0016817 GO:0016818 GO:0016887 GO:0017111 GO:0031974 GO:0031981 GO:0034641 GO:0042623 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0046483 GO:0070013 GO:0070035 GO:0071704 GO:0090304 GO:0140098 GO:1901360

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

DEAD DUF4217 Helicase_C

Protein Analysis

568

Amino Acids

63.82

Weight (kDa)

9.3

Isoelectric Point (pI)

36.68

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
DEAD	PF00270	113 - 284	4.7e-48	DEAD/DEAH box helicase
ResIII	PF04851	128 - 276	2.7e-10	Type III restriction enzyme, res subunit
Helicase_C	PF00271	324 - 427	3.9e-27	Helicase conserved C-terminal domain
CTE_SPB4	PF13959	481 - 530	4.5e-17	ATP-dependent rRNA helicase SPB4-like, C-terminal extension

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: OG0003249)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G18600
fragaria_vesca	FvH4_5g12870
malus_domestica	MD05G1177700.v1.1 MD06G1209500.v1.1 MD14G1220200.v1.1 MD15G1015500.v1.1
prunus_persica	Prupe.5G214700_v2.0.a1 Prupe.6G096100_v2.0.a1 Prupe.6G096400_v2.0.a1 Prupe.6G096400_v2.0.a1 Prupe.6G097300_v2.0.a1
pyrus_communis	pycom05g16360 pycom05g16400 pycom05g16410 pycom06g18710 pycom14g18230 pycom15g01320
rosa_chinensis	RchiOBHm_Chr5g0083351 RchiOBHm_Chr5g0083361 RchiOBHm_Chr7g0184361
rosa_laevigata	RLG00000004982 RLG00000037030
rosa_multiflora	Rmu_sc0001444.1_g000013 Rmu_sc0001557.1_g000022 Rmu_sc0002245.1_g000045
rosa_roxburghii	Rroxscaffold_1G00001130 Rroxscaffold_3G00269690
rosa_samantha	Rh5AG533800 Rh5BG561600 Rh5CG583900 Rh5CG584000 Rh7AG080700 Rh7BG066500 Rh7CG066800 Rh7DG066500
rosa_wichuraiana	Rw5G049900 Rw7G005460

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	702
AasI	GACNNNNNNGTC	2 cut(s)	1033, 1079
AciI	CCGC	2 cut(s)	542, 1580
AclWI	GGATC	3 cut(s)	361, 1113, 1223
AcsI	RAATTY	2 cut(s)	342, 754
AcuI	CTGAAG	7 cut(s)	56, 111, 662, 1316, 1344, 1370, 1642
AfaI	GTAC	5 cut(s)	332, 1041, 1171, 1365, 1475
AfiI	CCNNNNNNNGG	4 cut(s)	373, 479, 511, 1212
AgsI	TTSAA	9 cut(s)	8, 29, 347, 636, 712, 988, 1387, 1412, 1513
AjiI	CACGTC	1 cut(s)	1075
AjnI	CCWGG	2 cut(s)	655, 1545
AloI	GAACNNNNNNTCC	2 cut(s)	507, 539
AluBI	AGCT	6 cut(s)	34, 308, 350, 734, 1378, 1613
AluI	AGCT	6 cut(s)	34, 308, 350, 734, 1378, 1613
Alw26I	GTCTC	2 cut(s)	1087, 1196
AlwI	GGATC	3 cut(s)	361, 1113, 1223
Ama87I	CYCGRG	1 cut(s)	855
ApeKI	GCWGC	5 cut(s)	79, 395, 1181, 1355, 1639
ApoI	RAATTY	2 cut(s)	342, 754
Asp700I	GAANNNNTTC	2 cut(s)	406, 1329
AspLEI	GCGC	1 cut(s)	1420
AsuHPI	GGTGA	6 cut(s)	227, 655, 864, 922, 1523, 1633
AvaI	CYCGRG	1 cut(s)	855
BauI	CACGAG	1 cut(s)	1185
BbsI	GAAGAC	2 cut(s)	656, 771
BbvI	GCAGC	5 cut(s)	91, 382, 1168, 1342, 1651
BccI	CCATC	4 cut(s)	206, 313, 681, 890
BceAI	ACGGC	1 cut(s)	45
BcgI	CGANNNNNNTGC	2 cut(s)	1628, 1662
BciT130I	CCWGG	2 cut(s)	657, 1547
BciVI	GTATCC	1 cut(s)	735
BcoDI	GTCTC	2 cut(s)	1087, 1196
BfaI	CTAG	1 cut(s)	801
BfmI	CTRYAG	2 cut(s)	108, 303
BfuI	GTATCC	1 cut(s)	735
BglII	AGATCT	1 cut(s)	847
BisI	GCNGC	6 cut(s)	80, 396, 1182, 1356, 1580, 1640
BlsI	GCNGC	6 cut(s)	81, 397, 1183, 1357, 1581, 1641
Bme1390I	CCNGG	2 cut(s)	657, 1547
BmeT110I	CYCGRG	1 cut(s)	855
BmgBI	CACGTC	1 cut(s)	1075
BmrFI	CCNGG	2 cut(s)	657, 1547
BmsI	GCATC	2 cut(s)	568, 1459
BpiI	GAAGAC	2 cut(s)	656, 771
BplI	GAGNNNNNCTC	2 cut(s)	452, 484
BpmI	CTGGAG	1 cut(s)	1442
BpuEI	CTTGAG	2 cut(s)	539, 1400
Bsa29I	ATCGAT	1 cut(s)	726
BsaI	GGTCTC	1 cut(s)	1196
BsaJI	CCNNGG	4 cut(s)	61, 1206, 1279, 1437
BsaXI	ACNNNNNCTCC	2 cut(s)	1527, 1557
Bsc4I	CCNNNNNNNGG	4 cut(s)	373, 479, 511, 1212
Bse1I	ACTGG	5 cut(s)	409, 490, 627, 750, 1217
Bse3DI	GCAATG	3 cut(s)	210, 621, 1657
BseBI	CCWGG	2 cut(s)	657, 1547
BseCI	ATCGAT	1 cut(s)	726
BseDI	CCNNGG	4 cut(s)	61, 1206, 1279, 1437
BseGI	GGATG	4 cut(s)	20, 388, 892, 1084
BseLI	CCNNNNNNNGG	4 cut(s)	373, 479, 511, 1212
BseMI	GCAATG	3 cut(s)	210, 621, 1657
BseMII	CTCAG	2 cut(s)	282, 1503
BseNI	ACTGG	5 cut(s)	409, 490, 627, 750, 1217
BseRI	GAGGAG	2 cut(s)	462, 560
BseXI	GCAGC	5 cut(s)	91, 382, 1168, 1342, 1651
BseYI	CCCAGC	1 cut(s)	1613
BshVI	ATCGAT	1 cut(s)	726
BsiHKCI	CYCGRG	1 cut(s)	855
BsiSI	CCGG	1 cut(s)	437
BslFI	GGGAC	2 cut(s)	496, 1656
BslI	CCNNNNNNNGG	4 cut(s)	373, 479, 511, 1212
BsmAI	GTCTC	2 cut(s)	1087, 1196
BsmFI	GGGAC	2 cut(s)	496, 1656
Bso31I	GGTCTC	1 cut(s)	1196
BsoBI	CYCGRG	1 cut(s)	855
Bsp143I	GATC	5 cut(s)	353, 723, 847, 1105, 1228
BspACI	CCGC	2 cut(s)	542, 1580
BspCNI	CTCAG	2 cut(s)	283, 1502
BspDI	ATCGAT	1 cut(s)	726
BspHI	TCATGA	2 cut(s)	1059, 1140
BspPI	GGATC	3 cut(s)	361, 1113, 1223
BspQI	GCTCTTC	1 cut(s)	24
BspTNI	GGTCTC	1 cut(s)	1196
BsrDI	GCAATG	3 cut(s)	210, 621, 1657
BsrI	ACTGG	5 cut(s)	409, 490, 627, 750, 1217
BssECI	CCNNGG	4 cut(s)	61, 1206, 1279, 1437
BssMI	GATC	5 cut(s)	353, 723, 847, 1105, 1228
BssSI	CACGAG	1 cut(s)	1185
BssT1I	CCWWGG	1 cut(s)	1437
Bst2BI	CACGAG	1 cut(s)	1185
Bst2UI	CCWGG	2 cut(s)	657, 1547
Bst4CI	ACNGT	4 cut(s)	109, 574, 1224, 1670
Bst6I	CTCTTC	8 cut(s)	24, 35, 47, 134, 177, 744, 1388, 1579
BstDEI	CTNAG	4 cut(s)	291, 837, 1400, 1489
BstDSI	CCRYGG	3 cut(s)	61, 1206, 1279
BstENI	CCTNNNNNAGG	1 cut(s)	371
BstF5I	GGATG	4 cut(s)	20, 388, 892, 1084
BstHHI	GCGC	1 cut(s)	1420
BstKTI	GATC	5 cut(s)	356, 726, 850, 1108, 1231
BstMAI	GTCTC	2 cut(s)	1087, 1196
BstMBI	GATC	5 cut(s)	353, 723, 847, 1105, 1228
BstMWI	GCNNNNNNNGC	2 cut(s)	1469, 1478
BstNI	CCWGG	2 cut(s)	657, 1547
BstSCI	CCNGG	2 cut(s)	655, 1545
BstSFI	CTRYAG	2 cut(s)	108, 303
BstV1I	GCAGC	5 cut(s)	91, 382, 1168, 1342, 1651
BstV2I	GAAGAC	2 cut(s)	656, 771
BstX2I	RGATCY	1 cut(s)	847
BstXI	CCANNNNNNTGG	1 cut(s)	1265
BstYI	RGATCY	1 cut(s)	847
Bsu15I	ATCGAT	1 cut(s)	726
BsuI	GTATCC	1 cut(s)	735
BsuTUI	ATCGAT	1 cut(s)	726
BtgI	CCRYGG	3 cut(s)	61, 1206, 1279
BtrI	CACGTC	1 cut(s)	1075
BtsCI	GGATG	4 cut(s)	20, 388, 892, 1084
BtsIMutI	CAGTG	2 cut(s)	105, 634
CciI	TCATGA	2 cut(s)	1059, 1140
CfoI	GCGC	1 cut(s)	1420
ClaI	ATCGAT	1 cut(s)	726
CseI	GACGC	2 cut(s)	346, 912
Csp6I	GTAC	5 cut(s)	331, 1040, 1170, 1364, 1474
CviAII	CATG	8 cut(s)	334, 580, 769, 881, 1060, 1094, 1102, 1141
CviQI	GTAC	5 cut(s)	331, 1040, 1170, 1364, 1474
DdeI	CTNAG	4 cut(s)	291, 837, 1400, 1489
DpnI	GATC	5 cut(s)	355, 725, 849, 1107, 1230
DpnII	GATC	5 cut(s)	353, 723, 847, 1105, 1228
DraI	TTTAAA	1 cut(s)	457
DrdI	GACNNNNNNGTC	2 cut(s)	1033, 1079
DseDI	GACNNNNNNGTC	2 cut(s)	1033, 1079
Eam1104I	CTCTTC	8 cut(s)	24, 35, 47, 134, 177, 744, 1388, 1579
EarI	CTCTTC	8 cut(s)	24, 35, 47, 134, 177, 744, 1388, 1579
EciI	GGCGGA	1 cut(s)	557
Eco130I	CCWWGG	1 cut(s)	1437
Eco31I	GGTCTC	1 cut(s)	1196
Eco57I	CTGAAG	7 cut(s)	56, 111, 662, 1316, 1344, 1370, 1642
Eco88I	CYCGRG	1 cut(s)	855
EcoNI	CCTNNNNNAGG	1 cut(s)	371
EcoRII	CCWGG	2 cut(s)	655, 1545
EcoT14I	CCWWGG	1 cut(s)	1437
ErhI	CCWWGG	1 cut(s)	1437
FaeI	CATG	8 cut(s)	337, 583, 772, 884, 1063, 1097, 1105, 1144
FaqI	GGGAC	2 cut(s)	496, 1656
FatI	CATG	8 cut(s)	333, 579, 768, 880, 1059, 1093, 1101, 1140
Fnu4HI	GCNGC	6 cut(s)	80, 396, 1182, 1356, 1580, 1640
FokI	GGATG	4 cut(s)	7, 395, 899, 1091
Fsp4HI	GCNGC	6 cut(s)	80, 396, 1182, 1356, 1580, 1640
FspBI	CTAG	1 cut(s)	801
GlaI	GCGC	1 cut(s)	1419
GluI	GCNGC	6 cut(s)	80, 396, 1182, 1356, 1580, 1640
GsaI	CCCAGC	1 cut(s)	1617
GsuI	CTGGAG	1 cut(s)	1442
HapII	CCGG	1 cut(s)	437
HgaI	GACGC	2 cut(s)	346, 912
HhaI	GCGC	1 cut(s)	1420
Hin1II	CATG	8 cut(s)	337, 583, 772, 884, 1063, 1097, 1105, 1144
Hin6I	GCGC	1 cut(s)	1418
HinP1I	GCGC	1 cut(s)	1418
HinfI	GANTC	6 cut(s)	8, 275, 778, 1318, 1559, 1591
HpaII	CCGG	1 cut(s)	437
HphI	GGTGA	6 cut(s)	227, 655, 864, 922, 1523, 1633
Hpy166II	GTNNAC	3 cut(s)	1210, 1531, 1686
Hpy188I	TCNGA	9 cut(s)	13, 292, 610, 681, 951, 1087, 1110, 1452, 1596
Hpy188III	TCNNGA	9 cut(s)	244, 526, 668, 1024, 1060, 1141, 1193, 1315, 1322
Hpy8I	GTNNAC	3 cut(s)	1210, 1531, 1686
Hpy99I	CGWCG	1 cut(s)	1076
HpyCH4III	ACNGT	4 cut(s)	109, 574, 1224, 1670
HpyCH4IV	ACGT	1 cut(s)	1074
HpyCH4V	TGCA	1 cut(s)	1032
HpyF10VI	GCNNNNNNNGC	2 cut(s)	1469, 1478
HpyF3I	CTNAG	4 cut(s)	291, 837, 1400, 1489
HpySE526I	ACGT	1 cut(s)	1074
Hsp92II	CATG	8 cut(s)	337, 583, 772, 884, 1063, 1097, 1105, 1144
HspAI	GCGC	1 cut(s)	1418
Kzo9I	GATC	5 cut(s)	353, 723, 847, 1105, 1228
LguI	GCTCTTC	1 cut(s)	24
LmnI	GCTCC	3 cut(s)	928, 1289, 1610
Lsp1109I	GCAGC	5 cut(s)	91, 382, 1168, 1342, 1651
LweI	GCATC	2 cut(s)	568, 1459
MaeI	CTAG	1 cut(s)	801
MaeII	ACGT	1 cut(s)	1074
MaeIII	GTNAC	3 cut(s)	265, 549, 910
MalI	GATC	5 cut(s)	355, 725, 849, 1107, 1230
MboI	GATC	5 cut(s)	353, 723, 847, 1105, 1228
MflI	RGATCY	1 cut(s)	847
MluCI	AATT	6 cut(s)	342, 357, 754, 975, 1043, 1498
MmeI	TCCRAC	1 cut(s)	588
MroXI	GAANNNNTTC	2 cut(s)	406, 1329
MseI	TTAA	5 cut(s)	156, 456, 843, 1371, 1524
MslI	CAYNNNNRTG	1 cut(s)	885
MspI	CCGG	1 cut(s)	437
MspR9I	CCNGG	2 cut(s)	657, 1547
MvaI	CCWGG	2 cut(s)	657, 1547
MwoI	GCNNNNNNNGC	2 cut(s)	1469, 1478
NdeII	GATC	5 cut(s)	353, 723, 847, 1105, 1228
NlaIII	CATG	8 cut(s)	337, 583, 772, 884, 1063, 1097, 1105, 1144
NmuCI	GTSAC	2 cut(s)	265, 910
PagI	TCATGA	2 cut(s)	1059, 1140
PciSI	GCTCTTC	1 cut(s)	24
PcsI	WCGNNNNNNNCGW	1 cut(s)	1276
PdmI	GAANNNNTTC	2 cut(s)	406, 1329
PfeI	GAWTC	6 cut(s)	8, 275, 778, 1318, 1559, 1591
PkrI	GCNGC	6 cut(s)	81, 397, 1183, 1357, 1581, 1641
PsiI	TTATAA	1 cut(s)	702
Psp6I	CCWGG	2 cut(s)	655, 1545
PspFI	CCCAGC	1 cut(s)	1613
PspGI	CCWGG	2 cut(s)	655, 1545
PsuI	RGATCY	1 cut(s)	847
RsaI	GTAC	5 cut(s)	332, 1041, 1171, 1365, 1475
RsaNI	GTAC	5 cut(s)	331, 1040, 1170, 1364, 1474
RseI	CAYNNNNRTG	1 cut(s)	885
SapI	GCTCTTC	1 cut(s)	24
SaqAI	TTAA	5 cut(s)	156, 456, 843, 1371, 1524
SatI	GCNGC	6 cut(s)	80, 396, 1182, 1356, 1580, 1640
Sau3AI	GATC	5 cut(s)	353, 723, 847, 1105, 1228
ScrFI	CCNGG	2 cut(s)	657, 1547
SfaNI	GCATC	2 cut(s)	568, 1459
SfcI	CTRYAG	2 cut(s)	108, 303
SmiMI	CAYNNNNRTG	1 cut(s)	885
SmlI	CTYRAG	2 cut(s)	554, 1379
SmoI	CTYRAG	2 cut(s)	554, 1379
Sse9I	AATT	6 cut(s)	342, 357, 754, 975, 1043, 1498
SsiI	CCGC	2 cut(s)	542, 1580
SspI	AATATT	1 cut(s)	232
SspMI	CTAG	1 cut(s)	801
StyD4I	CCNGG	2 cut(s)	655, 1545
StyI	CCWWGG	1 cut(s)	1437
TaaI	ACNGT	4 cut(s)	109, 574, 1224, 1670
TaiI	ACGT	1 cut(s)	1077
TaqI	TCGA	8 cut(s)	177, 282, 726, 891, 1025, 1134, 1194, 1270
TasI	AATT	6 cut(s)	342, 357, 754, 975, 1043, 1498
TatI	WGTACW	2 cut(s)	330, 1169
TauI	GCSGC	1 cut(s)	1582
TfiI	GAWTC	6 cut(s)	8, 275, 778, 1318, 1559, 1591
Tru1I	TTAA	5 cut(s)	156, 456, 843, 1371, 1524
Tru9I	TTAA	5 cut(s)	156, 456, 843, 1371, 1524
TscAI	CASTG	2 cut(s)	112, 634
TseFI	GTSAC	2 cut(s)	265, 910
TseI	GCWGC	5 cut(s)	79, 395, 1181, 1355, 1639
Tsp45I	GTSAC	2 cut(s)	265, 910
TspGWI	ACGGA	4 cut(s)	13, 1067, 1195, 1262
TspRI	CASTG	2 cut(s)	112, 634
XagI	CCTNNNNNAGG	1 cut(s)	371
XapI	RAATTY	2 cut(s)	342, 754
XmnI	GAANNNNTTC	2 cut(s)	406, 1329
XspI	CTAG	1 cut(s)	801

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