Basic Information

Type: gene

Biological Identity

Species

arabidopsis_thaliana

Chromosome

Orthogroup ID

OG0006290

Physical Location & Seq

Genomic Coordinates Reverse (-)

19608709 .. 19610452

Gene Structure 1744 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

AT1G52640.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1572 bp

ATGGCGATTCGAACAGTCTCTTCTCTTGTTCGCGCTCTTTACCAAACCCCTAAATCTCAATCATTTCGCATCTTCTCTACACTTCTACACGATCCACCATCACCAGATCTAGTAAACGAGATCTCCCGCGTCCTGAGCGACCACCGGAACCCTAAAGACGATCTCGAACACACTCTTGTCGCTTACTCTCCCCGAGTTTCGTCAAATCTAGTCGAACAAGTATTGAAACGCTGCAAAAATCTCGGCTTTCCTGCTCACAGATTCTTTCTATGGGCAAGAAGAATCCCAGATTTTGCACATAGCTTGGAAAGTTATCACATTTTGGTTGAGATTTTGGGTAGTAGCAAGCAATTCGCTTTGCTTTGGGACTTTTTAATCGAAGCTAGAGAGTATAATTACTTTGAGATTAGTTCTAAAGTGTTTTGGATTGTGTTTAGAGCTTATAGTAGAGCTAATTTACCTAGTGAAGCTTGTAGAGCTTTTAATCGAATGGTTGAGTTTGGGATTAAGCCTTGTGTTGATGATCTTGATCAGCTTTTGCATTCGCTTTGCGATAAGAAACATGTGAATCATGCTCAAGAGTTTTTCGGTAAAGCGAAAGGATTTGGGATTGTACCTAGTGCGAAGACGTATAGCATTTTGGTTAGAGGTTGGGCAAGAATCCGAGACGCGTCGGGTGCACGTAAGGTGTTTGATGAAATGCTTGAGAGAAATTGTGTTGTGGATTTGCTTGCTTACAATGCTCTTTTAGATGCTTTGTGTAAATCTGGTGATGTTGATGGAGGTTATAAGATGTTTCAAGAAATGGGTAATCTTGGACTTAAACCAGACGCGTATAGTTTCGCTATATTCATTCATGCGTACTGTGATGCGGGTGATGTTCACTCGGCTTATAAGGTACTTGATAGGATGAAAAGGTACGATCTTGTACCCAATGTGTACACGTTTAACCATATCATCAAAACACTCTGCAAGAACGAGAAAGTTGATGATGCTTATTTACTGTTAGACGAGATGATTCAAAAAGGAGCTAATCCGGATACTTGGACTTACAATTCGATAATGGCGTACCACTGCGATCACTGCGAAGTAAATCGAGCAACAAAGCTGTTATCGAGGATGGATAGAACCAAGTGTTTACCAGATAGACACACTTACAATATGGTTCTCAAGTTGCTTATAAGAATAGGGAGATTTGACCGCGCTACAGAGATATGGGAAGGAATGAGTGAGAGAAAGTTTTATCCAACGGTTGCGACTTACACTGTGATGATTCATGGGTTGGTGAGAAAGAAAGGGAAGTTAGAGGAAGCTTGTAGATACTTTGAGATGATGATTGATGAAGGGATACCACCGTATTCGACAACGGTTGAGATGTTGAGGAATCGGTTAGTCGGTTGGGGACAAATGGATGTTGTGGATGTTTTGGCAGGGAAGATGGAGAGAAGCAGTTCTTGTTCGGTTCAAGATATGGCGGTTGAGATGAGAGGGAAGAGAAGGAGATTGGGACGTAGAAGTGAAAATAGTGAAGATGATGATGATGATTTTGAGCTTGAAAGAGACACTATATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003723 GO:0003824 GO:0004518 GO:0004519 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0006139 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009451 GO:0009987 GO:0016070 GO:0016787 GO:0016788 GO:0034641 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043412 GO:0044237 GO:0044238 GO:0044424 GO:0044464 GO:0046483 GO:0071704 GO:0090304 GO:0090305 GO:0097159 GO:1901360 GO:1901363

KEGG Pathways

Metabolic & Signaling

ko04212 map04212

Pfam Domains

Protein Families

PPR PPR_1 PPR_2 PPR_3

Protein Analysis

523

Amino Acids

60.42

Weight (kDa)

7.88

Isoelectric Point (pI)

37.36

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	179 - 219	9.7e-06	PPR repeat family
PPR_long	PF17177	187 - 307	1.7e-10	Pentacotripeptide-repeat region of PRORP
PPR_1	PF12854	237 - 269	5.7e-07	PPR repeat
PPR_2	PF13041	242 - 290	2.5e-13	PPR repeat family
PPR	PF01535	245 - 273	3.1e-06	PPR repeat
PPR_3	PF13812	265 - 325	5.2e-13	Pentatricopeptide repeat domain
TPR_24	PF23276	269 - 370	1.2e-09	Fungal tetratrico peptide repeats
PPR_1	PF12854	273 - 305	4.8e-10	PPR repeat
PPR_2	PF13041	284 - 325	2.9e-11	PPR repeat family
PPR_long	PF17177	296 - 423	5.3e-08	Pentacotripeptide-repeat region of PRORP
PPR_1	PF12854	309 - 339	4.1e-11	PPR repeat
PPR_2	PF13041	311 - 355	2.5e-13	PPR repeat family
PPR_3	PF13812	335 - 392	3.6e-06	Pentatricopeptide repeat domain
PPR_2	PF13041	346 - 393	2.1e-11	PPR repeat family
PPR_2	PF13041	385 - 430	2.6e-10	PPR repeat family

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Orthologous Genes (Group: OG0006290)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G52640
fragaria_vesca	FvH4_6g30140 FvH4_6g30140 FvH4_6g30140 FvH4_6g30140 FvH4_6g30140
malus_domestica	MD17G1208000.v1.1
prunus_persica	Prupe.3G082300_v2.0.a1 Prupe.3G082300_v2.0.a1
pyrus_communis	pycom17g21050
rosa_chinensis	RchiOBHm_Chr2g0136191 RchiOBHm_Chr2g0136301 RchiOBHm_Chr2g0136351
rosa_laevigata	RLG00000019513 RLG00000019521
rosa_multiflora	Rmu_sc0001998.1_g000030 Rmu_sc0002070.1_g000029
rosa_roxburghii	Rroxscaffold_2G00108380
rosa_rugosa	Rorug02G0328900 Rorug02G0329100 Rorug02G0329200
rosa_samantha	Rh2AG380400 Rh2AG380700 Rh2BG387500 Rh2CG366500 Rh2DG403700
rosa_wichuraiana	Rw2G031130

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	3 cut(s)	789, 894, 1181
AccII	CGCG	5 cut(s)	33, 129, 671, 833, 1203
AccIII	TCCGGA	1 cut(s)	1036
AciI	CCGC	4 cut(s)	127, 872, 1201, 1475
AclWI	GGATC	1 cut(s)	86
AfaI	GTAC	7 cut(s)	615, 863, 900, 920, 930, 941, 1070
AflIII	ACRYGT	4 cut(s)	562, 669, 831, 942
AgsI	TTSAA	5 cut(s)	226, 800, 1022, 1466, 1556
Alw21I	GWGCWC	1 cut(s)	682
Alw26I	GTCTC	3 cut(s)	22, 660, 1554
Alw44I	GTGCAC	1 cut(s)	678
AlwI	GGATC	1 cut(s)	86
Ama87I	CYCGRG	1 cut(s)	192
Aor13HI	TCCGGA	1 cut(s)	1036
ApaLI	GTGCAC	1 cut(s)	678
ApeKI	GCWGC	1 cut(s)	231
ArsI	GACNNNNNNTTYG	2 cut(s)	1039, 1071
Asp700I	GAANNNNTTC	1 cut(s)	1450
AspLEI	GCGC	2 cut(s)	35, 1205
AsuHPI	GGTGA	4 cut(s)	93, 782, 887, 1297
AsuII	TTCGAA	1 cut(s)	10
AvaI	CYCGRG	1 cut(s)	192
BaeGI	GKGCMC	1 cut(s)	682
BaeI	ACNNNNGTAYC	2 cut(s)	1340, 1373
BbsI	GAAGAC	1 cut(s)	632
Bbv12I	GWGCWC	1 cut(s)	682
BbvI	GCAGC	1 cut(s)	218
BccI	CCATC	4 cut(s)	106, 773, 1114, 1432
BcgI	CGANNNNNNTGC	4 cut(s)	223, 257, 334, 368
BciVI	GTATCC	2 cut(s)	1033, 1341
BclI	TGATCA	1 cut(s)	529
BcoDI	GTCTC	3 cut(s)	22, 660, 1554
BfaI	CTAG	5 cut(s)	110, 209, 384, 462, 618
BfmI	CTRYAG	1 cut(s)	1206
BfuI	GTATCC	2 cut(s)	1033, 1341
BglII	AGATCT	2 cut(s)	106, 120
BisI	GCNGC	1 cut(s)	232
BlsI	GCNGC	1 cut(s)	233
BmeT110I	CYCGRG	1 cut(s)	192
BmiI	GGNNCC	1 cut(s)	149
BmsI	GCATC	4 cut(s)	78, 742, 859, 982
BpiI	GAAGAC	1 cut(s)	632
Bpu10I	CCTNAGC	1 cut(s)	134
Bpu14I	TTCGAA	1 cut(s)	10
BpuEI	CTTGAG	3 cut(s)	561, 725, 1154
BsaAI	YACGTR	1 cut(s)	683
BsaBI	GATNNNNATC	1 cut(s)	528
BsaWI	WCCGGW	2 cut(s)	144, 1036
BsaXI	ACNNNNNCTCC	2 cut(s)	107, 137
Bse8I	GATNNNNATC	1 cut(s)	528
BseAI	TCCGGA	1 cut(s)	1036
BseGI	GGATG	4 cut(s)	915, 1125, 1417, 1426
BseJI	GATNNNNATC	1 cut(s)	528
BseMII	CTCAG	1 cut(s)	125
BseSI	GKGCMC	1 cut(s)	682
BseXI	GCAGC	1 cut(s)	218
Bsh1236I	CGCG	5 cut(s)	33, 129, 671, 833, 1203
BsiHKAI	GWGCWC	1 cut(s)	682
BsiHKCI	CYCGRG	1 cut(s)	192
BsiSI	CCGG	2 cut(s)	145, 1037
BslFI	GGGAC	3 cut(s)	380, 1416, 1521
BsmAI	GTCTC	3 cut(s)	22, 660, 1554
BsmBI	CGTCTC	1 cut(s)	660
BsmFI	GGGAC	3 cut(s)	380, 1416, 1521
BsmI	GAATGC	1 cut(s)	541
BsoBI	CYCGRG	1 cut(s)	192
Bsp119I	TTCGAA	1 cut(s)	10
Bsp1286I	GDGCHC	1 cut(s)	682
Bsp13I	TCCGGA	1 cut(s)	1036
Bsp1407I	TGTACA	1 cut(s)	939
Bsp143I	GATC	8 cut(s)	91, 106, 120, 160, 523, 529, 922, 1078
BspACI	CCGC	4 cut(s)	127, 872, 1201, 1475
BspCNI	CTCAG	1 cut(s)	126
BspEI	TCCGGA	1 cut(s)	1036
BspFNI	CGCG	5 cut(s)	33, 129, 671, 833, 1203
BspLI	GGNNCC	1 cut(s)	149
BspPI	GGATC	1 cut(s)	86
BspT104I	TTCGAA	1 cut(s)	10
BsrGI	TGTACA	1 cut(s)	939
BssMI	GATC	8 cut(s)	91, 106, 120, 160, 523, 529, 922, 1078
Bst4CI	ACNGT	7 cut(s)	16, 866, 1005, 1252, 1267, 1356, 1369
Bst6I	CTCTTC	2 cut(s)	25, 1487
BstAUI	TGTACA	1 cut(s)	939
BstBAI	YACGTR	1 cut(s)	683
BstBI	TTCGAA	1 cut(s)	10
BstC8I	GCNNGC	2 cut(s)	347, 732
BstDEI	CTNAG	1 cut(s)	134
BstF5I	GGATG	4 cut(s)	915, 1125, 1417, 1426
BstFNI	CGCG	5 cut(s)	33, 129, 671, 833, 1203
BstHHI	GCGC	2 cut(s)	35, 1205
BstKTI	GATC	8 cut(s)	94, 109, 123, 163, 526, 532, 925, 1081
BstMAI	GTCTC	3 cut(s)	22, 660, 1554
BstMBI	GATC	8 cut(s)	91, 106, 120, 160, 523, 529, 922, 1078
BstMWI	GCNNNNNNNGC	5 cut(s)	135, 476, 677, 740, 1083
BstNSI	RCATGY	1 cut(s)	566
BstSFI	CTRYAG	1 cut(s)	1206
BstSLI	GKGCMC	1 cut(s)	682
BstUI	CGCG	5 cut(s)	33, 129, 671, 833, 1203
BstV1I	GCAGC	1 cut(s)	218
BstV2I	GAAGAC	1 cut(s)	632
BstX2I	RGATCY	2 cut(s)	106, 120
BstYI	RGATCY	2 cut(s)	106, 120
BsuI	GTATCC	2 cut(s)	1033, 1341
BtsCI	GGATG	4 cut(s)	915, 1125, 1417, 1426
BtsI	GCAGTG	2 cut(s)	1072, 1081
BtsIMutI	CAGTG	3 cut(s)	1072, 1081, 1263
Cac8I	GCNNGC	2 cut(s)	347, 732
CfoI	GCGC	2 cut(s)	35, 1205
CseI	GACGC	4 cut(s)	118, 660, 677, 839
Csp6I	GTAC	7 cut(s)	614, 862, 899, 919, 929, 940, 1069
CviAII	CATG	4 cut(s)	563, 572, 857, 1277
CviQI	GTAC	7 cut(s)	614, 862, 899, 919, 929, 940, 1069
DdeI	CTNAG	1 cut(s)	134
DpnI	GATC	8 cut(s)	93, 108, 122, 162, 525, 531, 924, 1080
DpnII	GATC	8 cut(s)	91, 106, 120, 160, 523, 529, 922, 1078
Eam1104I	CTCTTC	2 cut(s)	25, 1487
EarI	CTCTTC	2 cut(s)	25, 1487
Eco88I	CYCGRG	1 cut(s)	192
Esp3I	CGTCTC	1 cut(s)	660
FaeI	CATG	4 cut(s)	566, 575, 860, 1280
FalI	AAGNNNNNCTT	2 cut(s)	1438, 1470
FaqI	GGGAC	3 cut(s)	380, 1416, 1521
FatI	CATG	4 cut(s)	562, 571, 856, 1276
FauI	CCCGC	2 cut(s)	134, 865
FbaI	TGATCA	1 cut(s)	529
Fnu4HI	GCNGC	1 cut(s)	232
FokI	GGATG	4 cut(s)	922, 1132, 1424, 1433
Fsp4HI	GCNGC	1 cut(s)	232
FspBI	CTAG	5 cut(s)	110, 209, 384, 462, 618
GlaI	GCGC	2 cut(s)	34, 1204
GluI	GCNGC	1 cut(s)	232
HapII	CCGG	2 cut(s)	145, 1037
HgaI	GACGC	4 cut(s)	118, 660, 677, 839
HhaI	GCGC	2 cut(s)	35, 1205
Hin1II	CATG	4 cut(s)	566, 575, 860, 1280
Hin6I	GCGC	2 cut(s)	33, 1203
HinP1I	GCGC	2 cut(s)	33, 1203
HindIII	AAGCTT	2 cut(s)	468, 1311
HinfI	GANTC	8 cut(s)	7, 261, 282, 568, 660, 1018, 1273, 1384
HpaII	CCGG	2 cut(s)	145, 1037
HphI	GGTGA	4 cut(s)	93, 782, 887, 1297
Hpy166II	GTNNAC	6 cut(s)	115, 680, 883, 940, 942, 1139
Hpy188I	TCNGA	1 cut(s)	665
Hpy188III	TCNNGA	7 cut(s)	133, 164, 527, 578, 800, 1037, 1466
Hpy8I	GTNNAC	6 cut(s)	115, 680, 883, 940, 942, 1139
Hpy99I	CGWCG	1 cut(s)	676
HpyAV	CCTTC	3 cut(s)	1214, 1337, 1491
HpyCH4III	ACNGT	7 cut(s)	16, 866, 1005, 1252, 1267, 1356, 1369
HpyCH4IV	ACGT	4 cut(s)	629, 682, 944, 1510
HpyCH4V	TGCA	5 cut(s)	234, 296, 541, 680, 972
HpyF10VI	GCNNNNNNNGC	5 cut(s)	135, 476, 677, 740, 1083
HpyF3I	CTNAG	1 cut(s)	134
HpySE526I	ACGT	4 cut(s)	629, 682, 944, 1510
Hsp92II	CATG	4 cut(s)	566, 575, 860, 1280
HspAI	GCGC	2 cut(s)	33, 1203
Kpn2I	TCCGGA	1 cut(s)	1036
Ksp22I	TGATCA	1 cut(s)	529
Kzo9I	GATC	8 cut(s)	91, 106, 120, 160, 523, 529, 922, 1078
LmnI	GCTCC	1 cut(s)	1028
Lsp1109I	GCAGC	1 cut(s)	218
LweI	GCATC	4 cut(s)	78, 742, 859, 982
MaeI	CTAG	5 cut(s)	110, 209, 384, 462, 618
MaeII	ACGT	4 cut(s)	629, 682, 944, 1510
MalI	GATC	8 cut(s)	93, 108, 122, 162, 525, 531, 924, 1080
MboI	GATC	8 cut(s)	91, 106, 120, 160, 523, 529, 922, 1078
MboII	GAAGA	7 cut(s)	12, 64, 291, 637, 1447, 1504, 1541
MflI	RGATCY	2 cut(s)	106, 120
MhlI	GDGCHC	1 cut(s)	682
MluCI	AATT	5 cut(s)	350, 394, 454, 712, 1054
MluI	ACGCGT	2 cut(s)	669, 831
MmeI	TCCRAC	1 cut(s)	1271
MnlI	CCTC	6 cut(s)	641, 776, 1110, 1300, 1374, 1481
MroI	TCCGGA	1 cut(s)	1036
MroXI	GAANNNNTTC	1 cut(s)	1450
MseI	TTAA	5 cut(s)	374, 483, 507, 822, 948
MslI	CAYNNNNRTG	1 cut(s)	1268
MspI	CCGG	2 cut(s)	145, 1037
Mva1269I	GAATGC	1 cut(s)	541
MvnI	CGCG	5 cut(s)	33, 129, 671, 833, 1203
MwoI	GCNNNNNNNGC	5 cut(s)	135, 476, 677, 740, 1083
NdeII	GATC	8 cut(s)	91, 106, 120, 160, 523, 529, 922, 1078
NlaIII	CATG	4 cut(s)	566, 575, 860, 1280
NlaIV	GGNNCC	1 cut(s)	149
NmeAIII	GCCGAG	2 cut(s)	222, 866
NspI	RCATGY	1 cut(s)	566
NspV	TTCGAA	1 cut(s)	10
PciI	ACATGT	1 cut(s)	562
PcsI	WCGNNNNNNNCGW	1 cut(s)	1064
PctI	GAATGC	1 cut(s)	541
PdmI	GAANNNNTTC	1 cut(s)	1450
PfeI	GAWTC	8 cut(s)	7, 261, 282, 568, 660, 1018, 1273, 1384
PkrI	GCNGC	1 cut(s)	233
Ppu21I	YACGTR	1 cut(s)	683
PscI	ACATGT	1 cut(s)	562
PsiI	TTATAA	3 cut(s)	789, 894, 1181
PspN4I	GGNNCC	1 cut(s)	149
PsuI	RGATCY	2 cut(s)	106, 120
RsaI	GTAC	7 cut(s)	615, 863, 900, 920, 930, 941, 1070
RsaNI	GTAC	7 cut(s)	614, 862, 899, 919, 929, 940, 1069
RseI	CAYNNNNRTG	1 cut(s)	1268
SaqAI	TTAA	5 cut(s)	374, 483, 507, 822, 948
SatI	GCNGC	1 cut(s)	232
Sau3AI	GATC	8 cut(s)	91, 106, 120, 160, 523, 529, 922, 1078
SduI	GDGCHC	1 cut(s)	682
SfaNI	GCATC	4 cut(s)	78, 742, 859, 982
SfcI	CTRYAG	1 cut(s)	1206
SfuI	TTCGAA	1 cut(s)	10
SmiMI	CAYNNNNRTG	1 cut(s)	1268
SmlI	CTYRAG	3 cut(s)	576, 704, 1169
SmoI	CTYRAG	3 cut(s)	576, 704, 1169
Sse9I	AATT	5 cut(s)	350, 394, 454, 712, 1054
SsiI	CCGC	4 cut(s)	127, 872, 1201, 1475
SspMI	CTAG	5 cut(s)	110, 209, 384, 462, 618
TaaI	ACNGT	7 cut(s)	16, 866, 1005, 1252, 1267, 1356, 1369
TaiI	ACGT	4 cut(s)	632, 685, 947, 1513
TaqI	TCGA	9 cut(s)	10, 165, 213, 378, 487, 1058, 1096, 1115, 1361
TasI	AATT	5 cut(s)	350, 394, 454, 712, 1054
TatI	WGTACW	1 cut(s)	939
TfiI	GAWTC	8 cut(s)	7, 261, 282, 568, 660, 1018, 1273, 1384
Tru1I	TTAA	5 cut(s)	374, 483, 507, 822, 948
Tru9I	TTAA	5 cut(s)	374, 483, 507, 822, 948
TscAI	CASTG	3 cut(s)	1079, 1088, 1270
TseI	GCWGC	1 cut(s)	231
TspDTI	ATGAA	6 cut(s)	711, 841, 845, 926, 1265, 1356
TspRI	CASTG	3 cut(s)	1079, 1088, 1270
VneI	GTGCAC	1 cut(s)	678
XceI	RCATGY	1 cut(s)	566
XmnI	GAANNNNTTC	1 cut(s)	1450
XspI	CTAG	5 cut(s)	110, 209, 384, 462, 618

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