Basic Information

Type: gene

Biological Identity

Species

arabidopsis_thaliana

Chromosome

Orthogroup ID

OG0008101

Physical Location & Seq

Genomic Coordinates Forward (+)

16171374 .. 16173354

Gene Structure 1981 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

AT5G40410.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1827 bp

ATGATCAAAGCAAATGTGTATTCATGTTCAAAGTTCAGATTTTTATATCGTCGGAGATTTTTGAGCCAATCTAGTTTTGTTCATAGTTTAGATGCAAATGTTTCATCACTTATAGCTGCTGTAAAGTCTTGTGTCTCCATTGAACTGTGTCGTTTGCTTCATTGTAAAGTAGTGAAGAGTGTGAGTTACCGCCATGGATTTATTGGGGACCAGCTTGTTGGTTGTTACTTGAGATTGGGTCATGATGTTTGTGCAGAGAAGCTGTTCGATGAAATGCCTGAGAGAGATTTAGTCTCTTGGAACTCTTTAATATCTGGGTATTCAGGGAGAGGTTATTTGGGGAAATGTTTTGAGGTGTTGTCTAGGATGATGATATCTGAGGTGGGTTTTAGACCTAATGAAGTTACGTTTTTGTCGATGATCTCGGCTTGTGTTTACGGGGGAAGTAAGGAAGAAGGACGTTGTATTCATGGGTTGGTGATGAAATTTGGTGTACTTGAGGAAGTTAAAGTTGTGAATGCTTTTATCAATTGGTATGGAAAGACTGGAGATTTGACTTCATCCTGCAAATTGTTTGAGGATTTGAGTATAAAGAATTTGGTTTCTTGGAATACGATGATTGTGATTCACTTGCAGAACGGTTTAGCTGAAAAAGGTCTGGCTTACTTTAACATGAGCAGAAGGGTTGGGCACGAGCCTGATCAAGCCACTTTTCTGGCTGTTCTCCGTAGCTGTGAAGACATGGGTGTAGTGAGATTGGCGCAAGGAATTCATGGGCTAATCATGTTTGGTGGGTTCAGTGGAAACAAGTGTATAACGACAGCGTTATTAGACTTGTATTCGAAACTTGGGAGGTTGGAGGATTCGTCTACGGTTTTTCATGAGATTACTTCTCCAGATAGTATGGCGTGGACTGCAATGCTTGCTGCTTATGCCACTCATGGGTTTGGAAGAGATGCAATCAAGCATTTTGAGCTCATGGTTCACTATGGTATTAGTCCTGATCATGTAACCTTCACTCACTTGTTAAATGCTTGTAGTCATTCTGGTCTTGTAGAAGAAGGGAAGCATTATTTCGAAACAATGTCGAAAAGATACAGGATTGACCCGAGGTTAGATCACTATTCATGTATGGTTGATCTACTGGGTCGATCCGGGCTTCTCCAAGATGCTTATGGATTGATCAAAGAAATGCCAATGGAGCCTAGTTCTGGTGTTTGGGGAGCTTTGCTTGGTGCTTGTAGGGTTTACAAAGATACACAACTCGGAACAAAAGCCGCAGAGAGATTGTTCGAATTAGAGCCTCGTGATGGTAGAAACTATGTAATGCTCTCAAACATCTATTCAGCTTCTGGTCTATGGAAAGATGCTTCAAGAATAAGGAATCTGATGAAACAGAAAGGTCTTGTAAGAGCTTCAGGGTGTAGCTACATTGAACATGGTAACAAAATTCATAAGTTTGTTGTTGGAGATTGGTCTCATCCTGAATCAGAGAAGATACAAAAGAAGCTGAAAGAGATTAGGAAGAAGATGAAGAGTGAAATGGGATATAAATCAAAAACAGAGTTTGTATTACATGATGTTGGTGAAGATGTTAAAGAGGAAATGATCAATCAACATAGTGAGAAGATTGCGATGGCGTTTGGGCTTTTGGTGGTTAGTCCAATGGAGCCAATTATCATAAGGAAGAATCTTAGAATTTGTGGGGATTGTCATGAAACAGCAAAAGCAATATCTTTGATCGAGAAAAGGAGAATCATTATTAGAGATTCTAAGAGGTTTCATCATTTCTTAGACGGATCATGCTCTTGTAGCGATTATTGGTAG

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

No pathways identified.

Pfam Domains

Protein Families

DYW_deaminase PPR PPR_2

Protein Analysis

608

Amino Acids

68.67

Weight (kDa)

8.72

Isoelectric Point (pI)

43.57

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	96 - 144	4.5e-08	PPR repeat family
PPR_2	PF13041	299 - 347	7.1e-10	PPR repeat family
E_motif	PF20431	417 - 479	3.8e-18	E motif
Eplus_motif	PF20430	484 - 511	1.7e-08	E+ motif
DYW_deaminase	PF14432	516 - 608	8.2e-36	DYW family of nucleic acid deaminases

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

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Publication-ready

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Orthologous Genes (Group: OG0008101)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G40410
fragaria_vesca	FvH4_2g00730
malus_domestica	MD05G1003000.v1.1 MD10G1003900.v1.1
prunus_persica	Prupe.8G006400_v2.0.a1
rosa_chinensis	RchiOBHm_Chr6g0251111
rosa_laevigata	RLG00000015483
rosa_multiflora	Rmu_co8188818.1_g000001 Rmu_co8231405.1_g000001 Rmu_sc0002219.1_g000009 Rmu_sc0002219.1_g000010 Rmu_sc0002219.1_g000016 Rmu_sc0002219.1_g000017 Rmu_sc0002960.1_g000013 Rmu_sc0011355.1_g000002
rosa_roxburghii	Rroxscaffold_7G00217030
rosa_rugosa	Rorug05G0500400 Rorug05G0500500
rosa_samantha	Rh6AG008600 Rh6AG008700 Rh6AG009100 Rh6BG002600 Rh6DG006400
rosa_wichuraiana	Rw6G000930

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccI	GTMKAC	1 cut(s)	869
AciI	CCGC	2 cut(s)	190, 1278
AclWI	GGATC	2 cut(s)	1146, 1807
AcsI	RAATTY	5 cut(s)	485, 595, 768, 1449, 1698
AcuI	CTGAAG	1 cut(s)	1401
AfaI	GTAC	1 cut(s)	495
AfiI	CCNNNNNNNGG	3 cut(s)	942, 1211, 1310
AgsI	TTSAA	4 cut(s)	30, 143, 1374, 1436
Alw21I	GWGCWC	1 cut(s)	978
Alw26I	GTCTC	3 cut(s)	139, 298, 1482
AlwI	GGATC	2 cut(s)	1146, 1807
AlwNI	CAGNNNCTG	1 cut(s)	1352
Ama87I	CYCGRG	1 cut(s)	1108
ApeKI	GCWGC	2 cut(s)	116, 926
ApoI	RAATTY	5 cut(s)	485, 595, 768, 1449, 1698
ArsI	GACNNNNNNTTYG	2 cut(s)	535, 567
Asp700I	GAANNNNTTC	1 cut(s)	263
AspLEI	GCGC	1 cut(s)	763
AspS9I	GGNCC	1 cut(s)	208
AsuC2I	CCSGG	1 cut(s)	1156
AsuHPI	GGTGA	2 cut(s)	490, 1598
AsuII	TTCGAA	3 cut(s)	842, 1077, 1293
AvaI	CYCGRG	1 cut(s)	1108
AvaII	GGWCC	1 cut(s)	208
BaeGI	GKGCMC	1 cut(s)	693
BanII	GRGCYC	1 cut(s)	978
BauI	CACGAG	2 cut(s)	692, 1305
BbsI	GAAGAC	1 cut(s)	744
Bbv12I	GWGCWC	1 cut(s)	978
BbvI	GCAGC	2 cut(s)	103, 913
BccI	CCATC	2 cut(s)	1304, 1630
BclI	TGATCA	5 cut(s)	3, 700, 1003, 1182, 1608
BcnI	CCSGG	1 cut(s)	1156
BcoDI	GTCTC	3 cut(s)	139, 298, 1482
BfaI	CTAG	3 cut(s)	72, 363, 1206
BisI	GCNGC	3 cut(s)	117, 927, 1278
BlsI	GCNGC	3 cut(s)	118, 928, 1279
Bme1390I	CCNGG	1 cut(s)	1156
Bme18I	GGWCC	1 cut(s)	208
BmeT110I	CYCGRG	1 cut(s)	1108
BmgT120I	GGNCC	1 cut(s)	208
BmiI	GGNNCC	3 cut(s)	209, 1203, 1671
BmrFI	CCNGG	1 cut(s)	1156
BmrI	ACTGGG	1 cut(s)	1154
BmsI	GCATC	4 cut(s)	82, 946, 1159, 1357
BmuI	ACTGGG	1 cut(s)	1154
BpiI	GAAGAC	1 cut(s)	744
BpmI	CTGGAG	2 cut(s)	567, 879
Bpu14I	TTCGAA	3 cut(s)	842, 1077, 1293
BpuEI	CTTGAG	2 cut(s)	250, 518
BpuMI	CCSGG	1 cut(s)	1156
BsaBI	GATNNNNATC	1 cut(s)	1552
BsaI	GGTCTC	1 cut(s)	1482
BsaJI	CCNNGG	2 cut(s)	193, 1109
BsaXI	ACNNNNNCTCC	2 cut(s)	851, 881
Bsc4I	CCNNNNNNNGG	3 cut(s)	942, 1211, 1310
Bse1I	ACTGG	2 cut(s)	550, 1149
Bse3DI	GCAATG	1 cut(s)	924
Bse8I	GATNNNNATC	1 cut(s)	1552
BseDI	CCNNGG	2 cut(s)	193, 1109
BseGI	GGATG	3 cut(s)	372, 560, 1480
BseJI	GATNNNNATC	1 cut(s)	1552
BseLI	CCNNNNNNNGG	3 cut(s)	942, 1211, 1310
BseMI	GCAATG	1 cut(s)	924
BseMII	CTCAG	2 cut(s)	270, 369
BseNI	ACTGG	2 cut(s)	550, 1149
BseSI	GKGCMC	1 cut(s)	693
BseXI	GCAGC	2 cut(s)	103, 913
BsgI	GTGCAG	1 cut(s)	273
BsiHKAI	GWGCWC	1 cut(s)	978
BsiHKCI	CYCGRG	1 cut(s)	1108
BsiSI	CCGG	1 cut(s)	1155
BslFI	GGGAC	1 cut(s)	221
BslI	CCNNNNNNNGG	3 cut(s)	942, 1211, 1310
BsmAI	GTCTC	3 cut(s)	139, 298, 1482
BsmFI	GGGAC	1 cut(s)	221
BsmI	GAATGC	1 cut(s)	523
Bso31I	GGTCTC	1 cut(s)	1482
BsoBI	CYCGRG	1 cut(s)	1108
Bsp119I	TTCGAA	3 cut(s)	842, 1077, 1293
Bsp1286I	GDGCHC	2 cut(s)	693, 978
Bsp19I	CCATGG	1 cut(s)	193
BspACI	CCGC	2 cut(s)	190, 1278
BspCNI	CTCAG	2 cut(s)	271, 370
BspHI	TCATGA	3 cut(s)	241, 880, 1714
BspLI	GGNNCC	3 cut(s)	209, 1203, 1671
BspPI	GGATC	2 cut(s)	1146, 1807
BspT104I	TTCGAA	3 cut(s)	842, 1077, 1293
BspTNI	GGTCTC	1 cut(s)	1482
BsrDI	GCAATG	1 cut(s)	924
BsrI	ACTGG	2 cut(s)	550, 1149
BssECI	CCNNGG	2 cut(s)	193, 1109
BssSI	CACGAG	2 cut(s)	692, 1305
BssT1I	CCWWGG	1 cut(s)	193
Bst2BI	CACGAG	2 cut(s)	692, 1305
Bst4CI	ACNGT	3 cut(s)	147, 641, 874
Bst6I	CTCTTC	3 cut(s)	170, 946, 1529
BstAPI	GCANNNNNTGC	1 cut(s)	923
BstBI	TTCGAA	3 cut(s)	842, 1077, 1293
BstC8I	GCNNGC	1 cut(s)	924
BstDEI	CTNAG	5 cut(s)	279, 378, 1694, 1773, 1792
BstDSI	CCRYGG	1 cut(s)	193
BstF5I	GGATG	3 cut(s)	372, 560, 1480
BstHHI	GCGC	1 cut(s)	763
BstMAI	GTCTC	3 cut(s)	139, 298, 1482
BstMWI	GCNNNNNNNGC	6 cut(s)	914, 923, 932, 973, 1201, 1812
BstSCI	CCNGG	1 cut(s)	1154
BstSLI	GKGCMC	1 cut(s)	693
BstV1I	GCAGC	2 cut(s)	103, 913
BstV2I	GAAGAC	1 cut(s)	744
BstXI	CCANNNNNNTGG	2 cut(s)	218, 715
BtgI	CCRYGG	1 cut(s)	193
BtgZI	GCGATG	1 cut(s)	1649
BtsCI	GGATG	3 cut(s)	372, 560, 1480
BtsIMutI	CAGTG	1 cut(s)	805
Cac8I	GCNNGC	1 cut(s)	924
CaiI	CAGNNNCTG	1 cut(s)	1352
CciI	TCATGA	3 cut(s)	241, 880, 1714
CfoI	GCGC	1 cut(s)	763
Cfr13I	GGNCC	1 cut(s)	208
Csp6I	GTAC	1 cut(s)	494
CviQI	GTAC	1 cut(s)	494
DdeI	CTNAG	5 cut(s)	279, 378, 1694, 1773, 1792
Eam1104I	CTCTTC	3 cut(s)	170, 946, 1529
EarI	CTCTTC	3 cut(s)	170, 946, 1529
Ecl136II	GAGCTC	1 cut(s)	976
Eco130I	CCWWGG	1 cut(s)	193
Eco24I	GRGCYC	1 cut(s)	978
Eco31I	GGTCTC	1 cut(s)	1482
Eco32I	GATATC	1 cut(s)	375
Eco47I	GGWCC	1 cut(s)	208
Eco53kI	GAGCTC	1 cut(s)	976
Eco57I	CTGAAG	1 cut(s)	1401
Eco88I	CYCGRG	1 cut(s)	1108
EcoICRI	GAGCTC	1 cut(s)	976
EcoRI	GAATTC	1 cut(s)	768
EcoRV	GATATC	1 cut(s)	375
EcoT14I	CCWWGG	1 cut(s)	193
EcoT38I	GRGCYC	1 cut(s)	978
ErhI	CCWWGG	1 cut(s)	193
FaqI	GGGAC	1 cut(s)	221
FbaI	TGATCA	5 cut(s)	3, 700, 1003, 1182, 1608
FblI	GTMKAC	1 cut(s)	869
Fnu4HI	GCNGC	3 cut(s)	117, 927, 1278
FokI	GGATG	3 cut(s)	379, 547, 1467
FriOI	GRGCYC	1 cut(s)	978
Fsp4HI	GCNGC	3 cut(s)	117, 927, 1278
FspBI	CTAG	3 cut(s)	72, 363, 1206
GlaI	GCGC	1 cut(s)	762
GluI	GCNGC	3 cut(s)	117, 927, 1278
GsuI	CTGGAG	2 cut(s)	567, 879
HapII	CCGG	1 cut(s)	1155
HhaI	GCGC	1 cut(s)	763
Hin6I	GCGC	1 cut(s)	761
HinP1I	GCGC	1 cut(s)	761
HinfI	GANTC	7 cut(s)	625, 863, 1384, 1487, 1690, 1755, 1769
HpaII	CCGG	1 cut(s)	1155
HphI	GGTGA	2 cut(s)	490, 1598
Hpy166II	GTNNAC	6 cut(s)	436, 494, 870, 912, 985, 1249
Hpy188I	TCNGA	6 cut(s)	38, 54, 379, 1268, 1389, 1492
Hpy188III	TCNNGA	9 cut(s)	242, 881, 896, 1001, 1307, 1374, 1484, 1715, 1744
Hpy8I	GTNNAC	6 cut(s)	436, 494, 870, 912, 985, 1249
Hpy99I	CGWCG	1 cut(s)	54
HpyAV	CCTTC	4 cut(s)	449, 675, 1024, 1055
HpyCH4III	ACNGT	3 cut(s)	147, 641, 874
HpyCH4IV	ACGT	2 cut(s)	407, 460
HpyCH4V	TGCA	6 cut(s)	95, 254, 567, 634, 917, 959
HpyF10VI	GCNNNNNNNGC	6 cut(s)	914, 923, 932, 973, 1201, 1812
HpyF3I	CTNAG	5 cut(s)	279, 378, 1694, 1773, 1792
HpySE526I	ACGT	2 cut(s)	407, 460
HspAI	GCGC	1 cut(s)	761
Ksp22I	TGATCA	5 cut(s)	3, 700, 1003, 1182, 1608
LmnI	GCTCC	3 cut(s)	1201, 1223, 1669
Lsp1109I	GCAGC	2 cut(s)	103, 913
LweI	GCATC	4 cut(s)	82, 946, 1159, 1357
MaeI	CTAG	3 cut(s)	72, 363, 1206
MaeII	ACGT	2 cut(s)	407, 460
MaeIII	GTNAC	5 cut(s)	185, 224, 403, 1009, 1442
MfeI	CAATTG	1 cut(s)	529
MhlI	GDGCHC	2 cut(s)	693, 978
MluCI	AATT	9 cut(s)	485, 529, 569, 595, 768, 1295, 1449, 1674, 1698
MmeI	TCCRAC	3 cut(s)	32, 837, 1447
MroXI	GAANNNNTTC	1 cut(s)	263
MseI	TTAA	5 cut(s)	308, 507, 669, 1028, 1596
MspI	CCGG	1 cut(s)	1155
MspR9I	CCNGG	1 cut(s)	1156
MunI	CAATTG	1 cut(s)	529
Mva1269I	GAATGC	1 cut(s)	523
MwoI	GCNNNNNNNGC	6 cut(s)	914, 923, 932, 973, 1201, 1812
NciI	CCSGG	1 cut(s)	1156
NcoI	CCATGG	1 cut(s)	193
NlaIV	GGNNCC	3 cut(s)	209, 1203, 1671
NmeAIII	GCCGAG	1 cut(s)	404
NspV	TTCGAA	3 cut(s)	842, 1077, 1293
PagI	TCATGA	3 cut(s)	241, 880, 1714
PcsI	WCGNNNNNNNCGW	1 cut(s)	413
PctI	GAATGC	1 cut(s)	523
PdmI	GAANNNNTTC	1 cut(s)	263
PfeI	GAWTC	7 cut(s)	625, 863, 1384, 1487, 1690, 1755, 1769
PkrI	GCNGC	3 cut(s)	118, 928, 1279
Psp124BI	GAGCTC	1 cut(s)	978
PspN4I	GGNNCC	3 cut(s)	209, 1203, 1671
PspPI	GGNCC	1 cut(s)	208
PstNI	CAGNNNCTG	1 cut(s)	1352
RsaI	GTAC	1 cut(s)	495
RsaNI	GTAC	1 cut(s)	494
SacI	GAGCTC	1 cut(s)	978
SaqAI	TTAA	5 cut(s)	308, 507, 669, 1028, 1596
SatI	GCNGC	3 cut(s)	117, 927, 1278
Sau96I	GGNCC	1 cut(s)	208
ScrFI	CCNGG	1 cut(s)	1156
SduI	GDGCHC	2 cut(s)	693, 978
SfaNI	GCATC	4 cut(s)	82, 946, 1159, 1357
SfuI	TTCGAA	3 cut(s)	842, 1077, 1293
SinI	GGWCC	1 cut(s)	208
SmlI	CTYRAG	2 cut(s)	229, 497
SmoI	CTYRAG	2 cut(s)	229, 497
Sse9I	AATT	9 cut(s)	485, 529, 569, 595, 768, 1295, 1449, 1674, 1698
SsiI	CCGC	2 cut(s)	190, 1278
SspMI	CTAG	3 cut(s)	72, 363, 1206
SstI	GAGCTC	1 cut(s)	978
StyD4I	CCNGG	1 cut(s)	1154
StyI	CCWWGG	1 cut(s)	193
TaaI	ACNGT	3 cut(s)	147, 641, 874
TaiI	ACGT	2 cut(s)	410, 463
TaqI	TCGA	8 cut(s)	267, 416, 842, 1077, 1088, 1150, 1293, 1743
TasI	AATT	9 cut(s)	485, 529, 569, 595, 768, 1295, 1449, 1674, 1698
TatI	WGTACW	1 cut(s)	493
TauI	GCSGC	1 cut(s)	1280
TfiI	GAWTC	7 cut(s)	625, 863, 1384, 1487, 1690, 1755, 1769
Tru1I	TTAA	5 cut(s)	308, 507, 669, 1028, 1596
Tru9I	TTAA	5 cut(s)	308, 507, 669, 1028, 1596
TscAI	CASTG	1 cut(s)	805
TseI	GCWGC	2 cut(s)	116, 926
TspGWI	ACGGA	2 cut(s)	716, 1812
TspRI	CASTG	1 cut(s)	805
VpaK11BI	GGWCC	1 cut(s)	208
XapI	RAATTY	5 cut(s)	485, 595, 768, 1449, 1698
XcmI	CCANNNNNNNNNTGG	2 cut(s)	200, 1172
XmiI	GTMKAC	1 cut(s)	869
XmnI	GAANNNNTTC	1 cut(s)	263
XspI	CTAG	3 cut(s)	72, 363, 1206

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