Basic Information

Type: gene

Biological Identity

Species

arabidopsis_thaliana

Chromosome

Orthogroup ID

OG0004379

Physical Location & Seq

Genomic Coordinates Forward (+)

19304886 .. 19309651

Gene Structure 4766 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

AT3G52050.2

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1278 bp

ATGACGCTGCATCTGTATCATCACTCCCGTTTTCTATGGAGGAATCTCTGTTTTCCTCGGAGTGTTGGAAACTTGTGTAATCGGAACTGTTCTCTCATCTCTCCTTCCCTTGCACGCTCTGCGAAGTACTATTGCAGTTCCGTAGCTGTTTCTGAATTCTCAAATGAAGCAGCTAGTGGCAGCACATTGACTTCTATAAGTGAAGATGTTACGCCACAGTCGATAAAATATCCTTTCAAGTCAGAAGAAAGAGTAGCTAGTACTGCTGCTTCTTCAAATGGCAGAGTGATGCTTATTGATGGGACATCGATTATATACAGGGCTTATTATAAGCTTTTAGCAAGGTTGAATCATGGTCATCTGGCTCATGCTGATGGAAATGCGGACTGGGTTTTAACAATATTTTCATCTCTTTCTCTTCTGATTGATGTTTTGAAATTTCTCCCATCCCATGTGGCGGTGGTGTTCGACCATGATGGAGTTCCTTATGGCACTACTTCTAATTCATCTACAGGTTATCGTTCTGCAAAAGGCATGAACTTCCGTCATACTCTCTACCCAGCATATAAAAGTAATCGTCCTCCCACACCTGATACCATAGTACAAGGACTTCAATATCTCAAAGCGTCCATCAAGGCAATGTCTATAAAAGTTATAGAGGTGCCAGGTGTAGAAGCTGATGATGTTATTGGAACACTGGCTATGCGAAGCATTAGTGCCGGTTTCAAAGTCCGAGTTGTCTCTCCAGACAAAGACTTCTTTCAGATTCTTTCTCCCTCGTTGCGTCTTCTTCGACTAACACCACGCGGATCAGAGATGGCTTCTTTTGGAATGGAAGATTTTGCTAAAAAGTTTGGAAATTTGGAACCAGCACAATTTGTTGATATCATCGCCCTTGCTGGAGACAAGTCTGATAATATTCCAGGAGTTGATGGTATTGGGAATGTGCACGCAGTGGAACTGATATCTAGATTTGGCACGTTGGAGAATCTGTTGCAGTCTGTGGATGAGATCAAAGAAGGAAAAATAAAGGAGTCTCTAATAGCTAGTGCGGATCAAGCCATTCTTAGCAAGAAATTGGCACTGTTACGGTCTGATCTCCCAGATTACATAGTACCGTTCGACACGAAAGATCTTACTTTTAAGAAACCAGAGGACAATGGTGAGAAATTGAGTAGCCTGTTAATCGCGATTGCGGATTACGCAGAAGGATTTTCAGCTGATCCAGTCATCAGAAGAGCTTTCAGGTTGTGGGAAAAACTGGAAGCAGTGCCATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

5_3_exonuc 5_3_exonuc_N

Protein Analysis

425

Amino Acids

46.69

Weight (kDa)

7.69

Isoelectric Point (pI)

34.89

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
5_3_exonuc_N	PF02739	96 - 286	3.7e-36	5'-3' exonuclease, N-terminal resolvase-like domain
5_3_exonuc	PF01367	289 - 385	2.9e-28	5'-3' exonuclease, C-terminal SAM fold

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: OG0004379)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G52050 AT3G52050 AT3G52050 AT3G52050 AT3G52050 AT3G52050 AT3G52050 AT3G52050
fragaria_vesca	FvH4_5g12060 FvH4_5g12060 FvH4_5g12060 FvH4_5g12060 FvH4_5g12060 FvH4_5g12060
malus_domestica	MD04G1048800.v1.1 MD17G1177600.v1.1
prunus_persica	Prupe.1G206500_v2.0.a1 Prupe.1G206500_v2.0.a1 Prupe.1G206500_v2.0.a1 Prupe.1G206500_v2.0.a1 Prupe.1G206500_v2.0.a1
pyrus_communis	pycom04g04290
rosa_chinensis	RchiOBHm_Chr4g0406021
rosa_laevigata	RLG00000008801
rosa_multiflora	Rmu_sc0001630.1_g000025
rosa_roxburghii	Rroxscaffold_5G00350780
rosa_rugosa	Rorug04G0064900
rosa_samantha	Rh4AG135400 Rh4BG132400 Rh4CG143300 Rh4DG130500
rosa_wichuraiana	Rw4G011020

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	330
AccB1I	GGYRCC	1 cut(s)	661
AccII	CGCG	2 cut(s)	807, 1190
AciI	CCGC	5 cut(s)	383, 458, 807, 1052, 1196
AclWI	GGATC	3 cut(s)	817, 1062, 1217
AcsI	RAATTY	3 cut(s)	155, 437, 859
AdeI	CACNNNGTG	1 cut(s)	955
AfaI	GTAC	4 cut(s)	128, 262, 603, 1116
AfiI	CCNNNNNNNGG	1 cut(s)	457
AgsI	TTSAA	6 cut(s)	238, 276, 349, 436, 614, 727
AjnI	CCWGG	2 cut(s)	664, 922
AluBI	AGCT	8 cut(s)	146, 173, 257, 334, 677, 1046, 1220, 1241
AluI	AGCT	8 cut(s)	146, 173, 257, 334, 677, 1046, 1220, 1241
Alw21I	GWGCWC	1 cut(s)	951
Alw26I	GTCTC	3 cut(s)	745, 897, 1041
Alw44I	GTGCAC	1 cut(s)	947
AlwI	GGATC	3 cut(s)	817, 1062, 1217
ApaLI	GTGCAC	1 cut(s)	947
ApeKI	GCWGC	4 cut(s)	7, 170, 180, 266
ApoI	RAATTY	3 cut(s)	155, 437, 859
AsuHPI	GGTGA	1 cut(s)	1175
BaeGI	GKGCMC	1 cut(s)	951
BaeI	ACNNNNGTAYC	2 cut(s)	585, 618
BanI	GGYRCC	1 cut(s)	661
BarI	GAAGNNNNNNTAC	4 cut(s)	253, 285, 594, 626
BbsI	GAAGAC	1 cut(s)	779
Bbv12I	GWGCWC	1 cut(s)	951
BbvI	GCAGC	3 cut(s)	182, 192, 253
BccI	CCATC	7 cut(s)	293, 368, 454, 470, 638, 811, 926
BciT130I	CCWGG	2 cut(s)	666, 924
BcoDI	GTCTC	3 cut(s)	745, 897, 1041
BfaI	CTAG	4 cut(s)	174, 258, 969, 1047
BfmI	CTRYAG	1 cut(s)	510
BglII	AGATCT	1 cut(s)	1132
BisI	GCNGC	4 cut(s)	8, 171, 181, 267
BlsI	GCNGC	4 cut(s)	9, 172, 182, 268
BmcAI	AGTACT	2 cut(s)	128, 262
Bme1390I	CCNGG	2 cut(s)	666, 924
BmiI	GGNNCC	2 cut(s)	663, 867
BmrFI	CCNGG	2 cut(s)	666, 924
BmrI	ACTGGG	1 cut(s)	397
BmsI	GCATC	2 cut(s)	19, 279
BmuI	ACTGGG	1 cut(s)	397
BpiI	GAAGAC	1 cut(s)	779
BpmI	CTGGAG	2 cut(s)	729, 921
Bsa29I	ATCGAT	1 cut(s)	308
BsaJI	CCNNGG	1 cut(s)	56
BsaXI	ACNNNNNCTCC	2 cut(s)	977, 1007
Bsc4I	CCNNNNNNNGG	1 cut(s)	457
Bse118I	RCCGGY	1 cut(s)	719
Bse1I	ACTGG	4 cut(s)	392, 702, 1226, 1266
Bse3DI	GCAATG	1 cut(s)	645
BseBI	CCWGG	2 cut(s)	666, 924
BseCI	ATCGAT	1 cut(s)	308
BseDI	CCNNGG	1 cut(s)	56
BseGI	GGATG	2 cut(s)	446, 1012
BseLI	CCNNNNNNNGG	1 cut(s)	457
BseMI	GCAATG	1 cut(s)	645
BseNI	ACTGG	4 cut(s)	392, 702, 1226, 1266
BseSI	GKGCMC	1 cut(s)	951
BseXI	GCAGC	3 cut(s)	182, 192, 253
BseYI	CCCAGC	1 cut(s)	559
Bsh1236I	CGCG	2 cut(s)	807, 1190
BshNI	GGYRCC	1 cut(s)	661
BshVI	ATCGAT	1 cut(s)	308
BsiHKAI	GWGCWC	1 cut(s)	951
BsiSI	CCGG	1 cut(s)	720
BslFI	GGGAC	1 cut(s)	316
BslI	CCNNNNNNNGG	1 cut(s)	457
BsmAI	GTCTC	3 cut(s)	745, 897, 1041
BsmFI	GGGAC	1 cut(s)	316
Bsp1286I	GDGCHC	1 cut(s)	951
Bsp143I	GATC	6 cut(s)	809, 1011, 1054, 1096, 1132, 1222
Bsp68I	TCGCGA	1 cut(s)	1190
BspACI	CCGC	5 cut(s)	383, 458, 807, 1052, 1196
BspDI	ATCGAT	1 cut(s)	308
BspFNI	CGCG	2 cut(s)	807, 1190
BspLI	GGNNCC	2 cut(s)	663, 867
BspPI	GGATC	3 cut(s)	817, 1062, 1217
BspQI	GCTCTTC	1 cut(s)	1231
BspT107I	GGYRCC	1 cut(s)	661
BsrDI	GCAATG	1 cut(s)	645
BsrFI	RCCGGY	1 cut(s)	719
BsrI	ACTGG	4 cut(s)	392, 702, 1226, 1266
BssAI	RCCGGY	1 cut(s)	719
BssECI	CCNNGG	1 cut(s)	56
BssMI	GATC	6 cut(s)	809, 1011, 1054, 1096, 1132, 1222
Bst2UI	CCWGG	2 cut(s)	666, 924
Bst4CI	ACNGT	5 cut(s)	89, 219, 1086, 1092, 1119
Bst6I	CTCTTC	2 cut(s)	423, 1231
BstAPI	GCANNNNNTGC	1 cut(s)	119
BstC8I	GCNNGC	2 cut(s)	115, 951
BstDEI	CTNAG	1 cut(s)	1067
BstF5I	GGATG	2 cut(s)	446, 1012
BstFNI	CGCG	2 cut(s)	807, 1190
BstKTI	GATC	6 cut(s)	812, 1014, 1057, 1099, 1135, 1225
BstMAI	GTCTC	3 cut(s)	745, 897, 1041
BstMBI	GATC	6 cut(s)	809, 1011, 1054, 1096, 1132, 1222
BstMWI	GCNNNNNNNGC	4 cut(s)	119, 263, 1058, 1202
BstNI	CCWGG	2 cut(s)	666, 924
BstSCI	CCNGG	2 cut(s)	664, 922
BstSFI	CTRYAG	1 cut(s)	510
BstSLI	GKGCMC	1 cut(s)	951
BstUI	CGCG	2 cut(s)	807, 1190
BstV1I	GCAGC	3 cut(s)	182, 192, 253
BstV2I	GAAGAC	1 cut(s)	779
BstX2I	RGATCY	1 cut(s)	1132
BstYI	RGATCY	1 cut(s)	1132
Bsu15I	ATCGAT	1 cut(s)	308
BsuTUI	ATCGAT	1 cut(s)	308
BtgZI	GCGATG	1 cut(s)	874
BtsCI	GGATG	2 cut(s)	446, 1012
BtsI	GCAGTG	2 cut(s)	960, 1275
BtsIMutI	CAGTG	4 cut(s)	695, 960, 1082, 1275
BtuMI	TCGCGA	1 cut(s)	1190
Cac8I	GCNNGC	2 cut(s)	115, 951
Cfr10I	RCCGGY	1 cut(s)	719
ClaI	ATCGAT	1 cut(s)	308
CseI	GACGC	3 cut(s)	13, 615, 773
Csp6I	GTAC	4 cut(s)	127, 261, 602, 1115
CviAII	CATG	6 cut(s)	353, 368, 452, 473, 535, 1275
CviQI	GTAC	4 cut(s)	127, 261, 602, 1115
DdeI	CTNAG	1 cut(s)	1067
DpnI	GATC	6 cut(s)	811, 1013, 1056, 1098, 1134, 1224
DpnII	GATC	6 cut(s)	809, 1011, 1054, 1096, 1132, 1222
DraIII	CACNNNGTG	1 cut(s)	955
Eam1104I	CTCTTC	2 cut(s)	423, 1231
EarI	CTCTTC	2 cut(s)	423, 1231
Eco32I	GATATC	2 cut(s)	886, 966
EcoRI	GAATTC	1 cut(s)	155
EcoRII	CCWGG	2 cut(s)	664, 922
EcoRV	GATATC	2 cut(s)	886, 966
FaeI	CATG	6 cut(s)	356, 371, 455, 476, 538, 1278
FalI	AAGNNNNNCTT	2 cut(s)	1050, 1082
FaqI	GGGAC	1 cut(s)	316
FatI	CATG	6 cut(s)	352, 367, 451, 472, 534, 1274
Fnu4HI	GCNGC	4 cut(s)	8, 171, 181, 267
FokI	GGATG	2 cut(s)	433, 1019
Fsp4HI	GCNGC	4 cut(s)	8, 171, 181, 267
FspBI	CTAG	4 cut(s)	174, 258, 969, 1047
GluI	GCNGC	4 cut(s)	8, 171, 181, 267
GsaI	CCCAGC	1 cut(s)	563
GsuI	CTGGAG	2 cut(s)	729, 921
HapII	CCGG	1 cut(s)	720
HgaI	GACGC	3 cut(s)	13, 615, 773
Hin1II	CATG	6 cut(s)	356, 371, 455, 476, 538, 1278
HindIII	AAGCTT	1 cut(s)	332
HinfI	GANTC	5 cut(s)	43, 349, 766, 988, 1034
HpaII	CCGG	1 cut(s)	720
HphI	GGTGA	1 cut(s)	1175
Hpy166II	GTNNAC	1 cut(s)	949
Hpy188III	TCNNGA	3 cut(s)	746, 969, 1189
Hpy8I	GTNNAC	1 cut(s)	949
HpyAV	CCTTC	3 cut(s)	114, 1013, 1202
HpyCH4III	ACNGT	5 cut(s)	89, 219, 1086, 1092, 1119
HpyCH4IV	ACGT	1 cut(s)	980
HpyCH4V	TGCA	6 cut(s)	10, 113, 135, 527, 949, 997
HpyF10VI	GCNNNNNNNGC	4 cut(s)	119, 263, 1058, 1202
HpyF3I	CTNAG	1 cut(s)	1067
HpySE526I	ACGT	1 cut(s)	980
Hsp92II	CATG	6 cut(s)	356, 371, 455, 476, 538, 1278
Kzo9I	GATC	6 cut(s)	809, 1011, 1054, 1096, 1132, 1222
LguI	GCTCTTC	1 cut(s)	1231
Lsp1109I	GCAGC	3 cut(s)	182, 192, 253
LweI	GCATC	2 cut(s)	19, 279
MaeI	CTAG	4 cut(s)	174, 258, 969, 1047
MaeII	ACGT	1 cut(s)	980
MaeIII	GTNAC	2 cut(s)	208, 1086
MalI	GATC	6 cut(s)	811, 1013, 1056, 1098, 1134, 1224
MboI	GATC	6 cut(s)	809, 1011, 1054, 1096, 1132, 1222
MboII	GAAGA	8 cut(s)	215, 257, 264, 410, 779, 782, 848, 1248
MflI	RGATCY	1 cut(s)	1132
MhlI	GDGCHC	1 cut(s)	951
MluCI	AATT	7 cut(s)	155, 437, 502, 859, 875, 1076, 1169
MlyI	GAGTC	1 cut(s)	1043
MmeI	TCCRAC	2 cut(s)	46, 963
MnlI	CCTC	6 cut(s)	33, 66, 591, 652, 787, 1147
MseI	TTAA	3 cut(s)	395, 1143, 1184
MslI	CAYNNNNRTG	1 cut(s)	372
MspA1I	CMGCKG	1 cut(s)	1220
MspI	CCGG	1 cut(s)	720
MspR9I	CCNGG	2 cut(s)	666, 924
MvaI	CCWGG	2 cut(s)	666, 924
MvnI	CGCG	2 cut(s)	807, 1190
MwoI	GCNNNNNNNGC	4 cut(s)	119, 263, 1058, 1202
NdeII	GATC	6 cut(s)	809, 1011, 1054, 1096, 1132, 1222
NlaIII	CATG	6 cut(s)	356, 371, 455, 476, 538, 1278
NlaIV	GGNNCC	2 cut(s)	663, 867
NruI	TCGCGA	1 cut(s)	1190
PciSI	GCTCTTC	1 cut(s)	1231
PcsI	WCGNNNNNNNCGW	1 cut(s)	218
PfeI	GAWTC	4 cut(s)	43, 349, 766, 988
PfoI	TCCNGGA	1 cut(s)	922
PkrI	GCNGC	4 cut(s)	9, 172, 182, 268
PleI	GAGTC	1 cut(s)	1042
PpsI	GAGTC	1 cut(s)	1042
PsiI	TTATAA	1 cut(s)	330
Psp6I	CCWGG	2 cut(s)	664, 922
PspFI	CCCAGC	1 cut(s)	559
PspGI	CCWGG	2 cut(s)	664, 922
PspN4I	GGNNCC	2 cut(s)	663, 867
PsuI	RGATCY	1 cut(s)	1132
PvuII	CAGCTG	1 cut(s)	1220
RruI	TCGCGA	1 cut(s)	1190
RsaI	GTAC	4 cut(s)	128, 262, 603, 1116
RsaNI	GTAC	4 cut(s)	127, 261, 602, 1115
RseI	CAYNNNNRTG	1 cut(s)	372
SapI	GCTCTTC	1 cut(s)	1231
SaqAI	TTAA	3 cut(s)	395, 1143, 1184
SatI	GCNGC	4 cut(s)	8, 171, 181, 267
Sau3AI	GATC	6 cut(s)	809, 1011, 1054, 1096, 1132, 1222
ScaI	AGTACT	2 cut(s)	128, 262
SchI	GAGTC	1 cut(s)	1043
ScrFI	CCNGG	2 cut(s)	666, 924
SduI	GDGCHC	1 cut(s)	951
SfaNI	GCATC	2 cut(s)	19, 279
SfcI	CTRYAG	1 cut(s)	510
SmiMI	CAYNNNNRTG	1 cut(s)	372
Sse9I	AATT	7 cut(s)	155, 437, 502, 859, 875, 1076, 1169
SsiI	CCGC	5 cut(s)	383, 458, 807, 1052, 1196
SspI	AATATT	2 cut(s)	402, 919
SspMI	CTAG	4 cut(s)	174, 258, 969, 1047
StyD4I	CCNGG	2 cut(s)	664, 922
TaaI	ACNGT	5 cut(s)	89, 219, 1086, 1092, 1119
TaiI	ACGT	1 cut(s)	983
TaqI	TCGA	5 cut(s)	221, 308, 468, 793, 1122
TasI	AATT	7 cut(s)	155, 437, 502, 859, 875, 1076, 1169
TatI	WGTACW	3 cut(s)	126, 260, 601
TfiI	GAWTC	4 cut(s)	43, 349, 766, 988
Tru1I	TTAA	3 cut(s)	395, 1143, 1184
Tru9I	TTAA	3 cut(s)	395, 1143, 1184
TscAI	CASTG	4 cut(s)	702, 960, 1089, 1275
TseI	GCWGC	4 cut(s)	7, 170, 180, 266
TspDTI	ATGAA	4 cut(s)	180, 396, 495, 551
TspGWI	ACGGA	2 cut(s)	130, 533
TspRI	CASTG	4 cut(s)	702, 960, 1089, 1275
VneI	GTGCAC	1 cut(s)	947
XapI	RAATTY	3 cut(s)	155, 437, 859
XbaI	TCTAGA	1 cut(s)	968
XspI	CTAG	4 cut(s)	174, 258, 969, 1047
ZrmI	AGTACT	2 cut(s)	128, 262

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