AT5G16220

PB1 domain

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
5
OG0026721
Physical Location & Seq
Reverse (-)
5298112 .. 5300642
2531 bp
Loading structure...
UTR
Exon/CDS
Intron
AT5G16220.1

Sequence Viewer

Length: 1431 bp
ATGACCACCGTCTCCTCCGCTTTCGCCACCGTAGCGGAAGGCGCGAAGGTTGTCACACCGAGATGGAAGAAGAATGAAAGAAATGGAAAGTTACGGGTGATGTGTAGGTATGGCGGTAGTATAGTTTCACCTCCGCAGACGAAATCGCCGCGTTATGTAGGCGGAGATACTCGAATCGTCGCCATTCCTTCTTCCGCGGAAACGAGCTTCGCTTCTCTTGTTAGCCACCTTACGGTTACGCTCAAAATCTCTTATCCTTTCAAAGTTAAATATCAGCTTCCTGATCAGGAACTAGATTCGCTTATCTCCGTCGAGGCGGATGAGGATGTTCAGATCATGATGGAAGAACACGGTTATCTCTCCTCCGAGTCCTCGATTCCCCAATCGCGTATCCGATTGTTTCTTTTCCCATTGAAATCACAACAATCGAATGAAGCTGGTGCGAGTCAGGGAGATTCGGATCAGTGTAAAGTGGAGACCGATATCGATTGGCTTGGAATCGAAGAGTCTAATAAGCCTATTCGTGAAGAATTGACTCAGCCGGTACTTCAGCACCCTAAGACGGAGATGTGGTTCGTAGACGCTTTGAAGAGCGTGGAGATGATGCAGACTAGACGAACTAATAGCGGAACTAGCGGAAGTGGAGATGGTAACGGCGGGATTTGTGGACAGGAGTCGATGATGCTAGAGACTAATTCATCCTTTGGCTCGACATCATCCTCGGTTTCGTCGAGCAATTTACCTCCGATAAAAAGCTCCGGCGAGGACAACATAGCGAACTCGCAAGTCAAATTTGCGCCAATAGAATCAGTGACAAGCAACGACAATTCTGCAGTCACCCCAATACCTTCCCACGAGCTACCATCACACTCACATGCTTTTGAGAACAAACCGTCTTCAAACTTGTATGTGGCTGAGCTAAACAGACCAGTTCCAGTCCCAATTTCCGGGTATCCACCATTTATGAACCAAGCTCAACAACAACATATCCAAGTCATTTACACTGGACAACCTTACATTACCGGAAACTCACCTATGACATTGCCTGCCACAGCATACCATCACACAAACCACGTCTATTATCAGCGTCCGCCACAACCATACCCAATCTATTACATTCCAGTCGAGCAGTACAGTTCGAGGCACGTTCAAGCACTGCCTGTGAAACCGAGCACCGTTTTAAACTATCACCAAGTTGATTCCCCGGTGGTCCGCACCAGCAGCCCTCTAGCGCCAGAGTTTTCCTCACAGGTTTATCCTCTATCCAAACCCGTTGATTCATCGGTACAGACATCAAGTGAAGCTACTCTTAATACTACTTCAAGAGATGCTTTCATCTATAATACCGATGTCGATGACGACAACGATATAGCTCATGCTCAAATTTACAAATCTCAGCCTCCAGCTCCCACATTACCGTCTCAGTATTAA
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
PB1

Protein Analysis

476

Amino Acids

52.31

Weight (kDa)

5.47

Isoelectric Point (pI)

51.52

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PB1 PF00564 47 - 137 1.4e-14 PB1 domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready
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Orthologous Genes (Group: OG0026721)

Species Orthologous Gene IDs
arabidopsis_thaliana AT5G16220
prunus_persica Prupe.3G148700_v2.0.a1

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccI GTMKAC 1 cut(s) 579
AccII CGCG 4 cut(s) 44, 151, 197, 388
AclWI GGATC 1 cut(s) 468
AcsI RAATTY 2 cut(s) 791, 1383
AcuI CTGAAG 1 cut(s) 533
AfaI GTAC 3 cut(s) 546, 1133, 1287
AfiI CCNNNNNNNGG 3 cut(s) 232, 562, 947
AgsI TTSAA 6 cut(s) 262, 415, 589, 900, 1151, 1323
AjiI CACGTC 1 cut(s) 1075
AloI GAACNNNNNNTCC 2 cut(s) 557, 589
Alw21I GWGCWC 1 cut(s) 1175
Alw26I GTCTC 4 cut(s) 16, 470, 683, 1425
AlwI GGATC 1 cut(s) 468
ApeKI GCWGC 1 cut(s) 1221
ApoI RAATTY 2 cut(s) 791, 1383
AspLEI GCGC 3 cut(s) 44, 799, 1234
AspS9I GGNCC 1 cut(s) 1210
AsuC2I CCSGG 2 cut(s) 949, 1205
AsuHPI GGTGA 5 cut(s) 109, 120, 829, 1023, 1181
AvaII GGWCC 1 cut(s) 1210
BauI CACGAG 1 cut(s) 854
BbsI GAAGAC 1 cut(s) 888
Bbv12I GWGCWC 1 cut(s) 1175
BbvI GCAGC 1 cut(s) 1233
BccI CCATC 5 cut(s) 57, 334, 641, 871, 1068
BceAI ACGGC 1 cut(s) 670
BcgI CGANNNNNNTGC 2 cut(s) 812, 846
BciVI GTATCC 2 cut(s) 401, 963
BclI TGATCA 1 cut(s) 283
BcnI CCSGG 2 cut(s) 949, 1205
BcoDI GTCTC 4 cut(s) 16, 470, 683, 1425
BfaI CTAG 5 cut(s) 293, 612, 633, 686, 1229
BfmI CTRYAG 1 cut(s) 831
BfoI RGCGCY 1 cut(s) 1235
BfuI GTATCC 2 cut(s) 401, 963
BisI GCNGC 2 cut(s) 149, 1222
BlpI GCTNAGC 1 cut(s) 915
BlsI GCNGC 2 cut(s) 150, 1223
Bme1390I CCNGG 2 cut(s) 949, 1205
Bme18I GGWCC 1 cut(s) 1210
BmgBI CACGTC 1 cut(s) 1075
BmgT120I GGNCC 1 cut(s) 1210
BmrFI CCNGG 2 cut(s) 949, 1205
BmsI GCATC 3 cut(s) 594, 672, 1318
BoxI GACNNNNGTC 2 cut(s) 8, 673
BpiI GAAGAC 1 cut(s) 888
BplI GAGNNNNNCTC 2 cut(s) 1229, 1261
BpmI CTGGAG 1 cut(s) 1386
Bpu1102I GCTNAGC 1 cut(s) 915
BpuMI CCSGG 2 cut(s) 949, 1205
Bsa29I ATCGAT 1 cut(s) 486
BsaBI GATNNNNATC 1 cut(s) 459
BsaI GGTCTC 1 cut(s) 470
BsaJI CCNNGG 3 cut(s) 195, 720, 1203
BsaWI WCCGGW 1 cut(s) 1022
BsaXI ACNNNNNCTCC 2 cut(s) 557, 587
Bsc4I CCNNNNNNNGG 3 cut(s) 232, 562, 947
Bse118I RCCGGY 1 cut(s) 541
Bse1I ACTGG 4 cut(s) 929, 935, 1009, 1121
Bse3DI GCAATG 1 cut(s) 1040
Bse8I GATNNNNATC 1 cut(s) 459
BseCI ATCGAT 1 cut(s) 486
BseDI CCNNGG 3 cut(s) 195, 720, 1203
BseGI GGATG 4 cut(s) 325, 331, 698, 716
BseJI GATNNNNATC 1 cut(s) 459
BseLI CCNNNNNNNGG 3 cut(s) 232, 562, 947
BseMI GCAATG 1 cut(s) 1040
BseMII CTCAG 3 cut(s) 551, 906, 1409
BseNI ACTGG 4 cut(s) 929, 935, 1009, 1121
BseRI GAGGAG 2 cut(s) 4, 352
BseXI GCAGC 1 cut(s) 1233
Bsh1236I CGCG 4 cut(s) 44, 151, 197, 388
BshVI ATCGAT 1 cut(s) 486
BsiHKAI GWGCWC 1 cut(s) 1175
BsiSI CCGG 5 cut(s) 542, 759, 948, 1023, 1205
BslFI GGGAC 1 cut(s) 923
BslI CCNNNNNNNGG 3 cut(s) 232, 562, 947
BsmAI GTCTC 4 cut(s) 16, 470, 683, 1425
BsmBI CGTCTC 2 cut(s) 16, 1425
BsmFI GGGAC 1 cut(s) 923
Bso31I GGTCTC 1 cut(s) 470
Bsp1286I GDGCHC 1 cut(s) 1175
Bsp143I GATC 3 cut(s) 283, 333, 460
Bsp1720I GCTNAGC 1 cut(s) 915
BspCNI CTCAG 3 cut(s) 550, 907, 1408
BspDI ATCGAT 1 cut(s) 486
BspFNI CGCG 4 cut(s) 44, 151, 197, 388
BspHI TCATGA 1 cut(s) 336
BspMAI CTGCAG 1 cut(s) 835
BspPI GGATC 1 cut(s) 468
BspQI GCTCTTC 1 cut(s) 584
BspTNI GGTCTC 1 cut(s) 470
BsrDI GCAATG 1 cut(s) 1040
BsrFI RCCGGY 1 cut(s) 541
BsrI ACTGG 4 cut(s) 929, 935, 1009, 1121
BssAI RCCGGY 1 cut(s) 541
BssECI CCNNGG 3 cut(s) 195, 720, 1203
BssMI GATC 3 cut(s) 283, 333, 460
BssSI CACGAG 1 cut(s) 854
Bst2BI CACGAG 1 cut(s) 854
Bst4CI ACNGT 8 cut(s) 10, 31, 235, 353, 894, 1136, 1177, 1419
Bst6I CTCTTC 2 cut(s) 498, 584
BstC8I GCNNGC 1 cut(s) 1047
BstDEI CTNAG 5 cut(s) 537, 558, 915, 1395, 1422
BstDSI CCRYGG 1 cut(s) 195
BstF5I GGATG 4 cut(s) 325, 331, 698, 716
BstFNI CGCG 4 cut(s) 44, 151, 197, 388
BstH2I RGCGCY 1 cut(s) 1235
BstHHI GCGC 3 cut(s) 44, 799, 1234
BstKTI GATC 3 cut(s) 286, 336, 463
BstMAI GTCTC 4 cut(s) 16, 470, 683, 1425
BstMBI GATC 3 cut(s) 283, 333, 460
BstMWI GCNNNNNNNGC 4 cut(s) 32, 41, 633, 1221
BstNSI RCATGY 1 cut(s) 878
BstPAI GACNNNNGTC 2 cut(s) 8, 673
BstSCI CCNGG 2 cut(s) 947, 1203
BstSFI CTRYAG 1 cut(s) 831
BstUI CGCG 4 cut(s) 44, 151, 197, 388
BstV1I GCAGC 1 cut(s) 1233
BstV2I GAAGAC 1 cut(s) 888
Bsu15I ATCGAT 1 cut(s) 486
BsuI GTATCC 2 cut(s) 401, 963
BsuTUI ATCGAT 1 cut(s) 486
BtgI CCRYGG 1 cut(s) 195
BtrI CACGTC 1 cut(s) 1075
BtsCI GGATG 4 cut(s) 325, 331, 698, 716
BtsI GCAGTG 1 cut(s) 1154
BtsIMutI CAGTG 4 cut(s) 470, 816, 1002, 1154
Cac8I GCNNGC 1 cut(s) 1047
CciI TCATGA 1 cut(s) 336
CfoI GCGC 3 cut(s) 44, 799, 1234
Cfr10I RCCGGY 1 cut(s) 541
Cfr13I GGNCC 1 cut(s) 1210
Cfr42I CCGCGG 1 cut(s) 198
ClaI ATCGAT 1 cut(s) 486
CseI GACGC 2 cut(s) 590, 1076
Csp6I GTAC 3 cut(s) 545, 1132, 1286
CviAII CATG 3 cut(s) 337, 875, 1376
CviQI GTAC 3 cut(s) 545, 1132, 1286
DdeI CTNAG 5 cut(s) 537, 558, 915, 1395, 1422
DpnI GATC 3 cut(s) 285, 335, 462
DpnII GATC 3 cut(s) 283, 333, 460
DraI TTTAAA 1 cut(s) 1182
Eam1104I CTCTTC 2 cut(s) 498, 584
EarI CTCTTC 2 cut(s) 498, 584
EciI GGCGGA 3 cut(s) 177, 332, 1080
Eco31I GGTCTC 1 cut(s) 470
Eco32I GATATC 1 cut(s) 484
Eco47I GGWCC 1 cut(s) 1210
Eco57I CTGAAG 1 cut(s) 533
EcoRV GATATC 1 cut(s) 484
Esp3I CGTCTC 2 cut(s) 16, 1425
FaeI CATG 3 cut(s) 340, 878, 1379
FalI AAGNNNNNCTT 4 cut(s) 1293, 1325, 1315, 1347
FaqI GGGAC 1 cut(s) 923
FatI CATG 3 cut(s) 336, 874, 1375
FauI CCCGC 1 cut(s) 650
FbaI TGATCA 1 cut(s) 283
FblI GTMKAC 1 cut(s) 579
Fnu4HI GCNGC 2 cut(s) 149, 1222
FokI GGATG 4 cut(s) 332, 338, 685, 703
Fsp4HI GCNGC 2 cut(s) 149, 1222
FspBI CTAG 5 cut(s) 293, 612, 633, 686, 1229
GlaI GCGC 3 cut(s) 43, 798, 1233
GluI GCNGC 2 cut(s) 149, 1222
GsuI CTGGAG 1 cut(s) 1386
HaeII RGCGCY 1 cut(s) 1235
HapII CCGG 5 cut(s) 542, 759, 948, 1023, 1205
HgaI GACGC 2 cut(s) 590, 1076
HhaI GCGC 3 cut(s) 44, 799, 1234
Hin1II CATG 3 cut(s) 340, 878, 1379
Hin6I GCGC 3 cut(s) 42, 797, 1232
HinP1I GCGC 3 cut(s) 42, 797, 1232
HpaII CCGG 5 cut(s) 542, 759, 948, 1023, 1205
HphI GGTGA 5 cut(s) 109, 120, 829, 1023, 1181
Hpy166II GTNNAC 2 cut(s) 580, 668
Hpy188I TCNGA 5 cut(s) 333, 367, 395, 460, 747
Hpy188III TCNNGA 5 cut(s) 281, 287, 337, 524, 1323
Hpy8I GTNNAC 2 cut(s) 580, 668
Hpy99I CGWCG 3 cut(s) 182, 314, 733
HpyAV CCTTC 4 cut(s) 32, 40, 198, 858
HpyCH4III ACNGT 8 cut(s) 10, 31, 235, 353, 894, 1136, 1177, 1419
HpyCH4IV ACGT 2 cut(s) 1074, 1146
HpyCH4V TGCA 2 cut(s) 607, 833
HpyF10VI GCNNNNNNNGC 4 cut(s) 32, 41, 633, 1221
HpyF3I CTNAG 5 cut(s) 537, 558, 915, 1395, 1422
HpySE526I ACGT 2 cut(s) 1074, 1146
Hsp92II CATG 3 cut(s) 340, 878, 1379
HspAI GCGC 3 cut(s) 42, 797, 1232
Ksp22I TGATCA 1 cut(s) 283
KspI CCGCGG 1 cut(s) 198
Kzo9I GATC 3 cut(s) 283, 333, 460
LguI GCTCTTC 1 cut(s) 584
LmnI GCTCC 2 cut(s) 761, 1411
Lsp1109I GCAGC 1 cut(s) 1233
LweI GCATC 3 cut(s) 594, 672, 1318
MaeI CTAG 5 cut(s) 293, 612, 633, 686, 1229
MaeII ACGT 2 cut(s) 1074, 1146
MaeIII GTNAC 6 cut(s) 52, 90, 235, 650, 811, 835
MalI GATC 3 cut(s) 285, 335, 462
MboI GATC 3 cut(s) 283, 333, 460
MboII GAAGA 8 cut(s) 79, 82, 183, 356, 515, 539, 601, 888
MhlI GDGCHC 1 cut(s) 1175
MluCI AATT 7 cut(s) 530, 694, 736, 791, 826, 942, 1383
MlyI GAGTC 5 cut(s) 377, 454, 515, 529, 683
MseI TTAA 4 cut(s) 267, 1181, 1311, 1429
MslI CAYNNNNRTG 2 cut(s) 61, 873
MspA1I CMGCKG 1 cut(s) 197
MspI CCGG 5 cut(s) 542, 759, 948, 1023, 1205
MspR9I CCNGG 2 cut(s) 949, 1205
MvnI CGCG 4 cut(s) 44, 151, 197, 388
MwoI GCNNNNNNNGC 4 cut(s) 32, 41, 633, 1221
NciI CCSGG 2 cut(s) 949, 1205
NdeII GATC 3 cut(s) 283, 333, 460
NlaIII CATG 3 cut(s) 340, 878, 1379
NmuCI GTSAC 3 cut(s) 52, 811, 835
NspI RCATGY 1 cut(s) 878
PagI TCATGA 1 cut(s) 336
PciSI GCTCTTC 1 cut(s) 584
PcsI WCGNNNNNNNCGW 1 cut(s) 728
PfeI GAWTC 8 cut(s) 174, 296, 376, 455, 498, 806, 1199, 1277
PkrI GCNGC 2 cut(s) 150, 1223
PleI GAGTC 5 cut(s) 376, 453, 514, 529, 682
PpsI GAGTC 5 cut(s) 376, 453, 514, 529, 682
PshAI GACNNNNGTC 2 cut(s) 8, 673
PspPI GGNCC 1 cut(s) 1210
PstI CTGCAG 1 cut(s) 835
RsaI GTAC 3 cut(s) 546, 1133, 1287
RsaNI GTAC 3 cut(s) 545, 1132, 1286
RseI CAYNNNNRTG 2 cut(s) 61, 873
SacII CCGCGG 1 cut(s) 198
SapI GCTCTTC 1 cut(s) 584
SaqAI TTAA 4 cut(s) 267, 1181, 1311, 1429
SatI GCNGC 2 cut(s) 149, 1222
Sau3AI GATC 3 cut(s) 283, 333, 460
Sau96I GGNCC 1 cut(s) 1210
SchI GAGTC 5 cut(s) 377, 454, 515, 529, 683
ScrFI CCNGG 2 cut(s) 949, 1205
SduI GDGCHC 1 cut(s) 1175
SfaNI GCATC 3 cut(s) 594, 672, 1318
SfcI CTRYAG 1 cut(s) 831
Sfr303I CCGCGG 1 cut(s) 198
SgrBI CCGCGG 1 cut(s) 198
SinI GGWCC 1 cut(s) 1210
SmiMI CAYNNNNRTG 2 cut(s) 61, 873
Sse9I AATT 7 cut(s) 530, 694, 736, 791, 826, 942, 1383
SspMI CTAG 5 cut(s) 293, 612, 633, 686, 1229
StyD4I CCNGG 2 cut(s) 947, 1203
TaaI ACNGT 8 cut(s) 10, 31, 235, 353, 894, 1136, 1177, 1419
TaiI ACGT 2 cut(s) 1077, 1149
TaqII GACCGA 1 cut(s) 494
TasI AATT 7 cut(s) 530, 694, 736, 791, 826, 942, 1383
TatI WGTACW 1 cut(s) 1131
TauI GCSGC 1 cut(s) 151
TfiI GAWTC 8 cut(s) 174, 296, 376, 455, 498, 806, 1199, 1277
Tru1I TTAA 4 cut(s) 267, 1181, 1311, 1429
Tru9I TTAA 4 cut(s) 267, 1181, 1311, 1429
TscAI CASTG 4 cut(s) 470, 816, 1009, 1161
TseFI GTSAC 3 cut(s) 52, 811, 835
TseI GCWGC 1 cut(s) 1221
Tsp45I GTSAC 3 cut(s) 52, 811, 835
TspDTI ATGAA 6 cut(s) 90, 447, 687, 980, 1269, 1324
TspGWI ACGGA 2 cut(s) 298, 578
TspRI CASTG 4 cut(s) 470, 816, 1009, 1161
VpaK11BI GGWCC 1 cut(s) 1210
XapI RAATTY 2 cut(s) 791, 1383
XceI RCATGY 1 cut(s) 878
XmiI GTMKAC 1 cut(s) 579
XspI CTAG 5 cut(s) 293, 612, 633, 686, 1229
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.