pycom111g05650

Ninja-family protein AFP3-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
pyrus_communis
SuperScaffold_111
OG0002373
Physical Location & Seq
Reverse (-)
3605767 .. 3608088
2322 bp
Loading structure...
UTR
Exon/CDS
Intron
pycom111g05650.1

Sequence Viewer

Length: 1080 bp
ATGGCGCAAACAGAGGAAGGCGGGAACGTAGCAACCCAGCAGGTGTTCCCAATGCAAGGGAGTAATTTTCCGGGCGATTTGTATGGGCAAATGGTTGCCGGAAACAGTTTTCCGGGAAAATTCGGGGAGCCGACCTCTGAGGATTCGGAGGAGATTGAGCTGAGCCTGGGCCTGTCGCTGAACGGTCGGTTCGGAGTGGACCCCGCGAGAGCCAAAATGGTGGCTCTAAAACGTTCGTCGTCAATCTCCGATTTCGGTTTTACCCCGGCAAGAGAAGAAGAGACGACATGTCGTGTGTCAGGGCCGTCGCGCGCGGTACCTCTGATGAGGACTTGTTCTCTTCCGACGGAGACGGAGGAGGAGTGGAGGAAGAGGAAGGAGCTGCAGAGCTTGAGGAGAATGGAAGCGAAGAGGAAGAGGTCGGAGAAGCAGCTGAGGAACTTGAAGGTGCCGAGGGATCGGAGCCGGGAGAACGGCGGCGAGGAGGATAAAGCGGCGGAAGTGGCGAATGGGGTTCATAGGAGAGAGCAGTTTGTGAAGGTTGTGGATGAGTTTAGAGCAATGGGGATGCCCAATTGTCCTGCTCCGCCGCTACTGGCGGCATCTCGAGGTAGTGGCTCAACTGGGATTTCGGAATCTGAGAGCCAAGCTGCAGCTACACCTCAAGGAGTGCACAAATGCACCGAAGCAAGAAGCCACACCGAAGCTCAGTCTTCGCCAAAGGCTGAGAAGGAACTGCTAGCGACACCAAGGATGATAACCGCTCAAAGGTCAGGTCAGTTCATTGGAGTCCAAATGGAAATCAACTGTAATAAACCCCCAGTTCCAGAAGCCGGCCCCAACAAAATCGTGAGGAACGTGTTGGAGAACATGCCCTGTGTGTCTACGACAGGAGATGGCCCTGACGGGAAAAGAATAGAAGGGTTTCTTTACAGATACAAGAAGGGTGAGGAAGTGAGGATAGTATGCGTTTGCCATGGCAGCTTTCTCTCACCGGCGGAGTTTGTGAAGCATGCCGGCGGAGGTGACGTGGAGCACCCGTTGAAGCATATAGTGGTGAATCCTAGTCCGTTATTGTAG
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044464
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
EAR Jas NINJA_B

Protein Analysis

360

Amino Acids

39.17

Weight (kDa)

8.08

Isoelectric Point (pI)

64.72

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
EAR PF07897 47 - 84 3.4e-17 Ethylene-responsive binding factor-associated repression
NLS_NINJA_AFP PF16136 108 - 144 4e-21 Putative nuclear localisation signal in Ninja/AFP proteins
TDBD PF16135 320 - 353 2.3e-08 Tify domain binding 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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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AarI CACCTGC 1 cut(s) 31
Acc36I ACCTGC 1 cut(s) 31
Acc65I GGTACC 1 cut(s) 316
AccB1I GGYRCC 2 cut(s) 316, 448
AccBSI CCGCTC 1 cut(s) 764
AccI GTMKAC 1 cut(s) 884
AccII CGCG 4 cut(s) 206, 310, 312, 314
AclI AACGTT 1 cut(s) 232
AclWI GGATC 1 cut(s) 465
AcsI RAATTY 1 cut(s) 119
AfaI GTAC 1 cut(s) 318
AfiI CCNNNNNNNGG 3 cut(s) 56, 768, 833
AflIII ACRYGT 2 cut(s) 287, 858
AgsI TTSAA 2 cut(s) 445, 1045
AhdI GACNNNNNGTC 1 cut(s) 288
AjiI CACGTC 1 cut(s) 1030
AjnI CCWGG 1 cut(s) 165
AluBI AGCT 8 cut(s) 160, 382, 390, 433, 650, 656, 707, 984
AluI AGCT 8 cut(s) 160, 382, 390, 433, 650, 656, 707, 984
Alw21I GWGCWC 2 cut(s) 675, 1038
Alw26I GTCTC 2 cut(s) 275, 344
Alw44I GTGCAC 1 cut(s) 671
AlwI GGATC 1 cut(s) 465
Ama87I CYCGRG 1 cut(s) 606
AoxI GGCC 4 cut(s) 169, 302, 835, 898
ApaLI GTGCAC 1 cut(s) 671
ApeKI GCWGC 5 cut(s) 382, 430, 650, 653, 981
ApoI RAATTY 1 cut(s) 119
ArsI GACNNNNNNTTYG 2 cut(s) 760, 792
Asp700I GAANNNNTTC 1 cut(s) 924
Asp718I GGTACC 1 cut(s) 316
AspLEI GCGC 3 cut(s) 7, 312, 314
AspS9I GGNCC 5 cut(s) 169, 199, 302, 836, 899
AsuC2I CCSGG 4 cut(s) 72, 114, 266, 467
AsuHPI GGTGA 4 cut(s) 959, 984, 1037, 1069
AsuNHI GCTAGC 1 cut(s) 739
AvaI CYCGRG 1 cut(s) 606
AvaII GGWCC 1 cut(s) 199
BaeGI GKGCMC 1 cut(s) 675
BanI GGYRCC 2 cut(s) 316, 448
BbsI GAAGAC 1 cut(s) 705
Bbv12I GWGCWC 2 cut(s) 675, 1038
BbvCI CCTCAGC 1 cut(s) 434
BbvI GCAGC 5 cut(s) 369, 442, 637, 665, 993
BccI CCATC 1 cut(s) 890
BceAI ACGGC 2 cut(s) 289, 490
BciT130I CCWGG 1 cut(s) 167
BcnI CCSGG 4 cut(s) 72, 114, 266, 467
BcoDI GTCTC 2 cut(s) 275, 344
BfaI CTAG 2 cut(s) 740, 1065
BfmI CTRYAG 2 cut(s) 383, 651
BfuAI ACCTGC 1 cut(s) 31
BisI GCNGC 9 cut(s) 383, 431, 478, 495, 590, 600, 651, 654, 982
BlpI GCTNAGC 1 cut(s) 161
BlsI GCNGC 9 cut(s) 384, 432, 479, 496, 591, 601, 652, 655, 983
Bme1390I CCNGG 5 cut(s) 72, 114, 167, 266, 467
Bme18I GGWCC 1 cut(s) 199
BmeRI GACNNNNNGTC 1 cut(s) 288
BmeT110I CYCGRG 1 cut(s) 606
BmgBI CACGTC 1 cut(s) 1030
BmgT120I GGNCC 5 cut(s) 169, 199, 302, 836, 899
BmiI GGNNCC 6 cut(s) 129, 201, 318, 450, 464, 838
BmrFI CCNGG 5 cut(s) 72, 114, 167, 266, 467
BmrI ACTGGG 2 cut(s) 633, 815
BmsI GCATC 2 cut(s) 558, 611
BmtI GCTAGC 1 cut(s) 743
BmuI ACTGGG 2 cut(s) 633, 815
BpiI GAAGAC 1 cut(s) 705
BplI GAGNNNNNCTC 2 cut(s) 119, 151
Bpu10I CCTNAGC 1 cut(s) 434
Bpu1102I GCTNAGC 1 cut(s) 161
BpuEI CTTGAG 2 cut(s) 412, 648
BpuMI CCSGG 4 cut(s) 72, 114, 266, 467
BsaJI CCNNGG 5 cut(s) 166, 264, 452, 749, 976
BsaXI ACNNNNNCTCC 6 cut(s) 347, 377, 1014, 1025, 1044, 1055
Bsc4I CCNNNNNNNGG 3 cut(s) 56, 768, 833
Bse118I RCCGGY 3 cut(s) 833, 994, 1016
Bse1I ACTGG 3 cut(s) 600, 628, 821
Bse3DI GCAATG 1 cut(s) 567
BseBI CCWGG 1 cut(s) 167
BseDI CCNNGG 5 cut(s) 166, 264, 452, 749, 976
BseGI GGATG 3 cut(s) 553, 573, 759
BseLI CCNNNNNNNGG 3 cut(s) 56, 768, 833
BseMI GCAATG 1 cut(s) 567
BseMII CTCAG 6 cut(s) 129, 152, 425, 630, 717, 722
BseNI ACTGG 3 cut(s) 600, 628, 821
BsePI GCGCGC 1 cut(s) 310
BseRI GAGGAG 5 cut(s) 164, 371, 374, 409, 497
BseSI GKGCMC 1 cut(s) 675
BseXI GCAGC 5 cut(s) 369, 442, 637, 665, 993
BseYI CCCAGC 1 cut(s) 36
Bsh1236I CGCG 4 cut(s) 206, 310, 312, 314
Bsh1285I CGRYCG 1 cut(s) 187
BshFI GGCC 4 cut(s) 171, 304, 837, 900
BshNI GGYRCC 2 cut(s) 316, 448
BsiEI CGRYCG 1 cut(s) 187
BsiHKAI GWGCWC 2 cut(s) 675, 1038
BsiHKCI CYCGRG 1 cut(s) 606
BsiSI CCGG 8 cut(s) 71, 99, 113, 266, 466, 834, 995, 1017
BslI CCNNNNNNNGG 3 cut(s) 56, 768, 833
BsmAI GTCTC 2 cut(s) 275, 344
BsmBI CGTCTC 2 cut(s) 275, 344
BsnI GGCC 4 cut(s) 171, 304, 837, 900
BsoBI CYCGRG 1 cut(s) 606
Bsp1286I GDGCHC 2 cut(s) 675, 1038
Bsp143I GATC 1 cut(s) 457
Bsp1720I GCTNAGC 1 cut(s) 161
Bsp19I CCATGG 1 cut(s) 976
BspANI GGCC 4 cut(s) 171, 304, 837, 900
BspCNI CTCAG 6 cut(s) 130, 153, 426, 631, 718, 721
BspFNI CGCG 4 cut(s) 206, 310, 312, 314
BspLI GGNNCC 6 cut(s) 129, 201, 318, 450, 464, 838
BspMAI CTGCAG 2 cut(s) 387, 655
BspMI ACCTGC 1 cut(s) 31
BspOI GCTAGC 1 cut(s) 743
BspPI GGATC 1 cut(s) 465
BspT107I GGYRCC 2 cut(s) 316, 448
BsrBI CCGCTC 1 cut(s) 764
BsrDI GCAATG 1 cut(s) 567
BsrFI RCCGGY 3 cut(s) 833, 994, 1016
BsrI ACTGG 3 cut(s) 600, 628, 821
BssAI RCCGGY 3 cut(s) 833, 994, 1016
BssECI CCNNGG 5 cut(s) 166, 264, 452, 749, 976
BssHII GCGCGC 1 cut(s) 310
BssMI GATC 1 cut(s) 457
BssT1I CCWWGG 2 cut(s) 749, 976
Bst2UI CCWGG 1 cut(s) 167
Bst4CI ACNGT 3 cut(s) 107, 185, 809
Bst6I CTCTTC 5 cut(s) 273, 345, 365, 404, 410
BstC8I GCNNGC 5 cut(s) 312, 741, 835, 1014, 1018
BstDEI CTNAG 6 cut(s) 138, 161, 434, 639, 708, 726
BstDSI CCRYGG 1 cut(s) 976
BstF5I GGATG 3 cut(s) 553, 573, 759
BstFNI CGCG 4 cut(s) 206, 310, 312, 314
BstHHI GCGC 3 cut(s) 7, 312, 314
BstKTI GATC 1 cut(s) 460
BstMAI GTCTC 2 cut(s) 275, 344
BstMBI GATC 1 cut(s) 457
BstMCI CGRYCG 1 cut(s) 187
BstMWI GCNNNNNNNGC 2 cut(s) 503, 981
BstNI CCWGG 1 cut(s) 167
BstNSI RCATGY 3 cut(s) 291, 874, 1016
BstSCI CCNGG 5 cut(s) 70, 112, 165, 264, 465
BstSFI CTRYAG 2 cut(s) 383, 651
BstSLI GKGCMC 1 cut(s) 675
BstUI CGCG 4 cut(s) 206, 310, 312, 314
BstV1I GCAGC 5 cut(s) 369, 442, 637, 665, 993
BstV2I GAAGAC 1 cut(s) 705
BstXI CCANNNNNNTGG 1 cut(s) 220
BsuRI GGCC 4 cut(s) 171, 304, 837, 900
BtgI CCRYGG 1 cut(s) 976
BtrI CACGTC 1 cut(s) 1030
BtsCI GGATG 3 cut(s) 553, 573, 759
BveI ACCTGC 1 cut(s) 31
Cac8I GCNNGC 5 cut(s) 312, 741, 835, 1014, 1018
CfoI GCGC 3 cut(s) 7, 312, 314
Cfr10I RCCGGY 3 cut(s) 833, 994, 1016
Cfr13I GGNCC 5 cut(s) 169, 199, 302, 836, 899
Csp6I GTAC 1 cut(s) 317
CviAII CATG 4 cut(s) 288, 871, 977, 1013
CviQI GTAC 1 cut(s) 317
DdeI CTNAG 6 cut(s) 138, 161, 434, 639, 708, 726
DpnI GATC 1 cut(s) 459
DpnII GATC 1 cut(s) 457
DriI GACNNNNNGTC 1 cut(s) 288
Eam1104I CTCTTC 5 cut(s) 273, 345, 365, 404, 410
Eam1105I GACNNNNNGTC 1 cut(s) 288
EarI CTCTTC 5 cut(s) 273, 345, 365, 404, 410
EciI GGCGGA 4 cut(s) 512, 576, 1013, 1035
Eco130I CCWWGG 2 cut(s) 749, 976
Eco47I GGWCC 1 cut(s) 199
Eco88I CYCGRG 1 cut(s) 606
EcoRII CCWGG 1 cut(s) 165
EcoT14I CCWWGG 2 cut(s) 749, 976
ErhI CCWWGG 2 cut(s) 749, 976
Esp3I CGTCTC 2 cut(s) 275, 344
FaeI CATG 4 cut(s) 291, 874, 980, 1016
FaiI YATR 9 cut(s) 84, 289, 519, 872, 967, 978, 1014, 1050, 1052
FalI AAGNNNNNCTT 2 cut(s) 912, 944
FatI CATG 4 cut(s) 287, 870, 976, 1012
FauI CCCGC 2 cut(s) 14, 211
FblI GTMKAC 1 cut(s) 884
Fnu4HI GCNGC 9 cut(s) 383, 431, 478, 495, 590, 600, 651, 654, 982
FokI GGATG 3 cut(s) 560, 580, 766
Fsp4HI GCNGC 9 cut(s) 383, 431, 478, 495, 590, 600, 651, 654, 982
FspBI CTAG 2 cut(s) 740, 1065
GlaI GCGC 3 cut(s) 6, 311, 313
GluI GCNGC 9 cut(s) 383, 431, 478, 495, 590, 600, 651, 654, 982
GsaI CCCAGC 1 cut(s) 40
HaeIII GGCC 4 cut(s) 171, 304, 837, 900
HapII CCGG 8 cut(s) 71, 99, 113, 266, 466, 834, 995, 1017
HhaI GCGC 3 cut(s) 7, 312, 314
Hin1II CATG 4 cut(s) 291, 874, 980, 1016
Hin6I GCGC 3 cut(s) 5, 310, 312
HinP1I GCGC 3 cut(s) 5, 310, 312
HinfI GANTC 4 cut(s) 143, 635, 789, 1060
HpaII CCGG 8 cut(s) 71, 99, 113, 266, 466, 834, 995, 1017
HphI GGTGA 4 cut(s) 959, 984, 1037, 1069
Hpy166II GTNNAC 3 cut(s) 199, 673, 885
Hpy188III TCNNGA 3 cut(s) 606, 827, 850
Hpy8I GTNNAC 3 cut(s) 199, 673, 885
Hpy99I CGWCG 3 cut(s) 241, 310, 349
HpyAV CCTTC 7 cut(s) 11, 370, 439, 532, 724, 914, 937
HpyCH4III ACNGT 3 cut(s) 107, 185, 809
HpyCH4IV ACGT 4 cut(s) 27, 232, 858, 1029
HpyCH4V TGCA 5 cut(s) 55, 385, 653, 673, 681
HpyF10VI GCNNNNNNNGC 2 cut(s) 503, 981
HpyF3I CTNAG 6 cut(s) 138, 161, 434, 639, 708, 726
HpySE526I ACGT 4 cut(s) 27, 232, 858, 1029
Hsp92II CATG 4 cut(s) 291, 874, 980, 1016
HspAI GCGC 3 cut(s) 5, 310, 312
KpnI GGTACC 1 cut(s) 320
KroI GCCGGC 2 cut(s) 833, 1016
KroNI GCCGGC 2 cut(s) 835, 1018
Kzo9I GATC 1 cut(s) 457
LmnI GCTCC 5 cut(s) 127, 379, 462, 589, 1033
Lsp1109I GCAGC 5 cut(s) 369, 442, 637, 665, 993
LweI GCATC 2 cut(s) 558, 611
MaeI CTAG 2 cut(s) 740, 1065
MaeII ACGT 4 cut(s) 27, 232, 858, 1029
MaeIII GTNAC 1 cut(s) 1025
MalI GATC 1 cut(s) 459
MauBI CGCGCGCG 1 cut(s) 310
MbiI CCGCTC 1 cut(s) 764
MboI GATC 1 cut(s) 457
MboII GAAGA 7 cut(s) 287, 290, 332, 382, 421, 427, 705
MfeI CAATTG 1 cut(s) 574
MhlI GDGCHC 2 cut(s) 675, 1038
MluCI AATT 3 cut(s) 64, 119, 574
MlyI GAGTC 1 cut(s) 798
MmeI TCCRAC 3 cut(s) 368, 402, 843
MroNI GCCGGC 2 cut(s) 833, 1016
MroXI GAANNNNTTC 1 cut(s) 924
MspA1I CMGCKG 1 cut(s) 433
MspI CCGG 8 cut(s) 71, 99, 113, 266, 466, 834, 995, 1017
MspR9I CCNGG 5 cut(s) 72, 114, 167, 266, 467
MunI CAATTG 1 cut(s) 574
MvaI CCWGG 1 cut(s) 167
MvnI CGCG 4 cut(s) 206, 310, 312, 314
MwoI GCNNNNNNNGC 2 cut(s) 503, 981
NaeI GCCGGC 2 cut(s) 835, 1018
NciI CCSGG 4 cut(s) 72, 114, 266, 467
NcoI CCATGG 1 cut(s) 976
NdeII GATC 1 cut(s) 457
NgoMIV GCCGGC 2 cut(s) 833, 1016
NheI GCTAGC 1 cut(s) 739
NlaIII CATG 4 cut(s) 291, 874, 980, 1016
NlaIV GGNNCC 6 cut(s) 129, 201, 318, 450, 464, 838
NmeAIII GCCGAG 1 cut(s) 477
NmuCI GTSAC 1 cut(s) 1025
NspI RCATGY 3 cut(s) 291, 874, 1016
PaeI GCATGC 1 cut(s) 1016
PaeR7I CTCGAG 1 cut(s) 606
PaqCI CACCTGC 1 cut(s) 31
PauI GCGCGC 1 cut(s) 310
PciI ACATGT 1 cut(s) 287
PcsI WCGNNNNNNNCGW 1 cut(s) 855
PdiI GCCGGC 2 cut(s) 835, 1018
PdmI GAANNNNTTC 1 cut(s) 924
PfeI GAWTC 3 cut(s) 143, 635, 1060
PfoI TCCNGGA 1 cut(s) 112
PkrI GCNGC 9 cut(s) 384, 432, 479, 496, 591, 601, 652, 655, 983
PleI GAGTC 1 cut(s) 797
PpsI GAGTC 1 cut(s) 797
PscI ACATGT 1 cut(s) 287
Psp1406I AACGTT 1 cut(s) 232
Psp6I CCWGG 1 cut(s) 165
PspFI CCCAGC 1 cut(s) 36
PspGI CCWGG 1 cut(s) 165
PspN4I GGNNCC 6 cut(s) 129, 201, 318, 450, 464, 838
PspPI GGNCC 5 cut(s) 169, 199, 302, 836, 899
PstI CTGCAG 2 cut(s) 387, 655
PteI GCGCGC 1 cut(s) 310
PvuII CAGCTG 1 cut(s) 433
RsaI GTAC 1 cut(s) 318
RsaNI GTAC 1 cut(s) 317
SatI GCNGC 9 cut(s) 383, 431, 478, 495, 590, 600, 651, 654, 982
Sau3AI GATC 1 cut(s) 457
Sau96I GGNCC 5 cut(s) 169, 199, 302, 836, 899
SchI GAGTC 1 cut(s) 798
ScrFI CCNGG 5 cut(s) 72, 114, 167, 266, 467
SduI GDGCHC 2 cut(s) 675, 1038
SfaNI GCATC 2 cut(s) 558, 611
SfcI CTRYAG 2 cut(s) 383, 651
Sfr274I CTCGAG 1 cut(s) 606
SgrAI CRCCGGYG 1 cut(s) 994
SinI GGWCC 1 cut(s) 199
SlaI CTCGAG 1 cut(s) 606
SmlI CTYRAG 3 cut(s) 391, 606, 663
SmoI CTYRAG 3 cut(s) 391, 606, 663
SphI GCATGC 1 cut(s) 1016
Sse9I AATT 3 cut(s) 64, 119, 574
SspMI CTAG 2 cut(s) 740, 1065
StyD4I CCNGG 5 cut(s) 70, 112, 165, 264, 465
StyI CCWWGG 2 cut(s) 749, 976
TaaI ACNGT 3 cut(s) 107, 185, 809
TaiI ACGT 4 cut(s) 30, 235, 861, 1032
TaqI TCGA 1 cut(s) 607
TasI AATT 3 cut(s) 64, 119, 574
TauI GCSGC 4 cut(s) 480, 497, 592, 602
TfiI GAWTC 3 cut(s) 143, 635, 1060
TseFI GTSAC 1 cut(s) 1025
TseI GCWGC 5 cut(s) 382, 430, 650, 653, 981
Tsp45I GTSAC 1 cut(s) 1025
TspDTI ATGAA 2 cut(s) 506, 772
TspGWI ACGGA 3 cut(s) 362, 368, 1059
VneI GTGCAC 1 cut(s) 671
VpaK11BI GGWCC 1 cut(s) 199
XapI RAATTY 1 cut(s) 119
XceI RCATGY 3 cut(s) 291, 874, 1016
XhoI CTCGAG 1 cut(s) 606
XmiI GTMKAC 1 cut(s) 884
XmnI GAANNNNTTC 1 cut(s) 924
XspI CTAG 2 cut(s) 740, 1065
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.