Rh1DG166200

Plant nuclear matrix protein 1 (NMP1)

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr1D
OG0003865
Physical Location & Seq
Reverse (-)
33948043 .. 34179996
231954 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh1DG166200.1

Sequence Viewer

Length: 909 bp
ATGGCAGCGAGGCAAATGGAAGAGATACAGCGGAAGCTGGCGACTTTGAACTACCCGAGAGCCAATGCGCCTGCTCAGTCTCTCCTCTTCGCCGGCATGGAGCGCTATGCTCTTCTCGAGTGGCTCTTCTTCCGATTGCTGGGGGACAAGTCACCTTTCTCACAACAAAGTCTTCAAGGAGACGCCATGGATCGCGACGAAGAAACTGCCCGCATTCAATATTTGGCAGAGATTGCGAAGTTTTTGGGTATTACAAATACAATTGACACAGAAGCCATTCAAGGACGAGGAAGCTATGAAGATCGCACTGAAATGCTTCGTTTAATTGTAGATCTCGTGGAGGCAAGCATTTTTGCTGATAATCCAGAATGGAGTATAGATGAGCAGGTAGCAAAGGATATACAGCTAATTGATTCCATTGCAGAGAGACAAGCTCAAATATTCTCGGAAGAGTGCAAATTGTTTCCCGCTGATGTTCAGATTCAGTCTATATATCCATTGCATGATGTTTCTGAGCTGGAGCAAAAGCTTACAGAACAATCAAAGATACTCTCAAGTCTTCAACAAAAGGTTGATGATTTGGCATCAAAGCATGCTTACAACCCAGATGAGGAGTATGCAGAGGTAGAATCCAGATTGCGTTCACATTTGGAATCTTTTCTAGAAACTGCAAGATCATTCAATATGATTTACACCAAGGAAATACGTCCCTGGACACACATGATGGAGGTAACCCAGCTCCATGGGTTCGGGCCAGCTGCCATTCCCTTGTTGGAGGCATATAAGATGCTTTTGAAGTTCTTGTGTAACTTGAGGAATCTTAGAGACTCACATGCTGCTCTTGCTGTTGGATCATCTGACTCAGTTGCTGGTGAGCCCTCCTGTCACAAGAATATTCTCAGATTGTGA

Protein Analysis

302

Amino Acids

34.43

Weight (kDa)

4.92

Isoelectric Point (pI)

52.6

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Plant_NMP1 PF06694 6 - 299 3e-174 Plant nuclear matrix protein 1 (NMP1)
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc36I ACCTGC 1 cut(s) 376
AccII CGCG 1 cut(s) 195
AciI CCGC 3 cut(s) 31, 211, 468
AclWI GGATC 2 cut(s) 198, 859
AcyI GRCGYC 1 cut(s) 183
AfeI AGCGCT 1 cut(s) 104
AfiI CCNNNNNNNGG 2 cut(s) 139, 610
AgsI TTSAA 7 cut(s) 49, 176, 218, 281, 563, 682, 796
AjnI CCWGG 1 cut(s) 710
AluBI AGCT 8 cut(s) 37, 294, 406, 434, 517, 529, 739, 758
AluI AGCT 8 cut(s) 37, 294, 406, 434, 517, 529, 739, 758
Alw26I GTCTC 4 cut(s) 84, 174, 421, 819
AlwI GGATC 2 cut(s) 198, 859
AlwNI CAGNNNCTG 1 cut(s) 869
Ama87I CYCGRG 2 cut(s) 55, 116
Aor51HI AGCGCT 1 cut(s) 104
AoxI GGCC 1 cut(s) 752
ApeKI GCWGC 3 cut(s) 5, 758, 836
Asp700I GAANNNNTTC 3 cut(s) 276, 315, 657
AspLEI GCGC 2 cut(s) 70, 105
AspS9I GGNCC 1 cut(s) 752
AsuHPI GGTGA 2 cut(s) 144, 884
AvaI CYCGRG 2 cut(s) 55, 116
BanII GRGCYC 1 cut(s) 879
BauI CACGAG 1 cut(s) 335
BbsI GAAGAC 2 cut(s) 164, 551
BbvI GCAGC 3 cut(s) 17, 745, 823
BccI CCATC 1 cut(s) 718
BcgI CGANNNNNNTGC 2 cut(s) 188, 222
BciT130I CCWGG 1 cut(s) 712
BcoDI GTCTC 4 cut(s) 84, 174, 421, 819
BfaI CTAG 1 cut(s) 662
BfoI RGCGCY 1 cut(s) 106
BfuAI ACCTGC 1 cut(s) 376
BglII AGATCT 1 cut(s) 331
BisI GCNGC 3 cut(s) 6, 759, 837
BlsI GCNGC 3 cut(s) 7, 760, 838
Bme1390I CCNGG 1 cut(s) 712
BmeT110I CYCGRG 2 cut(s) 55, 116
BmgT120I GGNCC 1 cut(s) 752
BmrFI CCNGG 1 cut(s) 712
BmsI GCATC 2 cut(s) 593, 777
BpiI GAAGAC 2 cut(s) 164, 551
BplI GAGNNNNNCTC 2 cut(s) 418, 450
BpmI CTGGAG 1 cut(s) 539
BpuEI CTTGAG 2 cut(s) 538, 832
BsaHI GRCGYC 1 cut(s) 183
BsaJI CCNNGG 4 cut(s) 186, 696, 710, 742
Bsc4I CCNNNNNNNGG 2 cut(s) 139, 610
Bse118I RCCGGY 1 cut(s) 92
Bse3DI GCAATG 2 cut(s) 417, 497
BseBI CCWGG 1 cut(s) 712
BseDI CCNNGG 4 cut(s) 186, 696, 710, 742
BseLI CCNNNNNNNGG 2 cut(s) 139, 610
BseMI GCAATG 2 cut(s) 417, 497
BseMII CTCAG 3 cut(s) 89, 504, 876
BseRI GAGGAG 2 cut(s) 74, 626
BseXI GCAGC 3 cut(s) 17, 745, 823
BseYI CCCAGC 2 cut(s) 139, 735
Bsh1236I CGCG 1 cut(s) 195
BshFI GGCC 1 cut(s) 754
BsiHKCI CYCGRG 2 cut(s) 55, 116
BsiSI CCGG 1 cut(s) 93
BslFI GGGAC 2 cut(s) 158, 693
BslI CCNNNNNNNGG 2 cut(s) 139, 610
BsmAI GTCTC 4 cut(s) 84, 174, 421, 819
BsmBI CGTCTC 1 cut(s) 174
BsmFI GGGAC 2 cut(s) 158, 693
BsmI GAATGC 1 cut(s) 213
BsnI GGCC 1 cut(s) 754
BsoBI CYCGRG 2 cut(s) 55, 116
Bsp1286I GDGCHC 1 cut(s) 879
Bsp143I GATC 5 cut(s) 190, 301, 331, 674, 851
Bsp19I CCATGG 2 cut(s) 186, 742
Bsp68I TCGCGA 1 cut(s) 195
BspACI CCGC 3 cut(s) 31, 211, 468
BspANI GGCC 1 cut(s) 754
BspCNI CTCAG 3 cut(s) 88, 505, 875
BspFNI CGCG 1 cut(s) 195
BspMI ACCTGC 1 cut(s) 376
BspPI GGATC 2 cut(s) 198, 859
BspQI GCTCTTC 2 cut(s) 117, 131
BsrDI GCAATG 2 cut(s) 417, 497
BsrFI RCCGGY 1 cut(s) 92
BssAI RCCGGY 1 cut(s) 92
BssECI CCNNGG 4 cut(s) 186, 696, 710, 742
BssMI GATC 5 cut(s) 190, 301, 331, 674, 851
BssNI GRCGYC 1 cut(s) 183
BssSI CACGAG 1 cut(s) 335
BssT1I CCWWGG 3 cut(s) 186, 696, 742
Bst2BI CACGAG 1 cut(s) 335
Bst2UI CCWGG 1 cut(s) 712
Bst6I CTCTTC 5 cut(s) 15, 92, 117, 131, 444
BstACI GRCGYC 1 cut(s) 183
BstAPI GCANNNNNTGC 1 cut(s) 233
BstC8I GCNNGC 7 cut(s) 39, 72, 94, 211, 346, 594, 756
BstDEI CTNAG 5 cut(s) 75, 513, 821, 862, 899
BstDSI CCRYGG 2 cut(s) 186, 742
BstEII GGTNACC 1 cut(s) 730
BstFNI CGCG 1 cut(s) 195
BstH2I RGCGCY 1 cut(s) 106
BstHHI GCGC 2 cut(s) 70, 105
BstKTI GATC 5 cut(s) 193, 304, 334, 677, 854
BstMAI GTCTC 4 cut(s) 84, 174, 421, 819
BstMBI GATC 5 cut(s) 190, 301, 331, 674, 851
BstMWI GCNNNNNNNGC 3 cut(s) 102, 233, 842
BstNI CCWGG 1 cut(s) 712
BstNSI RCATGY 2 cut(s) 596, 836
BstPI GGTNACC 1 cut(s) 730
BstSCI CCNGG 1 cut(s) 710
BstUI CGCG 1 cut(s) 195
BstV1I GCAGC 3 cut(s) 17, 745, 823
BstV2I GAAGAC 2 cut(s) 164, 551
BstX2I RGATCY 1 cut(s) 331
BstXI CCANNNNNNTGG 1 cut(s) 743
BstYI RGATCY 1 cut(s) 331
BsuRI GGCC 1 cut(s) 754
BtgI CCRYGG 2 cut(s) 186, 742
BtsIMutI CAGTG 1 cut(s) 306
BtuMI TCGCGA 1 cut(s) 195
BveI ACCTGC 1 cut(s) 376
Cac8I GCNNGC 7 cut(s) 39, 72, 94, 211, 346, 594, 756
CaiI CAGNNNCTG 1 cut(s) 869
CfoI GCGC 2 cut(s) 70, 105
Cfr10I RCCGGY 1 cut(s) 92
Cfr13I GGNCC 1 cut(s) 752
CseI GACGC 1 cut(s) 191
CviAII CATG 7 cut(s) 97, 187, 503, 593, 721, 743, 833
DdeI CTNAG 5 cut(s) 75, 513, 821, 862, 899
DpnI GATC 5 cut(s) 192, 303, 333, 676, 853
DpnII GATC 5 cut(s) 190, 301, 331, 674, 851
Eam1104I CTCTTC 5 cut(s) 15, 92, 117, 131, 444
EarI CTCTTC 5 cut(s) 15, 92, 117, 131, 444
Eco130I CCWWGG 3 cut(s) 186, 696, 742
Eco24I GRGCYC 1 cut(s) 879
Eco47III AGCGCT 1 cut(s) 104
Eco88I CYCGRG 2 cut(s) 55, 116
Eco91I GGTNACC 1 cut(s) 730
EcoO65I GGTNACC 1 cut(s) 730
EcoRII CCWGG 1 cut(s) 710
EcoT14I CCWWGG 3 cut(s) 186, 696, 742
EcoT38I GRGCYC 1 cut(s) 879
ErhI CCWWGG 3 cut(s) 186, 696, 742
Esp3I CGTCTC 1 cut(s) 174
FaeI CATG 7 cut(s) 100, 190, 506, 596, 724, 746, 836
FaqI GGGAC 2 cut(s) 158, 693
FatI CATG 7 cut(s) 96, 186, 502, 592, 720, 742, 832
FauI CCCGC 2 cut(s) 218, 475
Fnu4HI GCNGC 3 cut(s) 6, 759, 837
FriOI GRGCYC 1 cut(s) 879
Fsp4HI GCNGC 3 cut(s) 6, 759, 837
FspBI CTAG 1 cut(s) 662
GlaI GCGC 2 cut(s) 69, 104
GluI GCNGC 3 cut(s) 6, 759, 837
GsaI CCCAGC 2 cut(s) 143, 739
GsuI CTGGAG 1 cut(s) 539
HaeII RGCGCY 1 cut(s) 106
HaeIII GGCC 1 cut(s) 754
HapII CCGG 1 cut(s) 93
HgaI GACGC 1 cut(s) 191
HhaI GCGC 2 cut(s) 70, 105
Hin1I GRCGYC 1 cut(s) 183
Hin1II CATG 7 cut(s) 100, 190, 506, 596, 724, 746, 836
Hin6I GCGC 2 cut(s) 68, 103
HinP1I GCGC 2 cut(s) 68, 103
HindIII AAGCTT 1 cut(s) 527
HinfI GANTC 7 cut(s) 413, 481, 629, 653, 817, 827, 860
HpaII CCGG 1 cut(s) 93
HphI GGTGA 2 cut(s) 144, 884
Hpy166II GTNNAC 1 cut(s) 644
Hpy188I TCNGA 6 cut(s) 134, 448, 480, 514, 859, 902
Hpy188III TCNNGA 5 cut(s) 116, 194, 365, 633, 662
Hpy8I GTNNAC 1 cut(s) 644
Hpy99I CGWCG 1 cut(s) 200
HpyCH4IV ACGT 1 cut(s) 706
HpyCH4V TGCA 5 cut(s) 422, 456, 502, 620, 671
HpyF10VI GCNNNNNNNGC 3 cut(s) 102, 233, 842
HpyF3I CTNAG 5 cut(s) 75, 513, 821, 862, 899
HpySE526I ACGT 1 cut(s) 706
Hsp92I GRCGYC 1 cut(s) 183
Hsp92II CATG 7 cut(s) 100, 190, 506, 596, 724, 746, 836
HspAI GCGC 2 cut(s) 68, 103
KroI GCCGGC 1 cut(s) 92
KroNI GCCGGC 1 cut(s) 94
Kzo9I GATC 5 cut(s) 190, 301, 331, 674, 851
LguI GCTCTTC 2 cut(s) 117, 131
LmnI GCTCC 3 cut(s) 100, 520, 744
Lsp1109I GCAGC 3 cut(s) 17, 745, 823
LweI GCATC 2 cut(s) 593, 777
MaeI CTAG 1 cut(s) 662
MaeII ACGT 1 cut(s) 706
MaeIII GTNAC 4 cut(s) 150, 730, 806, 884
MalI GATC 5 cut(s) 192, 303, 333, 676, 853
MboI GATC 5 cut(s) 190, 301, 331, 674, 851
MfeI CAATTG 1 cut(s) 261
MflI RGATCY 1 cut(s) 331
MhlI GDGCHC 1 cut(s) 879
MluCI AATT 4 cut(s) 261, 324, 408, 458
MlyI GAGTC 2 cut(s) 821, 854
MmeI TCCRAC 2 cut(s) 753, 829
MroNI GCCGGC 1 cut(s) 92
MroXI GAANNNNTTC 3 cut(s) 276, 315, 657
MseI TTAA 1 cut(s) 323
MslI CAYNNNNRTG 1 cut(s) 311
MspA1I CMGCKG 3 cut(s) 31, 470, 758
MspI CCGG 1 cut(s) 93
MspR9I CCNGG 1 cut(s) 712
MunI CAATTG 1 cut(s) 261
Mva1269I GAATGC 1 cut(s) 213
MvaI CCWGG 1 cut(s) 712
MvnI CGCG 1 cut(s) 195
MwoI GCNNNNNNNGC 3 cut(s) 102, 233, 842
NaeI GCCGGC 1 cut(s) 94
NcoI CCATGG 2 cut(s) 186, 742
NdeII GATC 5 cut(s) 190, 301, 331, 674, 851
NgoMIV GCCGGC 1 cut(s) 92
NlaIII CATG 7 cut(s) 100, 190, 506, 596, 724, 746, 836
NmuCI GTSAC 2 cut(s) 150, 884
NruI TCGCGA 1 cut(s) 195
NspI RCATGY 2 cut(s) 596, 836
PaeI GCATGC 1 cut(s) 596
PaeR7I CTCGAG 1 cut(s) 116
PciSI GCTCTTC 2 cut(s) 117, 131
PctI GAATGC 1 cut(s) 213
PdiI GCCGGC 1 cut(s) 94
PdmI GAANNNNTTC 3 cut(s) 276, 315, 657
PfeI GAWTC 5 cut(s) 413, 481, 629, 653, 817
PkrI GCNGC 3 cut(s) 7, 760, 838
PleI GAGTC 2 cut(s) 821, 854
PpsI GAGTC 2 cut(s) 821, 854
Psp6I CCWGG 1 cut(s) 710
PspEI GGTNACC 1 cut(s) 730
PspFI CCCAGC 2 cut(s) 139, 735
PspGI CCWGG 1 cut(s) 710
PspPI GGNCC 1 cut(s) 752
PstNI CAGNNNCTG 1 cut(s) 869
PsuI RGATCY 1 cut(s) 331
PvuII CAGCTG 1 cut(s) 758
RruI TCGCGA 1 cut(s) 195
RseI CAYNNNNRTG 1 cut(s) 311
SapI GCTCTTC 2 cut(s) 117, 131
SaqAI TTAA 1 cut(s) 323
SatI GCNGC 3 cut(s) 6, 759, 837
Sau3AI GATC 5 cut(s) 190, 301, 331, 674, 851
Sau96I GGNCC 1 cut(s) 752
SchI GAGTC 2 cut(s) 821, 854
ScrFI CCNGG 1 cut(s) 712
SduI GDGCHC 1 cut(s) 879
SfaNI GCATC 2 cut(s) 593, 777
Sfr274I CTCGAG 1 cut(s) 116
SlaI CTCGAG 1 cut(s) 116
SmiMI CAYNNNNRTG 1 cut(s) 311
SmlI CTYRAG 3 cut(s) 116, 553, 811
SmoI CTYRAG 3 cut(s) 116, 553, 811
SphI GCATGC 1 cut(s) 596
Sse9I AATT 4 cut(s) 261, 324, 408, 458
SsiI CCGC 3 cut(s) 31, 211, 468
SspI AATATT 3 cut(s) 221, 441, 895
SspMI CTAG 1 cut(s) 662
StyD4I CCNGG 1 cut(s) 710
StyI CCWWGG 3 cut(s) 186, 696, 742
TaiI ACGT 1 cut(s) 709
TaqI TCGA 1 cut(s) 117
TasI AATT 4 cut(s) 261, 324, 408, 458
TfiI GAWTC 5 cut(s) 413, 481, 629, 653, 817
Tru1I TTAA 1 cut(s) 323
Tru9I TTAA 1 cut(s) 323
TscAI CASTG 1 cut(s) 313
TseFI GTSAC 2 cut(s) 150, 884
TseI GCWGC 3 cut(s) 5, 758, 836
Tsp45I GTSAC 2 cut(s) 150, 884
TspDTI ATGAA 1 cut(s) 312
TspRI CASTG 1 cut(s) 313
XbaI TCTAGA 1 cut(s) 661
XceI RCATGY 2 cut(s) 596, 836
XcmI CCANNNNNNNNNTGG 1 cut(s) 769
XhoI CTCGAG 1 cut(s) 116
XmnI GAANNNNTTC 3 cut(s) 276, 315, 657
XspI CTAG 1 cut(s) 662
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.