Rw0G015540

Plant nuclear matrix protein 1 (NMP1)

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Contig00715
OG0003865
Physical Location & Seq
Reverse (-)
7627 .. 13543
5917 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw0G015540.1

Sequence Viewer

Length: 939 bp
ATGGCAGCGAGGCAAATGGAAGAGATACAGCGGAAGCTGGCGACTTTGAACTACCCGAGAGCCAATGCGCCTGCTCAGTCTCTCCTCTTCGCCGGCATGGAGCGCTATGCTCTTCTCGAGTGGCTCTTCTTCCGATTGCTGGGGGACAAGTCACCTTTCTCCCAACAAAGTCTTCAAGGGGACGCCATGGATCGCGACGAAGAAACTGCCCGCATTCAATATTTGGCAGAGATTGCGAAGTTTTTGGGTATTACAAATACAATTGACACAGAAGCCATTCAAGTTAATCTCGTGGAGGCAAGCATTTTTGCTGATAATCCAGAATGGAGTATAGATGAGCAGGTAGCAAAGGATATACAGCTAATTGATTCCATTGCAGAGAGACAAGCTCAAATATTCTCGGAAGAGTGCAAATTGTTTCCCGCTGATGTTCAGATTCAGTCTATATATCCATTGCATGATGTTTCTGAGCTGGAGCAAAAGCTTACAGAACAATCAAAGATACTCTCAAGTCTTCAACAAAAGGTTGATGATTTGGCATCAAAGCATGCTTACAACCCAGATGAGGAGTATGCAGAGGTAGAATCCAGATTGCGTTCACATTTGGAATCTTTTCTAGAAACTGCAAGATCATTCAATATGATTTACACCAAGGAAATACGTCCCTGGACACACATGATGGAGGTACCCCAGCTCCATGGGTTCGGGCCAGCTGCCAATCGCTTGTTGGAGGCATATAAGATGCTTTTGAAGTTCCTAGGGAACTTGAGGAATCTTAGAGACTCACATGCTGCTCTTGCCGTCGGATCATCTGACTCAGTTGCTGGTGAGCCCTCTTCTGTCACAAGAATAATCTCAGAATGTGAATCTGCGTTGACATTCTTAAATCGTGACCTTGGAATTCTCTCGGCTTCCATTGCTCGAGAGCAAGGTGAATAG

Protein Analysis

312

Amino Acids

35.25

Weight (kDa)

4.81

Isoelectric Point (pI)

50.83

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Plant_NMP1 PF06694 6 - 309 2.3e-175 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) 331
Acc65I GGTACC 1 cut(s) 685
AccB1I GGYRCC 1 cut(s) 685
AccII CGCG 1 cut(s) 195
AciI CCGC 3 cut(s) 31, 211, 423
AclWI GGATC 2 cut(s) 198, 814
AcsI RAATTY 1 cut(s) 900
AcyI GRCGYC 1 cut(s) 183
AfaI GTAC 1 cut(s) 687
AfeI AGCGCT 1 cut(s) 104
AfiI CCNNNNNNNGG 2 cut(s) 139, 565
AgsI TTSAA 7 cut(s) 49, 176, 218, 281, 518, 637, 751
AjnI CCWGG 1 cut(s) 665
AjuI GAANNNNNNNTTGG 2 cut(s) 156, 188
AluBI AGCT 7 cut(s) 37, 361, 389, 472, 484, 694, 713
AluI AGCT 7 cut(s) 37, 361, 389, 472, 484, 694, 713
Alw26I GTCTC 3 cut(s) 84, 376, 774
AlwI GGATC 2 cut(s) 198, 814
AlwNI CAGNNNCTG 1 cut(s) 824
Ama87I CYCGRG 3 cut(s) 55, 116, 921
Aor51HI AGCGCT 1 cut(s) 104
AoxI GGCC 1 cut(s) 707
ApeKI GCWGC 3 cut(s) 5, 713, 791
ApoI RAATTY 1 cut(s) 900
Asp700I GAANNNNTTC 2 cut(s) 276, 612
Asp718I GGTACC 1 cut(s) 685
AspA2I CCTAGG 1 cut(s) 757
AspLEI GCGC 2 cut(s) 70, 105
AspS9I GGNCC 1 cut(s) 707
AsuHPI GGTGA 2 cut(s) 144, 839
AvaI CYCGRG 3 cut(s) 55, 116, 921
AvrII CCTAGG 1 cut(s) 757
BanI GGYRCC 1 cut(s) 685
BanII GRGCYC 1 cut(s) 834
BauI CACGAG 1 cut(s) 290
BbsI GAAGAC 2 cut(s) 164, 506
BbvI GCAGC 3 cut(s) 17, 700, 778
BccI CCATC 1 cut(s) 673
BceAI ACGGC 1 cut(s) 785
BcgI CGANNNNNNTGC 2 cut(s) 188, 222
BciT130I CCWGG 1 cut(s) 667
BcoDI GTCTC 3 cut(s) 84, 376, 774
BfaI CTAG 2 cut(s) 617, 758
BfoI RGCGCY 1 cut(s) 106
BfuAI ACCTGC 1 cut(s) 331
BisI GCNGC 3 cut(s) 6, 714, 792
BlnI CCTAGG 1 cut(s) 757
BlsI GCNGC 3 cut(s) 7, 715, 793
Bme1390I CCNGG 1 cut(s) 667
BmeT110I CYCGRG 3 cut(s) 55, 116, 921
BmgT120I GGNCC 1 cut(s) 707
BmiI GGNNCC 1 cut(s) 687
BmrFI CCNGG 1 cut(s) 667
BmsI GCATC 2 cut(s) 548, 732
BpiI GAAGAC 2 cut(s) 164, 506
BplI GAGNNNNNCTC 2 cut(s) 373, 405
BpmI CTGGAG 1 cut(s) 494
BpuEI CTTGAG 2 cut(s) 493, 787
BsaHI GRCGYC 1 cut(s) 183
BsaJI CCNNGG 6 cut(s) 186, 651, 665, 697, 757, 895
BsaXI ACNNNNNCTCC 2 cut(s) 678, 708
Bsc4I CCNNNNNNNGG 2 cut(s) 139, 565
Bse118I RCCGGY 1 cut(s) 92
Bse3DI GCAATG 3 cut(s) 372, 452, 915
BseBI CCWGG 1 cut(s) 667
BseDI CCNNGG 6 cut(s) 186, 651, 665, 697, 757, 895
BseLI CCNNNNNNNGG 2 cut(s) 139, 565
BseMI GCAATG 3 cut(s) 372, 452, 915
BseMII CTCAG 4 cut(s) 89, 459, 831, 870
BseRI GAGGAG 2 cut(s) 74, 581
BseXI GCAGC 3 cut(s) 17, 700, 778
BseYI CCCAGC 2 cut(s) 139, 690
Bsh1236I CGCG 1 cut(s) 195
BshFI GGCC 1 cut(s) 709
BshNI GGYRCC 1 cut(s) 685
BsiHKCI CYCGRG 3 cut(s) 55, 116, 921
BsiSI CCGG 1 cut(s) 93
BslFI GGGAC 3 cut(s) 158, 194, 648
BslI CCNNNNNNNGG 2 cut(s) 139, 565
BsmAI GTCTC 3 cut(s) 84, 376, 774
BsmFI GGGAC 3 cut(s) 158, 194, 648
BsmI GAATGC 1 cut(s) 213
BsnI GGCC 1 cut(s) 709
BsoBI CYCGRG 3 cut(s) 55, 116, 921
Bsp1286I GDGCHC 1 cut(s) 834
Bsp143I GATC 3 cut(s) 190, 629, 806
Bsp19I CCATGG 2 cut(s) 186, 697
Bsp68I TCGCGA 1 cut(s) 195
BspACI CCGC 3 cut(s) 31, 211, 423
BspANI GGCC 1 cut(s) 709
BspCNI CTCAG 4 cut(s) 88, 460, 830, 869
BspFNI CGCG 1 cut(s) 195
BspLI GGNNCC 1 cut(s) 687
BspMI ACCTGC 1 cut(s) 331
BspPI GGATC 2 cut(s) 198, 814
BspQI GCTCTTC 2 cut(s) 117, 131
BspT107I GGYRCC 1 cut(s) 685
BsrDI GCAATG 3 cut(s) 372, 452, 915
BsrFI RCCGGY 1 cut(s) 92
BssAI RCCGGY 1 cut(s) 92
BssECI CCNNGG 6 cut(s) 186, 651, 665, 697, 757, 895
BssMI GATC 3 cut(s) 190, 629, 806
BssNI GRCGYC 1 cut(s) 183
BssSI CACGAG 1 cut(s) 290
BssT1I CCWWGG 5 cut(s) 186, 651, 697, 757, 895
Bst2BI CACGAG 1 cut(s) 290
Bst2UI CCWGG 1 cut(s) 667
Bst6I CTCTTC 6 cut(s) 15, 92, 117, 131, 399, 841
BstACI GRCGYC 1 cut(s) 183
BstAPI GCANNNNNTGC 1 cut(s) 233
BstC8I GCNNGC 7 cut(s) 39, 72, 94, 211, 301, 549, 711
BstDEI CTNAG 5 cut(s) 75, 468, 776, 817, 856
BstDSI CCRYGG 2 cut(s) 186, 697
BstFNI CGCG 1 cut(s) 195
BstH2I RGCGCY 1 cut(s) 106
BstHHI GCGC 2 cut(s) 70, 105
BstKTI GATC 3 cut(s) 193, 632, 809
BstMAI GTCTC 3 cut(s) 84, 376, 774
BstMBI GATC 3 cut(s) 190, 629, 806
BstMWI GCNNNNNNNGC 4 cut(s) 102, 233, 797, 917
BstNI CCWGG 1 cut(s) 667
BstNSI RCATGY 2 cut(s) 551, 791
BstSCI CCNGG 1 cut(s) 665
BstUI CGCG 1 cut(s) 195
BstV1I GCAGC 3 cut(s) 17, 700, 778
BstV2I GAAGAC 2 cut(s) 164, 506
BstXI CCANNNNNNTGG 1 cut(s) 698
BsuRI GGCC 1 cut(s) 709
BtgI CCRYGG 2 cut(s) 186, 697
BtuMI TCGCGA 1 cut(s) 195
BveI ACCTGC 1 cut(s) 331
Cac8I GCNNGC 7 cut(s) 39, 72, 94, 211, 301, 549, 711
CaiI CAGNNNCTG 1 cut(s) 824
CfoI GCGC 2 cut(s) 70, 105
Cfr10I RCCGGY 1 cut(s) 92
Cfr13I GGNCC 1 cut(s) 707
CseI GACGC 1 cut(s) 191
Csp6I GTAC 1 cut(s) 686
CviAII CATG 7 cut(s) 97, 187, 458, 548, 676, 698, 788
CviQI GTAC 1 cut(s) 686
DdeI CTNAG 5 cut(s) 75, 468, 776, 817, 856
DpnI GATC 3 cut(s) 192, 631, 808
DpnII GATC 3 cut(s) 190, 629, 806
Eam1104I CTCTTC 6 cut(s) 15, 92, 117, 131, 399, 841
EarI CTCTTC 6 cut(s) 15, 92, 117, 131, 399, 841
Eco130I CCWWGG 5 cut(s) 186, 651, 697, 757, 895
Eco24I GRGCYC 1 cut(s) 834
Eco47III AGCGCT 1 cut(s) 104
Eco88I CYCGRG 3 cut(s) 55, 116, 921
EcoRI GAATTC 1 cut(s) 900
EcoRII CCWGG 1 cut(s) 665
EcoT14I CCWWGG 5 cut(s) 186, 651, 697, 757, 895
EcoT38I GRGCYC 1 cut(s) 834
ErhI CCWWGG 5 cut(s) 186, 651, 697, 757, 895
FaeI CATG 7 cut(s) 100, 190, 461, 551, 679, 701, 791
FaqI GGGAC 3 cut(s) 158, 194, 648
FatI CATG 7 cut(s) 96, 186, 457, 547, 675, 697, 787
FauI CCCGC 2 cut(s) 218, 430
Fnu4HI GCNGC 3 cut(s) 6, 714, 792
FriOI GRGCYC 1 cut(s) 834
Fsp4HI GCNGC 3 cut(s) 6, 714, 792
FspBI CTAG 2 cut(s) 617, 758
GlaI GCGC 2 cut(s) 69, 104
GluI GCNGC 3 cut(s) 6, 714, 792
GsaI CCCAGC 2 cut(s) 143, 694
GsuI CTGGAG 1 cut(s) 494
HaeII RGCGCY 1 cut(s) 106
HaeIII GGCC 1 cut(s) 709
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, 461, 551, 679, 701, 791
Hin6I GCGC 2 cut(s) 68, 103
HinP1I GCGC 2 cut(s) 68, 103
HincII GTYRAC 1 cut(s) 876
HindII GTYRAC 1 cut(s) 876
HindIII AAGCTT 1 cut(s) 482
HinfI GANTC 8 cut(s) 368, 436, 584, 608, 772, 782, 815, 866
HpaII CCGG 1 cut(s) 93
HphI GGTGA 2 cut(s) 144, 839
Hpy166II GTNNAC 2 cut(s) 599, 876
Hpy188I TCNGA 7 cut(s) 134, 403, 435, 469, 806, 814, 859
Hpy188III TCNNGA 7 cut(s) 116, 194, 320, 588, 617, 890, 923
Hpy8I GTNNAC 2 cut(s) 599, 876
Hpy99I CGWCG 2 cut(s) 200, 806
HpyCH4IV ACGT 1 cut(s) 661
HpyCH4V TGCA 5 cut(s) 377, 411, 457, 575, 626
HpyF10VI GCNNNNNNNGC 4 cut(s) 102, 233, 797, 917
HpyF3I CTNAG 5 cut(s) 75, 468, 776, 817, 856
HpySE526I ACGT 1 cut(s) 661
Hsp92I GRCGYC 1 cut(s) 183
Hsp92II CATG 7 cut(s) 100, 190, 461, 551, 679, 701, 791
HspAI GCGC 2 cut(s) 68, 103
KpnI GGTACC 1 cut(s) 689
KroI GCCGGC 1 cut(s) 92
KroNI GCCGGC 1 cut(s) 94
Kzo9I GATC 3 cut(s) 190, 629, 806
LguI GCTCTTC 2 cut(s) 117, 131
LmnI GCTCC 3 cut(s) 100, 475, 699
Lsp1109I GCAGC 3 cut(s) 17, 700, 778
LweI GCATC 2 cut(s) 548, 732
MaeI CTAG 2 cut(s) 617, 758
MaeII ACGT 1 cut(s) 661
MaeIII GTNAC 3 cut(s) 150, 841, 890
MalI GATC 3 cut(s) 192, 631, 808
MboI GATC 3 cut(s) 190, 629, 806
MfeI CAATTG 1 cut(s) 261
MhlI GDGCHC 1 cut(s) 834
MluCI AATT 4 cut(s) 261, 363, 413, 900
MlyI GAGTC 2 cut(s) 776, 809
MmeI TCCRAC 2 cut(s) 708, 784
MnlI CCTC 9 cut(s) 3, 95, 289, 559, 571, 676, 724, 762, 844
MroNI GCCGGC 1 cut(s) 92
MroXI GAANNNNTTC 2 cut(s) 276, 612
MseI TTAA 2 cut(s) 285, 884
MspA1I CMGCKG 3 cut(s) 31, 425, 713
MspI CCGG 1 cut(s) 93
MspR9I CCNGG 1 cut(s) 667
MunI CAATTG 1 cut(s) 261
Mva1269I GAATGC 1 cut(s) 213
MvaI CCWGG 1 cut(s) 667
MvnI CGCG 1 cut(s) 195
MwoI GCNNNNNNNGC 4 cut(s) 102, 233, 797, 917
NaeI GCCGGC 1 cut(s) 94
NcoI CCATGG 2 cut(s) 186, 697
NdeII GATC 3 cut(s) 190, 629, 806
NgoMIV GCCGGC 1 cut(s) 92
NlaIII CATG 7 cut(s) 100, 190, 461, 551, 679, 701, 791
NlaIV GGNNCC 1 cut(s) 687
NmeAIII GCCGAG 1 cut(s) 887
NmuCI GTSAC 3 cut(s) 150, 841, 890
NruI TCGCGA 1 cut(s) 195
NspI RCATGY 2 cut(s) 551, 791
PaeI GCATGC 1 cut(s) 551
PaeR7I CTCGAG 2 cut(s) 116, 921
PciSI GCTCTTC 2 cut(s) 117, 131
PctI GAATGC 1 cut(s) 213
PdiI GCCGGC 1 cut(s) 94
PdmI GAANNNNTTC 2 cut(s) 276, 612
PfeI GAWTC 6 cut(s) 368, 436, 584, 608, 772, 866
PkrI GCNGC 3 cut(s) 7, 715, 793
PleI GAGTC 2 cut(s) 776, 809
PpsI GAGTC 2 cut(s) 776, 809
Psp6I CCWGG 1 cut(s) 665
PspFI CCCAGC 2 cut(s) 139, 690
PspGI CCWGG 1 cut(s) 665
PspN4I GGNNCC 1 cut(s) 687
PspPI GGNCC 1 cut(s) 707
PstNI CAGNNNCTG 1 cut(s) 824
PvuII CAGCTG 1 cut(s) 713
RruI TCGCGA 1 cut(s) 195
RsaI GTAC 1 cut(s) 687
RsaNI GTAC 1 cut(s) 686
SapI GCTCTTC 2 cut(s) 117, 131
SaqAI TTAA 2 cut(s) 285, 884
SatI GCNGC 3 cut(s) 6, 714, 792
Sau3AI GATC 3 cut(s) 190, 629, 806
Sau96I GGNCC 1 cut(s) 707
SchI GAGTC 2 cut(s) 776, 809
ScrFI CCNGG 1 cut(s) 667
SduI GDGCHC 1 cut(s) 834
SfaNI GCATC 2 cut(s) 548, 732
Sfr274I CTCGAG 2 cut(s) 116, 921
SlaI CTCGAG 2 cut(s) 116, 921
SmlI CTYRAG 4 cut(s) 116, 508, 766, 921
SmoI CTYRAG 4 cut(s) 116, 508, 766, 921
SphI GCATGC 1 cut(s) 551
Sse9I AATT 4 cut(s) 261, 363, 413, 900
SsiI CCGC 3 cut(s) 31, 211, 423
SspI AATATT 2 cut(s) 221, 396
SspMI CTAG 2 cut(s) 617, 758
StyD4I CCNGG 1 cut(s) 665
StyI CCWWGG 5 cut(s) 186, 651, 697, 757, 895
TaiI ACGT 1 cut(s) 664
TaqI TCGA 2 cut(s) 117, 922
TasI AATT 4 cut(s) 261, 363, 413, 900
TfiI GAWTC 6 cut(s) 368, 436, 584, 608, 772, 866
Tru1I TTAA 2 cut(s) 285, 884
Tru9I TTAA 2 cut(s) 285, 884
TseFI GTSAC 3 cut(s) 150, 841, 890
TseI GCWGC 3 cut(s) 5, 713, 791
Tsp45I GTSAC 3 cut(s) 150, 841, 890
XapI RAATTY 1 cut(s) 900
XbaI TCTAGA 1 cut(s) 616
XceI RCATGY 2 cut(s) 551, 791
XcmI CCANNNNNNNNNTGG 1 cut(s) 724
XhoI CTCGAG 2 cut(s) 116, 921
XmaJI CCTAGG 1 cut(s) 757
XmnI GAANNNNTTC 2 cut(s) 276, 612
XspI CTAG 2 cut(s) 617, 758
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.