RLG00000000233

RNA polymerase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_laevigata
Chr1
OG0004622
Physical Location & Seq
Forward (+)
113865 .. 115074
1210 bp
Loading structure...
UTR
Exon/CDS
Intron
RLM00000000233

Sequence Viewer

Length: 1086 bp
ATGGATGAAAACGGGAGAATTTCGAATTCCGATCCGTGCAGTAGCATCCTTTTGAATCCACTTAACTTGAATTGGCATTTTCTCGACCATAATTATTGTGAGGAAACACCCACAATAATTAGTCTCGGGCAGTTTATTTGTGAAAATCTATGTATAGCCAAAAAAGGATCGCCCCTAAAATCGGGTCAAGTTATAGTCGTTCAACTTGACTCTTTAGTAATAAGATCGGCGAAGCCTTATTTAGCTACTCCAGGAGCAACTGTTCATGGACATTATGGAGAAATCCTTTCCGAAGGAGATACATTAGTTACATTTATATATGAAAAATCTCGATCTGGTGATATAACGCAAGGTCTTCCAAAAGTAGAACAGGTTTTAGAGGTACGTTCGATTGATTCAATATCGATGAACCTAGAAAAGAGAGTTGAGGGTTGGAATGAGTGTATAACAAGAATTCTTGGAATTCCTTGGGGATTCTTGATTGGCGCTGAGCTAACTATAGCGCAAAGTCGTATCTCTTTGGTTAATAAGATCCAAAAAGTTTATAGATCCCAGGGGGTACAGATCCATAATAGGCATATCGAAATCATTGTACGTCAAATAACATCAAAAGTGTTGGTTTCAGAAGATGGAATGTCTAATGTTTTTTCACCCGGAGAACTAATTGGATTGCTGCGAGCTGAACGAACGGGGCGCGCTTTAGAAGAAGCGATTTGTTACCGAGCCATATTATTAGGAATAACGAAAGCATCTCTAAATACTCAAAGTTTCATATCCGAAGCAAGTTTTCAAGAAACTGCTCGAGTTTTAGCAAAAGCTGCCCTCCGGGGTCGTATCGATTGGTTGAAAGGTCTGAAAGAGAACGTTGTTCTAGGAGGGATGATACCCGTTGGTACCGGATTCAAAGGATTCGTGCCCCGTTCAAGGCAACATAACAACATTTCTTTGGAAACCAAAAATAAGAGTTTATTCGAGGGGGAAATGAGAGATATTTTGGTCCACCACAGAGAATTATTTGATTTTTGCATTTCAAAAAATTTACATGATACATCAGAACAATCTTTTTTCGGATTTAATGATTCCTAA

Protein Analysis

362

Amino Acids

40.22

Weight (kDa)

6.8

Isoelectric Point (pI)

42.18

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RNA_pol_Rpb1_5 PF04998 165 - 253 2.7e-08 RNA polymerase Rpb1, domain 5
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)
Acc65I GGTACC 1 cut(s) 893
AccB1I GGYRCC 1 cut(s) 893
AccII CGCG 1 cut(s) 696
AclI AACGTT 1 cut(s) 864
AclWI GGATC 5 cut(s) 26, 175, 526, 543, 559
AcsI RAATTY 5 cut(s) 18, 25, 453, 462, 1036
AfaI GTAC 4 cut(s) 384, 561, 594, 895
AfiI CCNNNNNNNGG 2 cut(s) 181, 924
AgsI TTSAA 9 cut(s) 55, 70, 203, 399, 791, 847, 904, 924, 1032
AjnI CCWGG 2 cut(s) 250, 552
AloI GAACNNNNNNTCC 2 cut(s) 246, 278
AluBI AGCT 4 cut(s) 245, 493, 680, 818
AluI AGCT 4 cut(s) 245, 493, 680, 818
Alw26I GTCTC 1 cut(s) 128
AlwI GGATC 5 cut(s) 26, 175, 526, 543, 559
Ama87I CYCGRG 2 cut(s) 125, 801
ApeKI GCWGC 2 cut(s) 673, 818
ApoI RAATTY 5 cut(s) 18, 25, 453, 462, 1036
Asp718I GGTACC 1 cut(s) 893
AspLEI GCGC 4 cut(s) 488, 505, 696, 698
AspS9I GGNCC 1 cut(s) 997
AsuC2I CCSGG 2 cut(s) 654, 827
AsuHPI GGTGA 2 cut(s) 350, 642
AsuII TTCGAA 1 cut(s) 23
AvaI CYCGRG 2 cut(s) 125, 801
AvaII GGWCC 1 cut(s) 997
BaeGI GKGCMC 1 cut(s) 918
BaeI ACNNNNGTAYC 2 cut(s) 291, 324
BanI GGYRCC 1 cut(s) 893
BbsI GAAGAC 1 cut(s) 347
BbvI GCAGC 2 cut(s) 660, 805
BccI CCATC 1 cut(s) 623
BciT130I CCWGG 2 cut(s) 252, 554
BcnI CCSGG 2 cut(s) 654, 827
BcoDI GTCTC 1 cut(s) 128
BfaI CTAG 2 cut(s) 413, 872
BfmI CTRYAG 1 cut(s) 498
BfoI RGCGCY 1 cut(s) 489
BisI GCNGC 2 cut(s) 674, 819
BlpI GCTNAGC 1 cut(s) 489
BlsI GCNGC 2 cut(s) 675, 820
Bme1390I CCNGG 4 cut(s) 252, 554, 654, 827
Bme18I GGWCC 1 cut(s) 997
BmeT110I CYCGRG 2 cut(s) 125, 801
BmgT120I GGNCC 1 cut(s) 997
BmiI GGNNCC 1 cut(s) 895
BmrFI CCNGG 4 cut(s) 252, 554, 654, 827
BmsI GCATC 2 cut(s) 54, 758
BpiI GAAGAC 1 cut(s) 347
BpmI CTGGAG 1 cut(s) 234
Bpu1102I GCTNAGC 1 cut(s) 489
Bpu14I TTCGAA 1 cut(s) 23
BpuMI CCSGG 2 cut(s) 654, 827
Bsa29I ATCGAT 2 cut(s) 404, 837
BsaJI CCNNGG 4 cut(s) 467, 552, 553, 826
BsaWI WCCGGW 1 cut(s) 896
BsaXI ACNNNNNCTCC 2 cut(s) 246, 276
Bsc4I CCNNNNNNNGG 2 cut(s) 181, 924
BseBI CCWGG 2 cut(s) 252, 554
BseCI ATCGAT 2 cut(s) 404, 837
BseDI CCNNGG 4 cut(s) 467, 552, 553, 826
BseGI GGATG 3 cut(s) 10, 45, 885
BseLI CCNNNNNNNGG 2 cut(s) 181, 924
BseMII CTCAG 1 cut(s) 480
BsePI GCGCGC 1 cut(s) 694
BseSI GKGCMC 1 cut(s) 918
BseXI GCAGC 2 cut(s) 660, 805
BsgI GTGCAG 1 cut(s) 58
Bsh1236I CGCG 1 cut(s) 696
BshNI GGYRCC 1 cut(s) 893
BshVI ATCGAT 2 cut(s) 404, 837
BsiHKCI CYCGRG 2 cut(s) 125, 801
BsiSI CCGG 3 cut(s) 654, 826, 897
BslI CCNNNNNNNGG 2 cut(s) 181, 924
BsmAI GTCTC 1 cut(s) 128
BsoBI CYCGRG 2 cut(s) 125, 801
Bsp119I TTCGAA 1 cut(s) 23
Bsp1286I GDGCHC 1 cut(s) 918
Bsp143I GATC 7 cut(s) 31, 167, 224, 332, 531, 548, 564
Bsp1720I GCTNAGC 1 cut(s) 489
BspCNI CTCAG 1 cut(s) 481
BspDI ATCGAT 2 cut(s) 404, 837
BspFNI CGCG 1 cut(s) 696
BspLI GGNNCC 1 cut(s) 895
BspPI GGATC 5 cut(s) 26, 175, 526, 543, 559
BspT104I TTCGAA 1 cut(s) 23
BspT107I GGYRCC 1 cut(s) 893
BssECI CCNNGG 4 cut(s) 467, 552, 553, 826
BssHII GCGCGC 1 cut(s) 694
BssMI GATC 7 cut(s) 31, 167, 224, 332, 531, 548, 564
BssT1I CCWWGG 1 cut(s) 467
Bst2UI CCWGG 2 cut(s) 252, 554
Bst4CI ACNGT 1 cut(s) 262
BstAPI GCANNNNNTGC 1 cut(s) 818
BstBI TTCGAA 1 cut(s) 23
BstC8I GCNNGC 2 cut(s) 678, 696
BstDEI CTNAG 1 cut(s) 489
BstF5I GGATG 3 cut(s) 10, 45, 885
BstFNI CGCG 1 cut(s) 696
BstH2I RGCGCY 1 cut(s) 489
BstHHI GCGC 4 cut(s) 488, 505, 696, 698
BstKTI GATC 7 cut(s) 34, 170, 227, 335, 534, 551, 567
BstMAI GTCTC 1 cut(s) 128
BstMBI GATC 7 cut(s) 31, 167, 224, 332, 531, 548, 564
BstMWI GCNNNNNNNGC 1 cut(s) 818
BstNI CCWGG 2 cut(s) 252, 554
BstSCI CCNGG 4 cut(s) 250, 552, 652, 825
BstSFI CTRYAG 1 cut(s) 498
BstSLI GKGCMC 1 cut(s) 918
BstUI CGCG 1 cut(s) 696
BstV1I GCAGC 2 cut(s) 660, 805
BstV2I GAAGAC 1 cut(s) 347
BstX2I RGATCY 3 cut(s) 531, 548, 564
BstYI RGATCY 3 cut(s) 531, 548, 564
Bsu15I ATCGAT 2 cut(s) 404, 837
BsuTUI ATCGAT 2 cut(s) 404, 837
BtsCI GGATG 3 cut(s) 10, 45, 885
Cac8I GCNNGC 2 cut(s) 678, 696
CfoI GCGC 4 cut(s) 488, 505, 696, 698
Cfr13I GGNCC 1 cut(s) 997
ClaI ATCGAT 2 cut(s) 404, 837
Csp6I GTAC 4 cut(s) 383, 560, 593, 894
CspCI CAANNNNNGTGG 2 cut(s) 48, 83
CviAII CATG 2 cut(s) 266, 1043
CviJI RGCY 7 cut(s) 158, 235, 245, 493, 680, 725, 818
CviKI_1 RGCY 7 cut(s) 158, 235, 245, 493, 680, 725, 818
CviQI GTAC 4 cut(s) 383, 560, 593, 894
DdeI CTNAG 1 cut(s) 489
DpnI GATC 7 cut(s) 33, 169, 226, 334, 533, 550, 566
DpnII GATC 7 cut(s) 31, 167, 224, 332, 531, 548, 564
Eco130I CCWWGG 1 cut(s) 467
Eco47I GGWCC 1 cut(s) 997
Eco88I CYCGRG 2 cut(s) 125, 801
EcoRI GAATTC 3 cut(s) 25, 453, 462
EcoRII CCWGG 2 cut(s) 250, 552
EcoT14I CCWWGG 1 cut(s) 467
ErhI CCWWGG 1 cut(s) 467
FaeI CATG 2 cut(s) 269, 1046
FatI CATG 2 cut(s) 265, 1042
Fnu4HI GCNGC 2 cut(s) 674, 819
FokI GGATG 3 cut(s) 17, 32, 892
Fsp4HI GCNGC 2 cut(s) 674, 819
FspBI CTAG 2 cut(s) 413, 872
GlaI GCGC 4 cut(s) 487, 504, 695, 697
GluI GCNGC 2 cut(s) 674, 819
GsuI CTGGAG 1 cut(s) 234
HaeII RGCGCY 1 cut(s) 489
HapII CCGG 3 cut(s) 654, 826, 897
HhaI GCGC 4 cut(s) 488, 505, 696, 698
Hin1II CATG 2 cut(s) 269, 1046
Hin6I GCGC 4 cut(s) 486, 503, 694, 696
HinP1I GCGC 4 cut(s) 486, 503, 694, 696
HinfI GANTC 7 cut(s) 55, 209, 395, 474, 900, 909, 1079
HpaII CCGG 3 cut(s) 654, 826, 897
HphI GGTGA 2 cut(s) 350, 642
Hpy166II GTNNAC 1 cut(s) 1000
Hpy188I TCNGA 7 cut(s) 31, 292, 625, 778, 855, 1054, 1070
Hpy188III TCNNGA 4 cut(s) 83, 330, 478, 791
Hpy8I GTNNAC 1 cut(s) 1000
HpyAV CCTTC 1 cut(s) 287
HpyCH4III ACNGT 1 cut(s) 262
HpyCH4IV ACGT 3 cut(s) 385, 595, 864
HpyCH4V TGCA 2 cut(s) 39, 1026
HpyF10VI GCNNNNNNNGC 1 cut(s) 818
HpyF3I CTNAG 1 cut(s) 489
HpySE526I ACGT 3 cut(s) 385, 595, 864
Hsp92II CATG 2 cut(s) 269, 1046
HspAI GCGC 4 cut(s) 486, 503, 694, 696
KpnI GGTACC 1 cut(s) 897
Kzo9I GATC 7 cut(s) 31, 167, 224, 332, 531, 548, 564
LmnI GCTCC 1 cut(s) 254
LpnPI CCDG 9 cut(s) 237, 264, 321, 356, 539, 566, 667, 839, 910
Lsp1109I GCAGC 2 cut(s) 660, 805
LweI GCATC 2 cut(s) 54, 758
MaeI CTAG 2 cut(s) 413, 872
MaeII ACGT 3 cut(s) 385, 595, 864
MaeIII GTNAC 2 cut(s) 307, 716
MalI GATC 7 cut(s) 33, 169, 226, 334, 533, 550, 566
MboI GATC 7 cut(s) 31, 167, 224, 332, 531, 548, 564
MboII GAAGA 3 cut(s) 347, 638, 716
MflI RGATCY 3 cut(s) 531, 548, 564
MhlI GDGCHC 1 cut(s) 918
MlyI GAGTC 1 cut(s) 203
MmeI TCCRAC 1 cut(s) 413
MnlI CCTC 6 cut(s) 94, 373, 421, 833, 869, 967
MseI TTAA 3 cut(s) 63, 525, 1074
MspI CCGG 3 cut(s) 654, 826, 897
MspR9I CCNGG 4 cut(s) 252, 554, 654, 827
MvaI CCWGG 2 cut(s) 252, 554
MvnI CGCG 1 cut(s) 696
MwoI GCNNNNNNNGC 1 cut(s) 818
NciI CCSGG 2 cut(s) 654, 827
NdeII GATC 7 cut(s) 31, 167, 224, 332, 531, 548, 564
NlaIII CATG 2 cut(s) 269, 1046
NlaIV GGNNCC 1 cut(s) 895
NspV TTCGAA 1 cut(s) 23
PaeR7I CTCGAG 1 cut(s) 801
PasI CCCWGGG 1 cut(s) 553
PauI GCGCGC 1 cut(s) 694
PfeI GAWTC 6 cut(s) 55, 395, 474, 900, 909, 1079
PfoI TCCNGGA 1 cut(s) 250
PkrI GCNGC 2 cut(s) 675, 820
PleI GAGTC 1 cut(s) 203
PpsI GAGTC 1 cut(s) 203
Psp1406I AACGTT 1 cut(s) 864
Psp6I CCWGG 2 cut(s) 250, 552
PspGI CCWGG 2 cut(s) 250, 552
PspN4I GGNNCC 1 cut(s) 895
PspPI GGNCC 1 cut(s) 997
PspXI VCTCGAGB 1 cut(s) 801
PsuI RGATCY 3 cut(s) 531, 548, 564
PteI GCGCGC 1 cut(s) 694
RsaI GTAC 4 cut(s) 384, 561, 594, 895
RsaNI GTAC 4 cut(s) 383, 560, 593, 894
SaqAI TTAA 3 cut(s) 63, 525, 1074
SatI GCNGC 2 cut(s) 674, 819
Sau3AI GATC 7 cut(s) 31, 167, 224, 332, 531, 548, 564
Sau96I GGNCC 1 cut(s) 997
SchI GAGTC 1 cut(s) 203
ScrFI CCNGG 4 cut(s) 252, 554, 654, 827
SduI GDGCHC 1 cut(s) 918
SfaNI GCATC 2 cut(s) 54, 758
SfcI CTRYAG 1 cut(s) 498
Sfr274I CTCGAG 1 cut(s) 801
SfuI TTCGAA 1 cut(s) 23
SinI GGWCC 1 cut(s) 997
SlaI CTCGAG 1 cut(s) 801
SmlI CTYRAG 1 cut(s) 801
SmoI CTYRAG 1 cut(s) 801
SspMI CTAG 2 cut(s) 413, 872
StyD4I CCNGG 4 cut(s) 250, 552, 652, 825
StyI CCWWGG 1 cut(s) 467
TaaI ACNGT 1 cut(s) 262
TaiI ACGT 3 cut(s) 388, 598, 867
TaqI TCGA 9 cut(s) 23, 84, 331, 389, 404, 582, 802, 837, 972
TfiI GAWTC 6 cut(s) 55, 395, 474, 900, 909, 1079
Tru1I TTAA 3 cut(s) 63, 525, 1074
Tru9I TTAA 3 cut(s) 63, 525, 1074
TseI GCWGC 2 cut(s) 673, 818
TspDTI ATGAA 5 cut(s) 21, 254, 336, 422, 760
TspGWI ACGGA 1 cut(s) 24
VpaK11BI GGWCC 1 cut(s) 997
XapI RAATTY 5 cut(s) 18, 25, 453, 462, 1036
XhoI CTCGAG 1 cut(s) 801
XspI CTAG 2 cut(s) 413, 872
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.