Rh5AG285200

DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5A
OG0002206
Physical Location & Seq
Reverse (-)
38633896 .. 38636703
2808 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5AG285200.1

Sequence Viewer

Length: 1413 bp
ATGGTGAAGTCTGACTTGTGTTGGATGAAAAACGAGAAAGCTGACTGTGAATTTGACCATGGAGGTTATTTTATAATCAAGGGTGCAGAGAAGACCTTTATTGCACAAGAGCAGAGCTGTCTGAAGAGACTTCTAATTACAAATAATCAGGGGATCACAGTAGCATATAGGTCTGAGGTAAAGCGGCATAGACTACTAATAAGATTATCAGGGATTTCTCAACTTCAAAACATTGAAGGAGTAGAGAAAGTTTTGTCAGTGTACTTTATGTCAGCAGAAATCCCTCTCTGGATTTGGTTTTTTGCCCTTGGGGTTTCTTCGGACAATGAAGTTACAGATCTGATTGATTATGGCAAAGAAGATGCAAGCATTTCAAGCATTCTAGTTGCCTTAATTCGTGATGCTGACCAACGAAAAGATAACTTCCTGAGAGGGAAGAATGCTCTCAGATATGTTGAAGAGATGATAAAGAATACCGCGTTTCCTCCTCGGGAAAGCATTGAAGAATGCATCAGCATGTATCTGTTCCCCAATCTCAGGGGCTTGAAGCAAAAGGCTCGGTTTCTTGGCTATATGGTGAAGTCTCTTTTACAGACCTTCAGAGGCCACAGGAAATGTGACAACAGAGAAGAATTGAAGAACAAGAGGTTTCACTTGGCTGGTGAGCTTCTAGAGCGAGAGCTGAAGGCACACGTAGGACATGCAGGAAGGCGCATGGCAAAGGCTTTGCAGAGAGACCTTTGTGGTGACCGTGTTGTCCGCCTGGTTGAGCAATATCTAGATGCTACAGTAGTAACCAATGGCATCTCCAGAGCATTCTCAACTGGAGCGTGGTGTCATCCTTTCAAGAGGATGGAGAGGATGTCTGGTGTGGTGGTAAATGTTGCGAAAACAAATCCACTGCAAACAATGGTAGATATGAGGAAGACACGCCTCCAAGTTCAATACACGGGGAAGGTCGGAGATGCCAGATATCCGCATCCTTCTCACTGGGGTAGGGTTTGCTTTATCTCAACCCCAGATGGTGAGAATTGTGGGCTTGTGAAAAATTTGGCTACCACTGCACTGGTAAGTACAAACATATTGGAGCCCATATTGCCCGACTTTTTCTCTAGTGGCATGGAGGAGCTGGTAGATGATACTTCAACATCACTTCATGGGAAGAATAAAGTGTTTCTCAATGGGGATTGGGTTGGTGTTTGTGAAGATTCCCATGATTTTGTCATGAAACTAAGGACATTGAGACGCAGGAAAAAGTTGCTACATCAGGTGGAAATCAAAAGAGATGAGCAGCTCCTGGAAGTACGCATATATTCTGATGCTGGAAGGATTCTACGTCCTTTCCTGGTAGTTAAGAATTTGAATCAAAAGGGAAAAAACACACGTTCCAGGATCTTCTTGGCAATGGAATAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0000228 GO:0000418 GO:0000419 GO:0000428 GO:0000785 GO:0000790 GO:0000792 GO:0002682 GO:0003674 GO:0003824 GO:0003899 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005694 GO:0005720 GO:0005730 GO:0005736 GO:0006139 GO:0006259 GO:0006304 GO:0006305 GO:0006306 GO:0006396 GO:0006725 GO:0006807 GO:0006950 GO:0006952 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009605 GO:0009607 GO:0009620 GO:0009892 GO:0009987 GO:0010033 GO:0010467 GO:0010468 GO:0010605 GO:0010608 GO:0010629 GO:0014070 GO:0016020 GO:0016070 GO:0016246 GO:0016441 GO:0016458 GO:0016740 GO:0016772 GO:0016779 GO:0018130 GO:0019222 GO:0019438 GO:0030422 GO:0030880 GO:0031047 GO:0031050 GO:0031974 GO:0031981 GO:0032259 GO:0032774 GO:0032991 GO:0034062 GO:0034641 GO:0034654 GO:0035194 GO:0040029 GO:0042221 GO:0043170 GO:0043207 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0043331 GO:0043412 GO:0043414 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044271 GO:0044422 GO:0044424 GO:0044427 GO:0044428 GO:0044446 GO:0044451 GO:0044452 GO:0044454 GO:0044464 GO:0044728 GO:0046483 GO:0048519 GO:0048583 GO:0050776 GO:0050789 GO:0050832 GO:0050896 GO:0051704 GO:0051707 GO:0051716 GO:0055029 GO:0060255 GO:0061695 GO:0065007 GO:0070013 GO:0070887 GO:0070918 GO:0071310 GO:0071359 GO:0071407 GO:0071704 GO:0090304 GO:0097747 GO:0098542 GO:0140098 GO:1901360 GO:1901362 GO:1901576 GO:1901698 GO:1901699 GO:1902494 GO:1990234
KEGG Pathways
Metabolic & Signaling
ko00230 ko00240 ko01100 ko03020 ko05016 ko05169 map00230 map00240 map01100 map03020 map05016 map05169
Pfam Domains
Protein Families
RNA_pol_Rpb2_1 RNA_pol_Rpb2_2 RNA_pol_Rpb2_3 RNA_pol_Rpb2_4 RNA_pol_Rpb2_5 RNA_pol_Rpb2_6 RNA_pol_Rpb2_7

Protein Analysis

470

Amino Acids

53.88

Weight (kDa)

9.39

Isoelectric Point (pI)

40.05

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RNA_pol_Rpb2_1 PF04563 1 - 251 5.6e-10 RNA polymerase beta subunit
RNA_pol_Rpb2_2 PF04561 83 - 216 5.5e-09 RNA polymerase Rpb2, domain 2
RNA_pol_Rpb2_3 PF04565 296 - 356 6e-18 RNA polymerase Rpb2, domain 3
RNA_pol_Rpb2_4 PF04566 391 - 452 1.3e-21 RNA polymerase Rpb2, domain 4
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Restriction Enzyme Sites

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Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 74
AasI GACNNNNNNGTC 1 cut(s) 755
AccII CGCG 1 cut(s) 479
AciI CCGC 4 cut(s) 184, 477, 760, 977
AclWI GGATC 2 cut(s) 161, 1400
AcsI RAATTY 3 cut(s) 50, 1048, 1357
AcuI CTGAAG 3 cut(s) 143, 583, 704
AfaI GTAC 3 cut(s) 263, 1075, 1305
AfiI CCNNNNNNNGG 1 cut(s) 537
AflIII ACRYGT 2 cut(s) 691, 1382
AjnI CCWGG 4 cut(s) 762, 1296, 1344, 1388
AluBI AGCT 6 cut(s) 41, 117, 667, 682, 1129, 1294
AluI AGCT 6 cut(s) 41, 117, 667, 682, 1129, 1294
Alw26I GTCTC 4 cut(s) 121, 588, 729, 1237
AlwI GGATC 2 cut(s) 161, 1400
AlwNI CAGNNNCTG 1 cut(s) 1297
Ama87I CYCGRG 1 cut(s) 489
AoxI GGCC 1 cut(s) 604
ApeKI GCWGC 1 cut(s) 1291
ApoI RAATTY 3 cut(s) 50, 1048, 1357
ArsI GACNNNNNNTTYG 2 cut(s) 35, 67
AspLEI GCGC 1 cut(s) 714
AsuHPI GGTGA 5 cut(s) 16, 589, 674, 758, 1037
AvaI CYCGRG 1 cut(s) 489
BanII GRGCYC 1 cut(s) 1092
BbsI GAAGAC 2 cut(s) 98, 932
BbvI GCAGC 1 cut(s) 1303
BccI CCATC 2 cut(s) 847, 1016
BcgI CGANNNNNNTGC 2 cut(s) 539, 573
BciT130I CCWGG 4 cut(s) 764, 1298, 1346, 1390
BcoDI GTCTC 4 cut(s) 121, 588, 729, 1237
BfaI CTAG 4 cut(s) 383, 671, 779, 1113
BfmI CTRYAG 1 cut(s) 786
BglII AGATCT 1 cut(s) 337
BisI GCNGC 2 cut(s) 185, 1292
BlsI GCNGC 2 cut(s) 186, 1293
Bme1390I CCNGG 4 cut(s) 764, 1298, 1346, 1390
BmeT110I CYCGRG 1 cut(s) 489
BmiI GGNNCC 1 cut(s) 1089
BmrFI CCNGG 4 cut(s) 764, 1298, 1346, 1390
BmrI ACTGGG 1 cut(s) 1000
BmsI GCATC 8 cut(s) 352, 391, 519, 772, 813, 955, 988, 1309
BmuI ACTGGG 1 cut(s) 1000
BpiI GAAGAC 2 cut(s) 98, 932
BpmI CTGGAG 2 cut(s) 793, 846
BsaAI YACGTR 1 cut(s) 694
BsaI GGTCTC 1 cut(s) 729
BsaJI CCNNGG 3 cut(s) 58, 307, 488
BsaXI ACNNNNNCTCC 2 cut(s) 848, 878
Bsc4I CCNNNNNNNGG 1 cut(s) 537
Bse1I ACTGG 3 cut(s) 829, 995, 1071
Bse3DI GCAATG 1 cut(s) 1410
BseBI CCWGG 4 cut(s) 764, 1298, 1346, 1390
BseDI CCNNGG 3 cut(s) 58, 307, 488
BseGI GGATG 5 cut(s) 30, 838, 858, 867, 979
BseLI CCNNNNNNNGG 1 cut(s) 537
BseMI GCAATG 1 cut(s) 1410
BseMII CTCAG 4 cut(s) 165, 419, 460, 550
BseNI ACTGG 3 cut(s) 829, 995, 1071
BseRI GAGGAG 2 cut(s) 477, 1139
BseXI GCAGC 1 cut(s) 1303
BsgI GTGCAG 2 cut(s) 105, 1047
Bsh1236I CGCG 1 cut(s) 479
BshFI GGCC 1 cut(s) 606
BsiHKCI CYCGRG 1 cut(s) 489
BslI CCNNNNNNNGG 1 cut(s) 537
BsmAI GTCTC 4 cut(s) 121, 588, 729, 1237
BsmBI CGTCTC 1 cut(s) 1237
BsmI GAATGC 4 cut(s) 378, 445, 512, 815
BsnI GGCC 1 cut(s) 606
Bso31I GGTCTC 1 cut(s) 729
BsoBI CYCGRG 1 cut(s) 489
Bsp1286I GDGCHC 1 cut(s) 1092
Bsp143I GATC 3 cut(s) 153, 337, 1392
Bsp19I CCATGG 1 cut(s) 58
BspACI CCGC 4 cut(s) 184, 477, 760, 977
BspANI GGCC 1 cut(s) 606
BspCNI CTCAG 4 cut(s) 166, 420, 459, 549
BspFNI CGCG 1 cut(s) 479
BspHI TCATGA 1 cut(s) 1224
BspLI GGNNCC 1 cut(s) 1089
BspPI GGATC 2 cut(s) 161, 1400
BspTNI GGTCTC 1 cut(s) 729
BsrDI GCAATG 1 cut(s) 1410
BsrI ACTGG 3 cut(s) 829, 995, 1071
BssECI CCNNGG 3 cut(s) 58, 307, 488
BssMI GATC 3 cut(s) 153, 337, 1392
BssT1I CCWWGG 2 cut(s) 58, 307
Bst2UI CCWGG 4 cut(s) 764, 1298, 1346, 1390
Bst4CI ACNGT 4 cut(s) 47, 160, 752, 790
Bst6I CTCTTC 2 cut(s) 119, 453
BstBAI YACGTR 1 cut(s) 694
BstC8I GCNNGC 1 cut(s) 367
BstDEI CTNAG 5 cut(s) 174, 428, 446, 536, 1232
BstDSI CCRYGG 1 cut(s) 58
BstEII GGTNACC 1 cut(s) 746
BstF5I GGATG 5 cut(s) 30, 838, 858, 867, 979
BstFNI CGCG 1 cut(s) 479
BstHHI GCGC 1 cut(s) 714
BstKTI GATC 3 cut(s) 156, 340, 1395
BstMAI GTCTC 4 cut(s) 121, 588, 729, 1237
BstMBI GATC 3 cut(s) 153, 337, 1392
BstMWI GCNNNNNNNGC 4 cut(s) 375, 673, 1061, 1096
BstNI CCWGG 4 cut(s) 764, 1298, 1346, 1390
BstNSI RCATGY 2 cut(s) 520, 704
BstPI GGTNACC 1 cut(s) 746
BstSCI CCNGG 4 cut(s) 762, 1296, 1344, 1388
BstSFI CTRYAG 1 cut(s) 786
BstUI CGCG 1 cut(s) 479
BstV1I GCAGC 1 cut(s) 1303
BstV2I GAAGAC 2 cut(s) 98, 932
BstX2I RGATCY 2 cut(s) 337, 1392
BstXI CCANNNNNNTGG 1 cut(s) 1066
BstYI RGATCY 2 cut(s) 337, 1392
BsuRI GGCC 1 cut(s) 606
BtgI CCRYGG 1 cut(s) 58
BtsCI GGATG 5 cut(s) 30, 838, 858, 867, 979
BtsI GCAGTG 2 cut(s) 899, 1059
BtsIMutI CAGTG 5 cut(s) 264, 899, 988, 1059, 1064
Cac8I GCNNGC 1 cut(s) 367
CaiI CAGNNNCTG 1 cut(s) 1297
CciI TCATGA 1 cut(s) 1224
CfoI GCGC 1 cut(s) 714
CseI GACGC 1 cut(s) 1254
Csp6I GTAC 3 cut(s) 262, 1074, 1304
CviAII CATG 8 cut(s) 59, 517, 701, 715, 1120, 1157, 1214, 1225
CviQI GTAC 3 cut(s) 262, 1074, 1304
DdeI CTNAG 5 cut(s) 174, 428, 446, 536, 1232
DpnI GATC 3 cut(s) 155, 339, 1394
DpnII GATC 3 cut(s) 153, 337, 1392
DrdI GACNNNNNNGTC 1 cut(s) 755
DseDI GACNNNNNNGTC 1 cut(s) 755
Eam1104I CTCTTC 2 cut(s) 119, 453
EarI CTCTTC 2 cut(s) 119, 453
EciI GGCGGA 1 cut(s) 749
Eco130I CCWWGG 2 cut(s) 58, 307
Eco24I GRGCYC 1 cut(s) 1092
Eco31I GGTCTC 1 cut(s) 729
Eco32I GATATC 1 cut(s) 974
Eco57I CTGAAG 3 cut(s) 143, 583, 704
Eco88I CYCGRG 1 cut(s) 489
Eco91I GGTNACC 1 cut(s) 746
EcoO65I GGTNACC 1 cut(s) 746
EcoRII CCWGG 4 cut(s) 762, 1296, 1344, 1388
EcoRV GATATC 1 cut(s) 974
EcoT14I CCWWGG 2 cut(s) 58, 307
EcoT22I ATGCAT 1 cut(s) 512
EcoT38I GRGCYC 1 cut(s) 1092
ErhI CCWWGG 2 cut(s) 58, 307
Esp3I CGTCTC 1 cut(s) 1237
FaeI CATG 8 cut(s) 62, 520, 704, 718, 1123, 1160, 1217, 1228
FalI AAGNNNNNCTT 1 cut(s) 31
FatI CATG 8 cut(s) 58, 516, 700, 714, 1119, 1156, 1213, 1224
Fnu4HI GCNGC 2 cut(s) 185, 1292
FokI GGATG 5 cut(s) 37, 825, 865, 874, 966
FriOI GRGCYC 1 cut(s) 1092
Fsp4HI GCNGC 2 cut(s) 185, 1292
FspBI CTAG 4 cut(s) 383, 671, 779, 1113
GlaI GCGC 1 cut(s) 713
GluI GCNGC 2 cut(s) 185, 1292
GsuI CTGGAG 2 cut(s) 793, 846
HaeIII GGCC 1 cut(s) 606
HgaI GACGC 1 cut(s) 1254
HhaI GCGC 1 cut(s) 714
Hin1II CATG 8 cut(s) 62, 520, 704, 718, 1123, 1160, 1217, 1228
Hin6I GCGC 1 cut(s) 712
HinP1I GCGC 1 cut(s) 712
HinfI GANTC 3 cut(s) 1208, 1330, 1363
HphI GGTGA 5 cut(s) 16, 589, 674, 758, 1037
Hpy166II GTNNAC 1 cut(s) 262
Hpy188I TCNGA 9 cut(s) 13, 123, 175, 322, 342, 449, 602, 962, 1318
Hpy188III TCNNGA 9 cut(s) 289, 398, 427, 491, 671, 779, 810, 847, 1225
Hpy8I GTNNAC 1 cut(s) 262
HpyAV CCTTC 7 cut(s) 230, 607, 679, 702, 949, 993, 1320
HpyCH4III ACNGT 4 cut(s) 47, 160, 752, 790
HpyCH4IV ACGT 3 cut(s) 693, 1336, 1384
HpyCH4V TGCA 8 cut(s) 86, 104, 365, 510, 704, 730, 904, 1064
HpyF10VI GCNNNNNNNGC 4 cut(s) 375, 673, 1061, 1096
HpyF3I CTNAG 5 cut(s) 174, 428, 446, 536, 1232
HpySE526I ACGT 3 cut(s) 693, 1336, 1384
Hsp92II CATG 8 cut(s) 62, 520, 704, 718, 1123, 1160, 1217, 1228
HspAI GCGC 1 cut(s) 712
Kzo9I GATC 3 cut(s) 153, 337, 1392
LmnI GCTCC 4 cut(s) 827, 1087, 1126, 1299
Lsp1109I GCAGC 1 cut(s) 1303
LweI GCATC 8 cut(s) 352, 391, 519, 772, 813, 955, 988, 1309
MaeI CTAG 4 cut(s) 383, 671, 779, 1113
MaeII ACGT 3 cut(s) 693, 1336, 1384
MaeIII GTNAC 4 cut(s) 331, 617, 746, 793
MalI GATC 3 cut(s) 155, 339, 1394
MboI GATC 3 cut(s) 153, 337, 1392
MflI RGATCY 2 cut(s) 337, 1392
MhlI GDGCHC 1 cut(s) 1092
MluCI AATT 7 cut(s) 50, 135, 393, 632, 1030, 1048, 1357
MmeI TCCRAC 1 cut(s) 940
Mph1103I ATGCAT 1 cut(s) 512
MseI TTAA 2 cut(s) 392, 1353
MslI CAYNNNNRTG 1 cut(s) 515
MspR9I CCNGG 4 cut(s) 764, 1298, 1346, 1390
Mva1269I GAATGC 4 cut(s) 378, 445, 512, 815
MvaI CCWGG 4 cut(s) 764, 1298, 1346, 1390
MvnI CGCG 1 cut(s) 479
MwoI GCNNNNNNNGC 4 cut(s) 375, 673, 1061, 1096
NcoI CCATGG 1 cut(s) 58
NdeII GATC 3 cut(s) 153, 337, 1392
NlaIII CATG 8 cut(s) 62, 520, 704, 718, 1123, 1160, 1217, 1228
NlaIV GGNNCC 1 cut(s) 1089
NmuCI GTSAC 2 cut(s) 617, 746
NsiI ATGCAT 1 cut(s) 512
NspI RCATGY 2 cut(s) 520, 704
PagI TCATGA 1 cut(s) 1224
PctI GAATGC 4 cut(s) 378, 445, 512, 815
PfeI GAWTC 3 cut(s) 1208, 1330, 1363
PfoI TCCNGGA 2 cut(s) 1296, 1388
PkrI GCNGC 2 cut(s) 186, 1293
Ppu21I YACGTR 1 cut(s) 694
PsiI TTATAA 1 cut(s) 74
Psp6I CCWGG 4 cut(s) 762, 1296, 1344, 1388
PspEI GGTNACC 1 cut(s) 746
PspGI CCWGG 4 cut(s) 762, 1296, 1344, 1388
PspN4I GGNNCC 1 cut(s) 1089
PstNI CAGNNNCTG 1 cut(s) 1297
PsuI RGATCY 2 cut(s) 337, 1392
RsaI GTAC 3 cut(s) 263, 1075, 1305
RsaNI GTAC 3 cut(s) 262, 1074, 1304
RseI CAYNNNNRTG 1 cut(s) 515
SaqAI TTAA 2 cut(s) 392, 1353
SatI GCNGC 2 cut(s) 185, 1292
Sau3AI GATC 3 cut(s) 153, 337, 1392
ScrFI CCNGG 4 cut(s) 764, 1298, 1346, 1390
SduI GDGCHC 1 cut(s) 1092
SfaNI GCATC 8 cut(s) 352, 391, 519, 772, 813, 955, 988, 1309
SfcI CTRYAG 1 cut(s) 786
SmiMI CAYNNNNRTG 1 cut(s) 515
Sse9I AATT 7 cut(s) 50, 135, 393, 632, 1030, 1048, 1357
SsiI CCGC 4 cut(s) 184, 477, 760, 977
SspMI CTAG 4 cut(s) 383, 671, 779, 1113
StyD4I CCNGG 4 cut(s) 762, 1296, 1344, 1388
StyI CCWWGG 2 cut(s) 58, 307
TaaI ACNGT 4 cut(s) 47, 160, 752, 790
TaiI ACGT 3 cut(s) 696, 1339, 1387
TasI AATT 7 cut(s) 50, 135, 393, 632, 1030, 1048, 1357
TatI WGTACW 2 cut(s) 261, 1073
TauI GCSGC 1 cut(s) 187
TfiI GAWTC 3 cut(s) 1208, 1330, 1363
Tru1I TTAA 2 cut(s) 392, 1353
Tru9I TTAA 2 cut(s) 392, 1353
TscAI CASTG 5 cut(s) 264, 906, 995, 1066, 1071
TseFI GTSAC 2 cut(s) 617, 746
TseI GCWGC 1 cut(s) 1291
Tsp45I GTSAC 2 cut(s) 617, 746
TspDTI ATGAA 4 cut(s) 41, 342, 1145, 1241
TspRI CASTG 5 cut(s) 264, 906, 995, 1066, 1071
XapI RAATTY 3 cut(s) 50, 1048, 1357
XbaI TCTAGA 2 cut(s) 670, 778
XceI RCATGY 2 cut(s) 520, 704
XcmI CCANNNNNNNNNTGG 1 cut(s) 1396
XspI CTAG 4 cut(s) 383, 671, 779, 1113
Zsp2I ATGCAT 1 cut(s) 512
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.