Rh5CG320800

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
Chr5C
OG0017267
Physical Location & Seq
Reverse (-)
35530627 .. 35532194
1568 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5CG320800.1

Sequence Viewer

Length: 447 bp
ATGACATCACAGATCAGCTTCATGGAGCTGGATTTCAAAGATGGGGAAATGAGAGAGTATACAGTGGTCAAACTGGTCAAATGGAACATTGGGCAAGTTCACCCTCTCACCCGGCAGCCAGTGGCAGACAGGAAGAGATTTTGTGGGGTAAAGTTTGGTGAGATGGAGCTCGACTGCCTTATAGCCCATGGAGCATCAGCAAACTTACATGAACGCCTTTTCACTCTTTGTGACTCCTCCCAAATGCATGCTTGCCAGAAATGCAAAAATGCGGCTAATGTGATAGATGGAACAGTTGATGGCCGTAGAATCAGGGGTCCTTATTGCCTGGTCTGTAAGTCTGTTGATGACATTGTCAGGTTGAATGTTCCATATGGGGCCAAGTTATTGTGCCAGGAACTTTTCAGTATGGGCATAAGTCTCAAGTTTGAGACCAGGCTCTGCTGA
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

148

Amino Acids

16.75

Weight (kDa)

8.38

Isoelectric Point (pI)

26.01

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RNA_pol_Rpb2_7 PF04560 49 - 144 2e-24 RNA polymerase Rpb2, domain 7
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)
AccI GTMKAC 1 cut(s) 59
AciI CCGC 1 cut(s) 272
AcoI YGGCCR 1 cut(s) 301
AgsI TTSAA 2 cut(s) 37, 364
AjnI CCWGG 3 cut(s) 327, 393, 434
AluBI AGCT 3 cut(s) 18, 28, 169
AluI AGCT 3 cut(s) 18, 28, 169
Alw21I GWGCWC 1 cut(s) 171
Alw26I GTCTC 2 cut(s) 425, 425
AlwNI CAGNNNCTG 1 cut(s) 441
AoxI GGCC 2 cut(s) 301, 378
ApeKI GCWGC 1 cut(s) 115
AspS9I GGNCC 2 cut(s) 317, 378
AsuC2I CCSGG 1 cut(s) 112
AsuHPI GGTGA 3 cut(s) 92, 100, 170
AvaII GGWCC 1 cut(s) 317
BanII GRGCYC 1 cut(s) 171
Bbv12I GWGCWC 1 cut(s) 171
BbvI GCAGC 1 cut(s) 127
BccI CCATC 4 cut(s) 35, 157, 281, 293
BceAI ACGGC 1 cut(s) 288
BciT130I CCWGG 3 cut(s) 329, 395, 436
BcnI CCSGG 1 cut(s) 112
BcoDI GTCTC 2 cut(s) 425, 425
BisI GCNGC 2 cut(s) 116, 273
BlsI GCNGC 2 cut(s) 117, 274
Bme1390I CCNGG 4 cut(s) 112, 329, 395, 436
Bme18I GGWCC 1 cut(s) 317
BmgT120I GGNCC 2 cut(s) 317, 378
BmiI GGNNCC 2 cut(s) 318, 379
BmrFI CCNGG 4 cut(s) 112, 329, 395, 436
BmsI GCATC 1 cut(s) 203
BpuEI CTTGAG 1 cut(s) 407
BpuMI CCSGG 1 cut(s) 112
BsaI GGTCTC 1 cut(s) 425
BsaJI CCNNGG 1 cut(s) 187
Bse1I ACTGG 2 cut(s) 78, 119
BseBI CCWGG 3 cut(s) 329, 395, 436
BseDI CCNNGG 1 cut(s) 187
BseNI ACTGG 2 cut(s) 78, 119
BseRI GAGGAG 1 cut(s) 226
BseXI GCAGC 1 cut(s) 127
BshFI GGCC 2 cut(s) 303, 380
BsiHKAI GWGCWC 1 cut(s) 171
BsiSI CCGG 1 cut(s) 112
BsmAI GTCTC 2 cut(s) 425, 425
BsnI GGCC 2 cut(s) 303, 380
Bso31I GGTCTC 1 cut(s) 425
Bsp1286I GDGCHC 1 cut(s) 171
Bsp143I GATC 1 cut(s) 12
Bsp19I CCATGG 1 cut(s) 187
BspACI CCGC 1 cut(s) 272
BspANI GGCC 2 cut(s) 303, 380
BspLI GGNNCC 2 cut(s) 318, 379
BspTNI GGTCTC 1 cut(s) 425
BsrI ACTGG 2 cut(s) 78, 119
BssECI CCNNGG 1 cut(s) 187
BssMI GATC 1 cut(s) 12
BssNAI GTATAC 1 cut(s) 60
BssT1I CCWWGG 1 cut(s) 187
Bst1107I GTATAC 1 cut(s) 60
Bst2UI CCWGG 3 cut(s) 329, 395, 436
Bst4CI ACNGT 2 cut(s) 64, 295
Bst6I CTCTTC 1 cut(s) 128
BstC8I GCNNGC 2 cut(s) 249, 253
BstDSI CCRYGG 1 cut(s) 187
BstKTI GATC 1 cut(s) 15
BstMAI GTCTC 2 cut(s) 425, 425
BstMBI GATC 1 cut(s) 12
BstMWI GCNNNNNNNGC 2 cut(s) 191, 261
BstNI CCWGG 3 cut(s) 329, 395, 436
BstNSI RCATGY 1 cut(s) 251
BstSCI CCNGG 4 cut(s) 110, 327, 393, 434
BstV1I GCAGC 1 cut(s) 127
BstZ17I GTATAC 1 cut(s) 60
BsuRI GGCC 2 cut(s) 303, 380
BtgI CCRYGG 1 cut(s) 187
BtsIMutI CAGTG 2 cut(s) 69, 126
Cac8I GCNNGC 2 cut(s) 249, 253
CaiI CAGNNNCTG 1 cut(s) 441
Cfr13I GGNCC 2 cut(s) 317, 378
CviAII CATG 4 cut(s) 22, 188, 209, 248
CviJI RGCY 9 cut(s) 18, 28, 118, 169, 185, 275, 303, 380, 439
CviKI_1 RGCY 9 cut(s) 18, 28, 118, 169, 185, 275, 303, 380, 439
DpnI GATC 1 cut(s) 14
DpnII GATC 1 cut(s) 12
EaeI YGGCCR 1 cut(s) 301
Eam1104I CTCTTC 1 cut(s) 128
EarI CTCTTC 1 cut(s) 128
Ecl136II GAGCTC 1 cut(s) 169
Eco130I CCWWGG 1 cut(s) 187
Eco24I GRGCYC 1 cut(s) 171
Eco31I GGTCTC 1 cut(s) 425
Eco47I GGWCC 1 cut(s) 317
Eco53kI GAGCTC 1 cut(s) 169
EcoICRI GAGCTC 1 cut(s) 169
EcoO109I RGGNCCY 1 cut(s) 317
EcoRII CCWGG 3 cut(s) 327, 393, 434
EcoT14I CCWWGG 1 cut(s) 187
EcoT22I ATGCAT 1 cut(s) 249
EcoT38I GRGCYC 1 cut(s) 171
ErhI CCWWGG 1 cut(s) 187
FaeI CATG 4 cut(s) 25, 191, 212, 251
FatI CATG 4 cut(s) 21, 187, 208, 247
FauNDI CATATG 1 cut(s) 373
FblI GTMKAC 1 cut(s) 59
Fnu4HI GCNGC 2 cut(s) 116, 273
FriOI GRGCYC 1 cut(s) 171
Fsp4HI GCNGC 2 cut(s) 116, 273
GluI GCNGC 2 cut(s) 116, 273
HaeIII GGCC 2 cut(s) 303, 380
HapII CCGG 1 cut(s) 112
Hin1II CATG 4 cut(s) 25, 191, 212, 251
HinfI GANTC 2 cut(s) 233, 309
HpaII CCGG 1 cut(s) 112
HphI GGTGA 3 cut(s) 92, 100, 170
Hpy166II GTNNAC 2 cut(s) 60, 100
Hpy8I GTNNAC 2 cut(s) 60, 100
HpyCH4III ACNGT 2 cut(s) 64, 295
HpyCH4V TGCA 2 cut(s) 247, 264
HpyF10VI GCNNNNNNNGC 2 cut(s) 191, 261
Hsp92II CATG 4 cut(s) 25, 191, 212, 251
Kzo9I GATC 1 cut(s) 12
LmnI GCTCC 3 cut(s) 25, 166, 191
Lsp1109I GCAGC 1 cut(s) 127
LweI GCATC 1 cut(s) 203
MaeIII GTNAC 1 cut(s) 230
MalI GATC 1 cut(s) 14
MboI GATC 1 cut(s) 12
MboII GAAGA 1 cut(s) 145
MhlI GDGCHC 1 cut(s) 171
MlyI GAGTC 1 cut(s) 227
MnlI CCTC 2 cut(s) 114, 247
Mph1103I ATGCAT 1 cut(s) 249
MspI CCGG 1 cut(s) 112
MspR9I CCNGG 4 cut(s) 112, 329, 395, 436
MvaI CCWGG 3 cut(s) 329, 395, 436
MwoI GCNNNNNNNGC 2 cut(s) 191, 261
NciI CCSGG 1 cut(s) 112
NcoI CCATGG 1 cut(s) 187
NdeI CATATG 1 cut(s) 373
NdeII GATC 1 cut(s) 12
NlaIII CATG 4 cut(s) 25, 191, 212, 251
NlaIV GGNNCC 2 cut(s) 318, 379
NmuCI GTSAC 1 cut(s) 230
NsiI ATGCAT 1 cut(s) 249
NspI RCATGY 1 cut(s) 251
PaeI GCATGC 1 cut(s) 251
PfeI GAWTC 1 cut(s) 309
PflFI GACNNNGTC 1 cut(s) 353
PkrI GCNGC 2 cut(s) 117, 274
PleI GAGTC 1 cut(s) 227
PpsI GAGTC 1 cut(s) 227
PpuMI RGGWCCY 1 cut(s) 317
Psp124BI GAGCTC 1 cut(s) 171
Psp5II RGGWCCY 1 cut(s) 317
Psp6I CCWGG 3 cut(s) 327, 393, 434
PspGI CCWGG 3 cut(s) 327, 393, 434
PspN4I GGNNCC 2 cut(s) 318, 379
PspPI GGNCC 2 cut(s) 317, 378
PspPPI RGGWCCY 1 cut(s) 317
PstNI CAGNNNCTG 1 cut(s) 441
PsyI GACNNNGTC 1 cut(s) 353
SacI GAGCTC 1 cut(s) 171
SatI GCNGC 2 cut(s) 116, 273
Sau3AI GATC 1 cut(s) 12
Sau96I GGNCC 2 cut(s) 317, 378
SchI GAGTC 1 cut(s) 227
ScrFI CCNGG 4 cut(s) 112, 329, 395, 436
SduI GDGCHC 1 cut(s) 171
SetI ASST 4 cut(s) 20, 30, 171, 362
SfaNI GCATC 1 cut(s) 203
SinI GGWCC 1 cut(s) 317
SmlI CTYRAG 1 cut(s) 422
SmoI CTYRAG 1 cut(s) 422
SphI GCATGC 1 cut(s) 251
SsiI CCGC 1 cut(s) 272
SstI GAGCTC 1 cut(s) 171
StyD4I CCNGG 4 cut(s) 110, 327, 393, 434
StyI CCWWGG 1 cut(s) 187
TaaI ACNGT 2 cut(s) 64, 295
TaqI TCGA 1 cut(s) 171
TauI GCSGC 1 cut(s) 275
TfiI GAWTC 1 cut(s) 309
TscAI CASTG 2 cut(s) 69, 126
TseFI GTSAC 1 cut(s) 230
TseI GCWGC 1 cut(s) 115
Tsp45I GTSAC 1 cut(s) 230
TspDTI ATGAA 2 cut(s) 10, 225
TspRI CASTG 2 cut(s) 69, 126
Tth111I GACNNNGTC 1 cut(s) 353
VpaK11BI GGWCC 1 cut(s) 317
XceI RCATGY 1 cut(s) 251
XmiI GTMKAC 1 cut(s) 59
Zsp2I ATGCAT 1 cut(s) 249
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.