Rh5BG289400

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
Chr5B
OG0017267
Physical Location & Seq
Reverse (-)
36797092 .. 36797430
339 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5BG289400.1

Sequence Viewer

Length: 339 bp
ATGGAGCTCGACTGCCTTATAGCCCATGGAGCGTCAGCAAACTTACATGAACGCCTTTTCACTCTTTGTGACTCCTCCCAAATGCATGCTTGCCAGAAATGCAAAAATGCGGCTAATGTGATAGATGGAACAGTTGATGGCCGTAGAATCCGGGGGCCCTATTGCCTGGTCTGTAAGTCTGTTGATGACATTGTCAGGTTGAATGTTCCATACGGGGCCAAGTTATTGTGCCAGGAACTTTTCAGTATGGGCATAAGTCTCAAGTTTGAGACCAGGCTCTGCAGAGTGAGCACTAGAACTCTGTTTTGGGAGCGCTATAGAACTTTGTTTTGTAAATGA
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

112

Amino Acids

12.76

Weight (kDa)

8.8

Isoelectric Point (pI)

23.1

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RNA_pol_Rpb2_7 PF04560 1 - 90 3.9e-20 RNA polymerase Rpb2, domain 7
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

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AciI CCGC 1 cut(s) 110
AcoI YGGCCR 1 cut(s) 139
AfeI AGCGCT 1 cut(s) 314
AgsI TTSAA 1 cut(s) 202
AjnI CCWGG 3 cut(s) 165, 231, 272
AjuI GAANNNNNNNTTGG 2 cut(s) 289, 321
AluBI AGCT 1 cut(s) 7
AluI AGCT 1 cut(s) 7
Alw21I GWGCWC 2 cut(s) 9, 293
Alw26I GTCTC 2 cut(s) 263, 263
AlwNI CAGNNNCTG 1 cut(s) 279
Aor51HI AGCGCT 1 cut(s) 314
AoxI GGCC 3 cut(s) 139, 155, 216
ApaI GGGCCC 1 cut(s) 159
AspLEI GCGC 1 cut(s) 315
AspS9I GGNCC 3 cut(s) 155, 156, 216
AsuC2I CCSGG 1 cut(s) 152
BaeGI GKGCMC 1 cut(s) 159
BanII GRGCYC 2 cut(s) 9, 159
Bbv12I GWGCWC 2 cut(s) 9, 293
BccI CCATC 2 cut(s) 119, 131
BceAI ACGGC 1 cut(s) 126
BciT130I CCWGG 3 cut(s) 167, 233, 274
BcnI CCSGG 1 cut(s) 152
BcoDI GTCTC 2 cut(s) 263, 263
BfaI CTAG 1 cut(s) 294
BfmI CTRYAG 2 cut(s) 280, 316
BfoI RGCGCY 1 cut(s) 316
BisI GCNGC 1 cut(s) 111
BlsI GCNGC 1 cut(s) 112
Bme1390I CCNGG 4 cut(s) 152, 167, 233, 274
BmgT120I GGNCC 3 cut(s) 155, 156, 216
BmiI GGNNCC 3 cut(s) 156, 157, 217
BmrFI CCNGG 4 cut(s) 152, 167, 233, 274
BpuEI CTTGAG 1 cut(s) 245
BpuMI CCSGG 1 cut(s) 152
BsaI GGTCTC 1 cut(s) 263
BsaJI CCNNGG 2 cut(s) 25, 151
BseBI CCWGG 3 cut(s) 167, 233, 274
BseDI CCNNGG 2 cut(s) 25, 151
BseRI GAGGAG 1 cut(s) 64
BseSI GKGCMC 1 cut(s) 159
BshFI GGCC 3 cut(s) 141, 157, 218
BsiHKAI GWGCWC 2 cut(s) 9, 293
BsiSI CCGG 1 cut(s) 151
BsmAI GTCTC 2 cut(s) 263, 263
BsnI GGCC 3 cut(s) 141, 157, 218
Bso31I GGTCTC 1 cut(s) 263
Bsp120I GGGCCC 1 cut(s) 155
Bsp1286I GDGCHC 3 cut(s) 9, 159, 293
Bsp19I CCATGG 1 cut(s) 25
BspACI CCGC 1 cut(s) 110
BspANI GGCC 3 cut(s) 141, 157, 218
BspLI GGNNCC 3 cut(s) 156, 157, 217
BspMAI CTGCAG 1 cut(s) 284
BspTNI GGTCTC 1 cut(s) 263
BssECI CCNNGG 2 cut(s) 25, 151
BssT1I CCWWGG 1 cut(s) 25
Bst2UI CCWGG 3 cut(s) 167, 233, 274
Bst4CI ACNGT 1 cut(s) 133
BstC8I GCNNGC 2 cut(s) 87, 91
BstDSI CCRYGG 1 cut(s) 25
BstH2I RGCGCY 1 cut(s) 316
BstHHI GCGC 1 cut(s) 315
BstMAI GTCTC 2 cut(s) 263, 263
BstMWI GCNNNNNNNGC 3 cut(s) 29, 99, 288
BstNI CCWGG 3 cut(s) 167, 233, 274
BstNSI RCATGY 1 cut(s) 89
BstSCI CCNGG 4 cut(s) 150, 165, 231, 272
BstSFI CTRYAG 2 cut(s) 280, 316
BstSLI GKGCMC 1 cut(s) 159
BsuRI GGCC 3 cut(s) 141, 157, 218
BtgI CCRYGG 1 cut(s) 25
Cac8I GCNNGC 2 cut(s) 87, 91
CaiI CAGNNNCTG 1 cut(s) 279
CfoI GCGC 1 cut(s) 315
Cfr13I GGNCC 3 cut(s) 155, 156, 216
CseI GACGC 1 cut(s) 21
CviAII CATG 3 cut(s) 26, 47, 86
CviJI RGCY 7 cut(s) 7, 23, 113, 141, 157, 218, 277
CviKI_1 RGCY 7 cut(s) 7, 23, 113, 141, 157, 218, 277
EaeI YGGCCR 1 cut(s) 139
Ecl136II GAGCTC 1 cut(s) 7
Eco130I CCWWGG 1 cut(s) 25
Eco24I GRGCYC 2 cut(s) 9, 159
Eco31I GGTCTC 1 cut(s) 263
Eco47III AGCGCT 1 cut(s) 314
Eco53kI GAGCTC 1 cut(s) 7
EcoICRI GAGCTC 1 cut(s) 7
EcoO109I RGGNCCY 2 cut(s) 155, 156
EcoRII CCWGG 3 cut(s) 165, 231, 272
EcoT14I CCWWGG 1 cut(s) 25
EcoT22I ATGCAT 1 cut(s) 87
EcoT38I GRGCYC 2 cut(s) 9, 159
ErhI CCWWGG 1 cut(s) 25
FaeI CATG 3 cut(s) 29, 50, 89
FaiI YATR 8 cut(s) 20, 27, 48, 87, 211, 248, 254, 318
FatI CATG 3 cut(s) 25, 46, 85
Fnu4HI GCNGC 1 cut(s) 111
FriOI GRGCYC 2 cut(s) 9, 159
Fsp4HI GCNGC 1 cut(s) 111
FspBI CTAG 1 cut(s) 294
GlaI GCGC 1 cut(s) 314
GluI GCNGC 1 cut(s) 111
HaeII RGCGCY 1 cut(s) 316
HaeIII GGCC 3 cut(s) 141, 157, 218
HapII CCGG 1 cut(s) 151
HgaI GACGC 1 cut(s) 21
HhaI GCGC 1 cut(s) 315
Hin1II CATG 3 cut(s) 29, 50, 89
Hin6I GCGC 1 cut(s) 313
HinP1I GCGC 1 cut(s) 313
HinfI GANTC 2 cut(s) 71, 147
HpaII CCGG 1 cut(s) 151
HpyCH4III ACNGT 1 cut(s) 133
HpyCH4V TGCA 3 cut(s) 85, 102, 282
HpyF10VI GCNNNNNNNGC 3 cut(s) 29, 99, 288
Hsp92II CATG 3 cut(s) 29, 50, 89
HspAI GCGC 1 cut(s) 313
LmnI GCTCC 3 cut(s) 4, 29, 310
LpnPI CCDG 9 cut(s) 107, 152, 164, 179, 181, 218, 245, 259, 286
MaeI CTAG 1 cut(s) 294
MaeIII GTNAC 1 cut(s) 68
MhlI GDGCHC 3 cut(s) 9, 159, 293
MlyI GAGTC 1 cut(s) 65
MnlI CCTC 1 cut(s) 85
Mph1103I ATGCAT 1 cut(s) 87
MspI CCGG 1 cut(s) 151
MspR9I CCNGG 4 cut(s) 152, 167, 233, 274
MvaI CCWGG 3 cut(s) 167, 233, 274
MwoI GCNNNNNNNGC 3 cut(s) 29, 99, 288
NciI CCSGG 1 cut(s) 152
NcoI CCATGG 1 cut(s) 25
NlaIII CATG 3 cut(s) 29, 50, 89
NlaIV GGNNCC 3 cut(s) 156, 157, 217
NmuCI GTSAC 1 cut(s) 68
NsiI ATGCAT 1 cut(s) 87
NspI RCATGY 1 cut(s) 89
PaeI GCATGC 1 cut(s) 89
PfeI GAWTC 1 cut(s) 147
PflFI GACNNNGTC 1 cut(s) 191
PkrI GCNGC 1 cut(s) 112
PleI GAGTC 1 cut(s) 65
PpsI GAGTC 1 cut(s) 65
Psp124BI GAGCTC 1 cut(s) 9
Psp6I CCWGG 3 cut(s) 165, 231, 272
PspGI CCWGG 3 cut(s) 165, 231, 272
PspN4I GGNNCC 3 cut(s) 156, 157, 217
PspOMI GGGCCC 1 cut(s) 155
PspPI GGNCC 3 cut(s) 155, 156, 216
PstI CTGCAG 1 cut(s) 284
PstNI CAGNNNCTG 1 cut(s) 279
PsyI GACNNNGTC 1 cut(s) 191
SacI GAGCTC 1 cut(s) 9
SatI GCNGC 1 cut(s) 111
Sau96I GGNCC 3 cut(s) 155, 156, 216
SchI GAGTC 1 cut(s) 65
ScrFI CCNGG 4 cut(s) 152, 167, 233, 274
SduI GDGCHC 3 cut(s) 9, 159, 293
SetI ASST 2 cut(s) 9, 200
SfcI CTRYAG 2 cut(s) 280, 316
SmlI CTYRAG 1 cut(s) 260
SmoI CTYRAG 1 cut(s) 260
SphI GCATGC 1 cut(s) 89
SsiI CCGC 1 cut(s) 110
SspMI CTAG 1 cut(s) 294
SstI GAGCTC 1 cut(s) 9
StyD4I CCNGG 4 cut(s) 150, 165, 231, 272
StyI CCWWGG 1 cut(s) 25
TaaI ACNGT 1 cut(s) 133
TaqI TCGA 1 cut(s) 9
TauI GCSGC 1 cut(s) 113
TfiI GAWTC 1 cut(s) 147
TseFI GTSAC 1 cut(s) 68
Tsp45I GTSAC 1 cut(s) 68
TspDTI ATGAA 1 cut(s) 63
Tth111I GACNNNGTC 1 cut(s) 191
XceI RCATGY 1 cut(s) 89
XspI CTAG 1 cut(s) 294
Zsp2I ATGCAT 1 cut(s) 87
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.