Rh5BG289500

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
OG0022785
Physical Location & Seq
Reverse (-)
36797506 .. 36798692
1187 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5BG289500.1

Sequence Viewer

Length: 408 bp
ATGACGTTTATAATTTTTTGGCTTAGGTTTGTTCTCCTTGTCTTGGAGACAAGTTCTCAAGCATGCACGGGTGTCCTAGGCTTTTTGGAGTCTGAAGAGAACTTCCCCTTTACAATACAGGGGATTGTTCCAGATATTGTAATTAATCCACATGCTTTTCCTTCACGACAAGCTCCTGGTCAACTCCTAGAGGCTGCTTTGGGGAAGGGGATTGCCTGTGGTGGCTCAATGAGATATGCAACTCCTTTCTCTACTCCCTCTGTTGATGACATCACAGATCAGCTTCATGGAGCTGGATTTCAAAGATGGGGAAATGAGAGTATACAGTGGTCAAACTGGTCAAATGGTTCGCCAACTGATATTTATGGGCCCAACATTTTATCAACGTCTCATTCACATTCTCATTAA
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

135

Amino Acids

14.74

Weight (kDa)

5.09

Isoelectric Point (pI)

46.73

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RNA_pol_Rpb2_6 PF00562 23 - 108 8.4e-25 RNA polymerase Rpb2, domain 6
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready
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Orthologous Genes (Group: OG0022785)

Species Orthologous Gene IDs
rosa_chinensis RchiOBHm_Chr5g0042231
rosa_samantha Rh5AG283500 Rh5BG289500 Rh5DG298800

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 11
AccI GTMKAC 1 cut(s) 322
AcuI CTGAAG 1 cut(s) 114
AfiI CCNNNNNNNGG 1 cut(s) 43
AgsI TTSAA 1 cut(s) 302
AjnI CCWGG 1 cut(s) 175
AluBI AGCT 3 cut(s) 173, 283, 293
AluI AGCT 3 cut(s) 173, 283, 293
Alw26I GTCTC 2 cut(s) 41, 393
AoxI GGCC 1 cut(s) 368
ApaI GGGCCC 1 cut(s) 372
ApeKI GCWGC 1 cut(s) 194
AseI ATTAAT 1 cut(s) 144
AspA2I CCTAGG 1 cut(s) 76
AspS9I GGNCC 2 cut(s) 368, 369
AvrII CCTAGG 1 cut(s) 76
BaeGI GKGCMC 1 cut(s) 372
BanII GRGCYC 1 cut(s) 372
BbvI GCAGC 1 cut(s) 181
BccI CCATC 1 cut(s) 300
BciT130I CCWGG 1 cut(s) 177
BcoDI GTCTC 2 cut(s) 41, 393
BfaI CTAG 2 cut(s) 77, 188
BisI GCNGC 1 cut(s) 195
BlnI CCTAGG 1 cut(s) 76
BlsI GCNGC 1 cut(s) 196
Bme1390I CCNGG 1 cut(s) 177
BmgT120I GGNCC 2 cut(s) 368, 369
BmiI GGNNCC 1 cut(s) 370
BmrFI CCNGG 1 cut(s) 177
Bpu10I CCTNAGC 1 cut(s) 23
BpuEI CTTGAG 1 cut(s) 42
BsaJI CCNNGG 1 cut(s) 76
Bsc4I CCNNNNNNNGG 1 cut(s) 43
Bse1I ACTGG 1 cut(s) 341
BseBI CCWGG 1 cut(s) 177
BseDI CCNNGG 1 cut(s) 76
BseLI CCNNNNNNNGG 1 cut(s) 43
BseNI ACTGG 1 cut(s) 341
BseSI GKGCMC 1 cut(s) 372
BseXI GCAGC 1 cut(s) 181
BshFI GGCC 1 cut(s) 370
BslI CCNNNNNNNGG 1 cut(s) 43
BsmAI GTCTC 2 cut(s) 41, 393
BsmBI CGTCTC 1 cut(s) 393
BsnI GGCC 1 cut(s) 370
Bsp120I GGGCCC 1 cut(s) 368
Bsp1286I GDGCHC 1 cut(s) 372
Bsp143I GATC 1 cut(s) 277
BspANI GGCC 1 cut(s) 370
BspLI GGNNCC 1 cut(s) 370
BsrI ACTGG 1 cut(s) 341
BssECI CCNNGG 1 cut(s) 76
BssMI GATC 1 cut(s) 277
BssNAI GTATAC 1 cut(s) 323
BssT1I CCWWGG 1 cut(s) 76
Bst1107I GTATAC 1 cut(s) 323
Bst2UI CCWGG 1 cut(s) 177
Bst4CI ACNGT 1 cut(s) 327
Bst6I CTCTTC 1 cut(s) 90
BstC8I GCNNGC 1 cut(s) 64
BstDEI CTNAG 1 cut(s) 23
BstKTI GATC 1 cut(s) 280
BstMAI GTCTC 2 cut(s) 41, 393
BstMBI GATC 1 cut(s) 277
BstNI CCWGG 1 cut(s) 177
BstNSI RCATGY 2 cut(s) 66, 155
BstSCI CCNGG 1 cut(s) 175
BstSLI GKGCMC 1 cut(s) 372
BstV1I GCAGC 1 cut(s) 181
BstZ17I GTATAC 1 cut(s) 323
BsuRI GGCC 1 cut(s) 370
BtsIMutI CAGTG 1 cut(s) 332
Cac8I GCNNGC 1 cut(s) 64
Cfr13I GGNCC 2 cut(s) 368, 369
CviAII CATG 3 cut(s) 63, 152, 287
CviJI RGCY 8 cut(s) 22, 81, 173, 194, 225, 283, 293, 370
CviKI_1 RGCY 8 cut(s) 22, 81, 173, 194, 225, 283, 293, 370
DdeI CTNAG 1 cut(s) 23
DpnI GATC 1 cut(s) 279
DpnII GATC 1 cut(s) 277
Eam1104I CTCTTC 1 cut(s) 90
EarI CTCTTC 1 cut(s) 90
Eco130I CCWWGG 1 cut(s) 76
Eco24I GRGCYC 1 cut(s) 372
Eco57I CTGAAG 1 cut(s) 114
EcoRII CCWGG 1 cut(s) 175
EcoT14I CCWWGG 1 cut(s) 76
EcoT38I GRGCYC 1 cut(s) 372
ErhI CCWWGG 1 cut(s) 76
Esp3I CGTCTC 1 cut(s) 393
FaeI CATG 3 cut(s) 66, 155, 290
FaiI YATR 7 cut(s) 11, 64, 153, 237, 288, 323, 366
FatI CATG 3 cut(s) 62, 151, 286
FblI GTMKAC 1 cut(s) 322
Fnu4HI GCNGC 1 cut(s) 195
FriOI GRGCYC 1 cut(s) 372
Fsp4HI GCNGC 1 cut(s) 195
FspBI CTAG 2 cut(s) 77, 188
GluI GCNGC 1 cut(s) 195
HaeIII GGCC 1 cut(s) 370
Hin1II CATG 3 cut(s) 66, 155, 290
HincII GTYRAC 1 cut(s) 182
HindII GTYRAC 1 cut(s) 182
HinfI GANTC 1 cut(s) 89
Hpy166II GTNNAC 2 cut(s) 182, 323
Hpy188I TCNGA 1 cut(s) 94
Hpy188III TCNNGA 2 cut(s) 131, 165
Hpy8I GTNNAC 2 cut(s) 182, 323
HpyAV CCTTC 2 cut(s) 171, 199
HpyCH4III ACNGT 1 cut(s) 327
HpyCH4IV ACGT 2 cut(s) 5, 386
HpyCH4V TGCA 2 cut(s) 66, 239
HpyF3I CTNAG 1 cut(s) 23
HpySE526I ACGT 2 cut(s) 5, 386
Hsp92II CATG 3 cut(s) 66, 155, 290
Kzo9I GATC 1 cut(s) 277
LmnI GCTCC 2 cut(s) 178, 290
LpnPI CCDG 7 cut(s) 104, 144, 162, 189, 229, 279, 322
Lsp1109I GCAGC 1 cut(s) 181
MaeI CTAG 2 cut(s) 77, 188
MaeII ACGT 2 cut(s) 5, 386
MalI GATC 1 cut(s) 279
MboI GATC 1 cut(s) 277
MboII GAAGA 1 cut(s) 107
MhlI GDGCHC 1 cut(s) 372
MluCI AATT 2 cut(s) 12, 141
MlyI GAGTC 1 cut(s) 98
MnlI CCTC 2 cut(s) 184, 268
MseI TTAA 2 cut(s) 144, 406
MspR9I CCNGG 1 cut(s) 177
MvaI CCWGG 1 cut(s) 177
NdeII GATC 1 cut(s) 277
NlaIII CATG 3 cut(s) 66, 155, 290
NlaIV GGNNCC 1 cut(s) 370
NspI RCATGY 2 cut(s) 66, 155
PaeI GCATGC 1 cut(s) 66
PkrI GCNGC 1 cut(s) 196
PleI GAGTC 1 cut(s) 97
PpsI GAGTC 1 cut(s) 97
PshBI ATTAAT 1 cut(s) 144
PsiI TTATAA 1 cut(s) 11
Psp6I CCWGG 1 cut(s) 175
PspGI CCWGG 1 cut(s) 175
PspN4I GGNNCC 1 cut(s) 370
PspOMI GGGCCC 1 cut(s) 368
PspPI GGNCC 2 cut(s) 368, 369
SaqAI TTAA 2 cut(s) 144, 406
SatI GCNGC 1 cut(s) 195
Sau3AI GATC 1 cut(s) 277
Sau96I GGNCC 2 cut(s) 368, 369
SchI GAGTC 1 cut(s) 98
ScrFI CCNGG 1 cut(s) 177
SduI GDGCHC 1 cut(s) 372
SetI ASST 6 cut(s) 8, 29, 175, 285, 295, 389
SmlI CTYRAG 1 cut(s) 57
SmoI CTYRAG 1 cut(s) 57
SphI GCATGC 1 cut(s) 66
Sse9I AATT 2 cut(s) 12, 141
SspMI CTAG 2 cut(s) 77, 188
StyD4I CCNGG 1 cut(s) 175
StyI CCWWGG 1 cut(s) 76
TaaI ACNGT 1 cut(s) 327
TaiI ACGT 2 cut(s) 8, 389
TasI AATT 2 cut(s) 12, 141
Tru1I TTAA 2 cut(s) 144, 406
Tru9I TTAA 2 cut(s) 144, 406
TscAI CASTG 1 cut(s) 332
TseI GCWGC 1 cut(s) 194
TspDTI ATGAA 1 cut(s) 275
TspRI CASTG 1 cut(s) 332
VspI ATTAAT 1 cut(s) 144
XceI RCATGY 2 cut(s) 66, 155
XmaJI CCTAGG 1 cut(s) 76
XmiI GTMKAC 1 cut(s) 322
XspI CTAG 2 cut(s) 77, 188
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.