Rmu_ssc0000197.1_g000090

DNA-directed RNA polymerases

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_multiflora
Rmu_ssc0000197.1
OG0015704
Physical Location & Seq
Reverse (-)
387761 .. 389661
1901 bp
Loading structure...
UTR
Exon/CDS
Intron
N/A

Sequence Viewer

Length: 459 bp
atgctgagtttcttgtttgacgatacttttgtcatcgaaaagctggacccggatggtaaaaagtttgataaagtttcccgaattgtagcacggagtgagaagcatggtgctttgctgcacctggatgtgaattcggagatataccctatgcatgagaaggataaatttttgatggtgctgtctcccacacttaactacagtggagcacctgttacgaaccaggcacaggttgaacagaagtctctcgcagacaagtttgaatatatcatgcatggtttgctgtataaaatggatcacatgagatcagaaccttcagatggaggctcaaagtcgccacccttagtggaggtatttgtttcttttggtgggctacagatgaggctgagagctgatcccaccagctgtgcaaagtttaaggttgaccagaacatgtttttgcttatcaggaaattgatgtag
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko00230 ko00240 ko01100 ko03020 ko04623 ko05016 ko05169 map00230 map00240 map01100 map03020 map04623 map05016 map05169
Pfam Domains
Protein Families
RNA_pol_Rpb8

Protein Analysis

152

Amino Acids

17.31

Weight (kDa)

6.97

Isoelectric Point (pI)

42.32

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RNA_pol_Rpb8 PF03870 7 - 150 3.6e-43 RNA polymerase Rpb8
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0015704)

Species Orthologous Gene IDs
malus_domestica MD01G1023800.v1.1 MD15G1329500.v1.1
prunus_persica Prupe.6G178800_v2.0.a1
pyrus_communis pycom01g05140 pycom15g29600
rosa_chinensis RchiOBHm_Chr2g0115551
rosa_laevigata RLG00000018193
rosa_multiflora Rmu_ssc0000197.1_g000090
rosa_roxburghii Rroxscaffold_2G00128110
rosa_rugosa Rorug02G0197900 Rorug02G0198000
rosa_samantha Rh2AG255200 Rh2BG265900 Rh2CG260400 Rh2DG263400
rosa_wichuraiana Rw2G019980

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AclWI GGATC 2 cut(s) 300, 386
AcsI RAATTY 2 cut(s) 130, 164
AcuI CTGAAG 1 cut(s) 297
AdeI CACNNNGTG 1 cut(s) 95
AfiI CCNNNNNNNGG 2 cut(s) 226, 317
AflIII ACRYGT 1 cut(s) 429
AgsI TTSAA 2 cut(s) 233, 260
AjnI CCWGG 2 cut(s) 120, 219
AluBI AGCT 3 cut(s) 43, 389, 402
AluI AGCT 3 cut(s) 43, 389, 402
Alw21I GWGCWC 1 cut(s) 208
Alw26I GTCTC 2 cut(s) 186, 246
AlwI GGATC 2 cut(s) 300, 386
ApeKI GCWGC 1 cut(s) 115
ApoI RAATTY 2 cut(s) 130, 164
ArsI GACNNNNNNTTYG 2 cut(s) 11, 43
AspS9I GGNCC 1 cut(s) 46
AsuC2I CCSGG 1 cut(s) 50
AvaII GGWCC 1 cut(s) 46
BaeI ACNNNNGTAYC 2 cut(s) 15, 48
Bbv12I GWGCWC 1 cut(s) 208
BbvI GCAGC 1 cut(s) 102
BccI CCATC 3 cut(s) 47, 166, 311
BciT130I CCWGG 2 cut(s) 122, 221
BcnI CCSGG 1 cut(s) 50
BcoDI GTCTC 2 cut(s) 186, 246
BfmI CTRYAG 2 cut(s) 196, 371
BisI GCNGC 1 cut(s) 116
BlsI GCNGC 1 cut(s) 117
Bme1390I CCNGG 3 cut(s) 50, 122, 221
Bme18I GGWCC 1 cut(s) 46
BmgT120I GGNCC 1 cut(s) 46
BmiI GGNNCC 1 cut(s) 48
BmrFI CCNGG 3 cut(s) 50, 122, 221
BpuMI CCSGG 1 cut(s) 50
BsaXI ACNNNNNCTCC 2 cut(s) 195, 225
Bsc4I CCNNNNNNNGG 2 cut(s) 226, 317
BseBI CCWGG 2 cut(s) 122, 221
BseGI GGATG 2 cut(s) 58, 130
BseLI CCNNNNNNNGG 2 cut(s) 226, 317
BseMII CTCAG 1 cut(s) 374
BseXI GCAGC 1 cut(s) 102
BsgI GTGCAG 1 cut(s) 101
BsiHKAI GWGCWC 1 cut(s) 208
BsiSI CCGG 1 cut(s) 50
BslI CCNNNNNNNGG 2 cut(s) 226, 317
BsmAI GTCTC 2 cut(s) 186, 246
Bsp1286I GDGCHC 1 cut(s) 208
Bsp143I GATC 3 cut(s) 292, 302, 391
BspCNI CTCAG 1 cut(s) 375
BspLI GGNNCC 1 cut(s) 48
BspPI GGATC 2 cut(s) 300, 386
BssMI GATC 3 cut(s) 292, 302, 391
Bst2UI CCWGG 2 cut(s) 122, 221
Bst4CI ACNGT 1 cut(s) 200
BstAPI GCANNNNNTGC 1 cut(s) 277
BstDEI CTNAG 3 cut(s) 5, 340, 383
BstF5I GGATG 2 cut(s) 58, 130
BstKTI GATC 3 cut(s) 295, 305, 394
BstMAI GTCTC 2 cut(s) 186, 246
BstMBI GATC 3 cut(s) 292, 302, 391
BstMWI GCNNNNNNNGC 1 cut(s) 277
BstNI CCWGG 2 cut(s) 122, 221
BstNSI RCATGY 1 cut(s) 433
BstSCI CCNGG 3 cut(s) 48, 120, 219
BstSFI CTRYAG 2 cut(s) 196, 371
BstV1I GCAGC 1 cut(s) 102
BtsCI GGATG 2 cut(s) 58, 130
BtsIMutI CAGTG 1 cut(s) 205
Cfr13I GGNCC 1 cut(s) 46
CviAII CATG 6 cut(s) 104, 152, 268, 272, 298, 430
CviJI RGCY 6 cut(s) 43, 324, 370, 382, 389, 402
CviKI_1 RGCY 6 cut(s) 43, 324, 370, 382, 389, 402
DdeI CTNAG 3 cut(s) 5, 340, 383
DpnI GATC 3 cut(s) 294, 304, 393
DpnII GATC 3 cut(s) 292, 302, 391
DraIII CACNNNGTG 1 cut(s) 95
Eco47I GGWCC 1 cut(s) 46
Eco57I CTGAAG 1 cut(s) 297
EcoRI GAATTC 1 cut(s) 130
EcoRII CCWGG 2 cut(s) 120, 219
EcoT22I ATGCAT 2 cut(s) 153, 273
FaeI CATG 6 cut(s) 107, 155, 271, 275, 301, 433
FatI CATG 6 cut(s) 103, 151, 267, 271, 297, 429
Fnu4HI GCNGC 1 cut(s) 116
FokI GGATG 2 cut(s) 65, 137
Fsp4HI GCNGC 1 cut(s) 116
GluI GCNGC 1 cut(s) 116
HapII CCGG 1 cut(s) 50
Hin1II CATG 6 cut(s) 107, 155, 271, 275, 301, 433
HincII GTYRAC 1 cut(s) 421
HindII GTYRAC 1 cut(s) 421
HpaII CCGG 1 cut(s) 50
Hpy166II GTNNAC 1 cut(s) 421
Hpy188I TCNGA 3 cut(s) 136, 307, 316
Hpy188III TCNNGA 2 cut(s) 78, 445
Hpy8I GTNNAC 1 cut(s) 421
HpyAV CCTTC 2 cut(s) 151, 321
HpyCH4III ACNGT 1 cut(s) 200
HpyCH4V TGCA 4 cut(s) 118, 151, 271, 407
HpyF10VI GCNNNNNNNGC 1 cut(s) 277
HpyF3I CTNAG 3 cut(s) 5, 340, 383
Hsp92II CATG 6 cut(s) 107, 155, 271, 275, 301, 433
Kzo9I GATC 3 cut(s) 292, 302, 391
LmnI GCTCC 1 cut(s) 203
Lsp1109I GCAGC 1 cut(s) 102
MaeIII GTNAC 1 cut(s) 211
MalI GATC 3 cut(s) 294, 304, 393
MboI GATC 3 cut(s) 292, 302, 391
MhlI GDGCHC 1 cut(s) 208
MluCI AATT 4 cut(s) 81, 130, 164, 449
MnlI CCTC 3 cut(s) 314, 340, 372
Mph1103I ATGCAT 2 cut(s) 153, 273
MseI TTAA 2 cut(s) 192, 414
MslI CAYNNNNRTG 1 cut(s) 123
MspA1I CMGCKG 1 cut(s) 402
MspI CCGG 1 cut(s) 50
MspR9I CCNGG 3 cut(s) 50, 122, 221
MvaI CCWGG 2 cut(s) 122, 221
MwoI GCNNNNNNNGC 1 cut(s) 277
NciI CCSGG 1 cut(s) 50
NdeII GATC 3 cut(s) 292, 302, 391
NlaIII CATG 6 cut(s) 107, 155, 271, 275, 301, 433
NlaIV GGNNCC 1 cut(s) 48
NsiI ATGCAT 2 cut(s) 153, 273
NspI RCATGY 1 cut(s) 433
PciI ACATGT 1 cut(s) 429
PkrI GCNGC 1 cut(s) 117
PscI ACATGT 1 cut(s) 429
Psp6I CCWGG 2 cut(s) 120, 219
PspGI CCWGG 2 cut(s) 120, 219
PspN4I GGNNCC 1 cut(s) 48
PspPI GGNCC 1 cut(s) 46
PvuII CAGCTG 1 cut(s) 402
RseI CAYNNNNRTG 1 cut(s) 123
SaqAI TTAA 2 cut(s) 192, 414
SatI GCNGC 1 cut(s) 116
Sau3AI GATC 3 cut(s) 292, 302, 391
Sau96I GGNCC 1 cut(s) 46
ScrFI CCNGG 3 cut(s) 50, 122, 221
SduI GDGCHC 1 cut(s) 208
SetI ASST 9 cut(s) 45, 123, 211, 231, 313, 351, 391, 404, 420
SfcI CTRYAG 2 cut(s) 196, 371
SinI GGWCC 1 cut(s) 46
SmiMI CAYNNNNRTG 1 cut(s) 123
Sse9I AATT 4 cut(s) 81, 130, 164, 449
StyD4I CCNGG 3 cut(s) 48, 120, 219
TaaI ACNGT 1 cut(s) 200
TaqI TCGA 1 cut(s) 36
TasI AATT 4 cut(s) 81, 130, 164, 449
Tru1I TTAA 2 cut(s) 192, 414
Tru9I TTAA 2 cut(s) 192, 414
TscAI CASTG 1 cut(s) 205
TseI GCWGC 1 cut(s) 115
TspGWI ACGGA 1 cut(s) 106
TspRI CASTG 1 cut(s) 205
VpaK11BI GGWCC 1 cut(s) 46
XapI RAATTY 2 cut(s) 130, 164
XceI RCATGY 1 cut(s) 433
Zsp2I ATGCAT 2 cut(s) 153, 273
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.