MD08G1171800.v1.1

DNA-directed RNA polymerase III subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr08
OG0000459
Physical Location & Seq
Reverse (-)
20562826 .. 20563281
456 bp
Loading structure...
UTR
Exon/CDS
Intron
MD08G1171800.v1.1.491

Sequence Viewer

Length: 339 bp
ATGTTTGATAATAATATGTTTCTTGAACATGTGGTTGCAGAGAGGCAAAACGCAGAGGTAGAAAGATATTCTGACAGATCAAAGCCAAAAACCACAATAAGTTGTGGTTCTCTTTTTAGTATATTGGAGCTCAAGGGATTTCCTCAAGAACTGACTGAAGGTTCAAGGGTGCAGCAGCCAGGTCTAAAGAGAGTTCGGTGGAATCCTAACTCAGGTCATATGAGATTAGATGCTTTCTTTTTTGTGCCATCTTATATCATATGTTTCTGTGTTTTTCTTTGTTCTGCAGGGCTGGAGAAGTTGGATTTATTTGAAAAGCTCGAGCAGCGTCAGGTATGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko00230 ko00240 ko01100 ko03020 ko04623 ko05169 map00230 map00240 map01100 map03020 map04623 map05169
Pfam Domains
Protein Families
RNA_pol_3_Rpc31

Protein Analysis

113

Amino Acids

12.99

Weight (kDa)

6.72

Isoelectric Point (pI)

40.57

Instability Index
Protein Domains (Pfam)
No Pfam domains detected for this protein.
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: OG0000459)

Species Orthologous Gene IDs
arabidopsis_thaliana AT4G01590 AT4G01590 AT4G01590 AT4G35685
fragaria_vesca FvH4_2g26230 FvH4_3g43010 FvH4_3g43011 FvH4_4g18161 FvH4_4g18202 FvH4_5g23500 FvH4_6g36040 FvH4_6g36040 FvH4_6g36040
malus_domestica MD08G1165000.v1.1 MD08G1171800.v1.1 MD15G1357300.v1.1 MD15G1382800.v1.1
prunus_persica Prupe.1G504500_v2.0.a1 Prupe.1G504500_v2.0.a1 Prupe.1G504500_v2.0.a1 Prupe.1G504500_v2.0.a1 Prupe.1G504500_v2.0.a1 Prupe.1G504500_v2.0.a1 Prupe.1G582300_v2.0.a1 Prupe.6G034400_v2.0.a1 Prupe.6G034600_v2.0.a1
pyrus_communis pycom02g25390 pycom08g14650
rosa_chinensis RchiOBHm_Chr2g0143271 RchiOBHm_Chr4g0422341 RchiOBHm_Chr6g0253151 RchiOBHm_Chr6g0294801
rosa_laevigata RLG00000007621 RLG00000011839 RLG00000020015 RLG00000020019 RLG00000020023 RLG00000036652 RLG00000036658
rosa_multiflora Rmu_co8140216.1_g000001 Rmu_co8510555.1_g000002 Rmu_sc0003323.1_g000013 Rmu_sc0003323.1_g000024 Rmu_sc0003323.1_g000031 Rmu_sc0013245.1_g000016 Rmu_sc0030690.1_g000001
rosa_roxburghii Rroxscaffold_1G00005030 Rroxscaffold_2G00101900 Rroxscaffold_2G00102030 Rroxscaffold_4G00318680 Rroxscaffold_5G00364400 Rroxscaffold_5G00364410 Rroxscaffold_7G00173000 Rroxscaffold_7G00212110
rosa_rugosa Rorug04G0179200 Rorug05G0451000 Rorug05G0451400.1 Rorug05G0451500 Rorug06G0246900
rosa_samantha Rh1AG104900 Rh1CG244000 Rh1DG126500 Rh2AG432700 Rh2CG418500 Rh4AG238500 Rh4BG241700 Rh4BG242000 Rh4CG253500 Rh4CG253600 Rh4DG237400 Rh5AG505300 Rh5AG505500 Rh5BG527000 Rh5BG527200 Rh5BG527500 Rh5CG551000 Rh5CG551300 Rh5CG551800 Rh5DG539300 Rh5DG539900 Rh6AG057300 Rh6AG360500 Rh6BG051900 Rh6BG367200 Rh6CG049800 Rh6CG374200 Rh6DG046000
rosa_wichuraiana Rw1G009810 Rw5G047080 Rw5G047100 Rw6G031450

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AcuI CTGAAG 1 cut(s) 177
AfiI CCNNNNNNNGG 1 cut(s) 212
AflIII ACRYGT 1 cut(s) 28
AgsI TTSAA 3 cut(s) 26, 165, 314
AjnI CCWGG 1 cut(s) 178
AluBI AGCT 2 cut(s) 130, 319
AluI AGCT 2 cut(s) 130, 319
Alw21I GWGCWC 1 cut(s) 132
Ama87I CYCGRG 1 cut(s) 320
ApeKI GCWGC 3 cut(s) 172, 175, 325
AvaI CYCGRG 1 cut(s) 320
BanII GRGCYC 1 cut(s) 132
Bbv12I GWGCWC 1 cut(s) 132
BbvI GCAGC 2 cut(s) 184, 187
BccI CCATC 1 cut(s) 256
BciT130I CCWGG 1 cut(s) 180
BfmI CTRYAG 1 cut(s) 285
BisI GCNGC 3 cut(s) 173, 176, 326
BlsI GCNGC 3 cut(s) 174, 177, 327
Bme1390I CCNGG 1 cut(s) 180
BmeT110I CYCGRG 1 cut(s) 320
BmrFI CCNGG 1 cut(s) 180
BmsI GCATC 1 cut(s) 220
BpmI CTGGAG 1 cut(s) 314
BpuEI CTTGAG 2 cut(s) 116, 129
Bsc4I CCNNNNNNNGG 1 cut(s) 212
BseBI CCWGG 1 cut(s) 180
BseLI CCNNNNNNNGG 1 cut(s) 212
BseMII CTCAG 1 cut(s) 225
BseXI GCAGC 2 cut(s) 184, 187
BsgI GTGCAG 1 cut(s) 191
BsiHKAI GWGCWC 1 cut(s) 132
BsiHKCI CYCGRG 1 cut(s) 320
BslI CCNNNNNNNGG 1 cut(s) 212
BsoBI CYCGRG 1 cut(s) 320
Bsp1286I GDGCHC 1 cut(s) 132
Bsp143I GATC 1 cut(s) 77
BspCNI CTCAG 1 cut(s) 224
BspMAI CTGCAG 1 cut(s) 289
BssMI GATC 1 cut(s) 77
Bst2UI CCWGG 1 cut(s) 180
BstDEI CTNAG 1 cut(s) 211
BstENI CCTNNNNNAGG 1 cut(s) 210
BstKTI GATC 1 cut(s) 80
BstMBI GATC 1 cut(s) 77
BstMWI GCNNNNNNNGC 1 cut(s) 325
BstNI CCWGG 1 cut(s) 180
BstNSI RCATGY 1 cut(s) 32
BstSCI CCNGG 1 cut(s) 178
BstSFI CTRYAG 1 cut(s) 285
BstV1I GCAGC 2 cut(s) 184, 187
CseI GACGC 1 cut(s) 317
CviAII CATG 1 cut(s) 29
CviJI RGCY 5 cut(s) 85, 130, 178, 292, 319
CviKI_1 RGCY 5 cut(s) 85, 130, 178, 292, 319
DdeI CTNAG 1 cut(s) 211
DpnI GATC 1 cut(s) 79
DpnII GATC 1 cut(s) 77
Ecl136II GAGCTC 1 cut(s) 130
Eco24I GRGCYC 1 cut(s) 132
Eco53kI GAGCTC 1 cut(s) 130
Eco57I CTGAAG 1 cut(s) 177
Eco88I CYCGRG 1 cut(s) 320
EcoICRI GAGCTC 1 cut(s) 130
EcoNI CCTNNNNNAGG 1 cut(s) 210
EcoRII CCWGG 1 cut(s) 178
EcoT38I GRGCYC 1 cut(s) 132
FaeI CATG 1 cut(s) 32
FaiI YATR 9 cut(s) 17, 30, 122, 219, 221, 255, 260, 262, 337
FatI CATG 1 cut(s) 28
FauNDI CATATG 2 cut(s) 219, 260
Fnu4HI GCNGC 3 cut(s) 173, 176, 326
FriOI GRGCYC 1 cut(s) 132
Fsp4HI GCNGC 3 cut(s) 173, 176, 326
GluI GCNGC 3 cut(s) 173, 176, 326
GsuI CTGGAG 1 cut(s) 314
HgaI GACGC 1 cut(s) 317
Hin1II CATG 1 cut(s) 32
HinfI GANTC 1 cut(s) 202
Hpy188I TCNGA 1 cut(s) 73
Hpy188III TCNNGA 2 cut(s) 23, 146
HpyAV CCTTC 1 cut(s) 152
HpyCH4V TGCA 3 cut(s) 38, 172, 287
HpyF10VI GCNNNNNNNGC 1 cut(s) 325
HpyF3I CTNAG 1 cut(s) 211
Hsp92II CATG 1 cut(s) 32
Kzo9I GATC 1 cut(s) 77
LmnI GCTCC 1 cut(s) 127
LpnPI CCDG 6 cut(s) 165, 192, 198, 273, 278, 317
Lsp1109I GCAGC 2 cut(s) 184, 187
LweI GCATC 1 cut(s) 220
MalI GATC 1 cut(s) 79
MboI GATC 1 cut(s) 77
MhlI GDGCHC 1 cut(s) 132
MmeI TCCRAC 1 cut(s) 282
MnlI CCTC 3 cut(s) 36, 49, 153
MspR9I CCNGG 1 cut(s) 180
MvaI CCWGG 1 cut(s) 180
MwoI GCNNNNNNNGC 1 cut(s) 325
NdeI CATATG 2 cut(s) 219, 260
NdeII GATC 1 cut(s) 77
NlaIII CATG 1 cut(s) 32
NspI RCATGY 1 cut(s) 32
PaeR7I CTCGAG 1 cut(s) 320
PciI ACATGT 1 cut(s) 28
PfeI GAWTC 1 cut(s) 202
PkrI GCNGC 3 cut(s) 174, 177, 327
PscI ACATGT 1 cut(s) 28
Psp124BI GAGCTC 1 cut(s) 132
Psp6I CCWGG 1 cut(s) 178
PspGI CCWGG 1 cut(s) 178
PspXI VCTCGAGB 1 cut(s) 320
PstI CTGCAG 1 cut(s) 289
SacI GAGCTC 1 cut(s) 132
SatI GCNGC 3 cut(s) 173, 176, 326
Sau3AI GATC 1 cut(s) 77
ScrFI CCNGG 1 cut(s) 180
SduI GDGCHC 1 cut(s) 132
SetI ASST 7 cut(s) 60, 132, 163, 184, 217, 321, 336
SfaNI GCATC 1 cut(s) 220
SfcI CTRYAG 1 cut(s) 285
Sfr274I CTCGAG 1 cut(s) 320
SlaI CTCGAG 1 cut(s) 320
SmlI CTYRAG 3 cut(s) 131, 144, 320
SmoI CTYRAG 3 cut(s) 131, 144, 320
SstI GAGCTC 1 cut(s) 132
StyD4I CCNGG 1 cut(s) 178
TaqI TCGA 1 cut(s) 321
TfiI GAWTC 1 cut(s) 202
TseI GCWGC 3 cut(s) 172, 175, 325
XagI CCTNNNNNAGG 1 cut(s) 210
XceI RCATGY 1 cut(s) 32
XhoI CTCGAG 1 cut(s) 320
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.