MD01G1023800.v1.1

DNA-directed RNA polymerases

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr01
OG0015704
Physical Location & Seq
Reverse (-)
9094698 .. 9096570
1873 bp
Loading structure...
UTR
Exon/CDS
Intron
MD01G1023800.v1.1.491

Sequence Viewer

Length: 411 bp
ATGGCAAAAAATTTGACAAAGAGTGAGAAGCATGGTGTGGTGCTGCTCCTTGATGTGAATACGGAGATATATCCTATGCATGCAAAGGACAAATTCTTGATGGTGCTGTCTCCCACACTTGAGTGGAGCGGAGCAACTGCTACTGGAAAACGTGGACAGGTTGAGCAGAAATCTCTTGCCGACAAATTTGAATATATAATGCATGGATTGCTGTATAAAATGTCAACAGCATGTTCAGAATCTTCAAAAGGAAAACCGAAGGCTTCAGTTGAAGGTTCAAAGACTGATGTCAAAGTGGAGGTATATGCTTCATTTGGTGGGCTTCAGATGATGCTGAAAGGAGATCCTTCGAGTTGTACTAAGTTTACGATTGATCAGAACTTATTTTTGCTTATAAGGAAATTGATATGA
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

137

Amino Acids

15.04

Weight (kDa)

9.19

Isoelectric Point (pI)

43.23

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RNA_pol_Rpb8 PF03870 6 - 134 3.5e-31 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
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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)
AanI TTATAA 1 cut(s) 395
AccBSI CCGCTC 1 cut(s) 129
AciI CCGC 1 cut(s) 129
AclWI GGATC 1 cut(s) 338
AcsI RAATTY 3 cut(s) 10, 92, 185
AcuI CTGAAG 2 cut(s) 249, 308
AfaI GTAC 1 cut(s) 358
AgsI TTSAA 4 cut(s) 191, 246, 272, 279
AleI CACNNNNGTG 1 cut(s) 121
Alw26I GTCTC 1 cut(s) 114
AlwI GGATC 1 cut(s) 338
ApeKI GCWGC 1 cut(s) 43
ApoI RAATTY 3 cut(s) 10, 92, 185
BbvI GCAGC 1 cut(s) 30
BccI CCATC 1 cut(s) 94
BclI TGATCA 1 cut(s) 373
BcoDI GTCTC 1 cut(s) 114
BisI GCNGC 1 cut(s) 44
BlsI GCNGC 1 cut(s) 45
BmsI GCATC 1 cut(s) 321
BoxI GACNNNNGTC 1 cut(s) 287
BpuEI CTTGAG 1 cut(s) 140
Bse1I ACTGG 1 cut(s) 148
BseNI ACTGG 1 cut(s) 148
BseXI GCAGC 1 cut(s) 30
BsmAI GTCTC 1 cut(s) 114
Bsp143I GATC 2 cut(s) 343, 373
BspACI CCGC 1 cut(s) 129
BspPI GGATC 1 cut(s) 338
BsrBI CCGCTC 1 cut(s) 129
BsrI ACTGG 1 cut(s) 148
BssMI GATC 2 cut(s) 343, 373
BstAPI GCANNNNNTGC 1 cut(s) 208
BstC8I GCNNGC 1 cut(s) 81
BstDEI CTNAG 1 cut(s) 360
BstKTI GATC 2 cut(s) 346, 376
BstMAI GTCTC 1 cut(s) 114
BstMBI GATC 2 cut(s) 343, 373
BstMWI GCNNNNNNNGC 1 cut(s) 208
BstNSI RCATGY 2 cut(s) 83, 234
BstPAI GACNNNNGTC 1 cut(s) 287
BstV1I GCAGC 1 cut(s) 30
BstX2I RGATCY 1 cut(s) 343
BstYI RGATCY 1 cut(s) 343
Cac8I GCNNGC 1 cut(s) 81
Csp6I GTAC 1 cut(s) 357
CviAII CATG 4 cut(s) 32, 80, 203, 231
CviJI RGCY 2 cut(s) 263, 322
CviKI_1 RGCY 2 cut(s) 263, 322
CviQI GTAC 1 cut(s) 357
DdeI CTNAG 1 cut(s) 360
DpnI GATC 2 cut(s) 345, 375
DpnII GATC 2 cut(s) 343, 373
Eco57I CTGAAG 2 cut(s) 249, 308
EcoT22I ATGCAT 2 cut(s) 81, 204
FaeI CATG 4 cut(s) 35, 83, 206, 234
FatI CATG 4 cut(s) 31, 79, 202, 230
FbaI TGATCA 1 cut(s) 373
Fnu4HI GCNGC 1 cut(s) 44
Fsp4HI GCNGC 1 cut(s) 44
GluI GCNGC 1 cut(s) 44
Hin1II CATG 4 cut(s) 35, 83, 206, 234
HincII GTYRAC 1 cut(s) 225
HindII GTYRAC 1 cut(s) 225
HinfI GANTC 1 cut(s) 239
Hpy166II GTNNAC 3 cut(s) 155, 225, 366
Hpy188I TCNGA 3 cut(s) 238, 327, 378
Hpy188III TCNNGA 1 cut(s) 97
Hpy8I GTNNAC 3 cut(s) 155, 225, 366
HpyAV CCTTC 3 cut(s) 253, 266, 357
HpyCH4IV ACGT 1 cut(s) 151
HpyCH4V TGCA 3 cut(s) 79, 83, 202
HpyF10VI GCNNNNNNNGC 1 cut(s) 208
HpyF3I CTNAG 1 cut(s) 360
HpySE526I ACGT 1 cut(s) 151
Hsp92II CATG 4 cut(s) 35, 83, 206, 234
Ksp22I TGATCA 1 cut(s) 373
Kzo9I GATC 2 cut(s) 343, 373
LmnI GCTCC 3 cut(s) 51, 126, 131
LpnPI CCDG 2 cut(s) 129, 143
Lsp1109I GCAGC 1 cut(s) 30
LweI GCATC 1 cut(s) 321
MaeII ACGT 1 cut(s) 151
MalI GATC 2 cut(s) 345, 375
MbiI CCGCTC 1 cut(s) 129
MboI GATC 2 cut(s) 343, 373
MboII GAAGA 1 cut(s) 234
MflI RGATCY 1 cut(s) 343
MluCI AATT 4 cut(s) 10, 92, 185, 401
MnlI CCTC 1 cut(s) 292
Mph1103I ATGCAT 2 cut(s) 81, 204
MslI CAYNNNNRTG 1 cut(s) 121
MwoI GCNNNNNNNGC 1 cut(s) 208
NdeII GATC 2 cut(s) 343, 373
NlaIII CATG 4 cut(s) 35, 83, 206, 234
NsiI ATGCAT 2 cut(s) 81, 204
NspI RCATGY 2 cut(s) 83, 234
OliI CACNNNNGTG 1 cut(s) 121
PaeI GCATGC 1 cut(s) 83
PfeI GAWTC 1 cut(s) 239
PkrI GCNGC 1 cut(s) 45
PshAI GACNNNNGTC 1 cut(s) 287
PsiI TTATAA 1 cut(s) 395
PsuI RGATCY 1 cut(s) 343
RsaI GTAC 1 cut(s) 358
RsaNI GTAC 1 cut(s) 357
RseI CAYNNNNRTG 1 cut(s) 121
SatI GCNGC 1 cut(s) 44
Sau3AI GATC 2 cut(s) 343, 373
SetI ASST 4 cut(s) 154, 162, 277, 303
SfaNI GCATC 1 cut(s) 321
SmiMI CAYNNNNRTG 1 cut(s) 121
SmlI CTYRAG 1 cut(s) 119
SmoI CTYRAG 1 cut(s) 119
SphI GCATGC 1 cut(s) 83
Sse9I AATT 4 cut(s) 10, 92, 185, 401
SsiI CCGC 1 cut(s) 129
TaiI ACGT 1 cut(s) 154
TaqI TCGA 1 cut(s) 350
TasI AATT 4 cut(s) 10, 92, 185, 401
TatI WGTACW 1 cut(s) 356
TfiI GAWTC 1 cut(s) 239
TseI GCWGC 1 cut(s) 43
TspDTI ATGAA 1 cut(s) 300
TspGWI ACGGA 1 cut(s) 77
XapI RAATTY 3 cut(s) 10, 92, 185
XceI RCATGY 2 cut(s) 83, 234
Zsp2I ATGCAT 2 cut(s) 81, 204
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.