pycom10g04420

DNA-directed RNA polymerases I, II, and III subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
pyrus_communis
Chr10
OG0015909
Physical Location & Seq
Forward (+)
4640238 .. 4641697
1460 bp
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UTR
Exon/CDS
Intron
N/A

Sequence Viewer

Length: 261 bp
ATGAGCAGTAACCTCGGTTATGTTAAGGGTATTTGGCAAATCAAGATGATCATCCCAGTGCGCTGTTTCACCTGCGGCAAGGTTATCGGAAACAAGTGGGATACGTATCTCGACCTGCTGCAGGCCGATTACACTGAAGGAGACGCACTAGATGCATTGGGTCTGGTCCGCTACTGCTGCCGGCGTATGCTTATGACTCACGTTGATCTTATCGAGAAGCTTCTCAACTACAATACTTTAGAGAAGTCTGACGCCAGTTGA
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_N

Protein Analysis

87

Amino Acids

9.84

Weight (kDa)

6.53

Isoelectric Point (pI)

27.58

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RNA_pol_N PF01194 17 - 74 5.8e-32 RNA polymerases N / 8 kDa subunit
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: OG0015909)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G11475
fragaria_vesca FvH4_4g32930 FvH4_4g32930
malus_domestica MD05G1050000.v1.1 MD10G1057300.v1.1
prunus_persica Prupe.1G250300_v2.0.a1 Prupe.1G250300_v2.0.a1
pyrus_communis pycom05g04190 pycom10g04420
rosa_chinensis RchiOBHm_Chr5g0051151
rosa_multiflora Rmu_sc0000446.1_g000014
rosa_roxburghii Rroxscaffold_1G00029300
rosa_rugosa Rorug05G0266000
rosa_wichuraiana Rw0G023650 Rw5G031960

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AarI CACCTGC 1 cut(s) 80
Acc36I ACCTGC 2 cut(s) 80, 123
AciI CCGC 2 cut(s) 75, 169
AcuI CTGAAG 1 cut(s) 156
AcyI GRCGYC 1 cut(s) 252
AfiI CCNNNNNNNGG 1 cut(s) 121
AluBI AGCT 1 cut(s) 220
AluI AGCT 1 cut(s) 220
Alw26I GTCTC 1 cut(s) 135
AoxI GGCC 1 cut(s) 123
ApeKI GCWGC 2 cut(s) 118, 177
AspLEI GCGC 1 cut(s) 63
AspS9I GGNCC 1 cut(s) 166
AsuHPI GGTGA 1 cut(s) 61
AvaII GGWCC 1 cut(s) 166
BbvI GCAGC 2 cut(s) 105, 164
BcgI CGANNNNNNTGC 3 cut(s) 29, 67, 101
BciVI GTATCC 1 cut(s) 94
BclI TGATCA 1 cut(s) 48
BcoDI GTCTC 1 cut(s) 135
BfaI CTAG 1 cut(s) 149
BfmI CTRYAG 1 cut(s) 119
BfuAI ACCTGC 2 cut(s) 80, 123
BfuI GTATCC 1 cut(s) 94
BisI GCNGC 3 cut(s) 76, 119, 178
BlsI GCNGC 3 cut(s) 77, 120, 179
Bme18I GGWCC 1 cut(s) 166
BmgT120I GGNCC 1 cut(s) 166
BmrI ACTGGG 1 cut(s) 50
BmsI GCATC 1 cut(s) 142
BmuI ACTGGG 1 cut(s) 50
BsaAI YACGTR 1 cut(s) 105
BsaBI GATNNNNATC 2 cut(s) 50, 105
BsaHI GRCGYC 1 cut(s) 252
BsaJI CCNNGG 1 cut(s) 13
Bsc4I CCNNNNNNNGG 1 cut(s) 121
Bse118I RCCGGY 1 cut(s) 180
Bse1I ACTGG 2 cut(s) 56, 255
Bse8I GATNNNNATC 2 cut(s) 50, 105
BseDI CCNNGG 1 cut(s) 13
BseGI GGATG 1 cut(s) 51
BseJI GATNNNNATC 2 cut(s) 50, 105
BseLI CCNNNNNNNGG 1 cut(s) 121
BseNI ACTGG 2 cut(s) 56, 255
BseXI GCAGC 2 cut(s) 105, 164
BshFI GGCC 1 cut(s) 125
BsiSI CCGG 1 cut(s) 181
BslI CCNNNNNNNGG 1 cut(s) 121
BsmAI GTCTC 1 cut(s) 135
BsmBI CGTCTC 1 cut(s) 135
BsnI GGCC 1 cut(s) 125
Bsp143I GATC 2 cut(s) 48, 205
BspACI CCGC 2 cut(s) 75, 169
BspANI GGCC 1 cut(s) 125
BspMAI CTGCAG 1 cut(s) 123
BspMI ACCTGC 2 cut(s) 80, 123
BsrFI RCCGGY 1 cut(s) 180
BsrI ACTGG 2 cut(s) 56, 255
BssAI RCCGGY 1 cut(s) 180
BssECI CCNNGG 1 cut(s) 13
BssMI GATC 2 cut(s) 48, 205
BssNI GRCGYC 1 cut(s) 252
BstACI GRCGYC 1 cut(s) 252
BstAPI GCANNNNNTGC 1 cut(s) 152
BstBAI YACGTR 1 cut(s) 105
BstC8I GCNNGC 2 cut(s) 123, 182
BstENI CCTNNNNNAGG 1 cut(s) 119
BstF5I GGATG 1 cut(s) 51
BstHHI GCGC 1 cut(s) 63
BstKTI GATC 2 cut(s) 51, 208
BstMAI GTCTC 1 cut(s) 135
BstMBI GATC 2 cut(s) 48, 205
BstMWI GCNNNNNNNGC 2 cut(s) 152, 177
BstSFI CTRYAG 1 cut(s) 119
BstSNI TACGTA 1 cut(s) 105
BstV1I GCAGC 2 cut(s) 105, 164
BsuI GTATCC 1 cut(s) 94
BsuRI GGCC 1 cut(s) 125
BtsCI GGATG 1 cut(s) 51
BtsIMutI CAGTG 2 cut(s) 63, 132
BveI ACCTGC 2 cut(s) 80, 123
Cac8I GCNNGC 2 cut(s) 123, 182
CfoI GCGC 1 cut(s) 63
Cfr10I RCCGGY 1 cut(s) 180
Cfr13I GGNCC 1 cut(s) 166
CseI GACGC 1 cut(s) 152
CviJI RGCY 2 cut(s) 125, 220
CviKI_1 RGCY 2 cut(s) 125, 220
DpnI GATC 2 cut(s) 50, 207
DpnII GATC 2 cut(s) 48, 205
Eco105I TACGTA 1 cut(s) 105
Eco47I GGWCC 1 cut(s) 166
Eco57I CTGAAG 1 cut(s) 156
EcoNI CCTNNNNNAGG 1 cut(s) 119
EcoT22I ATGCAT 1 cut(s) 157
Esp3I CGTCTC 1 cut(s) 135
FaiI YATR 3 cut(s) 21, 188, 194
FbaI TGATCA 1 cut(s) 48
Fnu4HI GCNGC 3 cut(s) 76, 119, 178
FokI GGATG 1 cut(s) 38
Fsp4HI GCNGC 3 cut(s) 76, 119, 178
FspBI CTAG 1 cut(s) 149
GlaI GCGC 1 cut(s) 62
GluI GCNGC 3 cut(s) 76, 119, 178
HaeIII GGCC 1 cut(s) 125
HapII CCGG 1 cut(s) 181
HgaI GACGC 1 cut(s) 152
HhaI GCGC 1 cut(s) 63
Hin1I GRCGYC 1 cut(s) 252
Hin6I GCGC 1 cut(s) 61
HinP1I GCGC 1 cut(s) 61
HindIII AAGCTT 1 cut(s) 218
HinfI GANTC 1 cut(s) 196
HpaII CCGG 1 cut(s) 181
HphI GGTGA 1 cut(s) 61
Hpy188I TCNGA 2 cut(s) 89, 250
Hpy188III TCNNGA 3 cut(s) 43, 110, 214
HpyAV CCTTC 1 cut(s) 131
HpyCH4IV ACGT 2 cut(s) 104, 201
HpyCH4V TGCA 2 cut(s) 121, 155
HpyF10VI GCNNNNNNNGC 2 cut(s) 152, 177
HpySE526I ACGT 2 cut(s) 104, 201
Hsp92I GRCGYC 1 cut(s) 252
HspAI GCGC 1 cut(s) 61
KroI GCCGGC 1 cut(s) 180
KroNI GCCGGC 1 cut(s) 182
Ksp22I TGATCA 1 cut(s) 48
Kzo9I GATC 2 cut(s) 48, 205
LpnPI CCDG 6 cut(s) 69, 85, 107, 128, 149, 194
Lsp1109I GCAGC 2 cut(s) 105, 164
LweI GCATC 1 cut(s) 142
MaeI CTAG 1 cut(s) 149
MaeII ACGT 2 cut(s) 104, 201
MaeIII GTNAC 1 cut(s) 8
MalI GATC 2 cut(s) 50, 207
MboI GATC 2 cut(s) 48, 205
MlyI GAGTC 1 cut(s) 190
MnlI CCTC 1 cut(s) 23
Mph1103I ATGCAT 1 cut(s) 157
MroNI GCCGGC 1 cut(s) 180
MseI TTAA 1 cut(s) 24
MslI CAYNNNNRTG 1 cut(s) 56
MspI CCGG 1 cut(s) 181
MwoI GCNNNNNNNGC 2 cut(s) 152, 177
NaeI GCCGGC 1 cut(s) 182
NdeII GATC 2 cut(s) 48, 205
NgoMIV GCCGGC 1 cut(s) 180
NsiI ATGCAT 1 cut(s) 157
PaqCI CACCTGC 1 cut(s) 80
PdiI GCCGGC 1 cut(s) 182
PkrI GCNGC 3 cut(s) 77, 120, 179
PleI GAGTC 1 cut(s) 190
PpsI GAGTC 1 cut(s) 190
Ppu21I YACGTR 1 cut(s) 105
PspPI GGNCC 1 cut(s) 166
PstI CTGCAG 1 cut(s) 123
RseI CAYNNNNRTG 1 cut(s) 56
SaqAI TTAA 1 cut(s) 24
SatI GCNGC 3 cut(s) 76, 119, 178
Sau3AI GATC 2 cut(s) 48, 205
Sau96I GGNCC 1 cut(s) 166
SchI GAGTC 1 cut(s) 190
SetI ASST 7 cut(s) 15, 74, 84, 107, 117, 204, 222
SfaNI GCATC 1 cut(s) 142
SfcI CTRYAG 1 cut(s) 119
SinI GGWCC 1 cut(s) 166
SmiMI CAYNNNNRTG 1 cut(s) 56
SnaBI TACGTA 1 cut(s) 105
SsiI CCGC 2 cut(s) 75, 169
SspMI CTAG 1 cut(s) 149
TaiI ACGT 2 cut(s) 107, 204
TaqI TCGA 2 cut(s) 111, 213
TauI GCSGC 1 cut(s) 78
Tru1I TTAA 1 cut(s) 24
Tru9I TTAA 1 cut(s) 24
TscAI CASTG 2 cut(s) 63, 139
TseI GCWGC 2 cut(s) 118, 177
TspRI CASTG 2 cut(s) 63, 139
VpaK11BI GGWCC 1 cut(s) 166
XagI CCTNNNNNAGG 1 cut(s) 119
XspI CTAG 1 cut(s) 149
Zsp2I ATGCAT 1 cut(s) 157
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.