pycom10g29050

DNA-directed RNA polymerases IV and V subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
pyrus_communis
Chr10
OG0005178
Physical Location & Seq
Forward (+)
29473315 .. 29476059
2745 bp
Loading structure...
UTR
Exon/CDS
Intron
N/A

Sequence Viewer

Length: 675 bp
ATGTGGTCAGTGGTGGTGATGTCGGAGAAAGGAGGAAAGGGGTTTTCTTTGCCTAAATCTTCGCTGAAATCTACCCCTCCTACCACAAAGGATGGTAAGGATGATAGCTCAACAAAGTCCAAGAAGGGAAGACGAGTTCAGTTCGATTCTGAAGGTTCCCGGGAACCCAAATCACACTTTTCGTCAAAATTTGATAGCCGATCTGCTGCTTCAGGGAAAGCTGATTGGGGCAAAGGGGGGAAAGGAGACACCATCGGAAATGGTAGAAAGAAAGAACCACAGCCACTGGAGCTCAAAATTGAGCAGGAACTTCCAAAGAGTGCCAAATGTATGATGGATTGTGAGGCTGCCGATATATTACAAGGCATCCAGGAGCAGATGGTCATGTTGTCAAAAGATCCTACTATTAAAATCCCTGTATCATTCGACAAGGGACTGCAGTACGCAAACAGCTCCAGCCGTTATATTCATCCCCAGTCTGCGAGACACATTCTTGAGACACTAAAAAAATATGGTGTCAAAGATGGCGAGATATGTGTGATTGCCAATGTTTGTCCAGAAACCACAGATGAAGTTTTTGCTTTAGTACCATCCTTGAAGGCTAAAAGAAGCACGCTCAGCCAACCACTCAAAGATGTTTTAAGTGAGCTGACGAGGTTTAAAAAGGCAACATAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko00230 ko00240 ko01100 ko03020 ko05016 ko05169 map00230 map00240 map01100 map03020 map05016 map05169
Pfam Domains
Protein Families
RNA_pol_Rpb4

Protein Analysis

225

Amino Acids

24.55

Weight (kDa)

9.43

Isoelectric Point (pI)

51.58

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RNA_pol_Rpb4 PF03874 110 - 217 2.2e-12 RNA polymerase Rpb4
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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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AclWI GGATC 1 cut(s) 392
AcsI RAATTY 1 cut(s) 188
AcuI CTGAAG 2 cut(s) 171, 195
AfaI GTAC 2 cut(s) 443, 588
AgsI TTSAA 1 cut(s) 598
AjnI CCWGG 1 cut(s) 369
AloI GAACNNNNNNTCC 2 cut(s) 120, 152
AluBI AGCT 5 cut(s) 108, 221, 292, 453, 649
AluI AGCT 5 cut(s) 108, 221, 292, 453, 649
Alw21I GWGCWC 1 cut(s) 294
Alw26I GTCTC 3 cut(s) 240, 478, 491
AlwI GGATC 1 cut(s) 392
AlwNI CAGNNNCTG 1 cut(s) 286
Ama87I CYCGRG 1 cut(s) 159
ApeKI GCWGC 2 cut(s) 206, 347
ApoI RAATTY 1 cut(s) 188
AsuC2I CCSGG 2 cut(s) 160, 161
AsuHPI GGTGA 1 cut(s) 28
AvaI CYCGRG 1 cut(s) 159
BanII GRGCYC 1 cut(s) 294
BbsI GAAGAC 1 cut(s) 136
Bbv12I GWGCWC 1 cut(s) 294
BbvI GCAGC 2 cut(s) 193, 334
BccI CCATC 6 cut(s) 86, 260, 328, 373, 518, 598
BceAI ACGGC 1 cut(s) 444
BciT130I CCWGG 1 cut(s) 371
BcnI CCSGG 2 cut(s) 160, 161
BcoDI GTCTC 3 cut(s) 240, 478, 491
BfmI CTRYAG 1 cut(s) 437
BisI GCNGC 2 cut(s) 207, 348
BlpI GCTNAGC 1 cut(s) 617
BlsI GCNGC 2 cut(s) 208, 349
Bme1390I CCNGG 3 cut(s) 160, 161, 371
BmeT110I CYCGRG 1 cut(s) 159
BmiI GGNNCC 2 cut(s) 157, 165
BmrFI CCNGG 3 cut(s) 160, 161, 371
BmrI ACTGGG 1 cut(s) 469
BmsI GCATC 1 cut(s) 375
BmuI ACTGGG 1 cut(s) 469
BpiI GAAGAC 1 cut(s) 136
BpmI CTGGAG 2 cut(s) 308, 439
Bpu1102I GCTNAGC 1 cut(s) 617
BpuEI CTTGAG 1 cut(s) 515
BpuMI CCSGG 2 cut(s) 160, 161
BsaJI CCNNGG 1 cut(s) 159
Bse1I ACTGG 2 cut(s) 291, 475
BseBI CCWGG 1 cut(s) 371
BseDI CCNNGG 1 cut(s) 159
BseGI GGATG 5 cut(s) 97, 106, 366, 469, 590
BseMII CTCAG 1 cut(s) 631
BseNI ACTGG 2 cut(s) 291, 475
BseXI GCAGC 2 cut(s) 193, 334
BsiHKAI GWGCWC 1 cut(s) 294
BsiHKCI CYCGRG 1 cut(s) 159
BsiSI CCGG 1 cut(s) 160
BslFI GGGAC 1 cut(s) 447
BsmAI GTCTC 3 cut(s) 240, 478, 491
BsmFI GGGAC 1 cut(s) 447
BsoBI CYCGRG 1 cut(s) 159
Bsp1286I GDGCHC 1 cut(s) 294
Bsp143I GATC 2 cut(s) 200, 397
Bsp1720I GCTNAGC 1 cut(s) 617
BspCNI CTCAG 1 cut(s) 630
BspLI GGNNCC 2 cut(s) 157, 165
BspMAI CTGCAG 1 cut(s) 441
BspPI GGATC 1 cut(s) 392
BsrI ACTGG 2 cut(s) 291, 475
BssECI CCNNGG 1 cut(s) 159
BssMI GATC 2 cut(s) 200, 397
Bst2UI CCWGG 1 cut(s) 371
BstC8I GCNNGC 1 cut(s) 614
BstDEI CTNAG 1 cut(s) 617
BstF5I GGATG 5 cut(s) 97, 106, 366, 469, 590
BstKTI GATC 2 cut(s) 203, 400
BstMAI GTCTC 3 cut(s) 240, 478, 491
BstMBI GATC 2 cut(s) 200, 397
BstMWI GCNNNNNNNGC 2 cut(s) 289, 618
BstNI CCWGG 1 cut(s) 371
BstSCI CCNGG 3 cut(s) 158, 159, 369
BstSFI CTRYAG 1 cut(s) 437
BstV1I GCAGC 2 cut(s) 193, 334
BstV2I GAAGAC 1 cut(s) 136
BstX2I RGATCY 1 cut(s) 397
BstYI RGATCY 1 cut(s) 397
BtsCI GGATG 5 cut(s) 97, 106, 366, 469, 590
BtsIMutI CAGTG 2 cut(s) 15, 284
Cac8I GCNNGC 1 cut(s) 614
CaiI CAGNNNCTG 1 cut(s) 286
Cfr9I CCCGGG 1 cut(s) 159
Csp6I GTAC 2 cut(s) 442, 587
CviAII CATG 1 cut(s) 385
CviQI GTAC 2 cut(s) 442, 587
DdeI CTNAG 1 cut(s) 617
DpnI GATC 2 cut(s) 202, 399
DpnII GATC 2 cut(s) 200, 397
DraI TTTAAA 1 cut(s) 661
Ecl136II GAGCTC 1 cut(s) 292
Eco24I GRGCYC 1 cut(s) 294
Eco53kI GAGCTC 1 cut(s) 292
Eco57I CTGAAG 2 cut(s) 171, 195
Eco88I CYCGRG 1 cut(s) 159
EcoICRI GAGCTC 1 cut(s) 292
EcoRII CCWGG 1 cut(s) 369
EcoT38I GRGCYC 1 cut(s) 294
FaeI CATG 1 cut(s) 388
FaiI YATR 7 cut(s) 332, 356, 386, 465, 513, 535, 673
FaqI GGGAC 1 cut(s) 447
FatI CATG 1 cut(s) 384
Fnu4HI GCNGC 2 cut(s) 207, 348
FokI GGATG 5 cut(s) 104, 113, 353, 456, 577
FriOI GRGCYC 1 cut(s) 294
Fsp4HI GCNGC 2 cut(s) 207, 348
GluI GCNGC 2 cut(s) 207, 348
GsuI CTGGAG 2 cut(s) 308, 439
HapII CCGG 1 cut(s) 160
Hin1II CATG 1 cut(s) 388
HinfI GANTC 1 cut(s) 146
HpaII CCGG 1 cut(s) 160
HphI GGTGA 1 cut(s) 28
Hpy188I TCNGA 3 cut(s) 25, 151, 257
Hpy188III TCNNGA 2 cut(s) 494, 557
HpyAV CCTTC 3 cut(s) 118, 146, 592
HpyCH4V TGCA 1 cut(s) 439
HpyF10VI GCNNNNNNNGC 2 cut(s) 289, 618
HpyF3I CTNAG 1 cut(s) 617
Hsp92II CATG 1 cut(s) 388
Kzo9I GATC 2 cut(s) 200, 397
LmnI GCTCC 3 cut(s) 289, 373, 458
Lsp1109I GCAGC 2 cut(s) 193, 334
LweI GCATC 1 cut(s) 375
MalI GATC 2 cut(s) 202, 399
MboI GATC 2 cut(s) 200, 397
MboII GAAGA 2 cut(s) 51, 141
MflI RGATCY 1 cut(s) 397
MhlI GDGCHC 1 cut(s) 294
MluCI AATT 2 cut(s) 188, 297
MnlI CCTC 4 cut(s) 26, 87, 337, 648
MseI TTAA 3 cut(s) 408, 641, 660
MspI CCGG 1 cut(s) 160
MspR9I CCNGG 3 cut(s) 160, 161, 371
MvaI CCWGG 1 cut(s) 371
MwoI GCNNNNNNNGC 2 cut(s) 289, 618
NciI CCSGG 2 cut(s) 160, 161
NdeII GATC 2 cut(s) 200, 397
NlaIII CATG 1 cut(s) 388
NlaIV GGNNCC 2 cut(s) 157, 165
PfeI GAWTC 1 cut(s) 146
PfoI TCCNGGA 1 cut(s) 369
PkrI GCNGC 2 cut(s) 208, 349
Psp124BI GAGCTC 1 cut(s) 294
Psp6I CCWGG 1 cut(s) 369
PspGI CCWGG 1 cut(s) 369
PspN4I GGNNCC 2 cut(s) 157, 165
PstI CTGCAG 1 cut(s) 441
PstNI CAGNNNCTG 1 cut(s) 286
PsuI RGATCY 1 cut(s) 397
RsaI GTAC 2 cut(s) 443, 588
RsaNI GTAC 2 cut(s) 442, 587
SacI GAGCTC 1 cut(s) 294
SaqAI TTAA 3 cut(s) 408, 641, 660
SatI GCNGC 2 cut(s) 207, 348
Sau3AI GATC 2 cut(s) 200, 397
ScrFI CCNGG 3 cut(s) 160, 161, 371
SduI GDGCHC 1 cut(s) 294
SetI ASST 7 cut(s) 110, 157, 223, 294, 455, 651, 659
SfaNI GCATC 1 cut(s) 375
SfcI CTRYAG 1 cut(s) 437
SmaI CCCGGG 1 cut(s) 161
SmlI CTYRAG 1 cut(s) 494
SmoI CTYRAG 1 cut(s) 494
Sse9I AATT 2 cut(s) 188, 297
SstI GAGCTC 1 cut(s) 294
StyD4I CCNGG 3 cut(s) 158, 159, 369
TaqI TCGA 2 cut(s) 144, 426
TasI AATT 2 cut(s) 188, 297
TfiI GAWTC 1 cut(s) 146
Tru1I TTAA 3 cut(s) 408, 641, 660
Tru9I TTAA 3 cut(s) 408, 641, 660
TscAI CASTG 2 cut(s) 15, 291
TseI GCWGC 2 cut(s) 206, 347
TspDTI ATGAA 2 cut(s) 458, 585
TspMI CCCGGG 1 cut(s) 159
TspRI CASTG 2 cut(s) 15, 291
XapI RAATTY 1 cut(s) 188
XcmI CCANNNNNNNNNTGG 1 cut(s) 331
XmaI CCCGGG 1 cut(s) 159
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.