MD14G1240400.v1.1

DNA-directed RNA-polymerase II subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr14
OG0002628
Physical Location & Seq
Forward (+)
31929234 .. 31930937
1704 bp
Loading structure...
UTR
Exon/CDS
Intron
MD14G1240400.v1.1.491

Sequence Viewer

Length: 435 bp
ATGCTAAGAGCAGAAGATGAGGACGCTTCAGAACTCAAACTTGGAGACGATTTTTTGAAGGCGAAGTGTCTGATGAATAGTGAGGTTGCCATTCTTCTTGAGCACAGATGTGATCAGATGAAGCATATGTCCGGCGAATCAATGCACCAACTTCCCCAAGTGCTGGAGAAATCACTGCAGTATGTTAAGCGCTTCAGTCGCTTCACGAATCAGGGCTCTGTGAAGCAAGTTCGAGAGTATCCTTCATTGATGATAGTTCTCAGTAGATACCAGTTGGCTGAATTCGAGCTTGCTGTGATTGGAAATCTTTGTCCTGAAACTGTGGAGGAAGCCAAGGCAGTTGTGCCTTCCCTCAAGACGAAAGGACGTGGGCACGATGATGAAGCCATTGAGAGACTGTTGAATGACCTAATGATGATTAAAAAGTTTGAGTGA
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

145

Amino Acids

16.53

Weight (kDa)

5.64

Isoelectric Point (pI)

42.11

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RNA_pol_Rpb4 PF03874 23 - 137 4.5e-23 RNA polymerase Rpb4
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Publication-ready
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB7I CCANNNNNTGG 1 cut(s) 163
AcsI RAATTY 1 cut(s) 281
AcuI CTGAAG 2 cut(s) 12, 178
AfeI AGCGCT 1 cut(s) 191
AfiI CCNNNNNNNGG 1 cut(s) 163
AgsI TTSAA 2 cut(s) 58, 403
AjiI CACGTC 1 cut(s) 368
AjuI GAANNNNNNNTTGG 2 cut(s) 24, 56
AleI CACNNNNGTG 1 cut(s) 108
AluBI AGCT 1 cut(s) 289
AluI AGCT 1 cut(s) 289
Alw21I GWGCWC 1 cut(s) 105
Alw26I GTCTC 2 cut(s) 39, 388
Aor51HI AGCGCT 1 cut(s) 191
ApoI RAATTY 1 cut(s) 281
AspLEI GCGC 1 cut(s) 192
BaeGI GKGCMC 1 cut(s) 375
BanII GRGCYC 1 cut(s) 218
Bbv12I GWGCWC 1 cut(s) 105
BciVI GTATCC 1 cut(s) 249
BclI TGATCA 1 cut(s) 112
BcoDI GTCTC 2 cut(s) 39, 388
BfmI CTRYAG 1 cut(s) 176
BfoI RGCGCY 1 cut(s) 193
BfuI GTATCC 1 cut(s) 249
BmgBI CACGTC 1 cut(s) 368
BpmI CTGGAG 1 cut(s) 185
BpuEI CTTGAG 2 cut(s) 119, 338
BsaJI CCNNGG 1 cut(s) 333
Bsc4I CCNNNNNNNGG 1 cut(s) 163
Bse1I ACTGG 1 cut(s) 271
BseDI CCNNGG 1 cut(s) 333
BseLI CCNNNNNNNGG 1 cut(s) 163
BseMII CTCAG 1 cut(s) 274
BseNI ACTGG 1 cut(s) 271
BseSI GKGCMC 1 cut(s) 375
BsiHKAI GWGCWC 1 cut(s) 105
BsiSI CCGG 1 cut(s) 132
BslI CCNNNNNNNGG 1 cut(s) 163
BsmAI GTCTC 2 cut(s) 39, 388
BsmBI CGTCTC 1 cut(s) 39
Bsp1286I GDGCHC 3 cut(s) 105, 218, 375
Bsp143I GATC 1 cut(s) 112
BspCNI CTCAG 1 cut(s) 273
BspMAI CTGCAG 1 cut(s) 180
BsrI ACTGG 1 cut(s) 271
BssECI CCNNGG 1 cut(s) 333
BssMI GATC 1 cut(s) 112
BssT1I CCWWGG 1 cut(s) 333
Bst4CI ACNGT 2 cut(s) 322, 399
BstC8I GCNNGC 1 cut(s) 291
BstDEI CTNAG 2 cut(s) 5, 260
BstH2I RGCGCY 1 cut(s) 193
BstHHI GCGC 1 cut(s) 192
BstKTI GATC 1 cut(s) 115
BstMAI GTCTC 2 cut(s) 39, 388
BstMBI GATC 1 cut(s) 112
BstMWI GCNNNNNNNGC 1 cut(s) 198
BstSFI CTRYAG 1 cut(s) 176
BstSLI GKGCMC 1 cut(s) 375
BsuI GTATCC 1 cut(s) 249
BtrI CACGTC 1 cut(s) 368
BtsI GCAGTG 1 cut(s) 173
BtsIMutI CAGTG 1 cut(s) 173
Cac8I GCNNGC 1 cut(s) 291
CfoI GCGC 1 cut(s) 192
CseI GACGC 1 cut(s) 32
CviJI RGCY 5 cut(s) 216, 278, 289, 332, 386
CviKI_1 RGCY 5 cut(s) 216, 278, 289, 332, 386
DdeI CTNAG 2 cut(s) 5, 260
DpnI GATC 1 cut(s) 114
DpnII GATC 1 cut(s) 112
Eco130I CCWWGG 1 cut(s) 333
Eco24I GRGCYC 1 cut(s) 218
Eco47III AGCGCT 1 cut(s) 191
Eco57I CTGAAG 2 cut(s) 12, 178
EcoRI GAATTC 1 cut(s) 281
EcoT14I CCWWGG 1 cut(s) 333
EcoT38I GRGCYC 1 cut(s) 218
ErhI CCWWGG 1 cut(s) 333
Esp3I CGTCTC 1 cut(s) 39
FaiI YATR 3 cut(s) 126, 128, 183
FauNDI CATATG 1 cut(s) 126
FbaI TGATCA 1 cut(s) 112
FriOI GRGCYC 1 cut(s) 218
GlaI GCGC 1 cut(s) 191
GsuI CTGGAG 1 cut(s) 185
HaeII RGCGCY 1 cut(s) 193
HapII CCGG 1 cut(s) 132
HgaI GACGC 1 cut(s) 32
HhaI GCGC 1 cut(s) 192
Hin6I GCGC 1 cut(s) 190
HinP1I GCGC 1 cut(s) 190
HinfI GANTC 2 cut(s) 137, 208
HpaII CCGG 1 cut(s) 132
Hpy188I TCNGA 3 cut(s) 31, 72, 117
Hpy188III TCNNGA 5 cut(s) 98, 205, 233, 314, 355
HpyAV CCTTC 3 cut(s) 52, 252, 357
HpyCH4III ACNGT 2 cut(s) 322, 399
HpyCH4IV ACGT 1 cut(s) 367
HpyCH4V TGCA 2 cut(s) 145, 178
HpyF10VI GCNNNNNNNGC 1 cut(s) 198
HpyF3I CTNAG 2 cut(s) 5, 260
HpySE526I ACGT 1 cut(s) 367
HspAI GCGC 1 cut(s) 190
Ksp22I TGATCA 1 cut(s) 112
Kzo9I GATC 1 cut(s) 112
LpnPI CCDG 5 cut(s) 145, 149, 197, 284, 327
MaeII ACGT 1 cut(s) 367
MalI GATC 1 cut(s) 114
MboI GATC 1 cut(s) 112
MboII GAAGA 2 cut(s) 26, 86
MhlI GDGCHC 3 cut(s) 105, 218, 375
MluCI AATT 1 cut(s) 281
MnlI CCTC 4 cut(s) 13, 76, 319, 362
MseI TTAA 2 cut(s) 186, 420
MslI CAYNNNNRTG 2 cut(s) 108, 378
MspI CCGG 1 cut(s) 132
MwoI GCNNNNNNNGC 1 cut(s) 198
NdeI CATATG 1 cut(s) 126
NdeII GATC 1 cut(s) 112
OliI CACNNNNGTG 1 cut(s) 108
PfeI GAWTC 2 cut(s) 137, 208
PflMI CCANNNNNTGG 1 cut(s) 163
PstI CTGCAG 1 cut(s) 180
RseI CAYNNNNRTG 2 cut(s) 108, 378
SaqAI TTAA 2 cut(s) 186, 420
Sau3AI GATC 1 cut(s) 112
SduI GDGCHC 3 cut(s) 105, 218, 375
SetI ASST 4 cut(s) 87, 291, 370, 411
SfcI CTRYAG 1 cut(s) 176
SmiMI CAYNNNNRTG 2 cut(s) 108, 378
SmlI CTYRAG 2 cut(s) 98, 353
SmoI CTYRAG 2 cut(s) 98, 353
Sse9I AATT 1 cut(s) 281
StyI CCWWGG 1 cut(s) 333
TaaI ACNGT 2 cut(s) 322, 399
TaiI ACGT 1 cut(s) 370
TaqI TCGA 2 cut(s) 232, 285
TasI AATT 1 cut(s) 281
TfiI GAWTC 2 cut(s) 137, 208
Tru1I TTAA 2 cut(s) 186, 420
Tru9I TTAA 2 cut(s) 186, 420
TscAI CASTG 1 cut(s) 180
TspDTI ATGAA 4 cut(s) 89, 134, 234, 396
TspRI CASTG 1 cut(s) 180
Van91I CCANNNNNTGG 1 cut(s) 163
XapI RAATTY 1 cut(s) 281
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.