MD15G1329500.v1.1

DNA-directed RNA polymerases

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr15
OG0015704
Physical Location & Seq
Forward (+)
36288756 .. 36291364
2609 bp
Loading structure...
UTR
Exon/CDS
Intron
MD15G1329500.v1.1.491

Sequence Viewer

Length: 483 bp
ATGGTTGATTTCCTGTTTGATGATATATTTAGCATTGAGAAAGTGGACCCAGATGGCAAAAAATTTGACAAAGTTTCCCGGATTGTAGCACAGAGTGAGAAGCATGATGTGTTGCTGCTCCTAGATGTGAATACGGAAATATATCCTATGCATGTAAAGGAGAAGTTCTTGATGGTGCTGTCTCCCACACTTGAGTGGAGCGGAGCACCTGTTACTGGAAAACGTGGACAGGTTGAGCAGAAATCTCTTGCTGACAAATTTGAATATATTATGCATGGATTGCTGTACAAAATGTCAACAGCAAGTTCAGAATCTTCAAAAGGAAAACCCAAGGCTTCAGATGAAGGTTCAAAGACTGAGGTCAAAGTGGAGGTATACGCTTCATTTGGTGGGCTTCAGATGATGCTGAAAGGAGATCCTTCGAGTTGTACTAAGTTTAAGATTGATCAGAACTTATTTTTGCTTATCAGGAAATTGATGTGA
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

161

Amino Acids

18.03

Weight (kDa)

6.84

Isoelectric Point (pI)

41.3

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RNA_pol_Rpb8 PF03870 7 - 158 5.8e-45 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)
AccBSI CCGCTC 1 cut(s) 201
AccI GTMKAC 1 cut(s) 375
AciI CCGC 1 cut(s) 201
AclWI GGATC 1 cut(s) 410
AcsI RAATTY 2 cut(s) 62, 257
AcuI CTGAAG 2 cut(s) 321, 380
AdeI CACNNNGTG 1 cut(s) 95
AfaI GTAC 2 cut(s) 287, 430
AfiI CCNNNNNNNGG 1 cut(s) 215
AgsI TTSAA 3 cut(s) 263, 318, 351
AleI CACNNNNGTG 1 cut(s) 193
Alw21I GWGCWC 1 cut(s) 208
Alw26I GTCTC 1 cut(s) 186
AlwI GGATC 1 cut(s) 410
ApeKI GCWGC 1 cut(s) 115
ApoI RAATTY 2 cut(s) 62, 257
AspS9I GGNCC 1 cut(s) 46
AsuC2I CCSGG 1 cut(s) 79
AvaII GGWCC 1 cut(s) 46
Bbv12I GWGCWC 1 cut(s) 208
BbvI GCAGC 1 cut(s) 102
BccI CCATC 2 cut(s) 47, 166
BclI TGATCA 1 cut(s) 445
BcnI CCSGG 1 cut(s) 79
BcoDI GTCTC 1 cut(s) 186
BfaI CTAG 1 cut(s) 122
BisI GCNGC 1 cut(s) 116
BlsI GCNGC 1 cut(s) 117
Bme1390I CCNGG 1 cut(s) 79
Bme18I GGWCC 1 cut(s) 46
BmgT120I GGNCC 1 cut(s) 46
BmiI GGNNCC 1 cut(s) 48
BmrFI CCNGG 1 cut(s) 79
BmsI GCATC 1 cut(s) 393
BoxI GACNNNNGTC 1 cut(s) 359
BpuEI CTTGAG 1 cut(s) 212
BpuMI CCSGG 1 cut(s) 79
BsaJI CCNNGG 1 cut(s) 330
BsaXI ACNNNNNCTCC 2 cut(s) 195, 225
Bsc4I CCNNNNNNNGG 1 cut(s) 215
Bse1I ACTGG 1 cut(s) 220
BseDI CCNNGG 1 cut(s) 330
BseLI CCNNNNNNNGG 1 cut(s) 215
BseMII CTCAG 1 cut(s) 348
BseNI ACTGG 1 cut(s) 220
BseXI GCAGC 1 cut(s) 102
BsiHKAI GWGCWC 1 cut(s) 208
BsiSI CCGG 1 cut(s) 79
BslI CCNNNNNNNGG 1 cut(s) 215
BsmAI GTCTC 1 cut(s) 186
Bsp1286I GDGCHC 1 cut(s) 208
Bsp1407I TGTACA 1 cut(s) 285
Bsp143I GATC 2 cut(s) 415, 445
BspACI CCGC 1 cut(s) 201
BspCNI CTCAG 1 cut(s) 349
BspLI GGNNCC 1 cut(s) 48
BspPI GGATC 1 cut(s) 410
BsrBI CCGCTC 1 cut(s) 201
BsrGI TGTACA 1 cut(s) 285
BsrI ACTGG 1 cut(s) 220
BssECI CCNNGG 1 cut(s) 330
BssMI GATC 2 cut(s) 415, 445
BssNAI GTATAC 1 cut(s) 376
BssT1I CCWWGG 1 cut(s) 330
Bst1107I GTATAC 1 cut(s) 376
BstAPI GCANNNNNTGC 1 cut(s) 280
BstAUI TGTACA 1 cut(s) 285
BstDEI CTNAG 2 cut(s) 357, 432
BstKTI GATC 2 cut(s) 418, 448
BstMAI GTCTC 1 cut(s) 186
BstMBI GATC 2 cut(s) 415, 445
BstMWI GCNNNNNNNGC 1 cut(s) 280
BstNSI RCATGY 1 cut(s) 155
BstPAI GACNNNNGTC 1 cut(s) 359
BstSCI CCNGG 1 cut(s) 77
BstV1I GCAGC 1 cut(s) 102
BstX2I RGATCY 1 cut(s) 415
BstYI RGATCY 1 cut(s) 415
BstZ17I GTATAC 1 cut(s) 376
Cfr13I GGNCC 1 cut(s) 46
Csp6I GTAC 2 cut(s) 286, 429
CviAII CATG 3 cut(s) 104, 152, 275
CviJI RGCY 2 cut(s) 335, 394
CviKI_1 RGCY 2 cut(s) 335, 394
CviQI GTAC 2 cut(s) 286, 429
DdeI CTNAG 2 cut(s) 357, 432
DpnI GATC 2 cut(s) 417, 447
DpnII GATC 2 cut(s) 415, 445
DraIII CACNNNGTG 1 cut(s) 95
Eco130I CCWWGG 1 cut(s) 330
Eco47I GGWCC 1 cut(s) 46
Eco57I CTGAAG 2 cut(s) 321, 380
EcoT14I CCWWGG 1 cut(s) 330
EcoT22I ATGCAT 2 cut(s) 153, 276
ErhI CCWWGG 1 cut(s) 330
FaeI CATG 3 cut(s) 107, 155, 278
FaiI YATR 9 cut(s) 26, 105, 142, 149, 153, 267, 272, 276, 376
FatI CATG 3 cut(s) 103, 151, 274
FbaI TGATCA 1 cut(s) 445
FblI GTMKAC 1 cut(s) 375
Fnu4HI GCNGC 1 cut(s) 116
Fsp4HI GCNGC 1 cut(s) 116
FspBI CTAG 1 cut(s) 122
GluI GCNGC 1 cut(s) 116
HapII CCGG 1 cut(s) 79
Hin1II CATG 3 cut(s) 107, 155, 278
HincII GTYRAC 1 cut(s) 297
HindII GTYRAC 1 cut(s) 297
HinfI GANTC 1 cut(s) 311
HpaII CCGG 1 cut(s) 79
Hpy166II GTNNAC 4 cut(s) 46, 227, 297, 376
Hpy188I TCNGA 4 cut(s) 310, 340, 399, 450
Hpy188III TCNNGA 2 cut(s) 169, 469
Hpy8I GTNNAC 4 cut(s) 46, 227, 297, 376
HpyAV CCTTC 2 cut(s) 338, 429
HpyCH4IV ACGT 1 cut(s) 223
HpyCH4V TGCA 2 cut(s) 151, 274
HpyF10VI GCNNNNNNNGC 1 cut(s) 280
HpyF3I CTNAG 2 cut(s) 357, 432
HpySE526I ACGT 1 cut(s) 223
Hsp92II CATG 3 cut(s) 107, 155, 278
Ksp22I TGATCA 1 cut(s) 445
Kzo9I GATC 2 cut(s) 415, 445
LmnI GCTCC 3 cut(s) 123, 198, 203
LpnPI CCDG 7 cut(s) 26, 63, 92, 201, 215, 222, 454
Lsp1109I GCAGC 1 cut(s) 102
LweI GCATC 1 cut(s) 393
MaeI CTAG 1 cut(s) 122
MaeII ACGT 1 cut(s) 223
MaeIII GTNAC 1 cut(s) 211
MalI GATC 2 cut(s) 417, 447
MbiI CCGCTC 1 cut(s) 201
MboI GATC 2 cut(s) 415, 445
MboII GAAGA 1 cut(s) 306
MflI RGATCY 1 cut(s) 415
MhlI GDGCHC 1 cut(s) 208
MluCI AATT 3 cut(s) 62, 257, 473
MnlI CCTC 2 cut(s) 352, 364
Mph1103I ATGCAT 2 cut(s) 153, 276
MseI TTAA 1 cut(s) 438
MslI CAYNNNNRTG 1 cut(s) 193
MspI CCGG 1 cut(s) 79
MspR9I CCNGG 1 cut(s) 79
MwoI GCNNNNNNNGC 1 cut(s) 280
NciI CCSGG 1 cut(s) 79
NdeII GATC 2 cut(s) 415, 445
NlaIII CATG 3 cut(s) 107, 155, 278
NlaIV GGNNCC 1 cut(s) 48
NsiI ATGCAT 2 cut(s) 153, 276
NspI RCATGY 1 cut(s) 155
OliI CACNNNNGTG 1 cut(s) 193
PfeI GAWTC 1 cut(s) 311
PfoI TCCNGGA 1 cut(s) 77
PkrI GCNGC 1 cut(s) 117
PshAI GACNNNNGTC 1 cut(s) 359
PspN4I GGNNCC 1 cut(s) 48
PspPI GGNCC 1 cut(s) 46
PsuI RGATCY 1 cut(s) 415
RsaI GTAC 2 cut(s) 287, 430
RsaNI GTAC 2 cut(s) 286, 429
RseI CAYNNNNRTG 1 cut(s) 193
SaqAI TTAA 1 cut(s) 438
SatI GCNGC 1 cut(s) 116
Sau3AI GATC 2 cut(s) 415, 445
Sau96I GGNCC 1 cut(s) 46
ScrFI CCNGG 1 cut(s) 79
SduI GDGCHC 1 cut(s) 208
SetI ASST 6 cut(s) 211, 226, 234, 349, 363, 375
SfaNI GCATC 1 cut(s) 393
SinI GGWCC 1 cut(s) 46
SmiMI CAYNNNNRTG 1 cut(s) 193
SmlI CTYRAG 1 cut(s) 191
SmoI CTYRAG 1 cut(s) 191
Sse9I AATT 3 cut(s) 62, 257, 473
SsiI CCGC 1 cut(s) 201
SspMI CTAG 1 cut(s) 122
StyD4I CCNGG 1 cut(s) 77
StyI CCWWGG 1 cut(s) 330
TaiI ACGT 1 cut(s) 226
TaqI TCGA 1 cut(s) 422
TasI AATT 3 cut(s) 62, 257, 473
TatI WGTACW 2 cut(s) 285, 428
TfiI GAWTC 1 cut(s) 311
Tru1I TTAA 1 cut(s) 438
Tru9I TTAA 1 cut(s) 438
TseI GCWGC 1 cut(s) 115
TspDTI ATGAA 2 cut(s) 357, 372
TspGWI ACGGA 1 cut(s) 149
VpaK11BI GGWCC 1 cut(s) 46
XapI RAATTY 2 cut(s) 62, 257
XceI RCATGY 1 cut(s) 155
XmiI GTMKAC 1 cut(s) 375
XspI CTAG 1 cut(s) 122
Zsp2I ATGCAT 2 cut(s) 153, 276
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.