MD09G1289200.v1.1

rRNA processing/ribosome biogenesis

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr09
OG0004705
Physical Location & Seq
Reverse (-)
37009632 .. 37010870
1239 bp
Loading structure...
UTR
Exon/CDS
Intron
MD09G1289200.v1.1.491

Sequence Viewer

Length: 366 bp
ATGTACGATGTTGCTCTAAGACCTCGTCTGTTGCAAACGCTCGTAAGAGACCTCCCTGATGATAAACACCCGTCTGGGAGTCCGTTGGAGCTGTCGAAGGTAGTCTACGCGATCAAAACCCACAACCTCCTTTGTGAGTCTGCACAAGATATGACTGACCAAAAGCTAATCACTACTTGGAAATCCGCTACTGATTCCTGGGTCCGTCGCTTGGCGCAGCTTGTTTCTAGTGATATGCCAGATAAATGTTGGGAAGGAATTTGTTTGATGGGGGTGACTTGTCGGGAATGCAGCTCTGAGCGGTTCATGGAATCATACTCCGGTTGGTTCCAGATATTCCTATCACATATTCAGGTACCGAGATGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
RIX1

Protein Analysis

122

Amino Acids

13.94

Weight (kDa)

6.27

Isoelectric Point (pI)

52.3

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RIX1 PF08167 12 - 119 1.3e-18 rRNA processing/ribosome biogenesis
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)
Acc65I GGTACC 1 cut(s) 355
AccB1I GGYRCC 1 cut(s) 355
AccBSI CCGCTC 1 cut(s) 301
AccI GTMKAC 1 cut(s) 105
AccII CGCG 1 cut(s) 110
AciI CCGC 2 cut(s) 186, 301
AcsI RAATTY 1 cut(s) 258
AfaI GTAC 2 cut(s) 5, 357
AfiI CCNNNNNNNGG 1 cut(s) 211
AjnI CCWGG 1 cut(s) 197
AluBI AGCT 4 cut(s) 91, 166, 220, 294
AluI AGCT 4 cut(s) 91, 166, 220, 294
Alw26I GTCTC 1 cut(s) 42
ApeKI GCWGC 2 cut(s) 217, 291
ApoI RAATTY 1 cut(s) 258
Asp718I GGTACC 1 cut(s) 355
AspLEI GCGC 1 cut(s) 217
AspS9I GGNCC 1 cut(s) 202
AsuHPI GGTGA 1 cut(s) 286
AvaII GGWCC 1 cut(s) 202
BanI GGYRCC 1 cut(s) 355
BarI GAAGNNNNNNTAC 2 cut(s) 89, 121
BbvI GCAGC 2 cut(s) 229, 303
BccI CCATC 1 cut(s) 262
BciT130I CCWGG 1 cut(s) 199
BcoDI GTCTC 1 cut(s) 42
BfaI CTAG 1 cut(s) 228
BisI GCNGC 2 cut(s) 218, 292
BlsI GCNGC 2 cut(s) 219, 293
Bme1390I CCNGG 1 cut(s) 199
Bme18I GGWCC 1 cut(s) 202
BmgT120I GGNCC 1 cut(s) 202
BmiI GGNNCC 3 cut(s) 203, 329, 357
BmrFI CCNGG 1 cut(s) 199
BsaI GGTCTC 1 cut(s) 42
BsaJI CCNNGG 1 cut(s) 198
BsaWI WCCGGW 1 cut(s) 320
Bsc4I CCNNNNNNNGG 1 cut(s) 211
BseBI CCWGG 1 cut(s) 199
BseDI CCNNGG 1 cut(s) 198
BseLI CCNNNNNNNGG 1 cut(s) 211
BseMII CTCAG 1 cut(s) 288
BseXI GCAGC 2 cut(s) 229, 303
BsgI GTGCAG 1 cut(s) 126
Bsh1236I CGCG 1 cut(s) 110
BshNI GGYRCC 1 cut(s) 355
BsiSI CCGG 1 cut(s) 321
BslI CCNNNNNNNGG 1 cut(s) 211
BsmAI GTCTC 1 cut(s) 42
BsmI GAATGC 1 cut(s) 293
Bso31I GGTCTC 1 cut(s) 42
Bsp143I GATC 1 cut(s) 111
BspACI CCGC 2 cut(s) 186, 301
BspCNI CTCAG 1 cut(s) 289
BspFNI CGCG 1 cut(s) 110
BspLI GGNNCC 3 cut(s) 203, 329, 357
BspT107I GGYRCC 1 cut(s) 355
BspTNI GGTCTC 1 cut(s) 42
BsrBI CCGCTC 1 cut(s) 301
BssECI CCNNGG 1 cut(s) 198
BssMI GATC 1 cut(s) 111
Bst2UI CCWGG 1 cut(s) 199
BstDEI CTNAG 2 cut(s) 17, 297
BstFNI CGCG 1 cut(s) 110
BstHHI GCGC 1 cut(s) 217
BstKTI GATC 1 cut(s) 114
BstMAI GTCTC 1 cut(s) 42
BstMBI GATC 1 cut(s) 111
BstNI CCWGG 1 cut(s) 199
BstSCI CCNGG 1 cut(s) 197
BstUI CGCG 1 cut(s) 110
BstV1I GCAGC 2 cut(s) 229, 303
CfoI GCGC 1 cut(s) 217
Cfr13I GGNCC 1 cut(s) 202
Csp6I GTAC 2 cut(s) 4, 356
CviAII CATG 1 cut(s) 307
CviJI RGCY 4 cut(s) 91, 166, 220, 294
CviKI_1 RGCY 4 cut(s) 91, 166, 220, 294
CviQI GTAC 2 cut(s) 4, 356
DdeI CTNAG 2 cut(s) 17, 297
DpnI GATC 1 cut(s) 113
DpnII GATC 1 cut(s) 111
Eco31I GGTCTC 1 cut(s) 42
Eco47I GGWCC 1 cut(s) 202
EcoRII CCWGG 1 cut(s) 197
FaeI CATG 1 cut(s) 310
FaiI YATR 5 cut(s) 152, 236, 308, 316, 348
FatI CATG 1 cut(s) 306
FblI GTMKAC 1 cut(s) 105
Fnu4HI GCNGC 2 cut(s) 218, 292
Fsp4HI GCNGC 2 cut(s) 218, 292
FspBI CTAG 1 cut(s) 228
GlaI GCGC 1 cut(s) 216
GluI GCNGC 2 cut(s) 218, 292
HapII CCGG 1 cut(s) 321
HhaI GCGC 1 cut(s) 217
Hin1II CATG 1 cut(s) 310
Hin6I GCGC 1 cut(s) 215
HinP1I GCGC 1 cut(s) 215
HinfI GANTC 4 cut(s) 79, 137, 194, 311
HpaII CCGG 1 cut(s) 321
HphI GGTGA 1 cut(s) 286
Hpy166II GTNNAC 1 cut(s) 106
Hpy188I TCNGA 1 cut(s) 298
Hpy188III TCNNGA 2 cut(s) 284, 331
Hpy8I GTNNAC 1 cut(s) 106
Hpy99I CGWCG 1 cut(s) 210
HpyAV CCTTC 2 cut(s) 91, 248
HpyCH4V TGCA 3 cut(s) 34, 143, 291
HpyF3I CTNAG 2 cut(s) 17, 297
Hsp92II CATG 1 cut(s) 310
HspAI GCGC 1 cut(s) 215
KpnI GGTACC 1 cut(s) 359
Kzo9I GATC 1 cut(s) 111
LmnI GCTCC 1 cut(s) 88
LpnPI CCDG 8 cut(s) 60, 69, 184, 211, 252, 334, 338, 344
Lsp1109I GCAGC 2 cut(s) 229, 303
MaeI CTAG 1 cut(s) 228
MaeIII GTNAC 1 cut(s) 274
MalI GATC 1 cut(s) 113
MbiI CCGCTC 1 cut(s) 301
MboI GATC 1 cut(s) 111
MluCI AATT 1 cut(s) 258
MlyI GAGTC 2 cut(s) 88, 146
MmeI TCCRAC 1 cut(s) 66
MnlI CCTC 3 cut(s) 33, 62, 137
MspI CCGG 1 cut(s) 321
MspR9I CCNGG 1 cut(s) 199
Mva1269I GAATGC 1 cut(s) 293
MvaI CCWGG 1 cut(s) 199
MvnI CGCG 1 cut(s) 110
NdeII GATC 1 cut(s) 111
NlaIII CATG 1 cut(s) 310
NlaIV GGNNCC 3 cut(s) 203, 329, 357
NmuCI GTSAC 1 cut(s) 274
PctI GAATGC 1 cut(s) 293
PfeI GAWTC 2 cut(s) 194, 311
PflFI GACNNNGTC 1 cut(s) 24
PkrI GCNGC 2 cut(s) 219, 293
PleI GAGTC 2 cut(s) 87, 145
PpsI GAGTC 2 cut(s) 87, 145
Psp6I CCWGG 1 cut(s) 197
PspGI CCWGG 1 cut(s) 197
PspN4I GGNNCC 3 cut(s) 203, 329, 357
PspPI GGNCC 1 cut(s) 202
PsyI GACNNNGTC 1 cut(s) 24
RsaI GTAC 2 cut(s) 5, 357
RsaNI GTAC 2 cut(s) 4, 356
SatI GCNGC 2 cut(s) 218, 292
Sau3AI GATC 1 cut(s) 111
Sau96I GGNCC 1 cut(s) 202
SchI GAGTC 2 cut(s) 88, 146
ScrFI CCNGG 1 cut(s) 199
SetI ASST 9 cut(s) 25, 54, 93, 102, 129, 168, 222, 296, 357
SinI GGWCC 1 cut(s) 202
Sse9I AATT 1 cut(s) 258
SsiI CCGC 2 cut(s) 186, 301
SspMI CTAG 1 cut(s) 228
StyD4I CCNGG 1 cut(s) 197
TaqI TCGA 1 cut(s) 95
TasI AATT 1 cut(s) 258
TfiI GAWTC 2 cut(s) 194, 311
TseFI GTSAC 1 cut(s) 274
TseI GCWGC 2 cut(s) 217, 291
Tsp45I GTSAC 1 cut(s) 274
TspDTI ATGAA 1 cut(s) 295
TspGWI ACGGA 2 cut(s) 72, 194
Tth111I GACNNNGTC 1 cut(s) 24
VpaK11BI GGWCC 1 cut(s) 202
XapI RAATTY 1 cut(s) 258
XcmI CCANNNNNNNNNTGG 1 cut(s) 246
XmiI GTMKAC 1 cut(s) 105
XspI CTAG 1 cut(s) 228
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.