Rorug07G0124000

rRNA processing/ribosome biogenesis

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000007
OG0004705
Physical Location & Seq
Forward (+)
9654119 .. 9656410
2292 bp
Loading structure...
UTR
Exon/CDS
Intron
Rorug07G0124000.1

Sequence Viewer

Length: 582 bp
ATGGCTTCTTCATCTAGTTCCTCCTACAACTCACCTTGTGCCGCCTGCAAGTTCTTGAGGCGCAAATGCATGCCCGGCTGCATCTTCGCCCCTTACTTCCCACCGGAGGAGCCCCAAAAGTTCGCCAACGTCCACAAGATCTTCGGCGCCAGCAACGTCACCAAGCTCCTCAATGACCTTCTCCCCCACCAGCGGGAGGACGCCGTCAACTCCCTAGCCTATGAGGCCGAGGCACGCGTCAGGGACCCGGTCTACGGCTGCGTGGGAGCCATTTCCTTCCTCCAGAGACAGGTCCAGAGGCTCCAAAAGGAACTCGACACTGCCAATGCCGATCTCATCCGCTATGCATGCAATGAAATCATAGCGACCCCGGGGGTGAATCCGGTAGTTCAACAACAAATTGCTCCTCGGAGCAGGTCTATTGATCATCATCAGTTTTATCAGCAAGGCAGTGCTGCAATTCCTCCTCCTGCAGCTAATTTCCAGGTTCCTTATAATCTTCCATGGAATGTTGATCTTCAAAACCGTACTTCCGGAGATCACATAAATGAAGGAGGAGGATGTGGAGAGGGAACAATGTGA
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

193

Amino Acids

21.24

Weight (kDa)

6.94

Isoelectric Point (pI)

61.19

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
LOB PF03195 12 - 109 5.2e-42 Lateral organ boundaries (LOB) domain
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)
AanI TTATAA 1 cut(s) 495
Acc36I ACCTGC 1 cut(s) 405
AccB1I GGYRCC 1 cut(s) 146
AccI GTMKAC 1 cut(s) 252
AccII CGCG 1 cut(s) 237
AccIII TCCGGA 1 cut(s) 533
AciI CCGC 3 cut(s) 42, 193, 340
AcyI GRCGYC 2 cut(s) 147, 201
AdeI CACNNNGTG 1 cut(s) 38
AfaI GTAC 1 cut(s) 529
AfiI CCNNNNNNNGG 6 cut(s) 106, 192, 193, 196, 254, 289
AflIII ACRYGT 1 cut(s) 235
AgsI TTSAA 2 cut(s) 392, 521
AjnI CCWGG 1 cut(s) 483
AluBI AGCT 2 cut(s) 166, 476
AluI AGCT 2 cut(s) 166, 476
Alw26I GTCTC 1 cut(s) 280
Ama87I CYCGRG 1 cut(s) 370
Aor13HI TCCGGA 1 cut(s) 533
AoxI GGCC 1 cut(s) 225
ApeKI GCWGC 4 cut(s) 78, 258, 455, 473
AspLEI GCGC 2 cut(s) 63, 149
AspS9I GGNCC 2 cut(s) 244, 292
AsuC2I CCSGG 4 cut(s) 75, 248, 371, 372
AsuHPI GGTGA 3 cut(s) 24, 151, 388
AvaI CYCGRG 1 cut(s) 370
AvaII GGWCC 2 cut(s) 244, 292
BanI GGYRCC 1 cut(s) 146
BanII GRGCYC 1 cut(s) 114
BbvI GCAGC 4 cut(s) 65, 245, 442, 485
BceAI ACGGC 2 cut(s) 188, 271
BciT130I CCWGG 1 cut(s) 485
BclI TGATCA 1 cut(s) 424
BcnI CCSGG 4 cut(s) 75, 248, 371, 372
BcoDI GTCTC 1 cut(s) 280
BfaI CTAG 2 cut(s) 15, 215
BfmI CTRYAG 1 cut(s) 471
BfoI RGCGCY 1 cut(s) 150
BfuAI ACCTGC 1 cut(s) 405
BglI GCCNNNNNGGC 1 cut(s) 224
BglII AGATCT 1 cut(s) 138
BisI GCNGC 5 cut(s) 42, 79, 259, 456, 474
BlsI GCNGC 5 cut(s) 43, 80, 260, 457, 475
Bme1390I CCNGG 5 cut(s) 75, 248, 371, 372, 485
Bme18I GGWCC 2 cut(s) 244, 292
BmeT110I CYCGRG 1 cut(s) 370
BmgT120I GGNCC 2 cut(s) 244, 292
BmiI GGNNCC 7 cut(s) 111, 148, 245, 246, 268, 302, 489
BmrFI CCNGG 5 cut(s) 75, 248, 371, 372, 485
BmsI GCATC 1 cut(s) 90
BpmI CTGGAG 1 cut(s) 266
BpuEI CTTGAG 1 cut(s) 76
BpuMI CCSGG 4 cut(s) 75, 248, 371, 372
BsaBI GATNNNNATC 1 cut(s) 429
BsaHI GRCGYC 2 cut(s) 147, 201
BsaJI CCNNGG 6 cut(s) 228, 369, 370, 371, 407, 503
BsaWI WCCGGW 3 cut(s) 103, 382, 533
Bsc4I CCNNNNNNNGG 6 cut(s) 106, 192, 193, 196, 254, 289
Bse3DI GCAATG 1 cut(s) 358
Bse8I GATNNNNATC 1 cut(s) 429
BseAI TCCGGA 1 cut(s) 533
BseBI CCWGG 1 cut(s) 485
BseDI CCNNGG 6 cut(s) 228, 369, 370, 371, 407, 503
BseGI GGATG 2 cut(s) 336, 566
BseJI GATNNNNATC 1 cut(s) 429
BseLI CCNNNNNNNGG 6 cut(s) 106, 192, 193, 196, 254, 289
BseMI GCAATG 1 cut(s) 358
BseRI GAGGAG 5 cut(s) 122, 158, 396, 456, 570
BseXI GCAGC 4 cut(s) 65, 245, 442, 485
Bsh1236I CGCG 1 cut(s) 237
BshFI GGCC 1 cut(s) 227
BshNI GGYRCC 1 cut(s) 146
BsiHKCI CYCGRG 1 cut(s) 370
BsiSI CCGG 6 cut(s) 75, 104, 248, 371, 383, 534
BslFI GGGAC 1 cut(s) 257
BslI CCNNNNNNNGG 6 cut(s) 106, 192, 193, 196, 254, 289
BsmAI GTCTC 1 cut(s) 280
BsmFI GGGAC 1 cut(s) 257
BsnI GGCC 1 cut(s) 227
BsoBI CYCGRG 1 cut(s) 370
Bsp1286I GDGCHC 1 cut(s) 114
Bsp13I TCCGGA 1 cut(s) 533
Bsp143I GATC 5 cut(s) 138, 331, 424, 514, 538
Bsp19I CCATGG 1 cut(s) 503
BspACI CCGC 3 cut(s) 42, 193, 340
BspANI GGCC 1 cut(s) 227
BspEI TCCGGA 1 cut(s) 533
BspFNI CGCG 1 cut(s) 237
BspLI GGNNCC 7 cut(s) 111, 148, 245, 246, 268, 302, 489
BspMAI CTGCAG 1 cut(s) 475
BspMI ACCTGC 1 cut(s) 405
BspT107I GGYRCC 1 cut(s) 146
BsrDI GCAATG 1 cut(s) 358
BssECI CCNNGG 6 cut(s) 228, 369, 370, 371, 407, 503
BssMI GATC 5 cut(s) 138, 331, 424, 514, 538
BssNI GRCGYC 2 cut(s) 147, 201
BssT1I CCWWGG 1 cut(s) 503
Bst2UI CCWGG 1 cut(s) 485
Bst4CI ACNGT 1 cut(s) 527
BstACI GRCGYC 2 cut(s) 147, 201
BstC8I GCNNGC 5 cut(s) 46, 71, 151, 235, 349
BstDSI CCRYGG 1 cut(s) 503
BstF5I GGATG 2 cut(s) 336, 566
BstFNI CGCG 1 cut(s) 237
BstH2I RGCGCY 1 cut(s) 150
BstHHI GCGC 2 cut(s) 63, 149
BstKTI GATC 5 cut(s) 141, 334, 427, 517, 541
BstMAI GTCTC 1 cut(s) 280
BstMBI GATC 5 cut(s) 138, 331, 424, 514, 538
BstMWI GCNNNNNNNGC 3 cut(s) 75, 224, 348
BstNI CCWGG 1 cut(s) 485
BstNSI RCATGY 2 cut(s) 73, 351
BstSCI CCNGG 5 cut(s) 73, 246, 369, 370, 483
BstSFI CTRYAG 1 cut(s) 471
BstUI CGCG 1 cut(s) 237
BstV1I GCAGC 4 cut(s) 65, 245, 442, 485
BstX2I RGATCY 1 cut(s) 138
BstYI RGATCY 1 cut(s) 138
BsuRI GGCC 1 cut(s) 227
BtgI CCRYGG 1 cut(s) 503
BtsCI GGATG 2 cut(s) 336, 566
BtsI GCAGTG 2 cut(s) 318, 457
BtsIMutI CAGTG 2 cut(s) 318, 457
BveI ACCTGC 1 cut(s) 405
Cac8I GCNNGC 5 cut(s) 46, 71, 151, 235, 349
CfoI GCGC 2 cut(s) 63, 149
Cfr13I GGNCC 2 cut(s) 244, 292
Cfr9I CCCGGG 1 cut(s) 370
CseI GACGC 2 cut(s) 209, 226
Csp6I GTAC 1 cut(s) 528
CviAII CATG 3 cut(s) 70, 348, 504
CviQI GTAC 1 cut(s) 528
DinI GGCGCC 1 cut(s) 148
DpnI GATC 5 cut(s) 140, 333, 426, 516, 540
DpnII GATC 5 cut(s) 138, 331, 424, 514, 538
DraIII CACNNNGTG 1 cut(s) 38
Eco130I CCWWGG 1 cut(s) 503
Eco24I GRGCYC 1 cut(s) 114
Eco47I GGWCC 2 cut(s) 244, 292
Eco88I CYCGRG 1 cut(s) 370
EcoO109I RGGNCCY 1 cut(s) 244
EcoRII CCWGG 1 cut(s) 483
EcoT14I CCWWGG 1 cut(s) 503
EcoT22I ATGCAT 2 cut(s) 71, 349
EcoT38I GRGCYC 1 cut(s) 114
EgeI GGCGCC 1 cut(s) 148
EheI GGCGCC 1 cut(s) 148
ErhI CCWWGG 1 cut(s) 503
FaeI CATG 3 cut(s) 73, 351, 507
FaiI YATR 8 cut(s) 71, 222, 345, 349, 362, 495, 505, 545
FaqI GGGAC 1 cut(s) 257
FatI CATG 3 cut(s) 69, 347, 503
FauI CCCGC 1 cut(s) 186
FbaI TGATCA 1 cut(s) 424
FblI GTMKAC 1 cut(s) 252
Fnu4HI GCNGC 5 cut(s) 42, 79, 259, 456, 474
FokI GGATG 2 cut(s) 323, 573
FriOI GRGCYC 1 cut(s) 114
Fsp4HI GCNGC 5 cut(s) 42, 79, 259, 456, 474
FspBI CTAG 2 cut(s) 15, 215
GlaI GCGC 2 cut(s) 62, 148
GluI GCNGC 5 cut(s) 42, 79, 259, 456, 474
GsuI CTGGAG 1 cut(s) 266
HaeII RGCGCY 1 cut(s) 150
HaeIII GGCC 1 cut(s) 227
HapII CCGG 6 cut(s) 75, 104, 248, 371, 383, 534
HgaI GACGC 2 cut(s) 209, 226
HhaI GCGC 2 cut(s) 63, 149
Hin1I GRCGYC 2 cut(s) 147, 201
Hin1II CATG 3 cut(s) 73, 351, 507
Hin6I GCGC 2 cut(s) 61, 147
HinP1I GCGC 2 cut(s) 61, 147
HincII GTYRAC 1 cut(s) 208
HindII GTYRAC 1 cut(s) 208
HinfI GANTC 1 cut(s) 379
HpaII CCGG 6 cut(s) 75, 104, 248, 371, 383, 534
HphI GGTGA 3 cut(s) 24, 151, 388
Hpy166II GTNNAC 3 cut(s) 133, 208, 253
Hpy188I TCNGA 1 cut(s) 411
Hpy188III TCNNGA 4 cut(s) 55, 283, 295, 534
Hpy8I GTNNAC 3 cut(s) 133, 208, 253
HpyAV CCTTC 3 cut(s) 188, 286, 545
HpyCH4III ACNGT 1 cut(s) 527
HpyCH4IV ACGT 2 cut(s) 129, 156
HpyCH4V TGCA 7 cut(s) 48, 69, 81, 347, 351, 458, 473
HpyF10VI GCNNNNNNNGC 3 cut(s) 75, 224, 348
HpySE526I ACGT 2 cut(s) 129, 156
Hsp92I GRCGYC 2 cut(s) 147, 201
Hsp92II CATG 3 cut(s) 73, 351, 507
HspAI GCGC 2 cut(s) 61, 147
KasI GGCGCC 1 cut(s) 146
KflI GGGWCCC 1 cut(s) 244
Kpn2I TCCGGA 1 cut(s) 533
Ksp22I TGATCA 1 cut(s) 424
Kzo9I GATC 5 cut(s) 138, 331, 424, 514, 538
LmnI GCTCC 6 cut(s) 109, 171, 266, 306, 409, 411
Lsp1109I GCAGC 4 cut(s) 65, 245, 442, 485
LweI GCATC 1 cut(s) 90
MaeI CTAG 2 cut(s) 15, 215
MaeII ACGT 2 cut(s) 129, 156
MaeIII GTNAC 1 cut(s) 157
MalI GATC 5 cut(s) 140, 333, 426, 516, 540
MboI GATC 5 cut(s) 138, 331, 424, 514, 538
MboII GAAGA 4 cut(s) 76, 133, 491, 509
MflI RGATCY 1 cut(s) 138
MhlI GDGCHC 1 cut(s) 114
MluCI AATT 3 cut(s) 399, 459, 478
MluI ACGCGT 1 cut(s) 235
Mly113I GGCGCC 1 cut(s) 147
Mph1103I ATGCAT 2 cut(s) 71, 349
MroI TCCGGA 1 cut(s) 533
MslI CAYNNNNRTG 1 cut(s) 546
MspA1I CMGCKG 1 cut(s) 193
MspI CCGG 6 cut(s) 75, 104, 248, 371, 383, 534
MspR9I CCNGG 5 cut(s) 75, 248, 371, 372, 485
MvaI CCWGG 1 cut(s) 485
MvnI CGCG 1 cut(s) 237
MwoI GCNNNNNNNGC 3 cut(s) 75, 224, 348
NarI GGCGCC 1 cut(s) 147
NciI CCSGG 4 cut(s) 75, 248, 371, 372
NcoI CCATGG 1 cut(s) 503
NdeII GATC 5 cut(s) 138, 331, 424, 514, 538
NlaIII CATG 3 cut(s) 73, 351, 507
NlaIV GGNNCC 7 cut(s) 111, 148, 245, 246, 268, 302, 489
NmeAIII GCCGAG 1 cut(s) 253
NmuCI GTSAC 1 cut(s) 157
NsiI ATGCAT 2 cut(s) 71, 349
NspI RCATGY 2 cut(s) 73, 351
PaeI GCATGC 2 cut(s) 73, 351
PfeI GAWTC 1 cut(s) 379
PflFI GACNNNGTC 2 cut(s) 203, 248
PkrI GCNGC 5 cut(s) 43, 80, 260, 457, 475
PluTI GGCGCC 1 cut(s) 150
PpuMI RGGWCCY 1 cut(s) 244
PsiI TTATAA 1 cut(s) 495
Psp5II RGGWCCY 1 cut(s) 244
Psp6I CCWGG 1 cut(s) 483
PspGI CCWGG 1 cut(s) 483
PspN4I GGNNCC 7 cut(s) 111, 148, 245, 246, 268, 302, 489
PspPI GGNCC 2 cut(s) 244, 292
PspPPI RGGWCCY 1 cut(s) 244
PstI CTGCAG 1 cut(s) 475
PsuI RGATCY 1 cut(s) 138
PsyI GACNNNGTC 2 cut(s) 203, 248
RsaI GTAC 1 cut(s) 529
RsaNI GTAC 1 cut(s) 528
RseI CAYNNNNRTG 1 cut(s) 546
SatI GCNGC 5 cut(s) 42, 79, 259, 456, 474
Sau3AI GATC 5 cut(s) 138, 331, 424, 514, 538
Sau96I GGNCC 2 cut(s) 244, 292
ScrFI CCNGG 5 cut(s) 75, 248, 371, 372, 485
SduI GDGCHC 1 cut(s) 114
SetI ASST 9 cut(s) 37, 132, 159, 168, 180, 294, 419, 478, 489
SfaNI GCATC 1 cut(s) 90
SfcI CTRYAG 1 cut(s) 471
SfoI GGCGCC 1 cut(s) 148
SinI GGWCC 2 cut(s) 244, 292
SmaI CCCGGG 1 cut(s) 372
SmiMI CAYNNNNRTG 1 cut(s) 546
SmlI CTYRAG 1 cut(s) 55
SmoI CTYRAG 1 cut(s) 55
SphI GCATGC 2 cut(s) 73, 351
Sse9I AATT 3 cut(s) 399, 459, 478
SsiI CCGC 3 cut(s) 42, 193, 340
SspDI GGCGCC 1 cut(s) 146
SspMI CTAG 2 cut(s) 15, 215
StyD4I CCNGG 5 cut(s) 73, 246, 369, 370, 483
StyI CCWWGG 1 cut(s) 503
TaaI ACNGT 1 cut(s) 527
TaiI ACGT 2 cut(s) 132, 159
TaqI TCGA 1 cut(s) 315
TasI AATT 3 cut(s) 399, 459, 478
TauI GCSGC 1 cut(s) 44
TfiI GAWTC 1 cut(s) 379
TscAI CASTG 2 cut(s) 325, 457
TseFI GTSAC 1 cut(s) 157
TseI GCWGC 4 cut(s) 78, 258, 455, 473
Tsp45I GTSAC 1 cut(s) 157
TspDTI ATGAA 2 cut(s) 369, 564
TspMI CCCGGG 1 cut(s) 370
TspRI CASTG 2 cut(s) 325, 457
Tth111I GACNNNGTC 2 cut(s) 203, 248
VpaK11BI GGWCC 2 cut(s) 244, 292
XceI RCATGY 2 cut(s) 73, 351
XmaI CCCGGG 1 cut(s) 370
XmiI GTMKAC 1 cut(s) 252
XspI CTAG 2 cut(s) 15, 215
Zsp2I ATGCAT 2 cut(s) 71, 349
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.