Rw4G012660

U3-containing 90S pre-ribosomal complex subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr4
OG0012458
Physical Location & Seq
Forward (+)
29760864 .. 29765927
5064 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw4G012660.1

Sequence Viewer

Length: 861 bp
ATGGGGAGCGGGAAAGACAGGAACTCTAAGAACAAGGGTAAGCCGCTTGGCCCCAAAACAACCAAACTCAAAGCCGACTCCCACTCCGGCATCAACAACAAGAACAAGAAGAAGCAGAAGCAGCAGCGGCCCAACAAGAATACCCAAAATGAAAACCAAATCGGAACTCAAAACAGCGAAGACGGCAACAAGCTACAACCGGCATCGCCGTCGGCACAACTCAACTCGTTCCTCGACAAGTTTCAATCCGCCAATCGTCTCCAGCTTTCTTCTCTCGAATTGGACTCCCTCACTGATAAGTGTATTGTGGACCTGCCTGGAAGCACGGATCAGGATGTCGAAAACTTGGGGAAACATGTGAAGGCAGCTTTTGGTCCATCCTGGAAAGCCGAACTATGTGATAAGCGTCTCTTGGAAGGAAAAGTTGATCCAGGAAGTCCAGCAGTTCTTATTATTAGTACATCTGCCTTGAGATCAATAGAACTTCTAAGGGGCTTTCGGTCGCTGACTAAAGAATGCCATCCAGTGAAGCTGTTCTCAAAGCATATGAAGGTTGACGAACAGGTCTCCTTGTTAAAGGACCGTGTTAACATCGCTAGTGGTACACCAAGCAGGATAAAGAAGCTAATTGATATTGAGGCATTGGGACTTTCACGGTTATCAGTGATTGTGCTTGATGTGCACCCAGATGTAAAGGGCTATTCCCTGTTGACGCTTCCACAAGTCAGAGATGAATTTTGGGACTTGTACAAGACCTATTTTCACCAGCGATTACTCCAAGGTTCCTTGCGTCTCTCTCTCTATGGTCCATTAATATCTGATAACGAGTTCAAGGGAAAAAAGAAGAGACCCAATGAATAG
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
CMS1

Protein Analysis

286

Amino Acids

31.89

Weight (kDa)

9.69

Isoelectric Point (pI)

40.18

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
CMS1 PF14617 32 - 249 3.4e-28 U3-containing 90S pre-ribosomal complex subunit
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: OG0012458)

Species Orthologous Gene IDs
arabidopsis_thaliana AT2G43110 AT2G43110
fragaria_vesca FvH4_4g11840 FvH4_6g25320
malus_domestica MD04G1034000.v1.1 MD13G1276400.v1.1
prunus_persica Prupe.1G180600_v2.0.a1
pyrus_communis pycom04g02840
rosa_chinensis RchiOBHm_Chr4g0409281
rosa_laevigata RLG00000008581
rosa_multiflora Rmu_sc0002377.1_g000010
rosa_roxburghii Rroxscaffold_5G00353750 Rroxscaffold_7G00195060
rosa_rugosa Rorug04G0092000
rosa_samantha Rh4AG155000 Rh4BG152700 Rh4CG164000 Rh4DG148100
rosa_wichuraiana Rw4G012660

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AasI GACNNNNNNGTC 1 cut(s) 563
Acc36I ACCTGC 1 cut(s) 321
AccBSI CCGCTC 1 cut(s) 9
AciI CCGC 4 cut(s) 9, 44, 127, 249
AclWI GGATC 2 cut(s) 336, 422
AcsI RAATTY 1 cut(s) 734
AfaI GTAC 3 cut(s) 460, 604, 749
AflIII ACRYGT 1 cut(s) 355
AgsI TTSAA 2 cut(s) 245, 832
AjnI CCWGG 3 cut(s) 316, 380, 430
AluBI AGCT 5 cut(s) 193, 265, 368, 532, 625
AluI AGCT 5 cut(s) 193, 265, 368, 532, 625
Alw21I GWGCWC 1 cut(s) 684
Alw26I GTCTC 5 cut(s) 263, 413, 571, 797, 841
Alw44I GTGCAC 1 cut(s) 680
AlwI GGATC 2 cut(s) 336, 422
AoxI GGCC 2 cut(s) 49, 128
ApaLI GTGCAC 1 cut(s) 680
ApeKI GCWGC 3 cut(s) 121, 124, 365
ApoI RAATTY 1 cut(s) 734
AseI ATTAAT 1 cut(s) 812
Asp700I GAANNNNTTC 1 cut(s) 533
AspS9I GGNCC 6 cut(s) 50, 129, 310, 374, 580, 806
AsuHPI GGTGA 1 cut(s) 755
AvaII GGWCC 4 cut(s) 310, 374, 580, 806
BaeGI GKGCMC 1 cut(s) 684
BbsI GAAGAC 1 cut(s) 186
Bbv12I GWGCWC 1 cut(s) 684
BbvI GCAGC 3 cut(s) 133, 136, 377
BccI CCATC 2 cut(s) 385, 528
BceAI ACGGC 2 cut(s) 193, 199
BcgI CGANNNNNNTGC 2 cut(s) 192, 226
BciT130I CCWGG 3 cut(s) 318, 382, 432
BcoDI GTCTC 5 cut(s) 263, 413, 571, 797, 841
BfaI CTAG 1 cut(s) 597
BfuAI ACCTGC 1 cut(s) 321
BisI GCNGC 5 cut(s) 44, 122, 125, 128, 366
BlsI GCNGC 5 cut(s) 45, 123, 126, 129, 367
Bme1390I CCNGG 3 cut(s) 318, 382, 432
Bme18I GGWCC 4 cut(s) 310, 374, 580, 806
BmgT120I GGNCC 6 cut(s) 50, 129, 310, 374, 580, 806
BmiI GGNNCC 2 cut(s) 52, 784
BmrFI CCNGG 3 cut(s) 318, 382, 432
BmsI GCATC 2 cut(s) 99, 212
BpiI GAAGAC 1 cut(s) 186
BpmI CTGGAG 1 cut(s) 245
BpuEI CTTGAG 1 cut(s) 490
BsaI GGTCTC 2 cut(s) 571, 841
BsaJI CCNNGG 1 cut(s) 778
BsaXI ACNNNNNCTCC 2 cut(s) 68, 98
Bse118I RCCGGY 1 cut(s) 199
Bse1I ACTGG 1 cut(s) 524
BseBI CCWGG 3 cut(s) 318, 382, 432
BseDI CCNNGG 1 cut(s) 778
BseGI GGATG 3 cut(s) 340, 377, 520
BseNI ACTGG 1 cut(s) 524
BseSI GKGCMC 1 cut(s) 684
BseXI GCAGC 3 cut(s) 133, 136, 377
Bsh1285I CGRYCG 1 cut(s) 503
BshFI GGCC 2 cut(s) 51, 130
BsiEI CGRYCG 1 cut(s) 503
BsiHKAI GWGCWC 1 cut(s) 684
BsiSI CCGG 2 cut(s) 87, 200
BslFI GGGAC 2 cut(s) 660, 755
BsmAI GTCTC 5 cut(s) 263, 413, 571, 797, 841
BsmBI CGTCTC 3 cut(s) 263, 413, 797
BsmFI GGGAC 2 cut(s) 660, 755
BsmI GAATGC 1 cut(s) 521
BsnI GGCC 2 cut(s) 51, 130
Bso31I GGTCTC 2 cut(s) 571, 841
Bsp1286I GDGCHC 1 cut(s) 684
Bsp1407I TGTACA 1 cut(s) 747
Bsp143I GATC 3 cut(s) 328, 427, 473
BspACI CCGC 4 cut(s) 9, 44, 127, 249
BspANI GGCC 2 cut(s) 51, 130
BspLI GGNNCC 2 cut(s) 52, 784
BspMI ACCTGC 1 cut(s) 321
BspPI GGATC 2 cut(s) 336, 422
BspTNI GGTCTC 2 cut(s) 571, 841
BsrBI CCGCTC 1 cut(s) 9
BsrFI RCCGGY 1 cut(s) 199
BsrGI TGTACA 1 cut(s) 747
BsrI ACTGG 1 cut(s) 524
BssAI RCCGGY 1 cut(s) 199
BssECI CCNNGG 1 cut(s) 778
BssMI GATC 3 cut(s) 328, 427, 473
BssT1I CCWWGG 1 cut(s) 778
Bst2UI CCWGG 3 cut(s) 318, 382, 432
Bst4CI ACNGT 2 cut(s) 584, 657
Bst6I CTCTTC 1 cut(s) 839
BstAUI TGTACA 1 cut(s) 747
BstDEI CTNAG 2 cut(s) 27, 488
BstF5I GGATG 3 cut(s) 340, 377, 520
BstKTI GATC 3 cut(s) 331, 430, 476
BstMAI GTCTC 5 cut(s) 263, 413, 571, 797, 841
BstMBI GATC 3 cut(s) 328, 427, 473
BstMCI CGRYCG 1 cut(s) 503
BstMWI GCNNNNNNNGC 4 cut(s) 121, 127, 183, 679
BstNI CCWGG 3 cut(s) 318, 382, 432
BstNSI RCATGY 1 cut(s) 359
BstSCI CCNGG 3 cut(s) 316, 380, 430
BstSLI GKGCMC 1 cut(s) 684
BstV1I GCAGC 3 cut(s) 133, 136, 377
BstV2I GAAGAC 1 cut(s) 186
BsuRI GGCC 2 cut(s) 51, 130
BtgZI GCGATG 2 cut(s) 189, 577
BtsCI GGATG 3 cut(s) 340, 377, 520
BtsIMutI CAGTG 3 cut(s) 291, 531, 669
BveI ACCTGC 1 cut(s) 321
Cfr10I RCCGGY 1 cut(s) 199
Cfr13I GGNCC 6 cut(s) 50, 129, 310, 374, 580, 806
CseI GACGC 3 cut(s) 395, 721, 779
Csp6I GTAC 3 cut(s) 459, 603, 748
CviAII CATG 1 cut(s) 356
CviQI GTAC 3 cut(s) 459, 603, 748
DdeI CTNAG 2 cut(s) 27, 488
DpnI GATC 3 cut(s) 330, 429, 475
DpnII GATC 3 cut(s) 328, 427, 473
DrdI GACNNNNNNGTC 1 cut(s) 563
DseDI GACNNNNNNGTC 1 cut(s) 563
Eam1104I CTCTTC 1 cut(s) 839
EarI CTCTTC 1 cut(s) 839
EciI GGCGGA 1 cut(s) 238
Eco130I CCWWGG 1 cut(s) 778
Eco31I GGTCTC 2 cut(s) 571, 841
Eco47I GGWCC 4 cut(s) 310, 374, 580, 806
EcoRII CCWGG 3 cut(s) 316, 380, 430
EcoT14I CCWWGG 1 cut(s) 778
ErhI CCWWGG 1 cut(s) 778
Esp3I CGTCTC 3 cut(s) 263, 413, 797
FaeI CATG 1 cut(s) 359
FaiI YATR 5 cut(s) 357, 397, 546, 548, 804
FalI AAGNNNNNCTT 2 cut(s) 395, 427
FaqI GGGAC 2 cut(s) 660, 755
FatI CATG 1 cut(s) 355
FauI CCCGC 1 cut(s) 2
FauNDI CATATG 1 cut(s) 546
Fnu4HI GCNGC 5 cut(s) 44, 122, 125, 128, 366
FokI GGATG 3 cut(s) 347, 364, 507
Fsp4HI GCNGC 5 cut(s) 44, 122, 125, 128, 366
FspBI CTAG 1 cut(s) 597
GluI GCNGC 5 cut(s) 44, 122, 125, 128, 366
GsuI CTGGAG 1 cut(s) 245
HaeIII GGCC 2 cut(s) 51, 130
HapII CCGG 2 cut(s) 87, 200
HgaI GACGC 3 cut(s) 395, 721, 779
Hin1II CATG 1 cut(s) 359
HincII GTYRAC 3 cut(s) 556, 589, 711
HindII GTYRAC 3 cut(s) 556, 589, 711
HinfI GANTC 2 cut(s) 77, 284
HpaI GTTAAC 1 cut(s) 589
HpaII CCGG 2 cut(s) 87, 200
HphI GGTGA 1 cut(s) 755
Hpy166II GTNNAC 6 cut(s) 310, 556, 589, 605, 682, 711
Hpy188I TCNGA 3 cut(s) 164, 728, 820
Hpy188III TCNNGA 2 cut(s) 275, 332
Hpy8I GTNNAC 6 cut(s) 310, 556, 589, 605, 682, 711
Hpy99I CGWCG 1 cut(s) 214
HpyAV CCTTC 3 cut(s) 355, 410, 544
HpyCH4III ACNGT 2 cut(s) 584, 657
HpyCH4V TGCA 1 cut(s) 682
HpyF10VI GCNNNNNNNGC 4 cut(s) 121, 127, 183, 679
HpyF3I CTNAG 2 cut(s) 27, 488
Hsp92II CATG 1 cut(s) 359
KspAI GTTAAC 1 cut(s) 589
Kzo9I GATC 3 cut(s) 328, 427, 473
LmnI GCTCC 1 cut(s) 6
Lsp1109I GCAGC 3 cut(s) 133, 136, 377
LweI GCATC 2 cut(s) 99, 212
MaeI CTAG 1 cut(s) 597
MalI GATC 3 cut(s) 330, 429, 475
MbiI CCGCTC 1 cut(s) 9
MboI GATC 3 cut(s) 328, 427, 473
MboII GAAGA 4 cut(s) 121, 191, 261, 856
MhlI GDGCHC 1 cut(s) 684
MluCI AATT 3 cut(s) 278, 627, 734
MlyI GAGTC 2 cut(s) 71, 278
MnlI CCTC 3 cut(s) 242, 299, 631
MroXI GAANNNNTTC 1 cut(s) 533
MseI TTAA 3 cut(s) 575, 588, 812
MslI CAYNNNNRTG 1 cut(s) 687
MspA1I CMGCKG 1 cut(s) 127
MspI CCGG 2 cut(s) 87, 200
MspR9I CCNGG 3 cut(s) 318, 382, 432
Mva1269I GAATGC 1 cut(s) 521
MvaI CCWGG 3 cut(s) 318, 382, 432
MwoI GCNNNNNNNGC 4 cut(s) 121, 127, 183, 679
NdeI CATATG 1 cut(s) 546
NdeII GATC 3 cut(s) 328, 427, 473
NlaIII CATG 1 cut(s) 359
NlaIV GGNNCC 2 cut(s) 52, 784
NspI RCATGY 1 cut(s) 359
PciI ACATGT 1 cut(s) 355
PctI GAATGC 1 cut(s) 521
PdmI GAANNNNTTC 1 cut(s) 533
PfoI TCCNGGA 2 cut(s) 380, 430
PkrI GCNGC 5 cut(s) 45, 123, 126, 129, 367
PleI GAGTC 2 cut(s) 71, 278
PpsI GAGTC 2 cut(s) 71, 278
PscI ACATGT 1 cut(s) 355
PshBI ATTAAT 1 cut(s) 812
Psp6I CCWGG 3 cut(s) 316, 380, 430
PspGI CCWGG 3 cut(s) 316, 380, 430
PspN4I GGNNCC 2 cut(s) 52, 784
PspPI GGNCC 6 cut(s) 50, 129, 310, 374, 580, 806
RsaI GTAC 3 cut(s) 460, 604, 749
RsaNI GTAC 3 cut(s) 459, 603, 748
RseI CAYNNNNRTG 1 cut(s) 687
SaqAI TTAA 3 cut(s) 575, 588, 812
SatI GCNGC 5 cut(s) 44, 122, 125, 128, 366
Sau3AI GATC 3 cut(s) 328, 427, 473
Sau96I GGNCC 6 cut(s) 50, 129, 310, 374, 580, 806
SchI GAGTC 2 cut(s) 71, 278
ScrFI CCNGG 3 cut(s) 318, 382, 432
SduI GDGCHC 1 cut(s) 684
SfaNI GCATC 2 cut(s) 99, 212
SinI GGWCC 4 cut(s) 310, 374, 580, 806
SmiMI CAYNNNNRTG 1 cut(s) 687
SmlI CTYRAG 1 cut(s) 469
SmoI CTYRAG 1 cut(s) 469
Sse9I AATT 3 cut(s) 278, 627, 734
SsiI CCGC 4 cut(s) 9, 44, 127, 249
SspMI CTAG 1 cut(s) 597
StyD4I CCNGG 3 cut(s) 316, 380, 430
StyI CCWWGG 1 cut(s) 778
TaaI ACNGT 2 cut(s) 584, 657
TaqI TCGA 3 cut(s) 234, 276, 339
TaqII GACCGA 1 cut(s) 489
TasI AATT 3 cut(s) 278, 627, 734
TatI WGTACW 2 cut(s) 458, 747
TauI GCSGC 2 cut(s) 46, 130
Tru1I TTAA 3 cut(s) 575, 588, 812
Tru9I TTAA 3 cut(s) 575, 588, 812
TscAI CASTG 3 cut(s) 298, 531, 669
TseI GCWGC 3 cut(s) 121, 124, 365
TspDTI ATGAA 3 cut(s) 165, 563, 747
TspGWI ACGGA 1 cut(s) 341
TspRI CASTG 3 cut(s) 298, 531, 669
VneI GTGCAC 1 cut(s) 680
VpaK11BI GGWCC 4 cut(s) 310, 374, 580, 806
VspI ATTAAT 1 cut(s) 812
XapI RAATTY 1 cut(s) 734
XceI RCATGY 1 cut(s) 359
XmnI GAANNNNTTC 1 cut(s) 533
XspI CTAG 1 cut(s) 597
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.