RchiOBHm_Chr4g0409281

U3-containing 90S pre-ribosomal complex subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
4
OG0012458
Physical Location & Seq
Forward (+)
32583260 .. 32588300
5041 bp
Loading structure...
UTR
Exon/CDS
Intron
N/A

Sequence Viewer

Length: 852 bp
ATGGGGAGCGGGAAAGAAAGGTTCAAGGGTAAGCCGCTTGGCCCCAAAACAACTAAACTCAAAGCCGACTCCCACTCCGGCATCAACAACAAGAACAAGAACAAGAAGCAGCAGCGGCCCAACAAGAATACCCAAAATGAAAACCAAATCGGAACTCAAAACAGCGAAGACGGCAATAACAAGCTACAACCGGCATCGCCGTCGGCACAACTCAACTCGTTCCTCGACAAGTTTCAATCGGCCAATCGTCTCCAGCTTTCTTCTCTCGAATTGGACTCCCTCACTGATAAGTGTATTGTGGACCTGTCTGGAAGCACGGATCAAGATGTCGAAAACTTGGGGAAACATGTGAAGGCAGCTTTTGGTCCATCGTGGAAAGCCGAACTATGTGATAAGCGTCTCTTGGAAGGAAAAGTTGATCCAGGAAGTCCAGCAGTTCTTATTATTAGTACATCTGCCTTGAGATCAATAGAACTTCTAAGGGGCTTTCGGTCGCTGACTAAAGAATGCCATCCAGTGAAGCTGTTCTCAAAGCATATGAAGGTTGACGAACAGGTCTCCTTGTTAAAGGACCGTGTTAACATCGCTAGTGGTACACCAAGCAGGATAAAGAAGCTAATTGATATTGAGGCATTGGGACTTTCACGGTTATCAGTGATTGTGCTTGATGTGCACCCAGATGTAAAGGGCTATTCCCTGTTGACGCTTCCACAAGTCAGAGATGAATTTTGGGACTTGTACAAGACCTATTTTCACCAGCGATTACTCCAAGGTTCCTTGCGTCTCTCTCTCTATGGTCCATTAATATCTGATAACGAGTTCAAGGGAAAAAAGAAGAGACCCAATGAATAG
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

283

Amino Acids

31.57

Weight (kDa)

9.62

Isoelectric Point (pI)

38.29

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
CMS1 PF14617 29 - 246 2.5e-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) 554
AccBSI CCGCTC 1 cut(s) 9
AciI CCGC 3 cut(s) 9, 35, 115
AclWI GGATC 2 cut(s) 327, 413
AcoI YGGCCR 1 cut(s) 240
AcsI RAATTY 1 cut(s) 725
AfaI GTAC 3 cut(s) 451, 595, 740
AflIII ACRYGT 1 cut(s) 346
AgsI TTSAA 3 cut(s) 25, 236, 823
AjnI CCWGG 1 cut(s) 421
AluBI AGCT 5 cut(s) 184, 256, 359, 523, 616
AluI AGCT 5 cut(s) 184, 256, 359, 523, 616
Alw21I GWGCWC 1 cut(s) 675
Alw26I GTCTC 5 cut(s) 254, 404, 562, 788, 832
Alw44I GTGCAC 1 cut(s) 671
AlwI GGATC 2 cut(s) 327, 413
AoxI GGCC 3 cut(s) 40, 116, 240
ApaLI GTGCAC 1 cut(s) 671
ApeKI GCWGC 3 cut(s) 109, 112, 356
ApoI RAATTY 1 cut(s) 725
AseI ATTAAT 1 cut(s) 803
Asp700I GAANNNNTTC 1 cut(s) 524
AspS9I GGNCC 6 cut(s) 41, 117, 301, 365, 571, 797
AsuHPI GGTGA 1 cut(s) 746
AvaII GGWCC 4 cut(s) 301, 365, 571, 797
BaeGI GKGCMC 1 cut(s) 675
BbsI GAAGAC 1 cut(s) 174
Bbv12I GWGCWC 1 cut(s) 675
BbvI GCAGC 3 cut(s) 121, 124, 368
BccI CCATC 2 cut(s) 376, 519
BceAI ACGGC 2 cut(s) 184, 187
BcgI CGANNNNNNTGC 2 cut(s) 183, 217
BciT130I CCWGG 1 cut(s) 423
BcoDI GTCTC 5 cut(s) 254, 404, 562, 788, 832
BfaI CTAG 1 cut(s) 588
BisI GCNGC 5 cut(s) 35, 110, 113, 116, 357
BlsI GCNGC 5 cut(s) 36, 111, 114, 117, 358
Bme1390I CCNGG 1 cut(s) 423
Bme18I GGWCC 4 cut(s) 301, 365, 571, 797
BmgT120I GGNCC 6 cut(s) 41, 117, 301, 365, 571, 797
BmiI GGNNCC 2 cut(s) 43, 775
BmrFI CCNGG 1 cut(s) 423
BmsI GCATC 2 cut(s) 90, 203
BpiI GAAGAC 1 cut(s) 174
BpmI CTGGAG 1 cut(s) 236
BpuEI CTTGAG 1 cut(s) 481
BsaI GGTCTC 2 cut(s) 562, 832
BsaJI CCNNGG 1 cut(s) 769
BsaXI ACNNNNNCTCC 2 cut(s) 59, 89
Bse118I RCCGGY 1 cut(s) 190
Bse1I ACTGG 1 cut(s) 515
BseBI CCWGG 1 cut(s) 423
BseDI CCNNGG 1 cut(s) 769
BseGI GGATG 1 cut(s) 511
BseNI ACTGG 1 cut(s) 515
BseSI GKGCMC 1 cut(s) 675
BseXI GCAGC 3 cut(s) 121, 124, 368
Bsh1285I CGRYCG 1 cut(s) 494
BshFI GGCC 3 cut(s) 42, 118, 242
BsiEI CGRYCG 1 cut(s) 494
BsiHKAI GWGCWC 1 cut(s) 675
BsiSI CCGG 2 cut(s) 78, 191
BslFI GGGAC 2 cut(s) 651, 746
BsmAI GTCTC 5 cut(s) 254, 404, 562, 788, 832
BsmBI CGTCTC 3 cut(s) 254, 404, 788
BsmFI GGGAC 2 cut(s) 651, 746
BsmI GAATGC 1 cut(s) 512
BsnI GGCC 3 cut(s) 42, 118, 242
Bso31I GGTCTC 2 cut(s) 562, 832
Bsp1286I GDGCHC 1 cut(s) 675
Bsp1407I TGTACA 1 cut(s) 738
Bsp143I GATC 3 cut(s) 319, 418, 464
BspACI CCGC 3 cut(s) 9, 35, 115
BspANI GGCC 3 cut(s) 42, 118, 242
BspLI GGNNCC 2 cut(s) 43, 775
BspPI GGATC 2 cut(s) 327, 413
BspTNI GGTCTC 2 cut(s) 562, 832
BsrBI CCGCTC 1 cut(s) 9
BsrFI RCCGGY 1 cut(s) 190
BsrGI TGTACA 1 cut(s) 738
BsrI ACTGG 1 cut(s) 515
BssAI RCCGGY 1 cut(s) 190
BssECI CCNNGG 1 cut(s) 769
BssMI GATC 3 cut(s) 319, 418, 464
BssT1I CCWWGG 1 cut(s) 769
Bst2UI CCWGG 1 cut(s) 423
Bst4CI ACNGT 2 cut(s) 575, 648
Bst6I CTCTTC 1 cut(s) 830
BstAUI TGTACA 1 cut(s) 738
BstDEI CTNAG 1 cut(s) 479
BstF5I GGATG 1 cut(s) 511
BstKTI GATC 3 cut(s) 322, 421, 467
BstMAI GTCTC 5 cut(s) 254, 404, 562, 788, 832
BstMBI GATC 3 cut(s) 319, 418, 464
BstMCI CGRYCG 1 cut(s) 494
BstMWI GCNNNNNNNGC 3 cut(s) 115, 171, 670
BstNI CCWGG 1 cut(s) 423
BstNSI RCATGY 1 cut(s) 350
BstSCI CCNGG 1 cut(s) 421
BstSLI GKGCMC 1 cut(s) 675
BstV1I GCAGC 3 cut(s) 121, 124, 368
BstV2I GAAGAC 1 cut(s) 174
BsuRI GGCC 3 cut(s) 42, 118, 242
BtgZI GCGATG 2 cut(s) 180, 568
BtsCI GGATG 1 cut(s) 511
BtsIMutI CAGTG 3 cut(s) 282, 522, 660
Cfr10I RCCGGY 1 cut(s) 190
Cfr13I GGNCC 6 cut(s) 41, 117, 301, 365, 571, 797
CseI GACGC 3 cut(s) 386, 712, 770
Csp6I GTAC 3 cut(s) 450, 594, 739
CviAII CATG 1 cut(s) 347
CviQI GTAC 3 cut(s) 450, 594, 739
DdeI CTNAG 1 cut(s) 479
DpnI GATC 3 cut(s) 321, 420, 466
DpnII GATC 3 cut(s) 319, 418, 464
DrdI GACNNNNNNGTC 1 cut(s) 554
DseDI GACNNNNNNGTC 1 cut(s) 554
EaeI YGGCCR 1 cut(s) 240
Eam1104I CTCTTC 1 cut(s) 830
EarI CTCTTC 1 cut(s) 830
Eco130I CCWWGG 1 cut(s) 769
Eco31I GGTCTC 2 cut(s) 562, 832
Eco47I GGWCC 4 cut(s) 301, 365, 571, 797
EcoRII CCWGG 1 cut(s) 421
EcoT14I CCWWGG 1 cut(s) 769
ErhI CCWWGG 1 cut(s) 769
Esp3I CGTCTC 3 cut(s) 254, 404, 788
FaeI CATG 1 cut(s) 350
FaiI YATR 5 cut(s) 348, 388, 537, 539, 795
FalI AAGNNNNNCTT 2 cut(s) 386, 418
FaqI GGGAC 2 cut(s) 651, 746
FatI CATG 1 cut(s) 346
FauI CCCGC 1 cut(s) 2
FauNDI CATATG 1 cut(s) 537
Fnu4HI GCNGC 5 cut(s) 35, 110, 113, 116, 357
FokI GGATG 1 cut(s) 498
Fsp4HI GCNGC 5 cut(s) 35, 110, 113, 116, 357
FspBI CTAG 1 cut(s) 588
GluI GCNGC 5 cut(s) 35, 110, 113, 116, 357
GsuI CTGGAG 1 cut(s) 236
HaeIII GGCC 3 cut(s) 42, 118, 242
HapII CCGG 2 cut(s) 78, 191
HgaI GACGC 3 cut(s) 386, 712, 770
Hin1II CATG 1 cut(s) 350
HincII GTYRAC 3 cut(s) 547, 580, 702
HindII GTYRAC 3 cut(s) 547, 580, 702
HinfI GANTC 2 cut(s) 68, 275
HpaI GTTAAC 1 cut(s) 580
HpaII CCGG 2 cut(s) 78, 191
HphI GGTGA 1 cut(s) 746
Hpy166II GTNNAC 6 cut(s) 301, 547, 580, 596, 673, 702
Hpy188I TCNGA 3 cut(s) 152, 719, 811
Hpy188III TCNNGA 3 cut(s) 266, 309, 323
Hpy8I GTNNAC 6 cut(s) 301, 547, 580, 596, 673, 702
Hpy99I CGWCG 1 cut(s) 205
HpyAV CCTTC 3 cut(s) 346, 401, 535
HpyCH4III ACNGT 2 cut(s) 575, 648
HpyCH4V TGCA 1 cut(s) 673
HpyF10VI GCNNNNNNNGC 3 cut(s) 115, 171, 670
HpyF3I CTNAG 1 cut(s) 479
Hsp92II CATG 1 cut(s) 350
KspAI GTTAAC 1 cut(s) 580
Kzo9I GATC 3 cut(s) 319, 418, 464
LmnI GCTCC 1 cut(s) 6
Lsp1109I GCAGC 3 cut(s) 121, 124, 368
LweI GCATC 2 cut(s) 90, 203
MaeI CTAG 1 cut(s) 588
MalI GATC 3 cut(s) 321, 420, 466
MbiI CCGCTC 1 cut(s) 9
MboI GATC 3 cut(s) 319, 418, 464
MboII GAAGA 3 cut(s) 179, 252, 847
MhlI GDGCHC 1 cut(s) 675
MluCI AATT 3 cut(s) 269, 618, 725
MlyI GAGTC 2 cut(s) 62, 269
MnlI CCTC 3 cut(s) 233, 290, 622
MroXI GAANNNNTTC 1 cut(s) 524
MseI TTAA 3 cut(s) 566, 579, 803
MslI CAYNNNNRTG 1 cut(s) 678
MspA1I CMGCKG 1 cut(s) 115
MspI CCGG 2 cut(s) 78, 191
MspR9I CCNGG 1 cut(s) 423
Mva1269I GAATGC 1 cut(s) 512
MvaI CCWGG 1 cut(s) 423
MwoI GCNNNNNNNGC 3 cut(s) 115, 171, 670
NdeI CATATG 1 cut(s) 537
NdeII GATC 3 cut(s) 319, 418, 464
NlaIII CATG 1 cut(s) 350
NlaIV GGNNCC 2 cut(s) 43, 775
NspI RCATGY 1 cut(s) 350
PciI ACATGT 1 cut(s) 346
PctI GAATGC 1 cut(s) 512
PdmI GAANNNNTTC 1 cut(s) 524
PfoI TCCNGGA 1 cut(s) 421
PkrI GCNGC 5 cut(s) 36, 111, 114, 117, 358
PleI GAGTC 2 cut(s) 62, 269
PpsI GAGTC 2 cut(s) 62, 269
PscI ACATGT 1 cut(s) 346
PshBI ATTAAT 1 cut(s) 803
Psp6I CCWGG 1 cut(s) 421
PspGI CCWGG 1 cut(s) 421
PspN4I GGNNCC 2 cut(s) 43, 775
PspPI GGNCC 6 cut(s) 41, 117, 301, 365, 571, 797
RsaI GTAC 3 cut(s) 451, 595, 740
RsaNI GTAC 3 cut(s) 450, 594, 739
RseI CAYNNNNRTG 1 cut(s) 678
SaqAI TTAA 3 cut(s) 566, 579, 803
SatI GCNGC 5 cut(s) 35, 110, 113, 116, 357
Sau3AI GATC 3 cut(s) 319, 418, 464
Sau96I GGNCC 6 cut(s) 41, 117, 301, 365, 571, 797
SchI GAGTC 2 cut(s) 62, 269
ScrFI CCNGG 1 cut(s) 423
SduI GDGCHC 1 cut(s) 675
SfaNI GCATC 2 cut(s) 90, 203
SinI GGWCC 4 cut(s) 301, 365, 571, 797
SmiMI CAYNNNNRTG 1 cut(s) 678
SmlI CTYRAG 1 cut(s) 460
SmoI CTYRAG 1 cut(s) 460
Sse9I AATT 3 cut(s) 269, 618, 725
SsiI CCGC 3 cut(s) 9, 35, 115
SspMI CTAG 1 cut(s) 588
StyD4I CCNGG 1 cut(s) 421
StyI CCWWGG 1 cut(s) 769
TaaI ACNGT 2 cut(s) 575, 648
TaqI TCGA 3 cut(s) 225, 267, 330
TaqII GACCGA 1 cut(s) 480
TasI AATT 3 cut(s) 269, 618, 725
TatI WGTACW 2 cut(s) 449, 738
TauI GCSGC 2 cut(s) 37, 118
Tru1I TTAA 3 cut(s) 566, 579, 803
Tru9I TTAA 3 cut(s) 566, 579, 803
TscAI CASTG 3 cut(s) 289, 522, 660
TseI GCWGC 3 cut(s) 109, 112, 356
TspDTI ATGAA 3 cut(s) 153, 554, 738
TspGWI ACGGA 1 cut(s) 332
TspRI CASTG 3 cut(s) 289, 522, 660
VneI GTGCAC 1 cut(s) 671
VpaK11BI GGWCC 4 cut(s) 301, 365, 571, 797
VspI ATTAAT 1 cut(s) 803
XapI RAATTY 1 cut(s) 725
XceI RCATGY 1 cut(s) 350
XmnI GAANNNNTTC 1 cut(s) 524
XspI CTAG 1 cut(s) 588
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.