Rroxscaffold_5G00353750

U3-containing 90S pre-ribosomal complex subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000005
OG0012458
Physical Location & Seq
Forward (+)
31672554 .. 31677590
5037 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_5G00353750.1

Sequence Viewer

Length: 876 bp
ATGGGGAGCGGGAAAGAAAGGAACTCTAAGAACAAGGGTAAGCCGCTTGGCCTCAAAACAACCAAACTCAAAGCCGACTCCCACTCCGGCATCAACAACAAGAACAAGAAGAAGAAGAAGAAGCAGCGGCCCAACAACAATACCCAAAATGAAAACCAAATCGGAACTCAAAACAGCGAAGACGGCAACAACAACAAGCTACAACCGGCATCGCCGTCGGCACAACTCAACTCGTTCCTCGACAAGTTTCAATCCGCCAATCGTCTCCAGCTTTCTTCTCTCGAATTGGACTCCCTCACTGATTTCGCAGATAAATGTATTGTGGACCTGTCTGGAAGCACAGATCAAGATGTCGAAAACTTGGGGAAACATGTGAAGGCAGCTTTTGGTCCATCATGGAAAGCCGAACTATGTGATAAGCGTCTCTTGGAAGGAAAAGTTGATCCAGGGAGTCCAGCAGTTCTTATTATTAGTACATCTGCCTTGAGATCAATAGAACTTCTAAGGGGCTTTCGGTCGCTGACTAAAGAATGCCATCCAGTGAAGCTGTTCTCAAAGCATATGAAGGTTGACGAACAGGTCTCCTTGTTAAAGGACCGTGTTAACATCGCTAGTGGTACACCAAGCAGGATAAAGAAGCTAATTGACATTGAGGCATTGGGGCTTTCACGGTTATCAGTGATTGTGCTTGATGTGCACCCAGATGTAAAGGGCTATTCCCTGTTGACGCTTCCACAAGTCAGAGATGAATTTTGGGACTTGTACAAGACCTATTTTCACCAGCGATTACTCCAAGGTTCCTTGCGTCTCTCTCTCTATGGTCCATTAATATCTGATAACGAGTTCAAGGGAAAAAAGAAGAGACCCAATGAATAG
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

291

Amino Acids

32.46

Weight (kDa)

9.67

Isoelectric Point (pI)

36.13

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
CMS1 PF14617 29 - 254 1.3e-29 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) 578
AccBSI CCGCTC 1 cut(s) 9
AciI CCGC 4 cut(s) 9, 44, 127, 255
AclWI GGATC 1 cut(s) 437
AcsI RAATTY 1 cut(s) 749
AfaI GTAC 3 cut(s) 475, 619, 764
AflIII ACRYGT 1 cut(s) 370
AgsI TTSAA 2 cut(s) 251, 847
AjnI CCWGG 1 cut(s) 445
AluBI AGCT 5 cut(s) 199, 271, 383, 547, 640
AluI AGCT 5 cut(s) 199, 271, 383, 547, 640
Alw21I GWGCWC 1 cut(s) 699
Alw26I GTCTC 5 cut(s) 269, 428, 586, 812, 856
Alw44I GTGCAC 1 cut(s) 695
AlwI GGATC 1 cut(s) 437
AoxI GGCC 2 cut(s) 49, 128
ApaLI GTGCAC 1 cut(s) 695
ApeKI GCWGC 2 cut(s) 124, 380
ApoI RAATTY 1 cut(s) 749
AseI ATTAAT 1 cut(s) 827
Asp700I GAANNNNTTC 1 cut(s) 548
AspS9I GGNCC 5 cut(s) 129, 325, 389, 595, 821
AsuHPI GGTGA 1 cut(s) 770
AvaII GGWCC 4 cut(s) 325, 389, 595, 821
BaeGI GKGCMC 1 cut(s) 699
BbsI GAAGAC 1 cut(s) 186
Bbv12I GWGCWC 1 cut(s) 699
BbvI GCAGC 2 cut(s) 136, 392
BccI CCATC 2 cut(s) 400, 543
BceAI ACGGC 2 cut(s) 199, 199
BcgI CGANNNNNNTGC 2 cut(s) 198, 232
BciT130I CCWGG 1 cut(s) 447
BcoDI GTCTC 5 cut(s) 269, 428, 586, 812, 856
BfaI CTAG 1 cut(s) 612
BisI GCNGC 4 cut(s) 44, 125, 128, 381
BlsI GCNGC 4 cut(s) 45, 126, 129, 382
Bme1390I CCNGG 1 cut(s) 447
Bme18I GGWCC 4 cut(s) 325, 389, 595, 821
BmgT120I GGNCC 5 cut(s) 129, 325, 389, 595, 821
BmiI GGNNCC 1 cut(s) 799
BmrFI CCNGG 1 cut(s) 447
BmsI GCATC 2 cut(s) 99, 218
BpiI GAAGAC 1 cut(s) 186
BpmI CTGGAG 1 cut(s) 251
BpuEI CTTGAG 1 cut(s) 505
BsaI GGTCTC 2 cut(s) 586, 856
BsaJI CCNNGG 2 cut(s) 446, 793
BsaXI ACNNNNNCTCC 2 cut(s) 68, 98
Bse118I RCCGGY 1 cut(s) 205
Bse1I ACTGG 1 cut(s) 539
BseBI CCWGG 1 cut(s) 447
BseDI CCNNGG 2 cut(s) 446, 793
BseGI GGATG 1 cut(s) 535
BseNI ACTGG 1 cut(s) 539
BseSI GKGCMC 1 cut(s) 699
BseXI GCAGC 2 cut(s) 136, 392
Bsh1285I CGRYCG 1 cut(s) 518
BshFI GGCC 2 cut(s) 51, 130
BsiEI CGRYCG 1 cut(s) 518
BsiHKAI GWGCWC 1 cut(s) 699
BsiSI CCGG 2 cut(s) 87, 206
BslFI GGGAC 1 cut(s) 770
BsmAI GTCTC 5 cut(s) 269, 428, 586, 812, 856
BsmBI CGTCTC 3 cut(s) 269, 428, 812
BsmFI GGGAC 1 cut(s) 770
BsmI GAATGC 1 cut(s) 536
BsnI GGCC 2 cut(s) 51, 130
Bso31I GGTCTC 2 cut(s) 586, 856
Bsp1286I GDGCHC 1 cut(s) 699
Bsp1407I TGTACA 1 cut(s) 762
Bsp143I GATC 3 cut(s) 343, 442, 488
BspACI CCGC 4 cut(s) 9, 44, 127, 255
BspANI GGCC 2 cut(s) 51, 130
BspLI GGNNCC 1 cut(s) 799
BspPI GGATC 1 cut(s) 437
BspTNI GGTCTC 2 cut(s) 586, 856
BsrBI CCGCTC 1 cut(s) 9
BsrFI RCCGGY 1 cut(s) 205
BsrGI TGTACA 1 cut(s) 762
BsrI ACTGG 1 cut(s) 539
BssAI RCCGGY 1 cut(s) 205
BssECI CCNNGG 2 cut(s) 446, 793
BssMI GATC 3 cut(s) 343, 442, 488
BssT1I CCWWGG 1 cut(s) 793
Bst2UI CCWGG 1 cut(s) 447
Bst4CI ACNGT 2 cut(s) 599, 672
Bst6I CTCTTC 1 cut(s) 854
BstAUI TGTACA 1 cut(s) 762
BstDEI CTNAG 2 cut(s) 27, 503
BstF5I GGATG 1 cut(s) 535
BstKTI GATC 3 cut(s) 346, 445, 491
BstMAI GTCTC 5 cut(s) 269, 428, 586, 812, 856
BstMBI GATC 3 cut(s) 343, 442, 488
BstMCI CGRYCG 1 cut(s) 518
BstMWI GCNNNNNNNGC 2 cut(s) 183, 694
BstNI CCWGG 1 cut(s) 447
BstNSI RCATGY 1 cut(s) 374
BstSCI CCNGG 1 cut(s) 445
BstSLI GKGCMC 1 cut(s) 699
BstV1I GCAGC 2 cut(s) 136, 392
BstV2I GAAGAC 1 cut(s) 186
BsuRI GGCC 2 cut(s) 51, 130
BtgZI GCGATG 2 cut(s) 195, 592
BtsCI GGATG 1 cut(s) 535
BtsIMutI CAGTG 3 cut(s) 297, 546, 684
Cfr10I RCCGGY 1 cut(s) 205
Cfr13I GGNCC 5 cut(s) 129, 325, 389, 595, 821
CseI GACGC 3 cut(s) 410, 736, 794
Csp6I GTAC 3 cut(s) 474, 618, 763
CviAII CATG 2 cut(s) 371, 396
CviQI GTAC 3 cut(s) 474, 618, 763
DdeI CTNAG 2 cut(s) 27, 503
DpnI GATC 3 cut(s) 345, 444, 490
DpnII GATC 3 cut(s) 343, 442, 488
DrdI GACNNNNNNGTC 1 cut(s) 578
DseDI GACNNNNNNGTC 1 cut(s) 578
Eam1104I CTCTTC 1 cut(s) 854
EarI CTCTTC 1 cut(s) 854
EciI GGCGGA 1 cut(s) 244
Eco130I CCWWGG 1 cut(s) 793
Eco31I GGTCTC 2 cut(s) 586, 856
Eco47I GGWCC 4 cut(s) 325, 389, 595, 821
EcoRII CCWGG 1 cut(s) 445
EcoT14I CCWWGG 1 cut(s) 793
ErhI CCWWGG 1 cut(s) 793
Esp3I CGTCTC 3 cut(s) 269, 428, 812
FaeI CATG 2 cut(s) 374, 399
FaiI YATR 6 cut(s) 372, 397, 412, 561, 563, 819
FalI AAGNNNNNCTT 2 cut(s) 410, 442
FaqI GGGAC 1 cut(s) 770
FatI CATG 2 cut(s) 370, 395
FauI CCCGC 1 cut(s) 2
FauNDI CATATG 1 cut(s) 561
Fnu4HI GCNGC 4 cut(s) 44, 125, 128, 381
FokI GGATG 1 cut(s) 522
Fsp4HI GCNGC 4 cut(s) 44, 125, 128, 381
FspBI CTAG 1 cut(s) 612
GluI GCNGC 4 cut(s) 44, 125, 128, 381
GsuI CTGGAG 1 cut(s) 251
HaeIII GGCC 2 cut(s) 51, 130
HapII CCGG 2 cut(s) 87, 206
HgaI GACGC 3 cut(s) 410, 736, 794
Hin1II CATG 2 cut(s) 374, 399
HincII GTYRAC 3 cut(s) 571, 604, 726
HindII GTYRAC 3 cut(s) 571, 604, 726
HinfI GANTC 3 cut(s) 77, 290, 451
HpaI GTTAAC 1 cut(s) 604
HpaII CCGG 2 cut(s) 87, 206
HphI GGTGA 1 cut(s) 770
Hpy166II GTNNAC 6 cut(s) 325, 571, 604, 620, 697, 726
Hpy188I TCNGA 3 cut(s) 164, 743, 835
Hpy188III TCNNGA 3 cut(s) 281, 333, 347
Hpy8I GTNNAC 6 cut(s) 325, 571, 604, 620, 697, 726
Hpy99I CGWCG 1 cut(s) 220
HpyAV CCTTC 3 cut(s) 370, 425, 559
HpyCH4III ACNGT 2 cut(s) 599, 672
HpyCH4V TGCA 1 cut(s) 697
HpyF10VI GCNNNNNNNGC 2 cut(s) 183, 694
HpyF3I CTNAG 2 cut(s) 27, 503
Hsp92II CATG 2 cut(s) 374, 399
KspAI GTTAAC 1 cut(s) 604
Kzo9I GATC 3 cut(s) 343, 442, 488
LmnI GCTCC 1 cut(s) 6
Lsp1109I GCAGC 2 cut(s) 136, 392
LweI GCATC 2 cut(s) 99, 218
MaeI CTAG 1 cut(s) 612
MalI GATC 3 cut(s) 345, 444, 490
MbiI CCGCTC 1 cut(s) 9
MboI GATC 3 cut(s) 343, 442, 488
MboII GAAGA 7 cut(s) 121, 124, 127, 130, 191, 267, 871
MhlI GDGCHC 1 cut(s) 699
MluCI AATT 3 cut(s) 284, 642, 749
MlyI GAGTC 3 cut(s) 71, 284, 460
MnlI CCTC 4 cut(s) 62, 248, 305, 646
MroXI GAANNNNTTC 1 cut(s) 548
MseI TTAA 3 cut(s) 590, 603, 827
MslI CAYNNNNRTG 1 cut(s) 702
MspA1I CMGCKG 1 cut(s) 127
MspI CCGG 2 cut(s) 87, 206
MspR9I CCNGG 1 cut(s) 447
Mva1269I GAATGC 1 cut(s) 536
MvaI CCWGG 1 cut(s) 447
MwoI GCNNNNNNNGC 2 cut(s) 183, 694
NdeI CATATG 1 cut(s) 561
NdeII GATC 3 cut(s) 343, 442, 488
NlaIII CATG 2 cut(s) 374, 399
NlaIV GGNNCC 1 cut(s) 799
NspI RCATGY 1 cut(s) 374
PciI ACATGT 1 cut(s) 370
PctI GAATGC 1 cut(s) 536
PdmI GAANNNNTTC 1 cut(s) 548
PkrI GCNGC 4 cut(s) 45, 126, 129, 382
PleI GAGTC 3 cut(s) 71, 284, 459
PpsI GAGTC 3 cut(s) 71, 284, 459
PscI ACATGT 1 cut(s) 370
PshBI ATTAAT 1 cut(s) 827
Psp6I CCWGG 1 cut(s) 445
PspGI CCWGG 1 cut(s) 445
PspN4I GGNNCC 1 cut(s) 799
PspPI GGNCC 5 cut(s) 129, 325, 389, 595, 821
RsaI GTAC 3 cut(s) 475, 619, 764
RsaNI GTAC 3 cut(s) 474, 618, 763
RseI CAYNNNNRTG 1 cut(s) 702
SaqAI TTAA 3 cut(s) 590, 603, 827
SatI GCNGC 4 cut(s) 44, 125, 128, 381
Sau3AI GATC 3 cut(s) 343, 442, 488
Sau96I GGNCC 5 cut(s) 129, 325, 389, 595, 821
SchI GAGTC 3 cut(s) 71, 284, 460
ScrFI CCNGG 1 cut(s) 447
SduI GDGCHC 1 cut(s) 699
SfaNI GCATC 2 cut(s) 99, 218
SinI GGWCC 4 cut(s) 325, 389, 595, 821
SmiMI CAYNNNNRTG 1 cut(s) 702
SmlI CTYRAG 1 cut(s) 484
SmoI CTYRAG 1 cut(s) 484
Sse9I AATT 3 cut(s) 284, 642, 749
SsiI CCGC 4 cut(s) 9, 44, 127, 255
SspMI CTAG 1 cut(s) 612
StyD4I CCNGG 1 cut(s) 445
StyI CCWWGG 1 cut(s) 793
TaaI ACNGT 2 cut(s) 599, 672
TaqI TCGA 3 cut(s) 240, 282, 354
TaqII GACCGA 1 cut(s) 504
TasI AATT 3 cut(s) 284, 642, 749
TatI WGTACW 2 cut(s) 473, 762
TauI GCSGC 2 cut(s) 46, 130
Tru1I TTAA 3 cut(s) 590, 603, 827
Tru9I TTAA 3 cut(s) 590, 603, 827
TscAI CASTG 3 cut(s) 304, 546, 684
TseI GCWGC 2 cut(s) 124, 380
TspDTI ATGAA 3 cut(s) 165, 578, 762
TspRI CASTG 3 cut(s) 304, 546, 684
VneI GTGCAC 1 cut(s) 695
VpaK11BI GGWCC 4 cut(s) 325, 389, 595, 821
VspI ATTAAT 1 cut(s) 827
XapI RAATTY 1 cut(s) 749
XceI RCATGY 1 cut(s) 374
XmnI GAANNNNTTC 1 cut(s) 548
XspI CTAG 1 cut(s) 612
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.