Rh4BG152700

U3-containing 90S pre-ribosomal complex subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr4B
OG0012458
Physical Location & Seq
Forward (+)
27435890 .. 27440977
5088 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh4BG152700.1

Sequence Viewer

Length: 612 bp
ATGGGGAGCGGGAAAGAAAGGAACTCTAAGAACAAGGGTAAGCCGCTTGGCCCCAAAACAACCAAACTCAAAGCCGACTCCCACTCCGGCATCAACAACAAGAACAAGAACAAGAAGCAGCAGCGGCCCAACAAGAATACCCAAAATGAAAACCAAATCGGAACTCAAAACAGCGAAGACAGCAAGCTACAACCGGCATCGCCGTCGGCACAACTCAACTCGTTCCTCGACAAGTTTCAATCCGCCAATCGTCTCCAGCTTTCTTCTCTCGAATTGGACTCCCTCACTGATAAGTGTATTGTGGACCTGTCTGGAAGCACGGATCAAGATGTCGAAAACTTGGGGAAACATGTGAAGGCAGCTTTTGGTCCATCGTGGAAAGCTGAACTATGTGATAAGCGTCTCTTGGAAGGAAAAGTTGATCCAGGAAGTCCAGCAGTTCTTATTATTAGTACATCTGCCTTGAGATCAATAGAACTTCTAAGGGGCTTTCGGTCGCTGACTAAAGAATGCCATCCAGTGAAGCTGTTCTCAAAGCATATGAAGGTTGACGAACAGGTCTCCTTGTTAAAGGACCGTGTTAACATCGCTAGTGGTACACCAAGCAGGTAA
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

203

Amino Acids

22.26

Weight (kDa)

9.71

Isoelectric Point (pI)

47.14

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
CMS1 PF14617 32 - 203 6.5e-18 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) 557
Acc36I ACCTGC 1 cut(s) 597
AccBSI CCGCTC 1 cut(s) 9
AciI CCGC 4 cut(s) 9, 44, 124, 243
AclWI GGATC 2 cut(s) 330, 416
AfaI GTAC 2 cut(s) 454, 598
AflIII ACRYGT 1 cut(s) 349
AgsI TTSAA 1 cut(s) 239
AjnI CCWGG 1 cut(s) 424
AluBI AGCT 5 cut(s) 187, 259, 362, 383, 526
AluI AGCT 5 cut(s) 187, 259, 362, 383, 526
Alw26I GTCTC 3 cut(s) 257, 407, 565
AlwI GGATC 2 cut(s) 330, 416
AoxI GGCC 2 cut(s) 49, 125
ApeKI GCWGC 3 cut(s) 118, 121, 359
Asp700I GAANNNNTTC 1 cut(s) 527
AspS9I GGNCC 5 cut(s) 50, 126, 304, 368, 574
AvaII GGWCC 3 cut(s) 304, 368, 574
BbsI GAAGAC 1 cut(s) 183
BbvI GCAGC 3 cut(s) 130, 133, 371
BccI CCATC 2 cut(s) 379, 522
BceAI ACGGC 1 cut(s) 187
BcgI CGANNNNNNTGC 2 cut(s) 186, 220
BciT130I CCWGG 1 cut(s) 426
BcoDI GTCTC 3 cut(s) 257, 407, 565
BfaI CTAG 1 cut(s) 591
BfuAI ACCTGC 1 cut(s) 597
BisI GCNGC 5 cut(s) 44, 119, 122, 125, 360
BlsI GCNGC 5 cut(s) 45, 120, 123, 126, 361
Bme1390I CCNGG 1 cut(s) 426
Bme18I GGWCC 3 cut(s) 304, 368, 574
BmgT120I GGNCC 5 cut(s) 50, 126, 304, 368, 574
BmiI GGNNCC 1 cut(s) 52
BmrFI CCNGG 1 cut(s) 426
BmsI GCATC 2 cut(s) 99, 206
BpiI GAAGAC 1 cut(s) 183
BpmI CTGGAG 1 cut(s) 239
BpuEI CTTGAG 1 cut(s) 484
BsaI GGTCTC 1 cut(s) 565
BsaXI ACNNNNNCTCC 2 cut(s) 68, 98
Bse118I RCCGGY 1 cut(s) 193
Bse1I ACTGG 1 cut(s) 518
BseBI CCWGG 1 cut(s) 426
BseGI GGATG 1 cut(s) 514
BseNI ACTGG 1 cut(s) 518
BseXI GCAGC 3 cut(s) 130, 133, 371
Bsh1285I CGRYCG 1 cut(s) 497
BshFI GGCC 2 cut(s) 51, 127
BsiEI CGRYCG 1 cut(s) 497
BsiSI CCGG 2 cut(s) 87, 194
BsmAI GTCTC 3 cut(s) 257, 407, 565
BsmBI CGTCTC 2 cut(s) 257, 407
BsmI GAATGC 1 cut(s) 515
BsnI GGCC 2 cut(s) 51, 127
Bso31I GGTCTC 1 cut(s) 565
Bsp143I GATC 3 cut(s) 322, 421, 467
BspACI CCGC 4 cut(s) 9, 44, 124, 243
BspANI GGCC 2 cut(s) 51, 127
BspLI GGNNCC 1 cut(s) 52
BspMI ACCTGC 1 cut(s) 597
BspPI GGATC 2 cut(s) 330, 416
BspTNI GGTCTC 1 cut(s) 565
BsrBI CCGCTC 1 cut(s) 9
BsrFI RCCGGY 1 cut(s) 193
BsrI ACTGG 1 cut(s) 518
BssAI RCCGGY 1 cut(s) 193
BssMI GATC 3 cut(s) 322, 421, 467
Bst2UI CCWGG 1 cut(s) 426
Bst4CI ACNGT 1 cut(s) 578
BstC8I GCNNGC 1 cut(s) 185
BstDEI CTNAG 2 cut(s) 27, 482
BstF5I GGATG 1 cut(s) 514
BstKTI GATC 3 cut(s) 325, 424, 470
BstMAI GTCTC 3 cut(s) 257, 407, 565
BstMBI GATC 3 cut(s) 322, 421, 467
BstMCI CGRYCG 1 cut(s) 497
BstMWI GCNNNNNNNGC 2 cut(s) 124, 180
BstNI CCWGG 1 cut(s) 426
BstNSI RCATGY 1 cut(s) 353
BstSCI CCNGG 1 cut(s) 424
BstV1I GCAGC 3 cut(s) 130, 133, 371
BstV2I GAAGAC 1 cut(s) 183
BsuRI GGCC 2 cut(s) 51, 127
BtgZI GCGATG 2 cut(s) 183, 571
BtsCI GGATG 1 cut(s) 514
BtsIMutI CAGTG 2 cut(s) 285, 525
BveI ACCTGC 1 cut(s) 597
Cac8I GCNNGC 1 cut(s) 185
Cfr10I RCCGGY 1 cut(s) 193
Cfr13I GGNCC 5 cut(s) 50, 126, 304, 368, 574
CseI GACGC 1 cut(s) 389
Csp6I GTAC 2 cut(s) 453, 597
CviAII CATG 1 cut(s) 350
CviQI GTAC 2 cut(s) 453, 597
DdeI CTNAG 2 cut(s) 27, 482
DpnI GATC 3 cut(s) 324, 423, 469
DpnII GATC 3 cut(s) 322, 421, 467
DrdI GACNNNNNNGTC 1 cut(s) 557
DseDI GACNNNNNNGTC 1 cut(s) 557
EciI GGCGGA 1 cut(s) 232
Eco31I GGTCTC 1 cut(s) 565
Eco47I GGWCC 3 cut(s) 304, 368, 574
EcoRII CCWGG 1 cut(s) 424
Esp3I CGTCTC 2 cut(s) 257, 407
FaeI CATG 1 cut(s) 353
FaiI YATR 4 cut(s) 351, 391, 540, 542
FalI AAGNNNNNCTT 2 cut(s) 389, 421
FatI CATG 1 cut(s) 349
FauI CCCGC 1 cut(s) 2
FauNDI CATATG 1 cut(s) 540
Fnu4HI GCNGC 5 cut(s) 44, 119, 122, 125, 360
FokI GGATG 1 cut(s) 501
Fsp4HI GCNGC 5 cut(s) 44, 119, 122, 125, 360
FspBI CTAG 1 cut(s) 591
GluI GCNGC 5 cut(s) 44, 119, 122, 125, 360
GsuI CTGGAG 1 cut(s) 239
HaeIII GGCC 2 cut(s) 51, 127
HapII CCGG 2 cut(s) 87, 194
HgaI GACGC 1 cut(s) 389
Hin1II CATG 1 cut(s) 353
HincII GTYRAC 2 cut(s) 550, 583
HindII GTYRAC 2 cut(s) 550, 583
HinfI GANTC 2 cut(s) 77, 278
HpaI GTTAAC 1 cut(s) 583
HpaII CCGG 2 cut(s) 87, 194
Hpy166II GTNNAC 4 cut(s) 304, 550, 583, 599
Hpy188I TCNGA 1 cut(s) 161
Hpy188III TCNNGA 3 cut(s) 269, 312, 326
Hpy8I GTNNAC 4 cut(s) 304, 550, 583, 599
Hpy99I CGWCG 1 cut(s) 208
HpyAV CCTTC 3 cut(s) 349, 404, 538
HpyCH4III ACNGT 1 cut(s) 578
HpyF10VI GCNNNNNNNGC 2 cut(s) 124, 180
HpyF3I CTNAG 2 cut(s) 27, 482
Hsp92II CATG 1 cut(s) 353
KspAI GTTAAC 1 cut(s) 583
Kzo9I GATC 3 cut(s) 322, 421, 467
LmnI GCTCC 1 cut(s) 6
Lsp1109I GCAGC 3 cut(s) 130, 133, 371
LweI GCATC 2 cut(s) 99, 206
MaeI CTAG 1 cut(s) 591
MalI GATC 3 cut(s) 324, 423, 469
MbiI CCGCTC 1 cut(s) 9
MboI GATC 3 cut(s) 322, 421, 467
MboII GAAGA 2 cut(s) 188, 255
MluCI AATT 1 cut(s) 272
MlyI GAGTC 2 cut(s) 71, 272
MnlI CCTC 2 cut(s) 236, 293
MroXI GAANNNNTTC 1 cut(s) 527
MseI TTAA 2 cut(s) 569, 582
MspA1I CMGCKG 1 cut(s) 124
MspI CCGG 2 cut(s) 87, 194
MspR9I CCNGG 1 cut(s) 426
Mva1269I GAATGC 1 cut(s) 515
MvaI CCWGG 1 cut(s) 426
MwoI GCNNNNNNNGC 2 cut(s) 124, 180
NdeI CATATG 1 cut(s) 540
NdeII GATC 3 cut(s) 322, 421, 467
NlaIII CATG 1 cut(s) 353
NlaIV GGNNCC 1 cut(s) 52
NspI RCATGY 1 cut(s) 353
PciI ACATGT 1 cut(s) 349
PctI GAATGC 1 cut(s) 515
PdmI GAANNNNTTC 1 cut(s) 527
PfoI TCCNGGA 1 cut(s) 424
PkrI GCNGC 5 cut(s) 45, 120, 123, 126, 361
PleI GAGTC 2 cut(s) 71, 272
PpsI GAGTC 2 cut(s) 71, 272
PscI ACATGT 1 cut(s) 349
Psp6I CCWGG 1 cut(s) 424
PspGI CCWGG 1 cut(s) 424
PspN4I GGNNCC 1 cut(s) 52
PspPI GGNCC 5 cut(s) 50, 126, 304, 368, 574
RsaI GTAC 2 cut(s) 454, 598
RsaNI GTAC 2 cut(s) 453, 597
SaqAI TTAA 2 cut(s) 569, 582
SatI GCNGC 5 cut(s) 44, 119, 122, 125, 360
Sau3AI GATC 3 cut(s) 322, 421, 467
Sau96I GGNCC 5 cut(s) 50, 126, 304, 368, 574
SchI GAGTC 2 cut(s) 71, 272
ScrFI CCNGG 1 cut(s) 426
SetI ASST 9 cut(s) 189, 261, 309, 364, 385, 528, 549, 561, 611
SfaNI GCATC 2 cut(s) 99, 206
SinI GGWCC 3 cut(s) 304, 368, 574
SmlI CTYRAG 1 cut(s) 463
SmoI CTYRAG 1 cut(s) 463
Sse9I AATT 1 cut(s) 272
SsiI CCGC 4 cut(s) 9, 44, 124, 243
SspMI CTAG 1 cut(s) 591
StyD4I CCNGG 1 cut(s) 424
TaaI ACNGT 1 cut(s) 578
TaqI TCGA 3 cut(s) 228, 270, 333
TaqII GACCGA 1 cut(s) 483
TasI AATT 1 cut(s) 272
TatI WGTACW 1 cut(s) 452
TauI GCSGC 2 cut(s) 46, 127
Tru1I TTAA 2 cut(s) 569, 582
Tru9I TTAA 2 cut(s) 569, 582
TscAI CASTG 2 cut(s) 292, 525
TseI GCWGC 3 cut(s) 118, 121, 359
TspDTI ATGAA 2 cut(s) 162, 557
TspGWI ACGGA 1 cut(s) 335
TspRI CASTG 2 cut(s) 292, 525
VpaK11BI GGWCC 3 cut(s) 304, 368, 574
XceI RCATGY 1 cut(s) 353
XmnI GAANNNNTTC 1 cut(s) 527
XspI CTAG 1 cut(s) 591
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.