Rh4CG164000

U3-containing 90S pre-ribosomal complex subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr4C
OG0012458
Physical Location & Seq
Forward (+)
36133875 .. 36139020
5146 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh4CG164000.1

Sequence Viewer

Length: 876 bp
ATGGGGAGCGGGAAAGAAAGGAACTCTAAGAACAAGGGTAAGCCGCTTGGCCCCAAAACAACCAAACTCAAAGCCGACTCCCACTCCGGCATCAACAACAAGAAGAACAAGAACAAGAAGAAGCAGCAGCGGCCCAACAAGAATACCCAAAATGAAAACCAAATCGGAACTCAAAACAGCGAAGACGGCAACAACAACAACAACAACAAGCTACAACCGGCATCGCCGTCGGCACAACTCAACTCGTTCCTCGACAAGTTTCAATCCGCCAATCGTCTCCAGCTTTCTTCTCTCGAATTGGACTCCCTCACTGATAAATGTATTGTGGACCTGTCTGGAAGCACGGATCAGGATGTCGAAAACTTGGGGAAACATGTGAAGGCAGCTTTTGGTCCATCGTGGAAAGCCGAACTATGTGATAAGCGTCTCTTGGAAGGAAATGTTGATCCAGGAAGTCCAGCAGTTCTTATTATTAGTACTTCTGCCTTGAGATCAATAGAACTTCTAAGGGGCTTTCGGTCGCTGACTAAAGAATGCCATCCAGTGAAGCTGTTCTCAAAGCATATGAAGGTTGACGAACAGGTCTCCTTGTTAAAGGACCGTGTTAACATCGCTAGTGGTACACCAAGCAGGATAAAGAAGCTAATTGACATTGAGGCATTGGGGCTTTCACGGTTATCAGTAATTGTGCTTGATGTGCACCCAGATGTAAAGGGCTATTCCCTGTTGACGCTTCCTCAAGTCAGAGATGAATTTTGGGATTTGTACAAGACGTATTTTCACCAGCGATTACTCCAAGGTTCCTTGCGTCTTTCTCTTCATGGTCCATTAATATCTGATAATGAGTTCAAGGGAAAAAAGAAACCCACTGAATAG
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

32.37

Weight (kDa)

9.65

Isoelectric Point (pI)

38.11

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
CMS1 PF14617 29 - 255 2.6e-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) 581
AccBSI CCGCTC 1 cut(s) 9
AciI CCGC 4 cut(s) 9, 44, 130, 267
AclWI GGATC 2 cut(s) 354, 440
AcsI RAATTY 1 cut(s) 752
AfaI GTAC 3 cut(s) 478, 622, 767
AflIII ACRYGT 1 cut(s) 373
AgsI TTSAA 2 cut(s) 263, 850
AjnI CCWGG 1 cut(s) 448
AluBI AGCT 5 cut(s) 211, 283, 386, 550, 643
AluI AGCT 5 cut(s) 211, 283, 386, 550, 643
Alw21I GWGCWC 1 cut(s) 702
Alw26I GTCTC 3 cut(s) 281, 431, 589
Alw44I GTGCAC 1 cut(s) 698
AlwI GGATC 2 cut(s) 354, 440
AoxI GGCC 2 cut(s) 49, 131
ApaLI GTGCAC 1 cut(s) 698
ApeKI GCWGC 3 cut(s) 124, 127, 383
ApoI RAATTY 1 cut(s) 752
AseI ATTAAT 1 cut(s) 830
Asp700I GAANNNNTTC 1 cut(s) 551
AspS9I GGNCC 6 cut(s) 50, 132, 328, 392, 598, 824
AsuHPI GGTGA 1 cut(s) 773
AvaII GGWCC 4 cut(s) 328, 392, 598, 824
BaeGI GKGCMC 1 cut(s) 702
BbsI GAAGAC 1 cut(s) 189
Bbv12I GWGCWC 1 cut(s) 702
BbvI GCAGC 3 cut(s) 136, 139, 395
BccI CCATC 2 cut(s) 403, 546
BceAI ACGGC 2 cut(s) 202, 211
BcgI CGANNNNNNTGC 2 cut(s) 210, 244
BciT130I CCWGG 1 cut(s) 450
BcoDI GTCTC 3 cut(s) 281, 431, 589
BfaI CTAG 1 cut(s) 615
BisI GCNGC 5 cut(s) 44, 125, 128, 131, 384
BlsI GCNGC 5 cut(s) 45, 126, 129, 132, 385
BmcAI AGTACT 1 cut(s) 478
Bme1390I CCNGG 1 cut(s) 450
Bme18I GGWCC 4 cut(s) 328, 392, 598, 824
BmgT120I GGNCC 6 cut(s) 50, 132, 328, 392, 598, 824
BmiI GGNNCC 2 cut(s) 52, 802
BmrFI CCNGG 1 cut(s) 450
BmsI GCATC 2 cut(s) 99, 230
BpiI GAAGAC 1 cut(s) 189
BpmI CTGGAG 1 cut(s) 263
BpuEI CTTGAG 2 cut(s) 508, 723
BsaI GGTCTC 1 cut(s) 589
BsaJI CCNNGG 1 cut(s) 796
BsaXI ACNNNNNCTCC 2 cut(s) 68, 98
Bse118I RCCGGY 1 cut(s) 217
Bse1I ACTGG 1 cut(s) 542
BseBI CCWGG 1 cut(s) 450
BseDI CCNNGG 1 cut(s) 796
BseGI GGATG 2 cut(s) 358, 538
BseNI ACTGG 1 cut(s) 542
BseSI GKGCMC 1 cut(s) 702
BseXI GCAGC 3 cut(s) 136, 139, 395
Bsh1285I CGRYCG 1 cut(s) 521
BshFI GGCC 2 cut(s) 51, 133
BsiEI CGRYCG 1 cut(s) 521
BsiHKAI GWGCWC 1 cut(s) 702
BsiSI CCGG 2 cut(s) 87, 218
BsmAI GTCTC 3 cut(s) 281, 431, 589
BsmBI CGTCTC 2 cut(s) 281, 431
BsmI GAATGC 1 cut(s) 539
BsnI GGCC 2 cut(s) 51, 133
Bso31I GGTCTC 1 cut(s) 589
Bsp1286I GDGCHC 1 cut(s) 702
Bsp1407I TGTACA 1 cut(s) 765
Bsp143I GATC 3 cut(s) 346, 445, 491
BspACI CCGC 4 cut(s) 9, 44, 130, 267
BspANI GGCC 2 cut(s) 51, 133
BspLI GGNNCC 2 cut(s) 52, 802
BspPI GGATC 2 cut(s) 354, 440
BspTNI GGTCTC 1 cut(s) 589
BsrBI CCGCTC 1 cut(s) 9
BsrFI RCCGGY 1 cut(s) 217
BsrGI TGTACA 1 cut(s) 765
BsrI ACTGG 1 cut(s) 542
BssAI RCCGGY 1 cut(s) 217
BssECI CCNNGG 1 cut(s) 796
BssMI GATC 3 cut(s) 346, 445, 491
BssT1I CCWWGG 1 cut(s) 796
Bst2UI CCWGG 1 cut(s) 450
Bst4CI ACNGT 2 cut(s) 602, 675
Bst6I CTCTTC 1 cut(s) 822
BstAUI TGTACA 1 cut(s) 765
BstDEI CTNAG 2 cut(s) 27, 506
BstF5I GGATG 2 cut(s) 358, 538
BstKTI GATC 3 cut(s) 349, 448, 494
BstMAI GTCTC 3 cut(s) 281, 431, 589
BstMBI GATC 3 cut(s) 346, 445, 491
BstMCI CGRYCG 1 cut(s) 521
BstMWI GCNNNNNNNGC 3 cut(s) 130, 186, 697
BstNI CCWGG 1 cut(s) 450
BstNSI RCATGY 1 cut(s) 377
BstSCI CCNGG 1 cut(s) 448
BstSLI GKGCMC 1 cut(s) 702
BstV1I GCAGC 3 cut(s) 136, 139, 395
BstV2I GAAGAC 1 cut(s) 189
BsuRI GGCC 2 cut(s) 51, 133
BtgZI GCGATG 2 cut(s) 207, 595
BtsCI GGATG 2 cut(s) 358, 538
BtsIMutI CAGTG 3 cut(s) 309, 549, 867
Cfr10I RCCGGY 1 cut(s) 217
Cfr13I GGNCC 6 cut(s) 50, 132, 328, 392, 598, 824
CseI GACGC 3 cut(s) 413, 739, 797
Csp6I GTAC 3 cut(s) 477, 621, 766
CviAII CATG 2 cut(s) 374, 821
CviQI GTAC 3 cut(s) 477, 621, 766
DdeI CTNAG 2 cut(s) 27, 506
DpnI GATC 3 cut(s) 348, 447, 493
DpnII GATC 3 cut(s) 346, 445, 491
DrdI GACNNNNNNGTC 1 cut(s) 581
DseDI GACNNNNNNGTC 1 cut(s) 581
Eam1104I CTCTTC 1 cut(s) 822
EarI CTCTTC 1 cut(s) 822
EciI GGCGGA 1 cut(s) 256
Eco130I CCWWGG 1 cut(s) 796
Eco31I GGTCTC 1 cut(s) 589
Eco47I GGWCC 4 cut(s) 328, 392, 598, 824
EcoRII CCWGG 1 cut(s) 448
EcoT14I CCWWGG 1 cut(s) 796
ErhI CCWWGG 1 cut(s) 796
Esp3I CGTCTC 2 cut(s) 281, 431
FaeI CATG 2 cut(s) 377, 824
FaiI YATR 5 cut(s) 375, 415, 564, 566, 822
FalI AAGNNNNNCTT 2 cut(s) 413, 445
FatI CATG 2 cut(s) 373, 820
FauI CCCGC 1 cut(s) 2
FauNDI CATATG 1 cut(s) 564
Fnu4HI GCNGC 5 cut(s) 44, 125, 128, 131, 384
FokI GGATG 2 cut(s) 365, 525
Fsp4HI GCNGC 5 cut(s) 44, 125, 128, 131, 384
FspBI CTAG 1 cut(s) 615
GluI GCNGC 5 cut(s) 44, 125, 128, 131, 384
GsuI CTGGAG 1 cut(s) 263
HaeIII GGCC 2 cut(s) 51, 133
HapII CCGG 2 cut(s) 87, 218
HgaI GACGC 3 cut(s) 413, 739, 797
Hin1II CATG 2 cut(s) 377, 824
HincII GTYRAC 3 cut(s) 574, 607, 729
HindII GTYRAC 3 cut(s) 574, 607, 729
HinfI GANTC 2 cut(s) 77, 302
HpaI GTTAAC 1 cut(s) 607
HpaII CCGG 2 cut(s) 87, 218
HphI GGTGA 1 cut(s) 773
Hpy166II GTNNAC 6 cut(s) 328, 574, 607, 623, 700, 729
Hpy188I TCNGA 3 cut(s) 167, 746, 838
Hpy188III TCNNGA 3 cut(s) 293, 336, 350
Hpy8I GTNNAC 6 cut(s) 328, 574, 607, 623, 700, 729
Hpy99I CGWCG 1 cut(s) 232
HpyAV CCTTC 3 cut(s) 373, 428, 562
HpyCH4III ACNGT 2 cut(s) 602, 675
HpyCH4IV ACGT 1 cut(s) 773
HpyCH4V TGCA 1 cut(s) 700
HpyF10VI GCNNNNNNNGC 3 cut(s) 130, 186, 697
HpyF3I CTNAG 2 cut(s) 27, 506
HpySE526I ACGT 1 cut(s) 773
Hsp92II CATG 2 cut(s) 377, 824
KspAI GTTAAC 1 cut(s) 607
Kzo9I GATC 3 cut(s) 346, 445, 491
LmnI GCTCC 1 cut(s) 6
Lsp1109I GCAGC 3 cut(s) 136, 139, 395
LweI GCATC 2 cut(s) 99, 230
MaeI CTAG 1 cut(s) 615
MaeII ACGT 1 cut(s) 773
MalI GATC 3 cut(s) 348, 447, 493
MbiI CCGCTC 1 cut(s) 9
MboI GATC 3 cut(s) 346, 445, 491
MboII GAAGA 5 cut(s) 115, 130, 194, 279, 809
MhlI GDGCHC 1 cut(s) 702
MluCI AATT 4 cut(s) 296, 645, 684, 752
MlyI GAGTC 2 cut(s) 71, 296
MnlI CCTC 4 cut(s) 260, 317, 649, 747
MroXI GAANNNNTTC 1 cut(s) 551
MseI TTAA 3 cut(s) 593, 606, 830
MslI CAYNNNNRTG 1 cut(s) 705
MspA1I CMGCKG 1 cut(s) 130
MspI CCGG 2 cut(s) 87, 218
MspR9I CCNGG 1 cut(s) 450
Mva1269I GAATGC 1 cut(s) 539
MvaI CCWGG 1 cut(s) 450
MwoI GCNNNNNNNGC 3 cut(s) 130, 186, 697
NdeI CATATG 1 cut(s) 564
NdeII GATC 3 cut(s) 346, 445, 491
NlaIII CATG 2 cut(s) 377, 824
NlaIV GGNNCC 2 cut(s) 52, 802
NspI RCATGY 1 cut(s) 377
PciI ACATGT 1 cut(s) 373
PctI GAATGC 1 cut(s) 539
PdmI GAANNNNTTC 1 cut(s) 551
PfoI TCCNGGA 1 cut(s) 448
PkrI GCNGC 5 cut(s) 45, 126, 129, 132, 385
PleI GAGTC 2 cut(s) 71, 296
PpsI GAGTC 2 cut(s) 71, 296
PscI ACATGT 1 cut(s) 373
PshBI ATTAAT 1 cut(s) 830
Psp6I CCWGG 1 cut(s) 448
PspGI CCWGG 1 cut(s) 448
PspN4I GGNNCC 2 cut(s) 52, 802
PspPI GGNCC 6 cut(s) 50, 132, 328, 392, 598, 824
RsaI GTAC 3 cut(s) 478, 622, 767
RsaNI GTAC 3 cut(s) 477, 621, 766
RseI CAYNNNNRTG 1 cut(s) 705
SaqAI TTAA 3 cut(s) 593, 606, 830
SatI GCNGC 5 cut(s) 44, 125, 128, 131, 384
Sau3AI GATC 3 cut(s) 346, 445, 491
Sau96I GGNCC 6 cut(s) 50, 132, 328, 392, 598, 824
ScaI AGTACT 1 cut(s) 478
SchI GAGTC 2 cut(s) 71, 296
ScrFI CCNGG 1 cut(s) 450
SduI GDGCHC 1 cut(s) 702
SfaNI GCATC 2 cut(s) 99, 230
SinI GGWCC 4 cut(s) 328, 392, 598, 824
SmiMI CAYNNNNRTG 1 cut(s) 705
SmlI CTYRAG 2 cut(s) 487, 738
SmoI CTYRAG 2 cut(s) 487, 738
Sse9I AATT 4 cut(s) 296, 645, 684, 752
SsiI CCGC 4 cut(s) 9, 44, 130, 267
SspMI CTAG 1 cut(s) 615
StyD4I CCNGG 1 cut(s) 448
StyI CCWWGG 1 cut(s) 796
TaaI ACNGT 2 cut(s) 602, 675
TaiI ACGT 1 cut(s) 776
TaqI TCGA 3 cut(s) 252, 294, 357
TaqII GACCGA 1 cut(s) 507
TasI AATT 4 cut(s) 296, 645, 684, 752
TatI WGTACW 2 cut(s) 476, 765
TauI GCSGC 2 cut(s) 46, 133
Tru1I TTAA 3 cut(s) 593, 606, 830
Tru9I TTAA 3 cut(s) 593, 606, 830
TscAI CASTG 3 cut(s) 316, 549, 874
TseI GCWGC 3 cut(s) 124, 127, 383
TspDTI ATGAA 4 cut(s) 168, 581, 765, 809
TspGWI ACGGA 1 cut(s) 359
TspRI CASTG 3 cut(s) 316, 549, 874
VneI GTGCAC 1 cut(s) 698
VpaK11BI GGWCC 4 cut(s) 328, 392, 598, 824
VspI ATTAAT 1 cut(s) 830
XapI RAATTY 1 cut(s) 752
XceI RCATGY 1 cut(s) 377
XmnI GAANNNNTTC 1 cut(s) 551
XspI CTAG 1 cut(s) 615
ZrmI AGTACT 1 cut(s) 478
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.