Rh4DG148100

U3-containing 90S pre-ribosomal complex subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr4D
OG0012458
Physical Location & Seq
Forward (+)
29607922 .. 29613000
5079 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh4DG148100.1

Sequence Viewer

Length: 615 bp
ATGGGGAGCGGGAAAGAAAGGAACTCTAAGAACAAGGGTAAGCCGCTTGGCCCCAAAACAACCAAACTCAAAGCCGACTCCCACTCCGCCATCAACAACAAGAACAAGAACAAGAAGCAGCAGCGGCCCAACAAGAATACCCAAAATGAAAACCAAATCGGAACTCAAAACAGCGAAGACGGCAACAAGCTACAACCGGCATCGCCGTCGGCACAACTCAACTCGTTCCTCGACAAGTTTCAATCCGCCAATCGTCTCCAGCTTTCTTCTCTCGAATTGGACTCCCTCACTGATAAGTGTATTGTGGACCTGCCTGGAAGCACGGATCAGGATGTCGAAAACTTGGGGAAACATGTGAAGGCAGCTTTTGGTCCATCCTGGAAAGCCGAACTATGTGATAAGCGTCTCTTGGAAGGAAAAGTTGATCCAGGAAGTCCAGCAGTTCTTATTATTAGTACATCTGCCTTGAGATCAATAGAACTTCTAAGGGGCTTTCGGTCGCTGACTAAAGAATGCCATCCAGTGAAGCTGTTCTCAAAGCATATGAAGGTTGACGAACAGGTCTCCTTGTTAAAGGACCGTGTTAACATCGCTAGTGGTACACCAAGCAGGTAA
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

204

Amino Acids

22.37

Weight (kDa)

9.71

Isoelectric Point (pI)

48.12

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
CMS1 PF14617 31 - 204 9.3e-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) 560
Acc36I ACCTGC 2 cut(s) 318, 600
AccBSI CCGCTC 1 cut(s) 9
AciI CCGC 5 cut(s) 9, 44, 87, 124, 246
AclWI GGATC 2 cut(s) 333, 419
AfaI GTAC 2 cut(s) 457, 601
AflIII ACRYGT 1 cut(s) 352
AgsI TTSAA 1 cut(s) 242
AjnI CCWGG 3 cut(s) 313, 377, 427
AluBI AGCT 4 cut(s) 190, 262, 365, 529
AluI AGCT 4 cut(s) 190, 262, 365, 529
Alw26I GTCTC 3 cut(s) 260, 410, 568
AlwI GGATC 2 cut(s) 333, 419
AoxI GGCC 2 cut(s) 49, 125
ApeKI GCWGC 3 cut(s) 118, 121, 362
Asp700I GAANNNNTTC 1 cut(s) 530
AspS9I GGNCC 5 cut(s) 50, 126, 307, 371, 577
AvaII GGWCC 3 cut(s) 307, 371, 577
BbsI GAAGAC 1 cut(s) 183
BbvI GCAGC 3 cut(s) 130, 133, 374
BccI CCATC 3 cut(s) 98, 382, 525
BceAI ACGGC 2 cut(s) 190, 196
BcgI CGANNNNNNTGC 2 cut(s) 189, 223
BciT130I CCWGG 3 cut(s) 315, 379, 429
BcoDI GTCTC 3 cut(s) 260, 410, 568
BfaI CTAG 1 cut(s) 594
BfuAI ACCTGC 2 cut(s) 318, 600
BisI GCNGC 5 cut(s) 44, 119, 122, 125, 363
BlsI GCNGC 5 cut(s) 45, 120, 123, 126, 364
Bme1390I CCNGG 3 cut(s) 315, 379, 429
Bme18I GGWCC 3 cut(s) 307, 371, 577
BmgT120I GGNCC 5 cut(s) 50, 126, 307, 371, 577
BmiI GGNNCC 1 cut(s) 52
BmrFI CCNGG 3 cut(s) 315, 379, 429
BmsI GCATC 1 cut(s) 209
BpiI GAAGAC 1 cut(s) 183
BpmI CTGGAG 1 cut(s) 242
BpuEI CTTGAG 1 cut(s) 487
BsaI GGTCTC 1 cut(s) 568
BsaXI ACNNNNNCTCC 2 cut(s) 68, 98
Bse118I RCCGGY 1 cut(s) 196
Bse1I ACTGG 1 cut(s) 521
BseBI CCWGG 3 cut(s) 315, 379, 429
BseGI GGATG 3 cut(s) 337, 374, 517
BseNI ACTGG 1 cut(s) 521
BseXI GCAGC 3 cut(s) 130, 133, 374
Bsh1285I CGRYCG 1 cut(s) 500
BshFI GGCC 2 cut(s) 51, 127
BsiEI CGRYCG 1 cut(s) 500
BsiSI CCGG 1 cut(s) 197
BsmAI GTCTC 3 cut(s) 260, 410, 568
BsmBI CGTCTC 2 cut(s) 260, 410
BsmI GAATGC 1 cut(s) 518
BsnI GGCC 2 cut(s) 51, 127
Bso31I GGTCTC 1 cut(s) 568
Bsp143I GATC 3 cut(s) 325, 424, 470
BspACI CCGC 5 cut(s) 9, 44, 87, 124, 246
BspANI GGCC 2 cut(s) 51, 127
BspLI GGNNCC 1 cut(s) 52
BspMI ACCTGC 2 cut(s) 318, 600
BspPI GGATC 2 cut(s) 333, 419
BspTNI GGTCTC 1 cut(s) 568
BsrBI CCGCTC 1 cut(s) 9
BsrFI RCCGGY 1 cut(s) 196
BsrI ACTGG 1 cut(s) 521
BssAI RCCGGY 1 cut(s) 196
BssMI GATC 3 cut(s) 325, 424, 470
Bst2UI CCWGG 3 cut(s) 315, 379, 429
Bst4CI ACNGT 1 cut(s) 581
BstDEI CTNAG 2 cut(s) 27, 485
BstF5I GGATG 3 cut(s) 337, 374, 517
BstKTI GATC 3 cut(s) 328, 427, 473
BstMAI GTCTC 3 cut(s) 260, 410, 568
BstMBI GATC 3 cut(s) 325, 424, 470
BstMCI CGRYCG 1 cut(s) 500
BstMWI GCNNNNNNNGC 2 cut(s) 124, 180
BstNI CCWGG 3 cut(s) 315, 379, 429
BstNSI RCATGY 1 cut(s) 356
BstSCI CCNGG 3 cut(s) 313, 377, 427
BstV1I GCAGC 3 cut(s) 130, 133, 374
BstV2I GAAGAC 1 cut(s) 183
BsuRI GGCC 2 cut(s) 51, 127
BtgZI GCGATG 2 cut(s) 186, 574
BtsCI GGATG 3 cut(s) 337, 374, 517
BtsIMutI CAGTG 2 cut(s) 288, 528
BveI ACCTGC 2 cut(s) 318, 600
Cfr10I RCCGGY 1 cut(s) 196
Cfr13I GGNCC 5 cut(s) 50, 126, 307, 371, 577
CseI GACGC 1 cut(s) 392
Csp6I GTAC 2 cut(s) 456, 600
CviAII CATG 1 cut(s) 353
CviQI GTAC 2 cut(s) 456, 600
DdeI CTNAG 2 cut(s) 27, 485
DpnI GATC 3 cut(s) 327, 426, 472
DpnII GATC 3 cut(s) 325, 424, 470
DrdI GACNNNNNNGTC 1 cut(s) 560
DseDI GACNNNNNNGTC 1 cut(s) 560
EciI GGCGGA 2 cut(s) 76, 235
Eco31I GGTCTC 1 cut(s) 568
Eco47I GGWCC 3 cut(s) 307, 371, 577
EcoRII CCWGG 3 cut(s) 313, 377, 427
Esp3I CGTCTC 2 cut(s) 260, 410
FaeI CATG 1 cut(s) 356
FaiI YATR 4 cut(s) 354, 394, 543, 545
FalI AAGNNNNNCTT 2 cut(s) 392, 424
FatI CATG 1 cut(s) 352
FauI CCCGC 1 cut(s) 2
FauNDI CATATG 1 cut(s) 543
Fnu4HI GCNGC 5 cut(s) 44, 119, 122, 125, 363
FokI GGATG 3 cut(s) 344, 361, 504
Fsp4HI GCNGC 5 cut(s) 44, 119, 122, 125, 363
FspBI CTAG 1 cut(s) 594
GluI GCNGC 5 cut(s) 44, 119, 122, 125, 363
GsuI CTGGAG 1 cut(s) 242
HaeIII GGCC 2 cut(s) 51, 127
HapII CCGG 1 cut(s) 197
HgaI GACGC 1 cut(s) 392
Hin1II CATG 1 cut(s) 356
HincII GTYRAC 2 cut(s) 553, 586
HindII GTYRAC 2 cut(s) 553, 586
HinfI GANTC 2 cut(s) 77, 281
HpaI GTTAAC 1 cut(s) 586
HpaII CCGG 1 cut(s) 197
Hpy166II GTNNAC 4 cut(s) 307, 553, 586, 602
Hpy188I TCNGA 1 cut(s) 161
Hpy188III TCNNGA 2 cut(s) 272, 329
Hpy8I GTNNAC 4 cut(s) 307, 553, 586, 602
Hpy99I CGWCG 1 cut(s) 211
HpyAV CCTTC 3 cut(s) 352, 407, 541
HpyCH4III ACNGT 1 cut(s) 581
HpyF10VI GCNNNNNNNGC 2 cut(s) 124, 180
HpyF3I CTNAG 2 cut(s) 27, 485
Hsp92II CATG 1 cut(s) 356
KspAI GTTAAC 1 cut(s) 586
Kzo9I GATC 3 cut(s) 325, 424, 470
LmnI GCTCC 1 cut(s) 6
Lsp1109I GCAGC 3 cut(s) 130, 133, 374
LweI GCATC 1 cut(s) 209
MaeI CTAG 1 cut(s) 594
MalI GATC 3 cut(s) 327, 426, 472
MbiI CCGCTC 1 cut(s) 9
MboI GATC 3 cut(s) 325, 424, 470
MboII GAAGA 2 cut(s) 188, 258
MluCI AATT 1 cut(s) 275
MlyI GAGTC 2 cut(s) 71, 275
MnlI CCTC 2 cut(s) 239, 296
MroXI GAANNNNTTC 1 cut(s) 530
MseI TTAA 2 cut(s) 572, 585
MspA1I CMGCKG 1 cut(s) 124
MspI CCGG 1 cut(s) 197
MspR9I CCNGG 3 cut(s) 315, 379, 429
Mva1269I GAATGC 1 cut(s) 518
MvaI CCWGG 3 cut(s) 315, 379, 429
MwoI GCNNNNNNNGC 2 cut(s) 124, 180
NdeI CATATG 1 cut(s) 543
NdeII GATC 3 cut(s) 325, 424, 470
NlaIII CATG 1 cut(s) 356
NlaIV GGNNCC 1 cut(s) 52
NspI RCATGY 1 cut(s) 356
PciI ACATGT 1 cut(s) 352
PctI GAATGC 1 cut(s) 518
PdmI GAANNNNTTC 1 cut(s) 530
PfoI TCCNGGA 2 cut(s) 377, 427
PkrI GCNGC 5 cut(s) 45, 120, 123, 126, 364
PleI GAGTC 2 cut(s) 71, 275
PpsI GAGTC 2 cut(s) 71, 275
PscI ACATGT 1 cut(s) 352
Psp6I CCWGG 3 cut(s) 313, 377, 427
PspGI CCWGG 3 cut(s) 313, 377, 427
PspN4I GGNNCC 1 cut(s) 52
PspPI GGNCC 5 cut(s) 50, 126, 307, 371, 577
RsaI GTAC 2 cut(s) 457, 601
RsaNI GTAC 2 cut(s) 456, 600
SaqAI TTAA 2 cut(s) 572, 585
SatI GCNGC 5 cut(s) 44, 119, 122, 125, 363
Sau3AI GATC 3 cut(s) 325, 424, 470
Sau96I GGNCC 5 cut(s) 50, 126, 307, 371, 577
SchI GAGTC 2 cut(s) 71, 275
ScrFI CCNGG 3 cut(s) 315, 379, 429
SetI ASST 8 cut(s) 192, 264, 312, 367, 531, 552, 564, 614
SfaNI GCATC 1 cut(s) 209
SinI GGWCC 3 cut(s) 307, 371, 577
SmlI CTYRAG 1 cut(s) 466
SmoI CTYRAG 1 cut(s) 466
Sse9I AATT 1 cut(s) 275
SsiI CCGC 5 cut(s) 9, 44, 87, 124, 246
SspMI CTAG 1 cut(s) 594
StyD4I CCNGG 3 cut(s) 313, 377, 427
TaaI ACNGT 1 cut(s) 581
TaqI TCGA 3 cut(s) 231, 273, 336
TaqII GACCGA 1 cut(s) 486
TasI AATT 1 cut(s) 275
TatI WGTACW 1 cut(s) 455
TauI GCSGC 2 cut(s) 46, 127
Tru1I TTAA 2 cut(s) 572, 585
Tru9I TTAA 2 cut(s) 572, 585
TscAI CASTG 2 cut(s) 295, 528
TseI GCWGC 3 cut(s) 118, 121, 362
TspDTI ATGAA 2 cut(s) 162, 560
TspGWI ACGGA 1 cut(s) 338
TspRI CASTG 2 cut(s) 295, 528
VpaK11BI GGWCC 3 cut(s) 307, 371, 577
XceI RCATGY 1 cut(s) 356
XmnI GAANNNNTTC 1 cut(s) 530
XspI CTAG 1 cut(s) 594
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.