Rroxscaffold_1G00062600

Required for 40S ribosome biogenesis. Involved in nucleolar processing of pre-18S ribosomal RNA and ribosome assembly

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000001
OG0000145
Physical Location & Seq
Forward (+)
84686276 .. 84690102
3827 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_1G00062600.1

Sequence Viewer

Length: 819 bp
ATGGAGAACAGCAACCCAAAAGCGGACCAGATCGAGGTGGAAGTGTCTGAGTTCGAGAATGATTTTGATGTCGTCTCTTACACCAAGTTCTACAACGAATTCCTCACTCCTCCATCTCTGAAATTCTCTCGAGGGTTTGGCACAGCCGTTGCGATGTCGGAAGATTACCCAAATGCCATTGTTCTGCCGCTCGAGGAGGCTCTGATGGTCCAAGATGACTTTGAAGTCGTCTCTTACACCAAGTTCTGCGATCGATTCCTTGACACAGATTTGCTGCAAAAAACTTGGCCTATAGTGGAGTCCTGTTTGAGCAAGCATGGCGTTTTGTGCACACTGGATCTGGTTGAGGGTAATATGAAGGTCTCTAAAACTAAAAGGGCTGAAGATGAAGACATAATTTTCAAGGCAATTGATATTTTGCAGCTTTTGTCGAGAAGTGTTCCAGCACGTTGGGCAATACGAACGCTGGATTGCAGTTGGCAACATGAGATCATCAAGATTGGGAATCAAGAGGGGGGATTTGCAACATATTTGGGATCAGAGCAATTTCTTGCACGGAGGAATCTTCTCGCTGGTGTCATAAAGGGGCTTTTTGAACTGACTGGCTGTGGTGTTTTTCTTAAGGGAAATACCATTGCTCTTATTGGTCCACTGCAAGGAATAAAGACGATAACAAAGATTGTGGAAGACTGCATCGCTCATAATGTGCCTCCTGCACCTCGTGTGCGGAGGATTAAAAAGAAGACTGAACTGATGAAGGATGCGAGGATTAAAATGACAAGTGCAGTGATGATGAGTCTTGAGGCTTTTCATGTCTGA
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
No domains found.

Protein Analysis

272

Amino Acids

30.59

Weight (kDa)

5.54

Isoelectric Point (pI)

42.33

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
KH_KRR1_1st PF17903 90 - 156 4.3e-12 Krr1 KH1 domain
KH_KRR1_2nd PF21800 163 - 253 3.9e-12 KRR1 small subunit processome component, second KH domain
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: OG0000145)

Species Orthologous Gene IDs
arabidopsis_thaliana AT5G08420
fragaria_vesca FvH4_1g11160 FvH4_2g08143 FvH4_3g36450 FvH4_3g36450 FvH4_3g36450 FvH4_3g36450 FvH4_3g36460 FvH4_3g36460 FvH4_3g45301 FvH4_4g27690 FvH4_4g27690 FvH4_4g27690 FvH4_4g27690 FvH4_5g09160 FvH4_5g09161 FvH4_5g09380 FvH4_5g22900 FvH4_6g42520 FvH4_6g42550 FvH4_6g42550 FvH4_6g42550 FvH4_6g42550 FvH4_6g42550 FvH4_6g42550
malus_domestica MD02G1015700.v1.1 MD02G1058900.v1.1 MD02G1059000.v1.1 MD03G1170900.v1.1 MD04G1231500.v1.1 MD13G1044300.v1.1 MD16G1045100.v1.1
prunus_persica Prupe.1G308200_v2.0.a1 Prupe.2G125300_v2.0.a1 Prupe.6G307800_v2.0.a1 Prupe.6G351700_v2.0.a1 Prupe.6G351800_v2.0.a1 Prupe.6G351800_v2.0.a1 Prupe.6G351800_v2.0.a1 Prupe.6G351800_v2.0.a1 Prupe.6G351800_v2.0.a1 Prupe.6G351800_v2.0.a1 Prupe.6G351800_v2.0.a1 Prupe.6G351800_v2.0.a1 Prupe.6G351800_v2.0.a1
pyrus_communis pycom02g01420 pycom02g04810 pycom03g12790 pycom03g12800 pycom12g17840 pycom12g17850 pycom12g17860 pycom13g03890 pycom16g03970
rosa_chinensis RchiOBHm_Chr2g0090081 RchiOBHm_Chr3g0469061 RchiOBHm_Chr3g0469081 RchiOBHm_Chr4g0435531 RchiOBHm_Chr5g0014021 RchiOBHm_Chr5g0014031 RchiOBHm_Chr5g0014041 RchiOBHm_Chr7g0190151 RchiOBHm_Chr7g0190161 RchiOBHm_Chr7g0190171 RchiOBHm_Chr7g0210441
rosa_laevigata RLG00000003683 RLG00000003687 RLG00000003688 RLG00000004561 RLG00000004643 RLG00000016083 RLG00000021085 RLG00000024381 RLG00000032065 RLG00000032067 RLG00000032071 RLG00000032072 RLG00000032075
rosa_multiflora Rmu_co8284349.1_g000001 Rmu_co8324735.1_g000001 Rmu_co8355915.1_g000001 Rmu_co8388905.1_g000001 Rmu_sc0000302.1_g000041 Rmu_sc0000302.1_g000050 Rmu_sc0001940.1_g000034 Rmu_sc0003807.1_g000011 Rmu_sc0005803.1_g000001 Rmu_sc0005803.1_g000007 Rmu_sc0007139.1_g000007 Rmu_sc0007767.1_g000001 Rmu_sc0007767.1_g000003 Rmu_sc0007767.1_g000006 Rmu_sc0007933.1_g000005 Rmu_sc0008587.1_g000004 Rmu_sc0008968.1_g000004 Rmu_sc0018491.1_g000002 Rmu_sc0022420.1_g000001 Rmu_sc0027700.1_g000001 Rmu_sc0036218.1_g000001
rosa_roxburghii Rroxscaffold_1G00062590 Rroxscaffold_1G00062600 Rroxscaffold_1G00062620 Rroxscaffold_1G00062630 Rroxscaffold_1G00062640 Rroxscaffold_1G00062670 Rroxscaffold_1G00062680 Rroxscaffold_2G00091430 Rroxscaffold_2G00151410 Rroxscaffold_3G00245340 Rroxscaffold_3G00255390 Rroxscaffold_3G00264820 Rroxscaffold_3G00264830 Rroxscaffold_3G00265870 Rroxscaffold_5G00355140 Rroxscaffold_5G00376760 Rroxscaffold_6G00412230
rosa_rugosa Rorug02G0005200 Rorug02G0468300 Rorug02G0468300 Rorug02G0532400 Rorug03G0098900 Rorug03G0099000 Rorug03G0099400 Rorug04G0286000 Rorug05G0014400 Rorug05G0014500 Rorug05G0014600 Rorug05G0014600 Rorug05G0014600 Rorug05G0014800 Rorug05G0014900 Rorug05G0015000 Rorug05G0015100 Rorug05G0015100 Rorug05G0441300 Rorug06G0495300 Rorug06G0502600 Rorug06G0502700 Rorug07G0062300
rosa_samantha Rh2AG050900 Rh2BG049600 Rh2CG051800 Rh2CG234600 Rh2DG051100 Rh3BG171300 Rh3BG171800 Rh3CG336700 Rh3DG203600 Rh3DG203800 Rh4AG341600 Rh4AG341700 Rh4BG349900 Rh4CG364600 Rh4DG344200 Rh5AG108800 Rh5AG108900 Rh5AG109000 Rh5AG109100 Rh5BG105500 Rh5CG117300 Rh5CG117500 Rh5CG117600 Rh5DG104200 Rh5DG104400 Rh5DG104500 Rh5DG104600 Rh7BG102300 Rh7BG110600 Rh7BG110700 Rh7BG118900 Rh7CG103600 Rh7CG112800 Rh7CG113000 Rh7CG200300 Rh7CG271100 Rh7DG111300 Rh7DG111400 Rh7DG194400 Rh7DG261800 Rh7DG261900
rosa_wichuraiana Rw0G014550 Rw0G014580 Rw2G004580 Rw3G013980 Rw3G013990 Rw3G014000 Rw3G014020 Rw4G029810 Rw5G009500 Rw5G009510 Rw5G009520 Rw5G009530 Rw7G008640 Rw7G009350 Rw7G021680

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AasI GACNNNNNNGTC 1 cut(s) 224
AccBSI CCGCTC 1 cut(s) 190
AciI CCGC 3 cut(s) 23, 188, 727
AclWI GGATC 2 cut(s) 345, 544
AcsI RAATTY 2 cut(s) 98, 122
AcuI CTGAAG 1 cut(s) 402
AdeI CACNNNGTG 1 cut(s) 722
AfiI CCNNNNNNNGG 3 cut(s) 22, 34, 656
AflII CTTAAG 1 cut(s) 620
AgsI TTSAA 3 cut(s) 224, 403, 596
AluBI AGCT 1 cut(s) 424
AluI AGCT 1 cut(s) 424
Alw21I GWGCWC 1 cut(s) 332
Alw26I GTCTC 3 cut(s) 79, 235, 367
Alw44I GTGCAC 1 cut(s) 328
AlwI GGATC 2 cut(s) 345, 544
Ama87I CYCGRG 2 cut(s) 129, 191
AoxI GGCC 1 cut(s) 287
ApaLI GTGCAC 1 cut(s) 328
ApeKI GCWGC 2 cut(s) 274, 421
ApoI RAATTY 2 cut(s) 98, 122
AspS9I GGNCC 3 cut(s) 25, 208, 647
AvaI CYCGRG 2 cut(s) 129, 191
AvaII GGWCC 3 cut(s) 25, 208, 647
BaeGI GKGCMC 1 cut(s) 332
BauI CACGAG 1 cut(s) 720
BbsI GAAGAC 3 cut(s) 396, 693, 749
Bbv12I GWGCWC 1 cut(s) 332
BbvI GCAGC 2 cut(s) 261, 433
BccI CCATC 2 cut(s) 121, 199
BceAI ACGGC 1 cut(s) 131
BcoDI GTCTC 3 cut(s) 79, 235, 367
BfmI CTRYAG 1 cut(s) 291
BfrI CTTAAG 1 cut(s) 620
BisI GCNGC 3 cut(s) 188, 275, 422
BlsI GCNGC 3 cut(s) 189, 276, 423
Bme18I GGWCC 3 cut(s) 25, 208, 647
BmeT110I CYCGRG 2 cut(s) 129, 191
BmgT120I GGNCC 3 cut(s) 25, 208, 647
BmsI GCATC 2 cut(s) 702, 751
BpiI GAAGAC 3 cut(s) 396, 693, 749
Bsa29I ATCGAT 1 cut(s) 253
BsaI GGTCTC 1 cut(s) 367
Bsc4I CCNNNNNNNGG 3 cut(s) 22, 34, 656
Bse1I ACTGG 2 cut(s) 339, 607
Bse3DI GCAATG 1 cut(s) 633
BseCI ATCGAT 1 cut(s) 253
BseGI GGATG 1 cut(s) 766
BseLI CCNNNNNNNGG 3 cut(s) 22, 34, 656
BseMI GCAATG 1 cut(s) 633
BseMII CTCAG 1 cut(s) 39
BseNI ACTGG 2 cut(s) 339, 607
BseRI GAGGAG 2 cut(s) 99, 209
BseSI GKGCMC 1 cut(s) 332
BseXI GCAGC 2 cut(s) 261, 433
BsgI GTGCAG 2 cut(s) 699, 804
Bsh1285I CGRYCG 1 cut(s) 253
BshFI GGCC 1 cut(s) 289
BshVI ATCGAT 1 cut(s) 253
BsiEI CGRYCG 1 cut(s) 253
BsiHKAI GWGCWC 1 cut(s) 332
BsiHKCI CYCGRG 2 cut(s) 129, 191
BslI CCNNNNNNNGG 3 cut(s) 22, 34, 656
BsmAI GTCTC 3 cut(s) 79, 235, 367
BsmBI CGTCTC 2 cut(s) 79, 235
BsnI GGCC 1 cut(s) 289
Bso31I GGTCTC 1 cut(s) 367
BsoBI CYCGRG 2 cut(s) 129, 191
Bsp1286I GDGCHC 1 cut(s) 332
Bsp143I GATC 5 cut(s) 30, 250, 337, 489, 536
BspACI CCGC 3 cut(s) 23, 188, 727
BspANI GGCC 1 cut(s) 289
BspCNI CTCAG 1 cut(s) 40
BspDI ATCGAT 1 cut(s) 253
BspPI GGATC 2 cut(s) 345, 544
BspTI CTTAAG 1 cut(s) 620
BspTNI GGTCTC 1 cut(s) 367
BsrBI CCGCTC 1 cut(s) 190
BsrDI GCAATG 1 cut(s) 633
BsrI ACTGG 2 cut(s) 339, 607
BssMI GATC 5 cut(s) 30, 250, 337, 489, 536
BssSI CACGAG 1 cut(s) 720
Bst2BI CACGAG 1 cut(s) 720
BstAFI CTTAAG 1 cut(s) 620
BstC8I GCNNGC 1 cut(s) 314
BstDEI CTNAG 1 cut(s) 48
BstF5I GGATG 1 cut(s) 766
BstKTI GATC 5 cut(s) 33, 253, 340, 492, 539
BstMAI GTCTC 3 cut(s) 79, 235, 367
BstMBI GATC 5 cut(s) 30, 250, 337, 489, 536
BstMCI CGRYCG 1 cut(s) 253
BstMWI GCNNNNNNNGC 3 cut(s) 318, 327, 452
BstSFI CTRYAG 1 cut(s) 291
BstSLI GKGCMC 1 cut(s) 332
BstV1I GCAGC 2 cut(s) 261, 433
BstV2I GAAGAC 3 cut(s) 396, 693, 749
BstX2I RGATCY 1 cut(s) 337
BstXI CCANNNNNNTGG 1 cut(s) 450
BstYI RGATCY 1 cut(s) 337
Bsu15I ATCGAT 1 cut(s) 253
BsuRI GGCC 1 cut(s) 289
BsuTUI ATCGAT 1 cut(s) 253
BtgZI GCGATG 2 cut(s) 167, 679
BtsCI GGATG 1 cut(s) 766
BtsI GCAGTG 2 cut(s) 650, 792
BtsIMutI CAGTG 3 cut(s) 332, 650, 792
Cac8I GCNNGC 1 cut(s) 314
Cfr13I GGNCC 3 cut(s) 25, 208, 647
ClaI ATCGAT 1 cut(s) 253
CspCI CAANNNNNGTGG 2 cut(s) 663, 698
CviAII CATG 3 cut(s) 317, 485, 812
CviJI RGCY 8 cut(s) 146, 200, 289, 380, 424, 589, 606, 806
CviKI_1 RGCY 8 cut(s) 146, 200, 289, 380, 424, 589, 606, 806
DdeI CTNAG 1 cut(s) 48
DpnI GATC 5 cut(s) 32, 252, 339, 491, 538
DpnII GATC 5 cut(s) 30, 250, 337, 489, 536
DraIII CACNNNGTG 1 cut(s) 722
DrdI GACNNNNNNGTC 1 cut(s) 224
DseDI GACNNNNNNGTC 1 cut(s) 224
Eco31I GGTCTC 1 cut(s) 367
Eco47I GGWCC 3 cut(s) 25, 208, 647
Eco57I CTGAAG 1 cut(s) 402
Eco88I CYCGRG 2 cut(s) 129, 191
EcoRI GAATTC 1 cut(s) 98
Esp3I CGTCTC 2 cut(s) 79, 235
FaeI CATG 3 cut(s) 320, 488, 815
FaiI YATR 9 cut(s) 293, 318, 356, 395, 486, 529, 581, 702, 813
FatI CATG 3 cut(s) 316, 484, 811
Fnu4HI GCNGC 3 cut(s) 188, 275, 422
FokI GGATG 1 cut(s) 773
Fsp4HI GCNGC 3 cut(s) 188, 275, 422
GluI GCNGC 3 cut(s) 188, 275, 422
HaeIII GGCC 1 cut(s) 289
Hin1II CATG 3 cut(s) 320, 488, 815
HinfI GANTC 5 cut(s) 255, 299, 505, 562, 796
Hpy166II GTNNAC 2 cut(s) 330, 650
Hpy188I TCNGA 6 cut(s) 49, 120, 160, 204, 541, 818
Hpy188III TCNNGA 6 cut(s) 55, 129, 432, 496, 509, 800
Hpy8I GTNNAC 2 cut(s) 330, 650
HpyAV CCTTC 2 cut(s) 352, 751
HpyCH4IV ACGT 1 cut(s) 448
HpyF10VI GCNNNNNNNGC 3 cut(s) 318, 327, 452
HpyF3I CTNAG 1 cut(s) 48
HpySE526I ACGT 1 cut(s) 448
Hsp92II CATG 3 cut(s) 320, 488, 815
Kzo9I GATC 5 cut(s) 30, 250, 337, 489, 536
LpnPI CCDG 9 cut(s) 41, 316, 320, 326, 452, 456, 558, 588, 726
Lsp1109I GCAGC 2 cut(s) 261, 433
LweI GCATC 2 cut(s) 702, 751
MaeII ACGT 1 cut(s) 448
MalI GATC 5 cut(s) 32, 252, 339, 491, 538
MbiI CCGCTC 1 cut(s) 190
MboI GATC 5 cut(s) 30, 250, 337, 489, 536
MboII GAAGA 6 cut(s) 173, 395, 401, 557, 698, 754
MfeI CAATTG 1 cut(s) 408
MflI RGATCY 1 cut(s) 337
MhlI GDGCHC 1 cut(s) 332
MluCI AATT 5 cut(s) 98, 122, 396, 408, 545
MlyI GAGTC 2 cut(s) 308, 805
MmeI TCCRAC 1 cut(s) 138
MseI TTAA 3 cut(s) 621, 735, 771
MspCI CTTAAG 1 cut(s) 620
MunI CAATTG 1 cut(s) 408
MwoI GCNNNNNNNGC 3 cut(s) 318, 327, 452
NdeII GATC 5 cut(s) 30, 250, 337, 489, 536
NlaIII CATG 3 cut(s) 320, 488, 815
PaeR7I CTCGAG 2 cut(s) 129, 191
PfeI GAWTC 3 cut(s) 255, 505, 562
PkrI GCNGC 3 cut(s) 189, 276, 423
Ple19I CGATCG 1 cut(s) 253
PleI GAGTC 2 cut(s) 307, 804
PpsI GAGTC 2 cut(s) 307, 804
PspPI GGNCC 3 cut(s) 25, 208, 647
PspXI VCTCGAGB 1 cut(s) 191
PsuI RGATCY 1 cut(s) 337
PvuI CGATCG 1 cut(s) 253
SaqAI TTAA 3 cut(s) 621, 735, 771
SatI GCNGC 3 cut(s) 188, 275, 422
Sau3AI GATC 5 cut(s) 30, 250, 337, 489, 536
Sau96I GGNCC 3 cut(s) 25, 208, 647
SchI GAGTC 2 cut(s) 308, 805
SduI GDGCHC 1 cut(s) 332
SetI ASST 5 cut(s) 39, 363, 426, 451, 721
SfaNI GCATC 2 cut(s) 702, 751
SfcI CTRYAG 1 cut(s) 291
Sfr274I CTCGAG 2 cut(s) 129, 191
SinI GGWCC 3 cut(s) 25, 208, 647
SlaI CTCGAG 2 cut(s) 129, 191
SmlI CTYRAG 4 cut(s) 129, 191, 620, 800
SmoI CTYRAG 4 cut(s) 129, 191, 620, 800
Sse9I AATT 5 cut(s) 98, 122, 396, 408, 545
SsiI CCGC 3 cut(s) 23, 188, 727
TaiI ACGT 1 cut(s) 451
TaqI TCGA 6 cut(s) 33, 54, 130, 192, 253, 431
TasI AATT 5 cut(s) 98, 122, 396, 408, 545
TauI GCSGC 1 cut(s) 190
TfiI GAWTC 3 cut(s) 255, 505, 562
Tru1I TTAA 3 cut(s) 621, 735, 771
Tru9I TTAA 3 cut(s) 621, 735, 771
TscAI CASTG 3 cut(s) 339, 657, 792
TseI GCWGC 2 cut(s) 274, 421
TspDTI ATGAA 4 cut(s) 371, 402, 770, 800
TspGWI ACGGA 1 cut(s) 571
TspRI CASTG 3 cut(s) 339, 657, 792
Vha464I CTTAAG 1 cut(s) 620
VneI GTGCAC 1 cut(s) 328
VpaK11BI GGWCC 3 cut(s) 25, 208, 647
XapI RAATTY 2 cut(s) 98, 122
XhoI CTCGAG 2 cut(s) 129, 191
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.