Rh5CG117600

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_samantha
Chr5C
OG0000145
Physical Location & Seq
Reverse (-)
9717396 .. 9719775
2380 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5CG117600.1

Sequence Viewer

Length: 675 bp
ATGGAGAACAGCAACCCAAAAGCGGACCAGATCGAGGTGGAAGTGTCTGAGTTCGAGAATGATTTTGATGTCGTCTCTTACACCAAGTTCTACGACGAATTCCTCAATGTGGATTTGCTGCAAGAAAGTTGGCCAAAAGTGGAATCTTCTTTAGAAGAGTATGGCGTTTTATGCACCCTGGATATGGTTGAGGGTAAAATGAAAGTCTCAAGAGCCACAAGGGATCAAGACCCAAATATTATTCTCAGGGCTATGGATGTTTTGGAGCTTTTGTCAAGAAGTGTTCCGGCAGAATGGGCAATACGAGTACTGGATTGCAGTTTCCAGTACGACATCATCAAGATTGGGAATCAAGAAGAGGGGATTTGCAATATGTACGGGATCACTAAGGAGCAATTTCTTGCACGGAGGAAGCTTCTGGCTGGCTATGTCCTAAAGGTACTGTTTGAACTGACAGATTGTGGAATTTTTCTTAAGGGAAACACCATTGCTGTGATTGGTGGTTCACTCCAAGGAATAAATATAGTAAGGAGGATTGTCGAAGACTGCATTGCTCATGATGTGCCTCCTCTACCCCGGGCGCGATTGATGAAAAAGAAGTCTCAAAAGAAGAAGGATGAGATGAATAAAGTGGCAAGTGAATTGATGATAAATCTCGAGGGTATGAGGATCTGA
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

224

Amino Acids

25.56

Weight (kDa)

5.01

Isoelectric Point (pI)

41.61

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
KH_KRR1_1st PF17903 29 - 105 1.7e-15 Krr1 KH1 domain
KH_KRR1_2nd PF21800 110 - 200 1.7e-11 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)
AccII CGCG 1 cut(s) 583
AciI CCGC 1 cut(s) 23
AclWI GGATC 2 cut(s) 231, 389
AcoI YGGCCR 1 cut(s) 131
AcsI RAATTY 2 cut(s) 98, 465
AfaI GTAC 4 cut(s) 309, 329, 377, 441
AfiI CCNNNNNNNGG 4 cut(s) 22, 34, 109, 184
AflII CTTAAG 1 cut(s) 473
AgsI TTSAA 1 cut(s) 449
AjnI CCWGG 1 cut(s) 177
AluBI AGCT 2 cut(s) 268, 415
AluI AGCT 2 cut(s) 268, 415
Alw26I GTCTC 3 cut(s) 79, 211, 606
AlwI GGATC 2 cut(s) 231, 389
Ama87I CYCGRG 2 cut(s) 576, 656
AoxI GGCC 1 cut(s) 131
ApeKI GCWGC 1 cut(s) 118
ApoI RAATTY 2 cut(s) 98, 465
AspLEI GCGC 1 cut(s) 583
AspS9I GGNCC 1 cut(s) 25
AsuC2I CCSGG 2 cut(s) 577, 578
AvaI CYCGRG 2 cut(s) 576, 656
AvaII GGWCC 1 cut(s) 25
BalI TGGCCA 1 cut(s) 133
BbsI GAAGAC 1 cut(s) 549
BbvI GCAGC 1 cut(s) 105
BciT130I CCWGG 1 cut(s) 179
BcnI CCSGG 2 cut(s) 577, 578
BcoDI GTCTC 3 cut(s) 79, 211, 606
BfrI CTTAAG 1 cut(s) 473
BisI GCNGC 1 cut(s) 119
BlsI GCNGC 1 cut(s) 120
BmcAI AGTACT 1 cut(s) 309
Bme1390I CCNGG 3 cut(s) 179, 577, 578
Bme18I GGWCC 1 cut(s) 25
BmeT110I CYCGRG 2 cut(s) 576, 656
BmgT120I GGNCC 1 cut(s) 25
BmrFI CCNGG 3 cut(s) 179, 577, 578
BpiI GAAGAC 1 cut(s) 549
BpuEI CTTGAG 1 cut(s) 193
BpuMI CCSGG 2 cut(s) 577, 578
BsaJI CCNNGG 4 cut(s) 177, 511, 575, 576
BsaXI ACNNNNNCTCC 2 cut(s) 257, 287
Bsc4I CCNNNNNNNGG 4 cut(s) 22, 34, 109, 184
Bse1I ACTGG 2 cut(s) 315, 325
Bse3DI GCAATG 2 cut(s) 486, 549
BseBI CCWGG 1 cut(s) 179
BseDI CCNNGG 4 cut(s) 177, 511, 575, 576
BseGI GGATG 2 cut(s) 262, 622
BseLI CCNNNNNNNGG 4 cut(s) 22, 34, 109, 184
BseMI GCAATG 2 cut(s) 486, 549
BseMII CTCAG 2 cut(s) 39, 259
BseNI ACTGG 2 cut(s) 315, 325
BseRI GAGGAG 1 cut(s) 558
BseXI GCAGC 1 cut(s) 105
Bsh1236I CGCG 1 cut(s) 583
BshFI GGCC 1 cut(s) 133
BsiHKCI CYCGRG 2 cut(s) 576, 656
BsiSI CCGG 2 cut(s) 287, 577
BslI CCNNNNNNNGG 4 cut(s) 22, 34, 109, 184
BsmAI GTCTC 3 cut(s) 79, 211, 606
BsmBI CGTCTC 1 cut(s) 79
BsnI GGCC 1 cut(s) 133
BsoBI CYCGRG 2 cut(s) 576, 656
Bsp143I GATC 4 cut(s) 30, 223, 381, 669
BspACI CCGC 1 cut(s) 23
BspANI GGCC 1 cut(s) 133
BspCNI CTCAG 2 cut(s) 40, 258
BspFNI CGCG 1 cut(s) 583
BspHI TCATGA 1 cut(s) 556
BspPI GGATC 2 cut(s) 231, 389
BspTI CTTAAG 1 cut(s) 473
BsrDI GCAATG 2 cut(s) 486, 549
BsrI ACTGG 2 cut(s) 315, 325
BssECI CCNNGG 4 cut(s) 177, 511, 575, 576
BssMI GATC 4 cut(s) 30, 223, 381, 669
BssT1I CCWWGG 1 cut(s) 511
Bst2UI CCWGG 1 cut(s) 179
Bst4CI ACNGT 1 cut(s) 444
Bst6I CTCTTC 2 cut(s) 150, 351
BstAFI CTTAAG 1 cut(s) 473
BstC8I GCNNGC 1 cut(s) 424
BstDEI CTNAG 3 cut(s) 48, 245, 387
BstF5I GGATG 2 cut(s) 262, 622
BstFNI CGCG 1 cut(s) 583
BstHHI GCGC 1 cut(s) 583
BstKTI GATC 4 cut(s) 33, 226, 384, 672
BstMAI GTCTC 3 cut(s) 79, 211, 606
BstMBI GATC 4 cut(s) 30, 223, 381, 669
BstMWI GCNNNNNNNGC 2 cut(s) 171, 296
BstNI CCWGG 1 cut(s) 179
BstSCI CCNGG 3 cut(s) 177, 575, 576
BstUI CGCG 1 cut(s) 583
BstV1I GCAGC 1 cut(s) 105
BstV2I GAAGAC 1 cut(s) 549
BstX2I RGATCY 1 cut(s) 669
BstYI RGATCY 1 cut(s) 669
BsuRI GGCC 1 cut(s) 133
BtsCI GGATG 2 cut(s) 262, 622
Cac8I GCNNGC 1 cut(s) 424
CciI TCATGA 1 cut(s) 556
CfoI GCGC 1 cut(s) 583
Cfr13I GGNCC 1 cut(s) 25
Cfr9I CCCGGG 1 cut(s) 576
Csp6I GTAC 4 cut(s) 308, 328, 376, 440
CviAII CATG 1 cut(s) 557
CviJI RGCY 7 cut(s) 133, 215, 251, 268, 415, 422, 426
CviKI_1 RGCY 7 cut(s) 133, 215, 251, 268, 415, 422, 426
CviQI GTAC 4 cut(s) 308, 328, 376, 440
DdeI CTNAG 3 cut(s) 48, 245, 387
DpnI GATC 4 cut(s) 32, 225, 383, 671
DpnII GATC 4 cut(s) 30, 223, 381, 669
EaeI YGGCCR 1 cut(s) 131
Eam1104I CTCTTC 2 cut(s) 150, 351
EarI CTCTTC 2 cut(s) 150, 351
Eco130I CCWWGG 1 cut(s) 511
Eco47I GGWCC 1 cut(s) 25
Eco88I CYCGRG 2 cut(s) 576, 656
EcoRI GAATTC 1 cut(s) 98
EcoRII CCWGG 1 cut(s) 177
EcoT14I CCWWGG 1 cut(s) 511
ErhI CCWWGG 1 cut(s) 511
Esp3I CGTCTC 1 cut(s) 79
FaeI CATG 1 cut(s) 560
FaiI YATR 9 cut(s) 162, 172, 185, 254, 374, 429, 524, 558, 665
FatI CATG 1 cut(s) 556
Fnu4HI GCNGC 1 cut(s) 119
FokI GGATG 2 cut(s) 269, 629
Fsp4HI GCNGC 1 cut(s) 119
GlaI GCGC 1 cut(s) 582
GluI GCNGC 1 cut(s) 119
HaeIII GGCC 1 cut(s) 133
HapII CCGG 2 cut(s) 287, 577
HhaI GCGC 1 cut(s) 583
Hin1II CATG 1 cut(s) 560
Hin6I GCGC 1 cut(s) 581
HinP1I GCGC 1 cut(s) 581
HindIII AAGCTT 1 cut(s) 413
HinfI GANTC 2 cut(s) 143, 349
HpaII CCGG 2 cut(s) 287, 577
Hpy166II GTNNAC 1 cut(s) 506
Hpy188I TCNGA 2 cut(s) 49, 674
Hpy188III TCNNGA 8 cut(s) 55, 210, 227, 276, 340, 353, 557, 656
Hpy8I GTNNAC 1 cut(s) 506
Hpy99I CGWCG 1 cut(s) 98
HpyAV CCTTC 1 cut(s) 607
HpyCH4III ACNGT 1 cut(s) 444
HpyCH4V TGCA 6 cut(s) 121, 174, 318, 369, 404, 549
HpyF10VI GCNNNNNNNGC 2 cut(s) 171, 296
HpyF3I CTNAG 3 cut(s) 48, 245, 387
Hsp92II CATG 1 cut(s) 560
HspAI GCGC 1 cut(s) 581
Kzo9I GATC 4 cut(s) 30, 223, 381, 669
LmnI GCTCC 2 cut(s) 265, 391
Lsp1109I GCAGC 1 cut(s) 105
MalI GATC 4 cut(s) 32, 225, 383, 671
MboI GATC 4 cut(s) 30, 223, 381, 669
MboII GAAGA 5 cut(s) 138, 167, 368, 554, 622
MflI RGATCY 1 cut(s) 669
MlsI TGGCCA 1 cut(s) 133
MluCI AATT 4 cut(s) 98, 395, 465, 641
MluNI TGGCCA 1 cut(s) 133
Mox20I TGGCCA 1 cut(s) 133
MscI TGGCCA 1 cut(s) 133
MseI TTAA 1 cut(s) 474
MslI CAYNNNNRTG 1 cut(s) 491
Msp20I TGGCCA 1 cut(s) 133
MspCI CTTAAG 1 cut(s) 473
MspI CCGG 2 cut(s) 287, 577
MspR9I CCNGG 3 cut(s) 179, 577, 578
MvaI CCWGG 1 cut(s) 179
MvnI CGCG 1 cut(s) 583
MwoI GCNNNNNNNGC 2 cut(s) 171, 296
NciI CCSGG 2 cut(s) 577, 578
NdeII GATC 4 cut(s) 30, 223, 381, 669
NlaIII CATG 1 cut(s) 560
PaeR7I CTCGAG 1 cut(s) 656
PagI TCATGA 1 cut(s) 556
PfeI GAWTC 2 cut(s) 143, 349
PkrI GCNGC 1 cut(s) 120
Psp6I CCWGG 1 cut(s) 177
PspGI CCWGG 1 cut(s) 177
PspPI GGNCC 1 cut(s) 25
PsuI RGATCY 1 cut(s) 669
RsaI GTAC 4 cut(s) 309, 329, 377, 441
RsaNI GTAC 4 cut(s) 308, 328, 376, 440
RseI CAYNNNNRTG 1 cut(s) 491
SaqAI TTAA 1 cut(s) 474
SatI GCNGC 1 cut(s) 119
Sau3AI GATC 4 cut(s) 30, 223, 381, 669
Sau96I GGNCC 1 cut(s) 25
ScaI AGTACT 1 cut(s) 309
ScrFI CCNGG 3 cut(s) 179, 577, 578
SetI ASST 4 cut(s) 39, 270, 417, 441
Sfr274I CTCGAG 1 cut(s) 656
SinI GGWCC 1 cut(s) 25
SlaI CTCGAG 1 cut(s) 656
SmaI CCCGGG 1 cut(s) 578
SmiMI CAYNNNNRTG 1 cut(s) 491
SmlI CTYRAG 3 cut(s) 208, 473, 656
SmoI CTYRAG 3 cut(s) 208, 473, 656
Sse9I AATT 4 cut(s) 98, 395, 465, 641
SsiI CCGC 1 cut(s) 23
SspI AATATT 1 cut(s) 238
StyD4I CCNGG 3 cut(s) 177, 575, 576
StyI CCWWGG 1 cut(s) 511
TaaI ACNGT 1 cut(s) 444
TaqI TCGA 4 cut(s) 33, 54, 540, 657
TasI AATT 4 cut(s) 98, 395, 465, 641
TatI WGTACW 1 cut(s) 307
TfiI GAWTC 2 cut(s) 143, 349
Tru1I TTAA 1 cut(s) 474
Tru9I TTAA 1 cut(s) 474
TseI GCWGC 1 cut(s) 118
TspDTI ATGAA 3 cut(s) 215, 605, 638
TspGWI ACGGA 1 cut(s) 421
TspMI CCCGGG 1 cut(s) 576
Vha464I CTTAAG 1 cut(s) 473
VpaK11BI GGWCC 1 cut(s) 25
XapI RAATTY 2 cut(s) 98, 465
XhoI CTCGAG 1 cut(s) 656
XmaI CCCGGG 1 cut(s) 576
ZrmI AGTACT 1 cut(s) 309
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.