Rh3BG171800

rRNA processing

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr3B
OG0000145
Physical Location & Seq
Forward (+)
14682353 .. 14684379
2027 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh3BG171800.1

Sequence Viewer

Length: 507 bp
ATGCCGTGCCCAAACTCCGAGCACATGGAGTCGGAAAAGTCTGAAGCTGAGCTTTACATGACTGTCTCAACCACCCCAAGGACCAAAGATCCAGACATCATTCACAGGGCTAGGGAGATTATTGTGCTTCTGTCCAAAACTACTACTCCGACATATGTGGTAATTGATATATTGAATGGCGATATGCATCATGACCACATCAAAACTGGGTATCAAGAAGGTGGGCTTGCTGCAATACATGGGATCAAGAAGGAGCGATTTGATAAACGGAGGATCAGATTCTTTGAAAACGTAAAGGACCTTGCATGCCTGATGAGTTGTCATCTGTATGTTAACGGAAACACTGTGACTGCCGCGGGAACTTCACTTGAGCATGTAAAGCTGGTCAGGATGGTCGTTGAAAGGTGTTATGTTGAAAATGTGAATCCTGCAACTATTGTCAGTCGCTTAAAAATGAGGAAAGATATGCTTAATGTGGAGAGAAGGCTTCAAGCTTTGTTGATGTGA
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

168

Amino Acids

19.24

Weight (kDa)

8.68

Isoelectric Point (pI)

45.64

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
KH_KRR1_1st PF17903 16 - 48 8.6e-06 Krr1 KH1 domain
KH_KRR1_2nd PF21800 83 - 156 5.6e-09 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
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

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) 356
AciI CCGC 2 cut(s) 354, 356
AclWI GGATC 3 cut(s) 83, 251, 281
AcuI CTGAAG 1 cut(s) 63
AfiI CCNNNNNNNGG 1 cut(s) 78
AgsI TTSAA 5 cut(s) 175, 287, 401, 416, 491
AluBI AGCT 4 cut(s) 47, 52, 382, 494
AluI AGCT 4 cut(s) 47, 52, 382, 494
Alw21I GWGCWC 1 cut(s) 24
Alw26I GTCTC 1 cut(s) 70
AlwI GGATC 3 cut(s) 83, 251, 281
ApeKI GCWGC 1 cut(s) 230
AspS9I GGNCC 2 cut(s) 81, 298
AvaII GGWCC 2 cut(s) 81, 298
BaeGI GKGCMC 1 cut(s) 11
Bbv12I GWGCWC 1 cut(s) 24
BbvI GCAGC 1 cut(s) 217
BccI CCATC 1 cut(s) 385
BcoDI GTCTC 1 cut(s) 70
BfaI CTAG 1 cut(s) 111
BisI GCNGC 2 cut(s) 231, 354
BlpI GCTNAGC 1 cut(s) 48
BlsI GCNGC 2 cut(s) 232, 355
Bme18I GGWCC 2 cut(s) 81, 298
BmgT120I GGNCC 2 cut(s) 81, 298
BmrI ACTGGG 1 cut(s) 216
BmsI GCATC 1 cut(s) 196
BmuI ACTGGG 1 cut(s) 216
Bpu1102I GCTNAGC 1 cut(s) 48
BpuEI CTTGAG 1 cut(s) 389
BsaBI GATNNNNATC 1 cut(s) 186
BsaJI CCNNGG 2 cut(s) 77, 354
BsaXI ACNNNNNCTCC 2 cut(s) 130, 160
Bsc4I CCNNNNNNNGG 1 cut(s) 78
Bse1I ACTGG 1 cut(s) 211
Bse8I GATNNNNATC 1 cut(s) 186
BseDI CCNNGG 2 cut(s) 77, 354
BseGI GGATG 1 cut(s) 396
BseJI GATNNNNATC 1 cut(s) 186
BseLI CCNNNNNNNGG 1 cut(s) 78
BseMII CTCAG 1 cut(s) 39
BseNI ACTGG 1 cut(s) 211
BseSI GKGCMC 1 cut(s) 11
BseXI GCAGC 1 cut(s) 217
Bsh1236I CGCG 1 cut(s) 356
BsiHKAI GWGCWC 1 cut(s) 24
BslI CCNNNNNNNGG 1 cut(s) 78
BsmAI GTCTC 1 cut(s) 70
Bsp1286I GDGCHC 2 cut(s) 11, 24
Bsp143I GATC 3 cut(s) 88, 243, 273
Bsp1720I GCTNAGC 1 cut(s) 48
BspACI CCGC 2 cut(s) 354, 356
BspCNI CTCAG 1 cut(s) 40
BspFNI CGCG 1 cut(s) 356
BspHI TCATGA 1 cut(s) 190
BspPI GGATC 3 cut(s) 83, 251, 281
BsrI ACTGG 1 cut(s) 211
BssECI CCNNGG 2 cut(s) 77, 354
BssMI GATC 3 cut(s) 88, 243, 273
BssT1I CCWWGG 1 cut(s) 77
Bst4CI ACNGT 2 cut(s) 64, 346
BstC8I GCNNGC 2 cut(s) 228, 307
BstDEI CTNAG 1 cut(s) 48
BstDSI CCRYGG 1 cut(s) 354
BstF5I GGATG 1 cut(s) 396
BstFNI CGCG 1 cut(s) 356
BstKTI GATC 3 cut(s) 91, 246, 276
BstMAI GTCTC 1 cut(s) 70
BstMBI GATC 3 cut(s) 88, 243, 273
BstMWI GCNNNNNNNGC 1 cut(s) 379
BstNSI RCATGY 2 cut(s) 309, 377
BstSLI GKGCMC 1 cut(s) 11
BstUI CGCG 1 cut(s) 356
BstV1I GCAGC 1 cut(s) 217
BstX2I RGATCY 1 cut(s) 88
BstYI RGATCY 1 cut(s) 88
BtgI CCRYGG 1 cut(s) 354
BtsCI GGATG 1 cut(s) 396
BtsIMutI CAGTG 1 cut(s) 342
Cac8I GCNNGC 2 cut(s) 228, 307
CciI TCATGA 1 cut(s) 190
Cfr13I GGNCC 2 cut(s) 81, 298
Cfr42I CCGCGG 1 cut(s) 357
CviAII CATG 6 cut(s) 25, 58, 191, 239, 306, 374
CviJI RGCY 7 cut(s) 47, 52, 110, 226, 382, 487, 494
CviKI_1 RGCY 7 cut(s) 47, 52, 110, 226, 382, 487, 494
DdeI CTNAG 1 cut(s) 48
DpnI GATC 3 cut(s) 90, 245, 275
DpnII GATC 3 cut(s) 88, 243, 273
Eco130I CCWWGG 1 cut(s) 77
Eco47I GGWCC 2 cut(s) 81, 298
Eco57I CTGAAG 1 cut(s) 63
EcoO109I RGGNCCY 1 cut(s) 298
EcoT14I CCWWGG 1 cut(s) 77
EcoT22I ATGCAT 1 cut(s) 189
ErhI CCWWGG 1 cut(s) 77
FaeI CATG 6 cut(s) 28, 61, 194, 242, 309, 377
FalI AAGNNNNNCTT 6 cut(s) 36, 68, 210, 242, 453, 485
FatI CATG 6 cut(s) 24, 57, 190, 238, 305, 373
FauI CCCGC 1 cut(s) 349
FauNDI CATATG 1 cut(s) 154
Fnu4HI GCNGC 2 cut(s) 231, 354
FokI GGATG 1 cut(s) 403
Fsp4HI GCNGC 2 cut(s) 231, 354
FspBI CTAG 1 cut(s) 111
GluI GCNGC 2 cut(s) 231, 354
Hin1II CATG 6 cut(s) 28, 61, 194, 242, 309, 377
HincII GTYRAC 1 cut(s) 334
HindII GTYRAC 1 cut(s) 334
HindIII AAGCTT 1 cut(s) 492
HinfI GANTC 3 cut(s) 29, 279, 424
HpaI GTTAAC 1 cut(s) 334
Hpy166II GTNNAC 1 cut(s) 334
Hpy188I TCNGA 5 cut(s) 19, 34, 43, 150, 278
Hpy188III TCNNGA 5 cut(s) 92, 191, 215, 247, 388
Hpy8I GTNNAC 1 cut(s) 334
HpyAV CCTTC 3 cut(s) 212, 244, 477
HpyCH4III ACNGT 2 cut(s) 64, 346
HpyCH4IV ACGT 1 cut(s) 291
HpyCH4V TGCA 4 cut(s) 187, 233, 305, 431
HpyF10VI GCNNNNNNNGC 1 cut(s) 379
HpyF3I CTNAG 1 cut(s) 48
HpySE526I ACGT 1 cut(s) 291
Hsp92II CATG 6 cut(s) 28, 61, 194, 242, 309, 377
KspAI GTTAAC 1 cut(s) 334
KspI CCGCGG 1 cut(s) 357
Kzo9I GATC 3 cut(s) 88, 243, 273
LmnI GCTCC 1 cut(s) 253
LpnPI CCDG 7 cut(s) 91, 105, 192, 323, 368, 373, 441
Lsp1109I GCAGC 1 cut(s) 217
LweI GCATC 1 cut(s) 196
MaeI CTAG 1 cut(s) 111
MaeII ACGT 1 cut(s) 291
MaeIII GTNAC 1 cut(s) 346
MalI GATC 3 cut(s) 90, 245, 275
MboI GATC 3 cut(s) 88, 243, 273
MflI RGATCY 1 cut(s) 88
MhlI GDGCHC 2 cut(s) 11, 24
MluCI AATT 1 cut(s) 162
MlyI GAGTC 1 cut(s) 38
MmeI TCCRAC 2 cut(s) 12, 173
MnlI CCTC 2 cut(s) 264, 450
Mph1103I ATGCAT 1 cut(s) 189
MseI TTAA 3 cut(s) 333, 449, 471
MslI CAYNNNNRTG 1 cut(s) 327
MspA1I CMGCKG 1 cut(s) 356
MvnI CGCG 1 cut(s) 356
MwoI GCNNNNNNNGC 1 cut(s) 379
NdeI CATATG 1 cut(s) 154
NdeII GATC 3 cut(s) 88, 243, 273
NlaIII CATG 6 cut(s) 28, 61, 194, 242, 309, 377
NmuCI GTSAC 1 cut(s) 346
NsiI ATGCAT 1 cut(s) 189
NspI RCATGY 2 cut(s) 309, 377
PaeI GCATGC 1 cut(s) 309
PagI TCATGA 1 cut(s) 190
PfeI GAWTC 2 cut(s) 279, 424
PkrI GCNGC 2 cut(s) 232, 355
PleI GAGTC 1 cut(s) 37
PpsI GAGTC 1 cut(s) 37
PpuMI RGGWCCY 1 cut(s) 298
Psp5II RGGWCCY 1 cut(s) 298
PspPI GGNCC 2 cut(s) 81, 298
PspPPI RGGWCCY 1 cut(s) 298
PsuI RGATCY 1 cut(s) 88
RseI CAYNNNNRTG 1 cut(s) 327
SacII CCGCGG 1 cut(s) 357
SaqAI TTAA 3 cut(s) 333, 449, 471
SatI GCNGC 2 cut(s) 231, 354
Sau3AI GATC 3 cut(s) 88, 243, 273
Sau96I GGNCC 2 cut(s) 81, 298
SchI GAGTC 1 cut(s) 38
SduI GDGCHC 2 cut(s) 11, 24
SetI ASST 8 cut(s) 49, 54, 223, 294, 303, 384, 407, 496
SfaNI GCATC 1 cut(s) 196
Sfr303I CCGCGG 1 cut(s) 357
SgrBI CCGCGG 1 cut(s) 357
SinI GGWCC 2 cut(s) 81, 298
SmiMI CAYNNNNRTG 1 cut(s) 327
SmlI CTYRAG 1 cut(s) 368
SmoI CTYRAG 1 cut(s) 368
SphI GCATGC 1 cut(s) 309
Sse9I AATT 1 cut(s) 162
SsiI CCGC 2 cut(s) 354, 356
SspMI CTAG 1 cut(s) 111
StyI CCWWGG 1 cut(s) 77
TaaI ACNGT 2 cut(s) 64, 346
TaiI ACGT 1 cut(s) 294
TasI AATT 1 cut(s) 162
TauI GCSGC 1 cut(s) 356
TfiI GAWTC 2 cut(s) 279, 424
Tru1I TTAA 3 cut(s) 333, 449, 471
Tru9I TTAA 3 cut(s) 333, 449, 471
TscAI CASTG 1 cut(s) 349
TseFI GTSAC 1 cut(s) 346
TseI GCWGC 1 cut(s) 230
Tsp45I GTSAC 1 cut(s) 346
TspGWI ACGGA 2 cut(s) 283, 351
TspRI CASTG 1 cut(s) 349
VpaK11BI GGWCC 2 cut(s) 81, 298
XceI RCATGY 2 cut(s) 309, 377
XcmI CCANNNNNNNNNTGG 1 cut(s) 203
XspI CTAG 1 cut(s) 111
Zsp2I ATGCAT 1 cut(s) 189
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.