Rroxscaffold_5G00360050

Ribosomal L18 of archaea, bacteria, mitoch. and chloroplast

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000005
OG0013033
Physical Location & Seq
Reverse (-)
40342112 .. 40344087
1976 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_5G00360050.1

Sequence Viewer

Length: 1098 bp
ATGCACACCAACTGTTTGATGAAATGCTCCTGTGAACGCTTTCGCTCAACCAGACCCACCCACCTTTGCTCGAGAATGTTGTTGAGGAGAGGAATCAAACTCGCTTCAGCAGCATTTCCATATTTCCTTTCAAAGTCTCCTACTTCTTGCCGCAAAGCCACCACCACGGTTCCCATTTTCGATCATTCGGCATACTACTCTAGCGGCTTTCGCCTCTCTCCTTTGTTCCCCTCCGAACCCAAACCTGAGTCGGATAGTTATGATATTGAGCTTGTTGACGATGATGCATGGCGGGTTTCCTCAGGTTTGGCGCTAGCGGATCAACCAATGCAGTCCCCTGCATTGGAGGAACAAAGTTGCTTATCGGATGAAGCGGTTGATGAGCCTGTTGATAGTTGCTCTCTACCTCTTGAGGGTGGCCCGGATTTCGATGACATTGACAACATGAGAGTTCGGGGTAAACTGTTCTACAAAATCGACCGCGATTCCAAAGAGTTTGAAGAGTATAGTTTCGACTTCCATCGTAGGAACAAGTCTTCTAAGAAGAAGGATGATCCAAAGGAGAAGAAACAGAAGGTTAGTAGTTTGAAGGAAAGCAAAAGAGACAGCCCAATTCCTAAGTTTTCCTCAAGAAGTGAGAAACAGTGTAGAGTTGTGGACAACTCTCGGCTAGATGAAATGGGCGCTACTTGTGTTGAGAAGAAGAAGCTGAGAACTCCGACTTATAATCAGCTCACTGGTCCTTTCCACGAGCCGTTTTGCCTTGATGTTTACATCTCCAAGGCTTCAGTTCGTGCCTGCATTGTTCACAGGTTCACCAGTAAGGTTGTTGCCGTTGCACATTCCATATCGAAGGACATGAAGTTTGACCTTGGTTCAACTAGGAATGCAGCTGCTTGTGCTGCTGTTGGGGAAGTTCTGGCTCAGAGGGCATTGGGCGATGATATCCATGATGTGATTTACACACCAAGGAAAGGGGAAAGATTGGAGGGCAAGCTTCAAATTGTAGTTCAGTCTCTAATTGATCATGGCGTTAATGTGAAGGTGAAGATCAAACAAAGGGCGCGGAAGAAACCAACTTCCTTTTCTGCAGCCTAG
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko03010 map03010
Pfam Domains
Protein Families
Ribosomal_L18p

Protein Analysis

365

Amino Acids

41.08

Weight (kDa)

9.01

Isoelectric Point (pI)

50.7

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Ribosomal_L18p PF00861 254 - 346 6.3e-08 Ribosomal L18 of archaea, bacteria, mitoch. and chloroplast
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: OG0013033)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G22450 AT3G22450
fragaria_vesca FvH4_4g15620
malus_domestica MD13G1193200.v1.1 MD16G1194100.v1.1
prunus_persica Prupe.1G013800_v2.0.a1
pyrus_communis pycom13g16550 pycom16g16390
rosa_chinensis RchiOBHm_Chr4g0416191
rosa_laevigata RLG00000008007
rosa_multiflora Rmu_sc0001145.1_g000002
rosa_roxburghii Rroxscaffold_5G00360050
rosa_rugosa Rorug04G0139800
rosa_samantha Rh4AG201800 Rh4BG199200 Rh4CG214100 Rh4DG199000
rosa_wichuraiana Rw4G017060

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 726
AccII CGCG 2 cut(s) 483, 1066
AciI CCGC 7 cut(s) 151, 204, 292, 317, 374, 481, 1066
AclWI GGATC 2 cut(s) 327, 548
AcuI CTGAAG 2 cut(s) 90, 771
AfiI CCNNNNNNNGG 3 cut(s) 343, 413, 974
AgsI TTSAA 5 cut(s) 132, 500, 589, 879, 1001
AjuI GAANNNNNNNTTGG 1 cut(s) 1069
AluBI AGCT 5 cut(s) 271, 709, 733, 893, 997
AluI AGCT 5 cut(s) 271, 709, 733, 893, 997
Alw26I GTCTC 3 cut(s) 141, 597, 1020
AlwI GGATC 2 cut(s) 327, 548
Ama87I CYCGRG 1 cut(s) 70
AoxI GGCC 1 cut(s) 418
ApeKI GCWGC 5 cut(s) 110, 890, 893, 902, 1091
ArsI GACNNNNNNTTYG 2 cut(s) 848, 880
Asp700I GAANNNNTTC 1 cut(s) 39
AspLEI GCGC 3 cut(s) 313, 686, 1066
AspS9I GGNCC 2 cut(s) 419, 740
AsuC2I CCSGG 1 cut(s) 422
AsuHPI GGTGA 2 cut(s) 808, 1057
AsuNHI GCTAGC 1 cut(s) 313
AvaI CYCGRG 1 cut(s) 70
AvaII GGWCC 1 cut(s) 740
AxyI CCTNAGG 1 cut(s) 301
BauI CACGAG 1 cut(s) 749
BbsI GAAGAC 1 cut(s) 528
BbvI GCAGC 4 cut(s) 122, 880, 889, 902
BccI CCATC 1 cut(s) 528
BceAI ACGGC 2 cut(s) 739, 818
BclI TGATCA 1 cut(s) 1024
BcnI CCSGG 1 cut(s) 422
BcoDI GTCTC 3 cut(s) 141, 597, 1020
BfaI CTAG 5 cut(s) 201, 314, 671, 882, 1096
BfmI CTRYAG 1 cut(s) 1089
BfoI RGCGCY 2 cut(s) 314, 687
BisI GCNGC 7 cut(s) 111, 151, 205, 891, 894, 903, 1092
BlsI GCNGC 7 cut(s) 112, 152, 206, 892, 895, 904, 1093
Bme1390I CCNGG 1 cut(s) 422
Bme18I GGWCC 1 cut(s) 740
BmeT110I CYCGRG 1 cut(s) 70
BmgT120I GGNCC 2 cut(s) 419, 740
BmiI GGNNCC 1 cut(s) 171
BmrFI CCNGG 1 cut(s) 422
BmsI GCATC 1 cut(s) 274
BmtI GCTAGC 1 cut(s) 317
BpiI GAAGAC 1 cut(s) 528
BpuEI CTTGAG 2 cut(s) 431, 613
BpuMI CCSGG 1 cut(s) 422
BsaJI CCNNGG 4 cut(s) 165, 780, 871, 968
Bsc4I CCNNNNNNNGG 3 cut(s) 343, 413, 974
Bse1I ACTGG 2 cut(s) 742, 819
Bse21I CCTNAGG 1 cut(s) 301
BseDI CCNNGG 4 cut(s) 165, 780, 871, 968
BseGI GGATG 2 cut(s) 373, 556
BseLI CCNNNNNNNGG 3 cut(s) 343, 413, 974
BseMII CTCAG 4 cut(s) 237, 315, 701, 938
BseNI ACTGG 2 cut(s) 742, 819
BseRI GAGGAG 1 cut(s) 100
BseXI GCAGC 4 cut(s) 122, 880, 889, 902
Bsh1236I CGCG 2 cut(s) 483, 1066
Bsh1285I CGRYCG 1 cut(s) 481
BshFI GGCC 1 cut(s) 420
BsiEI CGRYCG 1 cut(s) 481
BsiHKCI CYCGRG 1 cut(s) 70
BsiSI CCGG 1 cut(s) 422
BslFI GGGAC 1 cut(s) 319
BslI CCNNNNNNNGG 3 cut(s) 343, 413, 974
BsmAI GTCTC 3 cut(s) 141, 597, 1020
BsmFI GGGAC 1 cut(s) 319
BsmI GAATGC 1 cut(s) 892
BsnI GGCC 1 cut(s) 420
BsoBI CYCGRG 1 cut(s) 70
Bsp143I GATC 5 cut(s) 181, 319, 553, 1024, 1050
BspACI CCGC 7 cut(s) 151, 204, 292, 317, 374, 481, 1066
BspANI GGCC 1 cut(s) 420
BspCNI CTCAG 4 cut(s) 238, 314, 702, 937
BspFNI CGCG 2 cut(s) 483, 1066
BspLI GGNNCC 1 cut(s) 171
BspMAI CTGCAG 1 cut(s) 1093
BspOI GCTAGC 1 cut(s) 317
BspPI GGATC 2 cut(s) 327, 548
BsrI ACTGG 2 cut(s) 742, 819
BssECI CCNNGG 4 cut(s) 165, 780, 871, 968
BssMI GATC 5 cut(s) 181, 319, 553, 1024, 1050
BssSI CACGAG 1 cut(s) 749
BssT1I CCWWGG 3 cut(s) 780, 871, 968
Bst2BI CACGAG 1 cut(s) 749
Bst4CI ACNGT 4 cut(s) 14, 169, 465, 645
Bst6I CTCTTC 1 cut(s) 495
BstC8I GCNNGC 3 cut(s) 315, 799, 995
BstDEI CTNAG 6 cut(s) 246, 301, 540, 618, 710, 924
BstDSI CCRYGG 1 cut(s) 165
BstF5I GGATG 2 cut(s) 373, 556
BstFNI CGCG 2 cut(s) 483, 1066
BstH2I RGCGCY 2 cut(s) 314, 687
BstHHI GCGC 3 cut(s) 313, 686, 1066
BstKTI GATC 5 cut(s) 184, 322, 556, 1027, 1053
BstMAI GTCTC 3 cut(s) 141, 597, 1020
BstMBI GATC 5 cut(s) 181, 319, 553, 1024, 1050
BstMCI CGRYCG 1 cut(s) 481
BstMWI GCNNNNNNNGC 5 cut(s) 110, 210, 899, 902, 929
BstSCI CCNGG 1 cut(s) 420
BstSFI CTRYAG 1 cut(s) 1089
BstUI CGCG 2 cut(s) 483, 1066
BstV1I GCAGC 4 cut(s) 122, 880, 889, 902
BstV2I GAAGAC 1 cut(s) 528
Bsu36I CCTNAGG 1 cut(s) 301
BsuRI GGCC 1 cut(s) 420
BtgI CCRYGG 1 cut(s) 165
BtgZI GCGATG 1 cut(s) 954
BtsCI GGATG 2 cut(s) 373, 556
BtsIMutI CAGTG 2 cut(s) 650, 735
Cac8I GCNNGC 3 cut(s) 315, 799, 995
CfoI GCGC 3 cut(s) 313, 686, 1066
Cfr13I GGNCC 2 cut(s) 419, 740
CviAII CATG 5 cut(s) 288, 445, 859, 950, 1028
DdeI CTNAG 6 cut(s) 246, 301, 540, 618, 710, 924
DpnI GATC 5 cut(s) 183, 321, 555, 1026, 1052
DpnII GATC 5 cut(s) 181, 319, 553, 1024, 1050
Eam1104I CTCTTC 1 cut(s) 495
EarI CTCTTC 1 cut(s) 495
Eco130I CCWWGG 3 cut(s) 780, 871, 968
Eco32I GATATC 1 cut(s) 946
Eco47I GGWCC 1 cut(s) 740
Eco57I CTGAAG 2 cut(s) 90, 771
Eco81I CCTNAGG 1 cut(s) 301
Eco88I CYCGRG 1 cut(s) 70
EcoRV GATATC 1 cut(s) 946
EcoT14I CCWWGG 3 cut(s) 780, 871, 968
EcoT22I ATGCAT 1 cut(s) 289
ErhI CCWWGG 3 cut(s) 780, 871, 968
FaeI CATG 5 cut(s) 291, 448, 862, 953, 1031
FaqI GGGAC 1 cut(s) 319
FatI CATG 5 cut(s) 287, 444, 858, 949, 1027
FauI CCCGC 1 cut(s) 285
FbaI TGATCA 1 cut(s) 1024
Fnu4HI GCNGC 7 cut(s) 111, 151, 205, 891, 894, 903, 1092
FokI GGATG 2 cut(s) 380, 563
Fsp4HI GCNGC 7 cut(s) 111, 151, 205, 891, 894, 903, 1092
FspBI CTAG 5 cut(s) 201, 314, 671, 882, 1096
GlaI GCGC 3 cut(s) 312, 685, 1065
GluI GCNGC 7 cut(s) 111, 151, 205, 891, 894, 903, 1092
HaeII RGCGCY 2 cut(s) 314, 687
HaeIII GGCC 1 cut(s) 420
HapII CCGG 1 cut(s) 422
HhaI GCGC 3 cut(s) 313, 686, 1066
Hin1II CATG 5 cut(s) 291, 448, 862, 953, 1031
Hin6I GCGC 3 cut(s) 311, 684, 1064
HinP1I GCGC 3 cut(s) 311, 684, 1064
HincII GTYRAC 1 cut(s) 277
HindII GTYRAC 1 cut(s) 277
HindIII AAGCTT 1 cut(s) 995
HinfI GANTC 3 cut(s) 93, 248, 485
HpaII CCGG 1 cut(s) 422
HphI GGTGA 2 cut(s) 808, 1057
Hpy166II GTNNAC 7 cut(s) 35, 277, 461, 658, 772, 808, 816
Hpy188I TCNGA 5 cut(s) 235, 253, 367, 720, 927
Hpy188III TCNNGA 3 cut(s) 72, 410, 630
Hpy8I GTNNAC 7 cut(s) 35, 277, 461, 658, 772, 808, 816
HpyAV CCTTC 5 cut(s) 541, 568, 583, 847, 1036
HpyCH4III ACNGT 4 cut(s) 14, 169, 465, 645
HpyCH4V TGCA 8 cut(s) 4, 287, 331, 341, 801, 839, 890, 1091
HpyF10VI GCNNNNNNNGC 5 cut(s) 110, 210, 899, 902, 929
HpyF3I CTNAG 6 cut(s) 246, 301, 540, 618, 710, 924
Hsp92II CATG 5 cut(s) 291, 448, 862, 953, 1031
HspAI GCGC 3 cut(s) 311, 684, 1064
Ksp22I TGATCA 1 cut(s) 1024
Kzo9I GATC 5 cut(s) 181, 319, 553, 1024, 1050
LmnI GCTCC 1 cut(s) 32
Lsp1109I GCAGC 4 cut(s) 122, 880, 889, 902
LweI GCATC 1 cut(s) 274
MaeI CTAG 5 cut(s) 201, 314, 671, 882, 1096
MalI GATC 5 cut(s) 183, 321, 555, 1026, 1052
MboI GATC 5 cut(s) 181, 319, 553, 1024, 1050
MboII GAAGA 8 cut(s) 512, 528, 556, 577, 712, 715, 1060, 1081
MluCI AATT 3 cut(s) 612, 1002, 1020
MlyI GAGTC 1 cut(s) 257
MmeI TCCRAC 2 cut(s) 231, 743
Mph1103I ATGCAT 1 cut(s) 289
MroXI GAANNNNTTC 1 cut(s) 39
MseI TTAA 1 cut(s) 1035
MspA1I CMGCKG 1 cut(s) 893
MspI CCGG 1 cut(s) 422
MspR9I CCNGG 1 cut(s) 422
Mva1269I GAATGC 1 cut(s) 892
MvnI CGCG 2 cut(s) 483, 1066
MwoI GCNNNNNNNGC 5 cut(s) 110, 210, 899, 902, 929
NciI CCSGG 1 cut(s) 422
NdeII GATC 5 cut(s) 181, 319, 553, 1024, 1050
NheI GCTAGC 1 cut(s) 313
NlaIII CATG 5 cut(s) 291, 448, 862, 953, 1031
NlaIV GGNNCC 1 cut(s) 171
NmeAIII GCCGAG 1 cut(s) 646
NsiI ATGCAT 1 cut(s) 289
PaeR7I CTCGAG 1 cut(s) 70
PctI GAATGC 1 cut(s) 892
PdmI GAANNNNTTC 1 cut(s) 39
PfeI GAWTC 2 cut(s) 93, 485
PkrI GCNGC 7 cut(s) 112, 152, 206, 892, 895, 904, 1093
PleI GAGTC 1 cut(s) 256
PpsI GAGTC 1 cut(s) 256
PsiI TTATAA 1 cut(s) 726
PspN4I GGNNCC 1 cut(s) 171
PspPI GGNCC 2 cut(s) 419, 740
PstI CTGCAG 1 cut(s) 1093
PvuII CAGCTG 1 cut(s) 893
SaqAI TTAA 1 cut(s) 1035
SatI GCNGC 7 cut(s) 111, 151, 205, 891, 894, 903, 1092
Sau3AI GATC 5 cut(s) 181, 319, 553, 1024, 1050
Sau96I GGNCC 2 cut(s) 419, 740
SchI GAGTC 1 cut(s) 257
ScrFI CCNGG 1 cut(s) 422
SfaNI GCATC 1 cut(s) 274
SfcI CTRYAG 1 cut(s) 1089
Sfr274I CTCGAG 1 cut(s) 70
SinI GGWCC 1 cut(s) 740
SlaI CTCGAG 1 cut(s) 70
SmlI CTYRAG 3 cut(s) 70, 410, 628
SmoI CTYRAG 3 cut(s) 70, 410, 628
Sse9I AATT 3 cut(s) 612, 1002, 1020
SsiI CCGC 7 cut(s) 151, 204, 292, 317, 374, 481, 1066
SspMI CTAG 5 cut(s) 201, 314, 671, 882, 1096
StyD4I CCNGG 1 cut(s) 420
StyI CCWWGG 3 cut(s) 780, 871, 968
TaaI ACNGT 4 cut(s) 14, 169, 465, 645
TaqI TCGA 6 cut(s) 71, 180, 429, 477, 513, 851
TasI AATT 3 cut(s) 612, 1002, 1020
TauI GCSGC 2 cut(s) 153, 207
TfiI GAWTC 2 cut(s) 93, 485
Tru1I TTAA 1 cut(s) 1035
Tru9I TTAA 1 cut(s) 1035
TscAI CASTG 2 cut(s) 650, 742
TseI GCWGC 5 cut(s) 110, 890, 893, 902, 1091
TspDTI ATGAA 4 cut(s) 35, 384, 690, 875
TspRI CASTG 2 cut(s) 650, 742
VpaK11BI GGWCC 1 cut(s) 740
XhoI CTCGAG 1 cut(s) 70
XmnI GAANNNNTTC 1 cut(s) 39
XspI CTAG 5 cut(s) 201, 314, 671, 882, 1096
Zsp2I ATGCAT 1 cut(s) 289
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.