RLG00000010536

maturation of SSU-rRNA

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_laevigata
Chr3
OG0016019
Physical Location & Seq
Forward (+)
2483094 .. 2484431
1338 bp
Loading structure...
UTR
Exon/CDS
Intron
RLM00000010536

Sequence Viewer

Length: 1149 bp
ATGATCAAGACTTTGAATCCTTACAACTCCACCAACACAGCAAAAACGGCTGAGATTATGTCCAGGTACAGGCCCATAGCACCAAGGCCTGAGACTAGTGCAACCACCCCTACAGGTGAGAGCCCTGCCCTGTCTCAGAAGATCAGGGACTCCCCCTACCTTCGAAGCCTCTGGCCTCAATTGCAGGCAAGACCAACAAGAACCAGGAAGAGGGGTCGAGCTGCAATTTCGCCACCAACCCTCAAAAGGCAAAGACCAAACCATGGATTTGGGCTCCCTCCTCCTTGCCATGTAACATCCCCTGCCAAAAATTTAACATTGGATGGTTTTCCTCATCCTCTTTCACAGCTTCCATTACCAAACCAGCTTGGATCAGCCAACACCAGCCTTGAAAACACCAGTCTGGTGACTCTGCCTCTTCTATCATACCCTTCTTCAGTTCCCATTGTCCCTAACCAAGCTGCGGTGACCAACCAAGCAGTGGTGCCAGCTGAACTCAATTTAATGAAACCTTCTGGAGGAGAAGAGCTGCTAATAGATTTGAACTCTGTAGCTGAAATTCCCGAGGAGAAAGACCTGCTGAAGCAACTACAAGGAACCCCATCCCCTACTACTACTACTACTCCTACCACCCCCAGTGTCATAGCACCTCAGCCAATTCGACCTGTGGGCTCGAGCATAAGCGTTGGCTGCATCAGCACAGACCCAAGGTTAGGCCCAGCTGTGCAAGCTCCTAAGAAGCCAGAGGACGTGGAGGAAGAGGTGGAGTCCGAGGCACTGCCAGCCATCATTTCGGATTCACACAACAAGGTGAGGATGGCAAATGCAGCTTACAAGGAGATGGTGGGTCAGCCAGAGTGTTCCTGGCTCGATTCAATGGTGGCCAGCTCGTGCAAAAGGATCAGCGGGGAGGTTACACTTCAGCTTTCTGATGCAAGGGTGCCAACTCTATCAAATGGGTTTTCATGCTGGGTGAGGATAGAGTGGGGCAATGAGATGGACAAGCACGCTGTCAATGCTTTCTGTGATGTGATCAAACTGGCCTGCGAGTCCAAGGACTACCTCTTCACTTGGAGGTTCCACACCCACAGCAGTGAGGCTTCTCAGTCCAGTTCTAATGAAATTGCTACTTATAAGCACAGCCAATAA
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

383

Amino Acids

41.54

Weight (kDa)

7.62

Isoelectric Point (pI)

59.61

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
DUF7950 PF25821 250 - 362 6.4e-12 Domain of unknown function (DUF7950)
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: OG0016019)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G27461
fragaria_vesca FvH4_2g32940
malus_domestica MD08G1080800.v1.1
prunus_persica Prupe.1G421700_v2.0.a1
pyrus_communis pycom08g06660
rosa_chinensis RchiOBHm_Chr6g0309781
rosa_laevigata RLG00000010536
rosa_multiflora Rmu_ssc0000373.1_g000008
rosa_roxburghii Rroxscaffold_7G00159190
rosa_rugosa Rorug06G0374500
rosa_samantha Rh6AG488000 Rh6BG497600 Rh6CG502400 Rh6DG488600
rosa_wichuraiana Rw6G042500

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 1134
Acc36I ACCTGC 1 cut(s) 585
AccB1I GGYRCC 2 cut(s) 484, 940
AccB7I CCANNNNNTGG 2 cut(s) 263, 481
AciI CCGC 2 cut(s) 464, 906
AclWI GGATC 2 cut(s) 379, 908
AcoI YGGCCR 1 cut(s) 882
AcsI RAATTY 2 cut(s) 310, 558
AcuI CTGAAG 3 cut(s) 420, 602, 905
AfaI GTAC 1 cut(s) 68
AfiI CCNNNNNNNGG 8 cut(s) 69, 210, 246, 263, 463, 481, 518, 713
AgsI TTSAA 4 cut(s) 16, 392, 544, 876
AhlI ACTAGT 1 cut(s) 95
AjiI CACGTC 1 cut(s) 751
AjnI CCWGG 3 cut(s) 62, 203, 863
AleI CACNNNNGTG 1 cut(s) 1092
Alw26I GTCTC 2 cut(s) 86, 138
AlwI GGATC 2 cut(s) 379, 908
Ama87I CYCGRG 2 cut(s) 563, 673
AoxI GGCC 6 cut(s) 71, 86, 173, 715, 882, 1041
ApeKI GCWGC 5 cut(s) 221, 461, 529, 690, 827
ApoI RAATTY 2 cut(s) 310, 558
AspS9I GGNCC 2 cut(s) 72, 716
AsuHPI GGTGA 5 cut(s) 128, 418, 478, 823, 985
AsuII TTCGAA 1 cut(s) 163
AvaI CYCGRG 2 cut(s) 563, 673
BalI TGGCCA 1 cut(s) 884
BanI GGYRCC 2 cut(s) 484, 940
BanII GRGCYC 3 cut(s) 125, 276, 674
BauI CACGAG 1 cut(s) 889
BbvCI CCTCAGC 1 cut(s) 651
BbvI GCAGC 5 cut(s) 208, 448, 516, 677, 839
BccI CCATC 6 cut(s) 317, 610, 794, 811, 835, 991
BceAI ACGGC 1 cut(s) 63
BciT130I CCWGG 3 cut(s) 64, 205, 865
BclI TGATCA 2 cut(s) 3, 1032
BcoDI GTCTC 2 cut(s) 86, 138
BcuI ACTAGT 1 cut(s) 95
BfaI CTAG 1 cut(s) 96
BfmI CTRYAG 2 cut(s) 111, 549
BfuAI ACCTGC 1 cut(s) 585
BisI GCNGC 5 cut(s) 222, 462, 530, 691, 828
BlsI GCNGC 5 cut(s) 223, 463, 531, 692, 829
Bme1390I CCNGG 3 cut(s) 64, 205, 865
BmeT110I CYCGRG 2 cut(s) 563, 673
BmgBI CACGTC 1 cut(s) 751
BmgT120I GGNCC 2 cut(s) 72, 716
BmiI GGNNCC 5 cut(s) 275, 486, 598, 942, 1079
BmrFI CCNGG 3 cut(s) 64, 205, 865
BmrI ACTGGG 1 cut(s) 630
BmsI GCATC 2 cut(s) 702, 922
BmuI ACTGGG 1 cut(s) 630
BpmI CTGGAG 1 cut(s) 537
Bpu10I CCTNAGC 1 cut(s) 651
Bpu14I TTCGAA 1 cut(s) 163
BsaJI CCNNGG 6 cut(s) 83, 262, 564, 707, 771, 1053
BsaXI ACNNNNNCTCC 2 cut(s) 607, 637
Bsc4I CCNNNNNNNGG 8 cut(s) 69, 210, 246, 263, 463, 481, 518, 713
Bse1I ACTGG 4 cut(s) 399, 636, 1044, 1110
Bse3DI GCAATG 1 cut(s) 997
BseBI CCWGG 3 cut(s) 64, 205, 865
BseDI CCNNGG 6 cut(s) 83, 262, 564, 707, 771, 1053
BseGI GGATG 5 cut(s) 296, 328, 334, 602, 822
BseLI CCNNNNNNNGG 8 cut(s) 69, 210, 246, 263, 463, 481, 518, 713
BseMI GCAATG 1 cut(s) 997
BseMII CTCAG 5 cut(s) 42, 81, 149, 665, 1118
BseNI ACTGG 4 cut(s) 399, 636, 1044, 1110
BseRI GAGGAG 3 cut(s) 270, 534, 581
BseXI GCAGC 5 cut(s) 208, 448, 516, 677, 839
BseYI CCCAGC 2 cut(s) 718, 969
BshFI GGCC 6 cut(s) 73, 88, 175, 717, 884, 1043
BshNI GGYRCC 2 cut(s) 484, 940
BsiHKCI CYCGRG 2 cut(s) 563, 673
BslFI GGGAC 2 cut(s) 161, 434
BslI CCNNNNNNNGG 8 cut(s) 69, 210, 246, 263, 463, 481, 518, 713
BsmAI GTCTC 2 cut(s) 86, 138
BsmFI GGGAC 2 cut(s) 161, 434
BsnI GGCC 6 cut(s) 73, 88, 175, 717, 884, 1043
BsoBI CYCGRG 2 cut(s) 563, 673
Bsp119I TTCGAA 1 cut(s) 163
Bsp1286I GDGCHC 3 cut(s) 125, 276, 674
Bsp143I GATC 5 cut(s) 3, 141, 371, 900, 1032
Bsp19I CCATGG 1 cut(s) 262
BspACI CCGC 2 cut(s) 464, 906
BspANI GGCC 6 cut(s) 73, 88, 175, 717, 884, 1043
BspCNI CTCAG 5 cut(s) 43, 82, 148, 664, 1117
BspLI GGNNCC 5 cut(s) 275, 486, 598, 942, 1079
BspMI ACCTGC 1 cut(s) 585
BspPI GGATC 2 cut(s) 379, 908
BspQI GCTCTTC 1 cut(s) 519
BspT104I TTCGAA 1 cut(s) 163
BspT107I GGYRCC 2 cut(s) 484, 940
BsrDI GCAATG 1 cut(s) 997
BsrI ACTGG 4 cut(s) 399, 636, 1044, 1110
BssECI CCNNGG 6 cut(s) 83, 262, 564, 707, 771, 1053
BssMI GATC 5 cut(s) 3, 141, 371, 900, 1032
BssSI CACGAG 1 cut(s) 889
BssT1I CCWWGG 4 cut(s) 83, 262, 707, 1053
Bst2BI CACGAG 1 cut(s) 889
Bst2UI CCWGG 3 cut(s) 64, 205, 865
Bst6I CTCTTC 5 cut(s) 203, 423, 519, 753, 1070
BstBI TTCGAA 1 cut(s) 163
BstC8I GCNNGC 7 cut(s) 186, 489, 729, 783, 886, 1008, 1045
BstDEI CTNAG 6 cut(s) 51, 90, 135, 651, 735, 1104
BstDSI CCRYGG 1 cut(s) 262
BstEII GGTNACC 1 cut(s) 466
BstENI CCTNNNNNAGG 1 cut(s) 516
BstF5I GGATG 5 cut(s) 296, 328, 334, 602, 822
BstKTI GATC 5 cut(s) 6, 144, 374, 903, 1035
BstMAI GTCTC 2 cut(s) 86, 138
BstMBI GATC 5 cut(s) 3, 141, 371, 900, 1032
BstMWI GCNNNNNNNGC 8 cut(s) 47, 181, 690, 696, 728, 782, 827, 1016
BstNI CCWGG 3 cut(s) 64, 205, 865
BstPI GGTNACC 1 cut(s) 466
BstSCI CCNGG 3 cut(s) 62, 203, 863
BstSFI CTRYAG 2 cut(s) 111, 549
BstV1I GCAGC 5 cut(s) 208, 448, 516, 677, 839
BstXI CCANNNNNNTGG 1 cut(s) 269
BsuRI GGCC 6 cut(s) 73, 88, 175, 717, 884, 1043
BtgI CCRYGG 1 cut(s) 262
BtrI CACGTC 1 cut(s) 751
BtsCI GGATG 5 cut(s) 296, 328, 334, 602, 822
BtsI GCAGTG 3 cut(s) 486, 776, 1099
BtsIMutI CAGTG 4 cut(s) 486, 643, 776, 1099
BveI ACCTGC 1 cut(s) 585
Cac8I GCNNGC 7 cut(s) 186, 489, 729, 783, 886, 1008, 1045
Cfr13I GGNCC 2 cut(s) 72, 716
Csp6I GTAC 1 cut(s) 67
CviAII CATG 3 cut(s) 263, 290, 966
CviQI GTAC 1 cut(s) 67
DdeI CTNAG 6 cut(s) 51, 90, 135, 651, 735, 1104
DpnI GATC 5 cut(s) 5, 143, 373, 902, 1034
DpnII GATC 5 cut(s) 3, 141, 371, 900, 1032
EaeI YGGCCR 1 cut(s) 882
Eam1104I CTCTTC 5 cut(s) 203, 423, 519, 753, 1070
EarI CTCTTC 5 cut(s) 203, 423, 519, 753, 1070
Eco130I CCWWGG 4 cut(s) 83, 262, 707, 1053
Eco147I AGGCCT 1 cut(s) 88
Eco24I GRGCYC 3 cut(s) 125, 276, 674
Eco57I CTGAAG 3 cut(s) 420, 602, 905
Eco88I CYCGRG 2 cut(s) 563, 673
Eco91I GGTNACC 1 cut(s) 466
EcoNI CCTNNNNNAGG 1 cut(s) 516
EcoO65I GGTNACC 1 cut(s) 466
EcoRII CCWGG 3 cut(s) 62, 203, 863
EcoT14I CCWWGG 4 cut(s) 83, 262, 707, 1053
EcoT38I GRGCYC 3 cut(s) 125, 276, 674
ErhI CCWWGG 4 cut(s) 83, 262, 707, 1053
FaeI CATG 3 cut(s) 266, 293, 969
FaiI YATR 9 cut(s) 59, 77, 264, 291, 427, 644, 680, 967, 1134
FaqI GGGAC 2 cut(s) 161, 434
FatI CATG 3 cut(s) 262, 289, 965
FauI CCCGC 1 cut(s) 899
FbaI TGATCA 2 cut(s) 3, 1032
Fnu4HI GCNGC 5 cut(s) 222, 462, 530, 691, 828
FokI GGATG 5 cut(s) 283, 321, 335, 589, 829
FriOI GRGCYC 3 cut(s) 125, 276, 674
Fsp4HI GCNGC 5 cut(s) 222, 462, 530, 691, 828
FspBI CTAG 1 cut(s) 96
GluI GCNGC 5 cut(s) 222, 462, 530, 691, 828
GsaI CCCAGC 2 cut(s) 722, 973
GsuI CTGGAG 1 cut(s) 537
HaeIII GGCC 6 cut(s) 73, 88, 175, 717, 884, 1043
Hin1II CATG 3 cut(s) 266, 293, 969
HinfI GANTC 7 cut(s) 16, 149, 409, 767, 797, 872, 1049
HphI GGTGA 5 cut(s) 128, 418, 478, 823, 985
Hpy188I TCNGA 4 cut(s) 138, 772, 796, 931
Hpy188III TCNNGA 3 cut(s) 7, 516, 563
HpyAV CCTTC 3 cut(s) 170, 441, 522
HpyCH4IV ACGT 1 cut(s) 750
HpyCH4V TGCA 8 cut(s) 101, 184, 224, 693, 727, 827, 894, 935
HpyF10VI GCNNNNNNNGC 8 cut(s) 47, 181, 690, 696, 728, 782, 827, 1016
HpyF3I CTNAG 6 cut(s) 51, 90, 135, 651, 735, 1104
HpySE526I ACGT 1 cut(s) 750
Hsp92II CATG 3 cut(s) 266, 293, 969
Ksp22I TGATCA 2 cut(s) 3, 1032
Kzo9I GATC 5 cut(s) 3, 141, 371, 900, 1032
LguI GCTCTTC 1 cut(s) 519
LmnI GCTCC 2 cut(s) 279, 736
Lsp1109I GCAGC 5 cut(s) 208, 448, 516, 677, 839
LweI GCATC 2 cut(s) 702, 922
MaeI CTAG 1 cut(s) 96
MaeII ACGT 1 cut(s) 750
MaeIII GTNAC 4 cut(s) 292, 406, 466, 913
MalI GATC 5 cut(s) 5, 143, 373, 902, 1034
MboI GATC 5 cut(s) 3, 141, 371, 900, 1032
MboII GAAGA 7 cut(s) 151, 220, 410, 426, 536, 770, 1057
MfeI CAATTG 1 cut(s) 179
MhlI GDGCHC 3 cut(s) 125, 276, 674
MlsI TGGCCA 1 cut(s) 884
MluCI AATT 7 cut(s) 179, 225, 310, 499, 558, 657, 1122
MluNI TGGCCA 1 cut(s) 884
MlyI GAGTC 4 cut(s) 143, 403, 776, 1058
Mox20I TGGCCA 1 cut(s) 884
MscI TGGCCA 1 cut(s) 884
MseI TTAA 2 cut(s) 314, 503
MslI CAYNNNNRTG 1 cut(s) 1092
Msp20I TGGCCA 1 cut(s) 884
MspA1I CMGCKG 3 cut(s) 491, 722, 906
MspR9I CCNGG 3 cut(s) 64, 205, 865
MunI CAATTG 1 cut(s) 179
MvaI CCWGG 3 cut(s) 64, 205, 865
MwoI GCNNNNNNNGC 8 cut(s) 47, 181, 690, 696, 728, 782, 827, 1016
NcoI CCATGG 1 cut(s) 262
NdeII GATC 5 cut(s) 3, 141, 371, 900, 1032
NlaIII CATG 3 cut(s) 266, 293, 969
NlaIV GGNNCC 5 cut(s) 275, 486, 598, 942, 1079
NmuCI GTSAC 2 cut(s) 406, 466
NspV TTCGAA 1 cut(s) 163
OliI CACNNNNGTG 1 cut(s) 1092
PaeR7I CTCGAG 1 cut(s) 673
PceI AGGCCT 1 cut(s) 88
PciSI GCTCTTC 1 cut(s) 519
PfeI GAWTC 3 cut(s) 16, 797, 872
PflMI CCANNNNNTGG 2 cut(s) 263, 481
PkrI GCNGC 5 cut(s) 223, 463, 531, 692, 829
PleI GAGTC 4 cut(s) 143, 403, 775, 1057
PpsI GAGTC 4 cut(s) 143, 403, 775, 1057
PsiI TTATAA 1 cut(s) 1134
Psp6I CCWGG 3 cut(s) 62, 203, 863
PspEI GGTNACC 1 cut(s) 466
PspFI CCCAGC 2 cut(s) 718, 969
PspGI CCWGG 3 cut(s) 62, 203, 863
PspN4I GGNNCC 5 cut(s) 275, 486, 598, 942, 1079
PspPI GGNCC 2 cut(s) 72, 716
PspXI VCTCGAGB 1 cut(s) 673
PvuII CAGCTG 2 cut(s) 491, 722
RsaI GTAC 1 cut(s) 68
RsaNI GTAC 1 cut(s) 67
RseI CAYNNNNRTG 1 cut(s) 1092
SapI GCTCTTC 1 cut(s) 519
SaqAI TTAA 2 cut(s) 314, 503
SatI GCNGC 5 cut(s) 222, 462, 530, 691, 828
Sau3AI GATC 5 cut(s) 3, 141, 371, 900, 1032
Sau96I GGNCC 2 cut(s) 72, 716
SchI GAGTC 4 cut(s) 143, 403, 776, 1058
ScrFI CCNGG 3 cut(s) 64, 205, 865
SduI GDGCHC 3 cut(s) 125, 276, 674
SfaNI GCATC 2 cut(s) 702, 922
SfcI CTRYAG 2 cut(s) 111, 549
Sfr274I CTCGAG 1 cut(s) 673
SfuI TTCGAA 1 cut(s) 163
SlaI CTCGAG 1 cut(s) 673
SmiMI CAYNNNNRTG 1 cut(s) 1092
SmlI CTYRAG 1 cut(s) 673
SmoI CTYRAG 1 cut(s) 673
SpeI ACTAGT 1 cut(s) 95
Sse9I AATT 7 cut(s) 179, 225, 310, 499, 558, 657, 1122
SseBI AGGCCT 1 cut(s) 88
SsiI CCGC 2 cut(s) 464, 906
SspMI CTAG 1 cut(s) 96
StuI AGGCCT 1 cut(s) 88
StyD4I CCNGG 3 cut(s) 62, 203, 863
StyI CCWWGG 4 cut(s) 83, 262, 707, 1053
TaiI ACGT 1 cut(s) 753
TaqI TCGA 5 cut(s) 163, 217, 661, 674, 870
TasI AATT 7 cut(s) 179, 225, 310, 499, 558, 657, 1122
TfiI GAWTC 3 cut(s) 16, 797, 872
Tru1I TTAA 2 cut(s) 314, 503
Tru9I TTAA 2 cut(s) 314, 503
TscAI CASTG 4 cut(s) 486, 643, 783, 1099
TseFI GTSAC 2 cut(s) 406, 466
TseI GCWGC 5 cut(s) 221, 461, 529, 690, 827
Tsp45I GTSAC 2 cut(s) 406, 466
TspDTI ATGAA 3 cut(s) 521, 954, 1134
TspRI CASTG 4 cut(s) 486, 643, 783, 1099
Van91I CCANNNNNTGG 2 cut(s) 263, 481
XagI CCTNNNNNAGG 1 cut(s) 516
XapI RAATTY 2 cut(s) 310, 558
XcmI CCANNNNNNNNNTGG 2 cut(s) 478, 861
XhoI CTCGAG 1 cut(s) 673
XspI CTAG 1 cut(s) 96
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.