Rw6G042500

maturation of SSU-rRNA

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr6
OG0016019
Physical Location & Seq
Reverse (-)
65925870 .. 65928106
2237 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw6G042500.1

Sequence Viewer

Length: 1137 bp
ATGATCAAGACTTTGAATCCTTACAACTCCACCAACACAGCAAAAACGGCTGAGATTATGTCCAGGTACAGGCCCATAGCACCAAGGCCTGAGACTAGTGCAACCACCACTACAGGTGAGAGCCCTGCCCTGTCTCAGAAGATCAGGGACTCCCCTTACCTTCGAAGCCTCTGGCCTCAATTGCAGGCAAGACCAACAAGAACCAGGAAGAGGGGTCGAGCTGCAATTTCGCCACCAACCCTCAGAAGGCAAAGACCAAACCATGGATTTGGGCTCTCTCCTCCTTGCCATGTAACATCCCCTGCCAAAAATTTAACCTTGGATGGTTTTCCTCATCCTCTTTCACAGTTTCCACTACCAAACCAGCTTGGATCAGCCAACACCAGCCTTGAAAACACCAGTCTGGTGACTCTGCCTCTTCTATCATACCCTTCTTCGGTTCCCATTGTCCCAAACCAAGCTGCGGTGACCAACCAAGCAGTGGTGCCAGCTGAACTCAATTTAATGAAACCTTCTGGAGGAGAAGACCTGCTCATAGATTTGAACTCTGTAGCTGAAATTCCCGAGGAGAAAGACCTGCTGAAGCAACTACAAGGAACCCCATCCCCTACTGCTACTACTCCTACCACCCCCATTGTCATAGCACCTCAGCCAATTCGACCTGTGGGCTCGAGCATAAGCGTTGGCTGCATCAGCACAGACCCAAGGTTAGCCCCAGCTGTGCAAGCTCCTAAGAAGCCAGAGGATGTGGAGGAAGAGGTGGAGTCCGAGGCACTGCCAGCCATCATTTCGGATTCACACAACAAGGTGAGGATGGCAAATGCAGCTTACAAGGAGATGGTGGGTCAGCCAGAGTGTTCCTGGCTCGATTCAATGGTGGCCAGCTCGTGCAAAAGGATCAGTGGGGAGGTTACACTTCAGCTTTCTGATACAAGGGTGCCAACTCTATCAAATGGGTTTTCATGCTGGGTGAGGATAGAGTGGGGCAATGAGATGGACAAGCATGCTGTCAATGCTTTCTGTGATGTGATCAAACTGGCCTGCGAGTCCAAGGACTACCTCTTCACTTGGAGGTTCCACACCCACAGCAGAGAGGCTTCTCAGTCCAGTTCTAATGAAATTGCTACTTGTAACTAA
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

378

Amino Acids

41.16

Weight (kDa)

7.59

Isoelectric Point (pI)

59.47

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
DUF7950 PF25821 249 - 361 6.6e-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)
Acc36I ACCTGC 2 cut(s) 537, 585
AccB1I GGYRCC 2 cut(s) 484, 937
AccB7I CCANNNNNTGG 2 cut(s) 263, 481
AciI CCGC 1 cut(s) 464
AclWI GGATC 2 cut(s) 379, 905
AcoI YGGCCR 1 cut(s) 879
AcsI RAATTY 2 cut(s) 310, 558
AcuI CTGAAG 2 cut(s) 602, 902
AfaI GTAC 1 cut(s) 68
AfiI CCNNNNNNNGG 8 cut(s) 69, 210, 246, 263, 436, 463, 481, 518
AgsI TTSAA 4 cut(s) 16, 392, 544, 873
AhlI ACTAGT 1 cut(s) 95
AjnI CCWGG 3 cut(s) 62, 203, 860
Alw26I GTCTC 2 cut(s) 86, 138
AlwI GGATC 2 cut(s) 379, 905
Ama87I CYCGRG 2 cut(s) 563, 670
AoxI GGCC 5 cut(s) 71, 86, 173, 879, 1038
ApeKI GCWGC 4 cut(s) 221, 461, 687, 824
ApoI RAATTY 2 cut(s) 310, 558
AspS9I GGNCC 1 cut(s) 72
AsuHPI GGTGA 5 cut(s) 128, 418, 478, 820, 982
AsuII TTCGAA 1 cut(s) 163
AvaI CYCGRG 2 cut(s) 563, 670
BaeI ACNNNNGTAYC 2 cut(s) 921, 954
BalI TGGCCA 1 cut(s) 881
BanI GGYRCC 2 cut(s) 484, 937
BanII GRGCYC 3 cut(s) 125, 276, 671
BauI CACGAG 1 cut(s) 886
BbsI GAAGAC 1 cut(s) 531
BbvCI CCTCAGC 1 cut(s) 648
BbvI GCAGC 4 cut(s) 208, 448, 674, 836
BccI CCATC 6 cut(s) 317, 610, 791, 808, 832, 988
BceAI ACGGC 1 cut(s) 63
BciT130I CCWGG 3 cut(s) 64, 205, 862
BclI TGATCA 2 cut(s) 3, 1029
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 2 cut(s) 537, 585
BisI GCNGC 4 cut(s) 222, 462, 688, 825
BlsI GCNGC 4 cut(s) 223, 463, 689, 826
Bme1390I CCNGG 3 cut(s) 64, 205, 862
BmeT110I CYCGRG 2 cut(s) 563, 670
BmgT120I GGNCC 1 cut(s) 72
BmiI GGNNCC 5 cut(s) 441, 486, 598, 939, 1076
BmrFI CCNGG 3 cut(s) 64, 205, 862
BmsI GCATC 1 cut(s) 699
BpiI GAAGAC 1 cut(s) 531
BpmI CTGGAG 1 cut(s) 537
Bpu10I CCTNAGC 1 cut(s) 648
Bpu14I TTCGAA 1 cut(s) 163
BsaJI CCNNGG 7 cut(s) 83, 262, 318, 564, 704, 768, 1050
Bsc4I CCNNNNNNNGG 8 cut(s) 69, 210, 246, 263, 436, 463, 481, 518
Bse1I ACTGG 3 cut(s) 399, 1041, 1107
Bse3DI GCAATG 1 cut(s) 994
BseBI CCWGG 3 cut(s) 64, 205, 862
BseDI CCNNGG 7 cut(s) 83, 262, 318, 564, 704, 768, 1050
BseGI GGATG 6 cut(s) 296, 328, 334, 602, 751, 819
BseLI CCNNNNNNNGG 8 cut(s) 69, 210, 246, 263, 436, 463, 481, 518
BseMI GCAATG 1 cut(s) 994
BseMII CTCAG 6 cut(s) 42, 81, 149, 256, 662, 1115
BseNI ACTGG 3 cut(s) 399, 1041, 1107
BseRI GAGGAG 3 cut(s) 270, 534, 581
BseXI GCAGC 4 cut(s) 208, 448, 674, 836
BseYI CCCAGC 2 cut(s) 715, 966
BshFI GGCC 5 cut(s) 73, 88, 175, 881, 1040
BshNI GGYRCC 2 cut(s) 484, 937
BsiHKCI CYCGRG 2 cut(s) 563, 670
BslFI GGGAC 2 cut(s) 161, 434
BslI CCNNNNNNNGG 8 cut(s) 69, 210, 246, 263, 436, 463, 481, 518
BsmAI GTCTC 2 cut(s) 86, 138
BsmFI GGGAC 2 cut(s) 161, 434
BsnI GGCC 5 cut(s) 73, 88, 175, 881, 1040
BsoBI CYCGRG 2 cut(s) 563, 670
Bsp119I TTCGAA 1 cut(s) 163
Bsp1286I GDGCHC 3 cut(s) 125, 276, 671
Bsp143I GATC 5 cut(s) 3, 141, 371, 897, 1029
Bsp19I CCATGG 1 cut(s) 262
BspACI CCGC 1 cut(s) 464
BspANI GGCC 5 cut(s) 73, 88, 175, 881, 1040
BspCNI CTCAG 6 cut(s) 43, 82, 148, 255, 661, 1114
BspLI GGNNCC 5 cut(s) 441, 486, 598, 939, 1076
BspMI ACCTGC 2 cut(s) 537, 585
BspPI GGATC 2 cut(s) 379, 905
BspT104I TTCGAA 1 cut(s) 163
BspT107I GGYRCC 2 cut(s) 484, 937
BsrDI GCAATG 1 cut(s) 994
BsrI ACTGG 3 cut(s) 399, 1041, 1107
BssECI CCNNGG 7 cut(s) 83, 262, 318, 564, 704, 768, 1050
BssMI GATC 5 cut(s) 3, 141, 371, 897, 1029
BssSI CACGAG 1 cut(s) 886
BssT1I CCWWGG 5 cut(s) 83, 262, 318, 704, 1050
Bst2BI CACGAG 1 cut(s) 886
Bst2UI CCWGG 3 cut(s) 64, 205, 862
Bst4CI ACNGT 1 cut(s) 348
Bst6I CTCTTC 4 cut(s) 203, 423, 750, 1067
BstBI TTCGAA 1 cut(s) 163
BstC8I GCNNGC 7 cut(s) 186, 489, 726, 780, 883, 1005, 1042
BstDEI CTNAG 7 cut(s) 51, 90, 135, 242, 648, 732, 1101
BstDSI CCRYGG 1 cut(s) 262
BstEII GGTNACC 1 cut(s) 466
BstENI CCTNNNNNAGG 1 cut(s) 516
BstF5I GGATG 6 cut(s) 296, 328, 334, 602, 751, 819
BstKTI GATC 5 cut(s) 6, 144, 374, 900, 1032
BstMAI GTCTC 2 cut(s) 86, 138
BstMBI GATC 5 cut(s) 3, 141, 371, 897, 1029
BstMWI GCNNNNNNNGC 8 cut(s) 47, 181, 687, 693, 725, 779, 824, 1013
BstNI CCWGG 3 cut(s) 64, 205, 862
BstNSI RCATGY 1 cut(s) 1007
BstPI GGTNACC 1 cut(s) 466
BstSCI CCNGG 3 cut(s) 62, 203, 860
BstSFI CTRYAG 2 cut(s) 111, 549
BstV1I GCAGC 4 cut(s) 208, 448, 674, 836
BstV2I GAAGAC 1 cut(s) 531
BstXI CCANNNNNNTGG 1 cut(s) 269
BsuRI GGCC 5 cut(s) 73, 88, 175, 881, 1040
BtgI CCRYGG 1 cut(s) 262
BtsCI GGATG 6 cut(s) 296, 328, 334, 602, 751, 819
BtsI GCAGTG 2 cut(s) 486, 773
BtsIMutI CAGTG 3 cut(s) 486, 773, 907
BveI ACCTGC 2 cut(s) 537, 585
Cac8I GCNNGC 7 cut(s) 186, 489, 726, 780, 883, 1005, 1042
Cfr13I GGNCC 1 cut(s) 72
Csp6I GTAC 1 cut(s) 67
CspCI CAANNNNNGTGG 2 cut(s) 616, 651
CviAII CATG 4 cut(s) 263, 290, 963, 1004
CviQI GTAC 1 cut(s) 67
DdeI CTNAG 7 cut(s) 51, 90, 135, 242, 648, 732, 1101
DpnI GATC 5 cut(s) 5, 143, 373, 899, 1031
DpnII GATC 5 cut(s) 3, 141, 371, 897, 1029
EaeI YGGCCR 1 cut(s) 879
Eam1104I CTCTTC 4 cut(s) 203, 423, 750, 1067
EarI CTCTTC 4 cut(s) 203, 423, 750, 1067
Eco130I CCWWGG 5 cut(s) 83, 262, 318, 704, 1050
Eco147I AGGCCT 1 cut(s) 88
Eco24I GRGCYC 3 cut(s) 125, 276, 671
Eco57I CTGAAG 2 cut(s) 602, 902
Eco88I CYCGRG 2 cut(s) 563, 670
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, 860
EcoT14I CCWWGG 5 cut(s) 83, 262, 318, 704, 1050
EcoT38I GRGCYC 3 cut(s) 125, 276, 671
ErhI CCWWGG 5 cut(s) 83, 262, 318, 704, 1050
FaeI CATG 4 cut(s) 266, 293, 966, 1007
FaqI GGGAC 2 cut(s) 161, 434
FatI CATG 4 cut(s) 262, 289, 962, 1003
FbaI TGATCA 2 cut(s) 3, 1029
Fnu4HI GCNGC 4 cut(s) 222, 462, 688, 825
FokI GGATG 6 cut(s) 283, 321, 335, 589, 758, 826
FriOI GRGCYC 3 cut(s) 125, 276, 671
Fsp4HI GCNGC 4 cut(s) 222, 462, 688, 825
FspBI CTAG 1 cut(s) 96
GluI GCNGC 4 cut(s) 222, 462, 688, 825
GsaI CCCAGC 2 cut(s) 719, 970
GsuI CTGGAG 1 cut(s) 537
HaeIII GGCC 5 cut(s) 73, 88, 175, 881, 1040
Hin1II CATG 4 cut(s) 266, 293, 966, 1007
HinfI GANTC 7 cut(s) 16, 149, 409, 764, 794, 869, 1046
HphI GGTGA 5 cut(s) 128, 418, 478, 820, 982
Hpy188I TCNGA 5 cut(s) 138, 245, 769, 793, 928
Hpy188III TCNNGA 3 cut(s) 7, 516, 563
HpyAV CCTTC 4 cut(s) 170, 240, 441, 522
HpyCH4III ACNGT 1 cut(s) 348
HpyCH4V TGCA 7 cut(s) 101, 184, 224, 690, 724, 824, 891
HpyF10VI GCNNNNNNNGC 8 cut(s) 47, 181, 687, 693, 725, 779, 824, 1013
HpyF3I CTNAG 7 cut(s) 51, 90, 135, 242, 648, 732, 1101
Hsp92II CATG 4 cut(s) 266, 293, 966, 1007
Ksp22I TGATCA 2 cut(s) 3, 1029
Kzo9I GATC 5 cut(s) 3, 141, 371, 897, 1029
LmnI GCTCC 1 cut(s) 733
Lsp1109I GCAGC 4 cut(s) 208, 448, 674, 836
LweI GCATC 1 cut(s) 699
MaeI CTAG 1 cut(s) 96
MaeIII GTNAC 5 cut(s) 292, 406, 466, 910, 1130
MalI GATC 5 cut(s) 5, 143, 373, 899, 1031
MboI GATC 5 cut(s) 3, 141, 371, 897, 1029
MboII GAAGA 7 cut(s) 151, 220, 410, 426, 536, 767, 1054
MfeI CAATTG 1 cut(s) 179
MhlI GDGCHC 3 cut(s) 125, 276, 671
MlsI TGGCCA 1 cut(s) 881
MluCI AATT 7 cut(s) 179, 225, 310, 499, 558, 654, 1119
MluNI TGGCCA 1 cut(s) 881
MlyI GAGTC 4 cut(s) 143, 403, 773, 1055
Mox20I TGGCCA 1 cut(s) 881
MscI TGGCCA 1 cut(s) 881
MseI TTAA 2 cut(s) 314, 503
Msp20I TGGCCA 1 cut(s) 881
MspA1I CMGCKG 2 cut(s) 491, 719
MspR9I CCNGG 3 cut(s) 64, 205, 862
MunI CAATTG 1 cut(s) 179
MvaI CCWGG 3 cut(s) 64, 205, 862
MwoI GCNNNNNNNGC 8 cut(s) 47, 181, 687, 693, 725, 779, 824, 1013
NcoI CCATGG 1 cut(s) 262
NdeII GATC 5 cut(s) 3, 141, 371, 897, 1029
NlaIII CATG 4 cut(s) 266, 293, 966, 1007
NlaIV GGNNCC 5 cut(s) 441, 486, 598, 939, 1076
NmuCI GTSAC 2 cut(s) 406, 466
NspI RCATGY 1 cut(s) 1007
NspV TTCGAA 1 cut(s) 163
PaeI GCATGC 1 cut(s) 1007
PaeR7I CTCGAG 1 cut(s) 670
PceI AGGCCT 1 cut(s) 88
PfeI GAWTC 3 cut(s) 16, 794, 869
PflMI CCANNNNNTGG 2 cut(s) 263, 481
PkrI GCNGC 4 cut(s) 223, 463, 689, 826
PleI GAGTC 4 cut(s) 143, 403, 772, 1054
PpsI GAGTC 4 cut(s) 143, 403, 772, 1054
Psp6I CCWGG 3 cut(s) 62, 203, 860
PspEI GGTNACC 1 cut(s) 466
PspFI CCCAGC 2 cut(s) 715, 966
PspGI CCWGG 3 cut(s) 62, 203, 860
PspN4I GGNNCC 5 cut(s) 441, 486, 598, 939, 1076
PspPI GGNCC 1 cut(s) 72
PspXI VCTCGAGB 1 cut(s) 670
PvuII CAGCTG 2 cut(s) 491, 719
RsaI GTAC 1 cut(s) 68
RsaNI GTAC 1 cut(s) 67
SaqAI TTAA 2 cut(s) 314, 503
SatI GCNGC 4 cut(s) 222, 462, 688, 825
Sau3AI GATC 5 cut(s) 3, 141, 371, 897, 1029
Sau96I GGNCC 1 cut(s) 72
SchI GAGTC 4 cut(s) 143, 403, 773, 1055
ScrFI CCNGG 3 cut(s) 64, 205, 862
SduI GDGCHC 3 cut(s) 125, 276, 671
SfaNI GCATC 1 cut(s) 699
SfcI CTRYAG 2 cut(s) 111, 549
Sfr274I CTCGAG 1 cut(s) 670
SfuI TTCGAA 1 cut(s) 163
SlaI CTCGAG 1 cut(s) 670
SmlI CTYRAG 1 cut(s) 670
SmoI CTYRAG 1 cut(s) 670
SpeI ACTAGT 1 cut(s) 95
SphI GCATGC 1 cut(s) 1007
Sse9I AATT 7 cut(s) 179, 225, 310, 499, 558, 654, 1119
SseBI AGGCCT 1 cut(s) 88
SsiI CCGC 1 cut(s) 464
SspMI CTAG 1 cut(s) 96
StuI AGGCCT 1 cut(s) 88
StyD4I CCNGG 3 cut(s) 62, 203, 860
StyI CCWWGG 5 cut(s) 83, 262, 318, 704, 1050
TaaI ACNGT 1 cut(s) 348
TaqI TCGA 5 cut(s) 163, 217, 658, 671, 867
TasI AATT 7 cut(s) 179, 225, 310, 499, 558, 654, 1119
TfiI GAWTC 3 cut(s) 16, 794, 869
Tru1I TTAA 2 cut(s) 314, 503
Tru9I TTAA 2 cut(s) 314, 503
TscAI CASTG 3 cut(s) 486, 780, 907
TseFI GTSAC 2 cut(s) 406, 466
TseI GCWGC 4 cut(s) 221, 461, 687, 824
Tsp45I GTSAC 2 cut(s) 406, 466
TspDTI ATGAA 3 cut(s) 521, 951, 1131
TspRI CASTG 3 cut(s) 486, 780, 907
Van91I CCANNNNNTGG 2 cut(s) 263, 481
XagI CCTNNNNNAGG 1 cut(s) 516
XapI RAATTY 2 cut(s) 310, 558
XceI RCATGY 1 cut(s) 1007
XcmI CCANNNNNNNNNTGG 2 cut(s) 478, 858
XhoI CTCGAG 1 cut(s) 670
XspI CTAG 1 cut(s) 96
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.