Rh6DG488600

maturation of SSU-rRNA

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr6D
OG0016019
Physical Location & Seq
Reverse (-)
64926546 .. 64927685
1140 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh6DG488600.1

Sequence Viewer

Length: 1140 bp
ATGATCAAGACTCTGAATCCTTACAACTCTACCAACACAGCAAAAACGGCTGAGATTATGTCCAGGTACAGGCCCATAGCACCAAGGCCTGAGACTAGTGCAACCACCCCTACAGGTGAGAGCCCTGCCCTGTCTCAGAAGATCAGGGACTCCCCTTACCTTCGAAGCCTCTGGCCTCAATTGCAGGCAAGACCAACAAGAACCAGGAAGAGAGGTCGAGCTGCAATTTCGCCACCAACCCTCAGAAGGCCGCAAAGACCAAACCATGGATTTGGGTTCTCTCCTCCTTGCCATGTAACATCCCCTGCCAAAAATTTAACCTTGGATGGTTTTCCTCATCCTCTTTCACAGCTTCCATTACCAAACCAGCTTGGATCAGCCAACACCAGCCTTGAAAACACTAGTCTGGTGACTCTGCCTCTTCTATCATACCCTTCTTCAGTTCCCATTGTCCCAAACCAAGCTGTGGTGACCAACCAAGCAGTGGTGCCAGCTGAACTCAATTTTACGAAACCTTCTGGAGGAGAAGAGCAGCTCATAGATTTGAACTCTGTAGCTGAAATTCCCGAGGAGAAAGACCTACTGAAGCAACTACAAGGAACCCCATCCCCTACTACTACTACTCCTACCACCCCCAGTGTCATAGCACCTCAGCCAATTCGACCTGTGGGCTCGAGCATAAGCGTTGGCTGCATCAGCACAGACCCAAGGTTATCCCCAGCTGTGCAAGCTCCTAAGAAGCCAGAGGATGTGGAGGAAGAGGTGGAGTCCGAGGCACTGCCAGCCATCATTTCAGATTCACACAACAAGGTGAGGATGGCAAATGCAGCTTACAAGGAGATGGTGGGTCAGCCAGAGTGTTCCTGGCTCGATTCAATGGTGGCCAGCTCGTGCAAAAGGATCAGTGGGGAGGTTACACTTCAGCTTTCTGATACAAGGGTGCCAACTCTATCAAATGGGTTTTCATGCTGGGTGAGGATAGAGTGGGGCAATGAGATGGACAAGCATGCTGTCAATGCTTTCTGTGATGTGATCAAACTGGCCTGTGAGTCCAAGGACTACCTCTTCACTTGGAGGTTCCACACCCACAGCAGAGAGGCTTCTCAGTCCAGTTCTAATGAAATTGCTACTTGTAACTAA
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

379

Amino Acids

41.34

Weight (kDa)

7.59

Isoelectric Point (pI)

61.89

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
DUF7950 PF25821 250 - 362 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)
AccB1I GGYRCC 2 cut(s) 487, 940
AccB7I CCANNNNNTGG 3 cut(s) 266, 466, 484
AciI CCGC 1 cut(s) 251
AclWI GGATC 2 cut(s) 382, 908
AcoI YGGCCR 1 cut(s) 882
AcsI RAATTY 2 cut(s) 313, 561
AcuI CTGAAG 3 cut(s) 423, 605, 905
AfaI GTAC 1 cut(s) 68
AfiI CCNNNNNNNGG 6 cut(s) 69, 246, 266, 466, 484, 521
AgsI TTSAA 3 cut(s) 395, 547, 876
AhlI ACTAGT 2 cut(s) 95, 401
AjnI CCWGG 3 cut(s) 62, 203, 863
Alw26I GTCTC 2 cut(s) 86, 138
AlwI GGATC 2 cut(s) 382, 908
Ama87I CYCGRG 2 cut(s) 566, 673
AoxI GGCC 6 cut(s) 71, 86, 173, 248, 882, 1041
ApeKI GCWGC 4 cut(s) 221, 532, 690, 827
ApoI RAATTY 2 cut(s) 313, 561
AspS9I GGNCC 1 cut(s) 72
AsuHPI GGTGA 5 cut(s) 128, 421, 481, 823, 985
AsuII TTCGAA 1 cut(s) 163
AvaI CYCGRG 2 cut(s) 566, 673
BaeI ACNNNNGTAYC 2 cut(s) 924, 957
BalI TGGCCA 1 cut(s) 884
BanI GGYRCC 2 cut(s) 487, 940
BanII GRGCYC 2 cut(s) 125, 674
BauI CACGAG 1 cut(s) 889
BbvCI CCTCAGC 1 cut(s) 651
BbvI GCAGC 4 cut(s) 208, 544, 677, 839
BccI CCATC 6 cut(s) 320, 613, 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 2 cut(s) 95, 401
BfaI CTAG 2 cut(s) 96, 402
BfmI CTRYAG 2 cut(s) 111, 552
BisI GCNGC 5 cut(s) 222, 251, 533, 691, 828
BlsI GCNGC 5 cut(s) 223, 252, 534, 692, 829
Bme1390I CCNGG 3 cut(s) 64, 205, 865
BmeT110I CYCGRG 2 cut(s) 566, 673
BmgT120I GGNCC 1 cut(s) 72
BmiI GGNNCC 4 cut(s) 489, 601, 942, 1079
BmrFI CCNGG 3 cut(s) 64, 205, 865
BmrI ACTGGG 1 cut(s) 630
BmsI GCATC 1 cut(s) 702
BmuI ACTGGG 1 cut(s) 630
BpmI CTGGAG 1 cut(s) 540
Bpu10I CCTNAGC 1 cut(s) 651
Bpu14I TTCGAA 1 cut(s) 163
BsaJI CCNNGG 7 cut(s) 83, 265, 321, 567, 707, 771, 1053
BsaXI ACNNNNNCTCC 2 cut(s) 607, 637
Bsc4I CCNNNNNNNGG 6 cut(s) 69, 246, 266, 466, 484, 521
Bse1I ACTGG 3 cut(s) 636, 1044, 1110
Bse3DI GCAATG 1 cut(s) 997
BseBI CCWGG 3 cut(s) 64, 205, 865
BseDI CCNNGG 7 cut(s) 83, 265, 321, 567, 707, 771, 1053
BseGI GGATG 6 cut(s) 299, 331, 337, 605, 754, 822
BseLI CCNNNNNNNGG 6 cut(s) 69, 246, 266, 466, 484, 521
BseMI GCAATG 1 cut(s) 997
BseMII CTCAG 6 cut(s) 42, 81, 149, 256, 665, 1118
BseNI ACTGG 3 cut(s) 636, 1044, 1110
BseRI GAGGAG 3 cut(s) 273, 537, 584
BseXI GCAGC 4 cut(s) 208, 544, 677, 839
BseYI CCCAGC 2 cut(s) 718, 969
BshFI GGCC 6 cut(s) 73, 88, 175, 250, 884, 1043
BshNI GGYRCC 2 cut(s) 487, 940
BsiHKCI CYCGRG 2 cut(s) 566, 673
BslFI GGGAC 2 cut(s) 161, 437
BslI CCNNNNNNNGG 6 cut(s) 69, 246, 266, 466, 484, 521
BsmAI GTCTC 2 cut(s) 86, 138
BsmFI GGGAC 2 cut(s) 161, 437
BsnI GGCC 6 cut(s) 73, 88, 175, 250, 884, 1043
BsoBI CYCGRG 2 cut(s) 566, 673
Bsp119I TTCGAA 1 cut(s) 163
Bsp1286I GDGCHC 2 cut(s) 125, 674
Bsp143I GATC 5 cut(s) 3, 141, 374, 900, 1032
Bsp19I CCATGG 1 cut(s) 265
BspACI CCGC 1 cut(s) 251
BspANI GGCC 6 cut(s) 73, 88, 175, 250, 884, 1043
BspCNI CTCAG 6 cut(s) 43, 82, 148, 255, 664, 1117
BspLI GGNNCC 4 cut(s) 489, 601, 942, 1079
BspPI GGATC 2 cut(s) 382, 908
BspQI GCTCTTC 1 cut(s) 522
BspT104I TTCGAA 1 cut(s) 163
BspT107I GGYRCC 2 cut(s) 487, 940
BsrDI GCAATG 1 cut(s) 997
BsrI ACTGG 3 cut(s) 636, 1044, 1110
BssECI CCNNGG 7 cut(s) 83, 265, 321, 567, 707, 771, 1053
BssMI GATC 5 cut(s) 3, 141, 374, 900, 1032
BssSI CACGAG 1 cut(s) 889
BssT1I CCWWGG 5 cut(s) 83, 265, 321, 707, 1053
Bst2BI CACGAG 1 cut(s) 889
Bst2UI CCWGG 3 cut(s) 64, 205, 865
Bst6I CTCTTC 5 cut(s) 203, 426, 522, 753, 1070
BstBI TTCGAA 1 cut(s) 163
BstC8I GCNNGC 6 cut(s) 186, 492, 729, 783, 886, 1008
BstDEI CTNAG 7 cut(s) 51, 90, 135, 242, 651, 735, 1104
BstDSI CCRYGG 1 cut(s) 265
BstEII GGTNACC 1 cut(s) 469
BstENI CCTNNNNNAGG 1 cut(s) 519
BstF5I GGATG 6 cut(s) 299, 331, 337, 605, 754, 822
BstKTI GATC 5 cut(s) 6, 144, 377, 903, 1035
BstMAI GTCTC 2 cut(s) 86, 138
BstMBI GATC 5 cut(s) 3, 141, 374, 900, 1032
BstMWI GCNNNNNNNGC 8 cut(s) 47, 181, 690, 696, 728, 782, 827, 1016
BstNI CCWGG 3 cut(s) 64, 205, 865
BstNSI RCATGY 1 cut(s) 1010
BstPI GGTNACC 1 cut(s) 469
BstSCI CCNGG 3 cut(s) 62, 203, 863
BstSFI CTRYAG 2 cut(s) 111, 552
BstV1I GCAGC 4 cut(s) 208, 544, 677, 839
BstXI CCANNNNNNTGG 1 cut(s) 272
BsuRI GGCC 6 cut(s) 73, 88, 175, 250, 884, 1043
BtgI CCRYGG 1 cut(s) 265
BtsCI GGATG 6 cut(s) 299, 331, 337, 605, 754, 822
BtsI GCAGTG 2 cut(s) 489, 776
BtsIMutI CAGTG 4 cut(s) 489, 643, 776, 910
Cac8I GCNNGC 6 cut(s) 186, 492, 729, 783, 886, 1008
Cfr13I GGNCC 1 cut(s) 72
Csp6I GTAC 1 cut(s) 67
CviAII CATG 4 cut(s) 266, 293, 966, 1007
CviQI GTAC 1 cut(s) 67
DdeI CTNAG 7 cut(s) 51, 90, 135, 242, 651, 735, 1104
DpnI GATC 5 cut(s) 5, 143, 376, 902, 1034
DpnII GATC 5 cut(s) 3, 141, 374, 900, 1032
EaeI YGGCCR 1 cut(s) 882
Eam1104I CTCTTC 5 cut(s) 203, 426, 522, 753, 1070
EarI CTCTTC 5 cut(s) 203, 426, 522, 753, 1070
Eco130I CCWWGG 5 cut(s) 83, 265, 321, 707, 1053
Eco147I AGGCCT 1 cut(s) 88
Eco24I GRGCYC 2 cut(s) 125, 674
Eco57I CTGAAG 3 cut(s) 423, 605, 905
Eco88I CYCGRG 2 cut(s) 566, 673
Eco91I GGTNACC 1 cut(s) 469
EcoNI CCTNNNNNAGG 1 cut(s) 519
EcoO65I GGTNACC 1 cut(s) 469
EcoRII CCWGG 3 cut(s) 62, 203, 863
EcoT14I CCWWGG 5 cut(s) 83, 265, 321, 707, 1053
EcoT38I GRGCYC 2 cut(s) 125, 674
ErhI CCWWGG 5 cut(s) 83, 265, 321, 707, 1053
FaeI CATG 4 cut(s) 269, 296, 969, 1010
FaqI GGGAC 2 cut(s) 161, 437
FatI CATG 4 cut(s) 265, 292, 965, 1006
FbaI TGATCA 2 cut(s) 3, 1032
Fnu4HI GCNGC 5 cut(s) 222, 251, 533, 691, 828
FokI GGATG 6 cut(s) 286, 324, 338, 592, 761, 829
FriOI GRGCYC 2 cut(s) 125, 674
Fsp4HI GCNGC 5 cut(s) 222, 251, 533, 691, 828
FspBI CTAG 2 cut(s) 96, 402
GluI GCNGC 5 cut(s) 222, 251, 533, 691, 828
GsaI CCCAGC 2 cut(s) 722, 973
GsuI CTGGAG 1 cut(s) 540
HaeIII GGCC 6 cut(s) 73, 88, 175, 250, 884, 1043
Hin1II CATG 4 cut(s) 269, 296, 969, 1010
HinfI GANTC 8 cut(s) 10, 16, 149, 412, 767, 797, 872, 1049
HphI GGTGA 5 cut(s) 128, 421, 481, 823, 985
Hpy188I TCNGA 6 cut(s) 15, 138, 245, 772, 796, 931
Hpy188III TCNNGA 3 cut(s) 7, 519, 566
HpyAV CCTTC 4 cut(s) 170, 240, 444, 525
HpyCH4V TGCA 7 cut(s) 101, 184, 224, 693, 727, 827, 894
HpyF10VI GCNNNNNNNGC 8 cut(s) 47, 181, 690, 696, 728, 782, 827, 1016
HpyF3I CTNAG 7 cut(s) 51, 90, 135, 242, 651, 735, 1104
Hsp92II CATG 4 cut(s) 269, 296, 969, 1010
Ksp22I TGATCA 2 cut(s) 3, 1032
Kzo9I GATC 5 cut(s) 3, 141, 374, 900, 1032
LguI GCTCTTC 1 cut(s) 522
LmnI GCTCC 1 cut(s) 736
Lsp1109I GCAGC 4 cut(s) 208, 544, 677, 839
LweI GCATC 1 cut(s) 702
MaeI CTAG 2 cut(s) 96, 402
MaeIII GTNAC 5 cut(s) 295, 409, 469, 913, 1133
MalI GATC 5 cut(s) 5, 143, 376, 902, 1034
MboI GATC 5 cut(s) 3, 141, 374, 900, 1032
MboII GAAGA 7 cut(s) 151, 220, 413, 429, 539, 770, 1057
MfeI CAATTG 1 cut(s) 179
MhlI GDGCHC 2 cut(s) 125, 674
MlsI TGGCCA 1 cut(s) 884
MluCI AATT 7 cut(s) 179, 225, 313, 502, 561, 657, 1122
MluNI TGGCCA 1 cut(s) 884
MlyI GAGTC 5 cut(s) 4, 143, 406, 776, 1058
Mox20I TGGCCA 1 cut(s) 884
MscI TGGCCA 1 cut(s) 884
MseI TTAA 1 cut(s) 317
Msp20I TGGCCA 1 cut(s) 884
MspA1I CMGCKG 2 cut(s) 494, 722
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) 265
NdeII GATC 5 cut(s) 3, 141, 374, 900, 1032
NlaIII CATG 4 cut(s) 269, 296, 969, 1010
NlaIV GGNNCC 4 cut(s) 489, 601, 942, 1079
NmuCI GTSAC 2 cut(s) 409, 469
NspI RCATGY 1 cut(s) 1010
NspV TTCGAA 1 cut(s) 163
PaeI GCATGC 1 cut(s) 1010
PaeR7I CTCGAG 1 cut(s) 673
PceI AGGCCT 1 cut(s) 88
PciSI GCTCTTC 1 cut(s) 522
PfeI GAWTC 3 cut(s) 16, 797, 872
PflMI CCANNNNNTGG 3 cut(s) 266, 466, 484
PkrI GCNGC 5 cut(s) 223, 252, 534, 692, 829
PleI GAGTC 5 cut(s) 4, 143, 406, 775, 1057
PpsI GAGTC 5 cut(s) 4, 143, 406, 775, 1057
Psp6I CCWGG 3 cut(s) 62, 203, 863
PspEI GGTNACC 1 cut(s) 469
PspFI CCCAGC 2 cut(s) 718, 969
PspGI CCWGG 3 cut(s) 62, 203, 863
PspN4I GGNNCC 4 cut(s) 489, 601, 942, 1079
PspPI GGNCC 1 cut(s) 72
PspXI VCTCGAGB 1 cut(s) 673
PvuII CAGCTG 2 cut(s) 494, 722
RsaI GTAC 1 cut(s) 68
RsaNI GTAC 1 cut(s) 67
SapI GCTCTTC 1 cut(s) 522
SaqAI TTAA 1 cut(s) 317
SatI GCNGC 5 cut(s) 222, 251, 533, 691, 828
Sau3AI GATC 5 cut(s) 3, 141, 374, 900, 1032
Sau96I GGNCC 1 cut(s) 72
SchI GAGTC 5 cut(s) 4, 143, 406, 776, 1058
ScrFI CCNGG 3 cut(s) 64, 205, 865
SduI GDGCHC 2 cut(s) 125, 674
SfaNI GCATC 1 cut(s) 702
SfcI CTRYAG 2 cut(s) 111, 552
Sfr274I CTCGAG 1 cut(s) 673
SfuI TTCGAA 1 cut(s) 163
SlaI CTCGAG 1 cut(s) 673
SmlI CTYRAG 1 cut(s) 673
SmoI CTYRAG 1 cut(s) 673
SpeI ACTAGT 2 cut(s) 95, 401
SphI GCATGC 1 cut(s) 1010
Sse9I AATT 7 cut(s) 179, 225, 313, 502, 561, 657, 1122
SseBI AGGCCT 1 cut(s) 88
SsiI CCGC 1 cut(s) 251
SspMI CTAG 2 cut(s) 96, 402
StuI AGGCCT 1 cut(s) 88
StyD4I CCNGG 3 cut(s) 62, 203, 863
StyI CCWWGG 5 cut(s) 83, 265, 321, 707, 1053
TaqI TCGA 5 cut(s) 163, 217, 661, 674, 870
TasI AATT 7 cut(s) 179, 225, 313, 502, 561, 657, 1122
TauI GCSGC 1 cut(s) 253
TfiI GAWTC 3 cut(s) 16, 797, 872
Tru1I TTAA 1 cut(s) 317
Tru9I TTAA 1 cut(s) 317
TscAI CASTG 4 cut(s) 489, 643, 783, 910
TseFI GTSAC 2 cut(s) 409, 469
TseI GCWGC 4 cut(s) 221, 532, 690, 827
Tsp45I GTSAC 2 cut(s) 409, 469
TspDTI ATGAA 2 cut(s) 954, 1134
TspRI CASTG 4 cut(s) 489, 643, 783, 910
Van91I CCANNNNNTGG 3 cut(s) 266, 466, 484
XagI CCTNNNNNAGG 1 cut(s) 519
XapI RAATTY 2 cut(s) 313, 561
XceI RCATGY 1 cut(s) 1010
XcmI CCANNNNNNNNNTGG 2 cut(s) 481, 861
XhoI CTCGAG 1 cut(s) 673
XspI CTAG 2 cut(s) 96, 402
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.