Rh6AG488000

maturation of SSU-rRNA

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr6A
OG0016019
Physical Location & Seq
Reverse (-)
66570728 .. 66571846
1119 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh6AG488000.1

Sequence Viewer

Length: 1119 bp
ATGATCAAGACTTTGAATCCTTACAACTCCACCAACACAGCAAAAACGGCTGAGATTATGTCCAGGTACAGGCCCATAGCACCAAGGCCTGAGACTAGTGCAACCACCACTACAGGTGAGAGCCCTGCCCTGTCTCAGAAGATCAGGGACTCCCCTTACCTTCGAAGCCTCTGGCCTCAATTGCAGGCAAGACCAACAAGAACCAGGAAGAGGGGTCGAGCTGCAATTTCGCCACCAACCCTCAAAAGGCAAAGACCAAACCATGGATTTGGGCTCTCTCCTCCTTGCCATGTAACATCCCCTGCCAAAAATTTAACCTTGGATGGTTTTCCTCATCCTCTTTCACAGCTTCCATTACCAAACCAGCTTGGATCAGCCAGCACCAGCCTTGAAAACACCAGTCTGGTGACTCTGCCTCTTCTATCATACCCTTCTTCGGTTCCCATTGTCCCAAACCAAGCAGTGGTGCCAGCTGAACTCAATTTAATGAAACCTTCTGGAGGAGAAGACCTGCTCATAGATTTGAACTCTGTAGCTGAAATTCCCGAGGAGAAAGACCTGCTGAAGCAACTACAAGGAACCCCATCCCTTACTACTACTACTCCTACCACCCCCAGTGTCATAGCACCTCAGCCAATTCGACCCGTGGGCTCGAGCATAAGCGTTGGCTGCATCAGCACAGACCCAAGGTTAGCCCCAGCTGTGCAAGCTCCTAAGAAGCCAGAAGATGTGGAGAAAGAGGTGGAGTCCGAGGCACTGCCAGCCATCATTTCGGATTCACACAACAAGGTGAGGATGGCAAATGCAGCTTACAAGGAGATGGTGGGTCAGCCAGAGTGTTCCTGGCTCGATTCAATGGTGGCCAGCTCGTGCAAAAGGATCAGTGGGGAGGTTACACTTCAGCTTTCTGATACAAGGGTGCCAACTCTATCAAATGGGTTTTCATGCTGGGTGACGATAGAGTGGGGCAATGAGATGGACAAGCATGCTGTCAATGCTTTCTGTGATGTGATCAAACTGGCCTGCGAGTCCAAGGACTACCTCTTCACTTGGAGGTTCCACACCCACAGCAGAGAGGCTTCTCAGTCCAGTTCTAATGAAATTGCTACTTGTAACTAA
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

372

Amino Acids

40.45

Weight (kDa)

8.08

Isoelectric Point (pI)

57.71

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
DUF7950 PF25821 242 - 355 4.8e-11 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) 519, 567
AccB1I GGYRCC 2 cut(s) 466, 919
AccB7I CCANNNNNTGG 2 cut(s) 263, 463
AclWI GGATC 2 cut(s) 379, 887
AcoI YGGCCR 1 cut(s) 861
AcsI RAATTY 2 cut(s) 310, 540
AcuI CTGAAG 2 cut(s) 584, 884
AfaI GTAC 1 cut(s) 68
AfiI CCNNNNNNNGG 7 cut(s) 69, 210, 246, 263, 436, 463, 500
AgsI TTSAA 4 cut(s) 16, 392, 526, 855
AhlI ACTAGT 1 cut(s) 95
AjnI CCWGG 3 cut(s) 62, 203, 842
Alw26I GTCTC 2 cut(s) 86, 138
AlwI GGATC 2 cut(s) 379, 887
Ama87I CYCGRG 2 cut(s) 545, 652
AoxI GGCC 5 cut(s) 71, 86, 173, 861, 1020
ApeKI GCWGC 3 cut(s) 221, 669, 806
ApoI RAATTY 2 cut(s) 310, 540
AspS9I GGNCC 1 cut(s) 72
AsuHPI GGTGA 4 cut(s) 128, 418, 802, 964
AsuII TTCGAA 1 cut(s) 163
AvaI CYCGRG 2 cut(s) 545, 652
BaeI ACNNNNGTAYC 2 cut(s) 903, 936
BalI TGGCCA 1 cut(s) 863
BanI GGYRCC 2 cut(s) 466, 919
BanII GRGCYC 3 cut(s) 125, 276, 653
BauI CACGAG 1 cut(s) 868
BbsI GAAGAC 1 cut(s) 513
BbvCI CCTCAGC 1 cut(s) 630
BbvI GCAGC 3 cut(s) 208, 656, 818
BccI CCATC 6 cut(s) 317, 592, 773, 790, 814, 970
BceAI ACGGC 1 cut(s) 63
BciT130I CCWGG 3 cut(s) 64, 205, 844
BclI TGATCA 2 cut(s) 3, 1011
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, 531
BfuAI ACCTGC 2 cut(s) 519, 567
BisI GCNGC 3 cut(s) 222, 670, 807
BlsI GCNGC 3 cut(s) 223, 671, 808
Bme1390I CCNGG 3 cut(s) 64, 205, 844
BmeT110I CYCGRG 2 cut(s) 545, 652
BmgT120I GGNCC 1 cut(s) 72
BmiI GGNNCC 5 cut(s) 441, 468, 580, 921, 1058
BmrFI CCNGG 3 cut(s) 64, 205, 844
BmrI ACTGGG 1 cut(s) 609
BmsI GCATC 1 cut(s) 681
BmuI ACTGGG 1 cut(s) 609
BpiI GAAGAC 1 cut(s) 513
BpmI CTGGAG 1 cut(s) 519
Bpu10I CCTNAGC 1 cut(s) 630
Bpu14I TTCGAA 1 cut(s) 163
BsaJI CCNNGG 8 cut(s) 83, 262, 318, 546, 645, 686, 750, 1032
BsaXI ACNNNNNCTCC 2 cut(s) 586, 616
Bsc4I CCNNNNNNNGG 7 cut(s) 69, 210, 246, 263, 436, 463, 500
Bse1I ACTGG 4 cut(s) 399, 615, 1023, 1089
Bse3DI GCAATG 1 cut(s) 976
BseBI CCWGG 3 cut(s) 64, 205, 844
BseDI CCNNGG 8 cut(s) 83, 262, 318, 546, 645, 686, 750, 1032
BseGI GGATG 5 cut(s) 296, 328, 334, 584, 801
BseLI CCNNNNNNNGG 7 cut(s) 69, 210, 246, 263, 436, 463, 500
BseMI GCAATG 1 cut(s) 976
BseMII CTCAG 5 cut(s) 42, 81, 149, 644, 1097
BseNI ACTGG 4 cut(s) 399, 615, 1023, 1089
BseRI GAGGAG 3 cut(s) 270, 516, 563
BseXI GCAGC 3 cut(s) 208, 656, 818
BseYI CCCAGC 2 cut(s) 697, 948
BshFI GGCC 5 cut(s) 73, 88, 175, 863, 1022
BshNI GGYRCC 2 cut(s) 466, 919
BsiHKCI CYCGRG 2 cut(s) 545, 652
BslFI GGGAC 2 cut(s) 161, 434
BslI CCNNNNNNNGG 7 cut(s) 69, 210, 246, 263, 436, 463, 500
BsmAI GTCTC 2 cut(s) 86, 138
BsmFI GGGAC 2 cut(s) 161, 434
BsnI GGCC 5 cut(s) 73, 88, 175, 863, 1022
BsoBI CYCGRG 2 cut(s) 545, 652
Bsp119I TTCGAA 1 cut(s) 163
Bsp1286I GDGCHC 3 cut(s) 125, 276, 653
Bsp143I GATC 5 cut(s) 3, 141, 371, 879, 1011
Bsp19I CCATGG 1 cut(s) 262
BspANI GGCC 5 cut(s) 73, 88, 175, 863, 1022
BspCNI CTCAG 5 cut(s) 43, 82, 148, 643, 1096
BspLI GGNNCC 5 cut(s) 441, 468, 580, 921, 1058
BspMI ACCTGC 2 cut(s) 519, 567
BspPI GGATC 2 cut(s) 379, 887
BspT104I TTCGAA 1 cut(s) 163
BspT107I GGYRCC 2 cut(s) 466, 919
BsrDI GCAATG 1 cut(s) 976
BsrI ACTGG 4 cut(s) 399, 615, 1023, 1089
BssECI CCNNGG 8 cut(s) 83, 262, 318, 546, 645, 686, 750, 1032
BssMI GATC 5 cut(s) 3, 141, 371, 879, 1011
BssSI CACGAG 1 cut(s) 868
BssT1I CCWWGG 5 cut(s) 83, 262, 318, 686, 1032
Bst2BI CACGAG 1 cut(s) 868
Bst2UI CCWGG 3 cut(s) 64, 205, 844
Bst6I CTCTTC 3 cut(s) 203, 423, 1049
BstBI TTCGAA 1 cut(s) 163
BstC8I GCNNGC 8 cut(s) 186, 379, 471, 708, 762, 865, 987, 1024
BstDEI CTNAG 6 cut(s) 51, 90, 135, 630, 714, 1083
BstDSI CCRYGG 2 cut(s) 262, 645
BstENI CCTNNNNNAGG 1 cut(s) 498
BstF5I GGATG 5 cut(s) 296, 328, 334, 584, 801
BstKTI GATC 5 cut(s) 6, 144, 374, 882, 1014
BstMAI GTCTC 2 cut(s) 86, 138
BstMBI GATC 5 cut(s) 3, 141, 371, 879, 1011
BstMWI GCNNNNNNNGC 8 cut(s) 47, 181, 669, 675, 707, 761, 806, 995
BstNI CCWGG 3 cut(s) 64, 205, 844
BstNSI RCATGY 1 cut(s) 989
BstSCI CCNGG 3 cut(s) 62, 203, 842
BstSFI CTRYAG 2 cut(s) 111, 531
BstV1I GCAGC 3 cut(s) 208, 656, 818
BstV2I GAAGAC 1 cut(s) 513
BstXI CCANNNNNNTGG 1 cut(s) 269
BsuRI GGCC 5 cut(s) 73, 88, 175, 863, 1022
BtgI CCRYGG 2 cut(s) 262, 645
BtsCI GGATG 5 cut(s) 296, 328, 334, 584, 801
BtsI GCAGTG 2 cut(s) 468, 755
BtsIMutI CAGTG 4 cut(s) 468, 622, 755, 889
BveI ACCTGC 2 cut(s) 519, 567
Cac8I GCNNGC 8 cut(s) 186, 379, 471, 708, 762, 865, 987, 1024
Cfr13I GGNCC 1 cut(s) 72
Csp6I GTAC 1 cut(s) 67
CviAII CATG 4 cut(s) 263, 290, 945, 986
CviQI GTAC 1 cut(s) 67
DdeI CTNAG 6 cut(s) 51, 90, 135, 630, 714, 1083
DpnI GATC 5 cut(s) 5, 143, 373, 881, 1013
DpnII GATC 5 cut(s) 3, 141, 371, 879, 1011
EaeI YGGCCR 1 cut(s) 861
Eam1104I CTCTTC 3 cut(s) 203, 423, 1049
EarI CTCTTC 3 cut(s) 203, 423, 1049
Eco130I CCWWGG 5 cut(s) 83, 262, 318, 686, 1032
Eco147I AGGCCT 1 cut(s) 88
Eco24I GRGCYC 3 cut(s) 125, 276, 653
Eco57I CTGAAG 2 cut(s) 584, 884
Eco88I CYCGRG 2 cut(s) 545, 652
EcoNI CCTNNNNNAGG 1 cut(s) 498
EcoRII CCWGG 3 cut(s) 62, 203, 842
EcoT14I CCWWGG 5 cut(s) 83, 262, 318, 686, 1032
EcoT38I GRGCYC 3 cut(s) 125, 276, 653
ErhI CCWWGG 5 cut(s) 83, 262, 318, 686, 1032
FaeI CATG 4 cut(s) 266, 293, 948, 989
FaqI GGGAC 2 cut(s) 161, 434
FatI CATG 4 cut(s) 262, 289, 944, 985
FbaI TGATCA 2 cut(s) 3, 1011
Fnu4HI GCNGC 3 cut(s) 222, 670, 807
FokI GGATG 5 cut(s) 283, 321, 335, 571, 808
FriOI GRGCYC 3 cut(s) 125, 276, 653
Fsp4HI GCNGC 3 cut(s) 222, 670, 807
FspBI CTAG 1 cut(s) 96
GluI GCNGC 3 cut(s) 222, 670, 807
GsaI CCCAGC 2 cut(s) 701, 952
GsuI CTGGAG 1 cut(s) 519
HaeIII GGCC 5 cut(s) 73, 88, 175, 863, 1022
Hin1II CATG 4 cut(s) 266, 293, 948, 989
HinfI GANTC 7 cut(s) 16, 149, 409, 746, 776, 851, 1028
HphI GGTGA 4 cut(s) 128, 418, 802, 964
Hpy188I TCNGA 4 cut(s) 138, 751, 775, 910
Hpy188III TCNNGA 3 cut(s) 7, 498, 545
HpyAV CCTTC 3 cut(s) 170, 441, 504
HpyCH4V TGCA 7 cut(s) 101, 184, 224, 672, 706, 806, 873
HpyF10VI GCNNNNNNNGC 8 cut(s) 47, 181, 669, 675, 707, 761, 806, 995
HpyF3I CTNAG 6 cut(s) 51, 90, 135, 630, 714, 1083
Hsp92II CATG 4 cut(s) 266, 293, 948, 989
Ksp22I TGATCA 2 cut(s) 3, 1011
Kzo9I GATC 5 cut(s) 3, 141, 371, 879, 1011
LmnI GCTCC 1 cut(s) 715
Lsp1109I GCAGC 3 cut(s) 208, 656, 818
LweI GCATC 1 cut(s) 681
MaeI CTAG 1 cut(s) 96
MaeIII GTNAC 5 cut(s) 292, 406, 892, 952, 1112
MalI GATC 5 cut(s) 5, 143, 373, 881, 1013
MboI GATC 5 cut(s) 3, 141, 371, 879, 1011
MboII GAAGA 7 cut(s) 151, 220, 410, 426, 518, 737, 1036
MfeI CAATTG 1 cut(s) 179
MhlI GDGCHC 3 cut(s) 125, 276, 653
MlsI TGGCCA 1 cut(s) 863
MluCI AATT 7 cut(s) 179, 225, 310, 481, 540, 636, 1101
MluNI TGGCCA 1 cut(s) 863
MlyI GAGTC 4 cut(s) 143, 403, 755, 1037
Mox20I TGGCCA 1 cut(s) 863
MscI TGGCCA 1 cut(s) 863
MseI TTAA 2 cut(s) 314, 485
Msp20I TGGCCA 1 cut(s) 863
MspA1I CMGCKG 2 cut(s) 473, 701
MspR9I CCNGG 3 cut(s) 64, 205, 844
MunI CAATTG 1 cut(s) 179
MvaI CCWGG 3 cut(s) 64, 205, 844
MwoI GCNNNNNNNGC 8 cut(s) 47, 181, 669, 675, 707, 761, 806, 995
NcoI CCATGG 1 cut(s) 262
NdeII GATC 5 cut(s) 3, 141, 371, 879, 1011
NlaIII CATG 4 cut(s) 266, 293, 948, 989
NlaIV GGNNCC 5 cut(s) 441, 468, 580, 921, 1058
NmuCI GTSAC 2 cut(s) 406, 952
NspI RCATGY 1 cut(s) 989
NspV TTCGAA 1 cut(s) 163
PaeI GCATGC 1 cut(s) 989
PaeR7I CTCGAG 1 cut(s) 652
PceI AGGCCT 1 cut(s) 88
PfeI GAWTC 3 cut(s) 16, 776, 851
PflMI CCANNNNNTGG 2 cut(s) 263, 463
PkrI GCNGC 3 cut(s) 223, 671, 808
PleI GAGTC 4 cut(s) 143, 403, 754, 1036
PpsI GAGTC 4 cut(s) 143, 403, 754, 1036
Psp6I CCWGG 3 cut(s) 62, 203, 842
PspFI CCCAGC 2 cut(s) 697, 948
PspGI CCWGG 3 cut(s) 62, 203, 842
PspN4I GGNNCC 5 cut(s) 441, 468, 580, 921, 1058
PspPI GGNCC 1 cut(s) 72
PspXI VCTCGAGB 1 cut(s) 652
PvuII CAGCTG 2 cut(s) 473, 701
RsaI GTAC 1 cut(s) 68
RsaNI GTAC 1 cut(s) 67
SaqAI TTAA 2 cut(s) 314, 485
SatI GCNGC 3 cut(s) 222, 670, 807
Sau3AI GATC 5 cut(s) 3, 141, 371, 879, 1011
Sau96I GGNCC 1 cut(s) 72
SchI GAGTC 4 cut(s) 143, 403, 755, 1037
ScrFI CCNGG 3 cut(s) 64, 205, 844
SduI GDGCHC 3 cut(s) 125, 276, 653
SfaNI GCATC 1 cut(s) 681
SfcI CTRYAG 2 cut(s) 111, 531
Sfr274I CTCGAG 1 cut(s) 652
SfuI TTCGAA 1 cut(s) 163
SlaI CTCGAG 1 cut(s) 652
SmlI CTYRAG 1 cut(s) 652
SmoI CTYRAG 1 cut(s) 652
SpeI ACTAGT 1 cut(s) 95
SphI GCATGC 1 cut(s) 989
Sse9I AATT 7 cut(s) 179, 225, 310, 481, 540, 636, 1101
SseBI AGGCCT 1 cut(s) 88
SspMI CTAG 1 cut(s) 96
StuI AGGCCT 1 cut(s) 88
StyD4I CCNGG 3 cut(s) 62, 203, 842
StyI CCWWGG 5 cut(s) 83, 262, 318, 686, 1032
TaqI TCGA 5 cut(s) 163, 217, 640, 653, 849
TasI AATT 7 cut(s) 179, 225, 310, 481, 540, 636, 1101
TfiI GAWTC 3 cut(s) 16, 776, 851
Tru1I TTAA 2 cut(s) 314, 485
Tru9I TTAA 2 cut(s) 314, 485
TscAI CASTG 4 cut(s) 468, 622, 762, 889
TseFI GTSAC 2 cut(s) 406, 952
TseI GCWGC 3 cut(s) 221, 669, 806
Tsp45I GTSAC 2 cut(s) 406, 952
TspDTI ATGAA 3 cut(s) 503, 933, 1113
TspRI CASTG 4 cut(s) 468, 622, 762, 889
Van91I CCANNNNNTGG 2 cut(s) 263, 463
XagI CCTNNNNNAGG 1 cut(s) 498
XapI RAATTY 2 cut(s) 310, 540
XceI RCATGY 1 cut(s) 989
XcmI CCANNNNNNNNNTGG 1 cut(s) 840
XhoI CTCGAG 1 cut(s) 652
XspI CTAG 1 cut(s) 96
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.