Rroxscaffold_7G00159190

maturation of SSU-rRNA

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000007
OG0016019
Physical Location & Seq
Forward (+)
2442402 .. 2443971
1570 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_7G00159190.1

Sequence Viewer

Length: 1242 bp
ATGGCGGCCTTATTCACACGCGTTGTAATGAGAGGCGCTTCAGGAACAATGAGAGGCATGCAAAGCCAGGCGTTTGATTGGGAGAAAGTCGAAAACTTCGCAACCATGATCAAGACTTTGAATCCTTACAGCTCCACCAACACAGCAAAAACAGCTGAGATTATGTCCAGGTACAGGCCCATAGCACCAAGGCCTGAGACTAGTGCAACCACCCCTACAGGTGAGAACCCTGCCCTGTCTCAGAAGATCAGGGACTCCCCTTACCTTCGAAGCCTCTGGCCTCAATTGCAGGCAAGACCAACAAGAACCAGGAAGAGGGGTCGAGCTGCAATTTCGCCACCAACCCTCAAAAGGCAAAGACCAAACCATGGATTTGGGCTCTCTCCTCCTTGCCATTTAACATCCCCTGCCAAAAATTTAACCTTGGATGGTTTTCCTCATCCTCTTTCACAGCTTCCATTACCAAACCAGCTTGGATCAGCCAACACCAGCCTTGAAAACAGCAGTCTGGTGACTCTGCCTCTTCTATCATACCCTTCTTCAGTTCCCATTGTCCCAAACCAAGCTGCAGTGACCAACCAAGCAGTGGTGCCAGCTGAACTCAATTTAATGAAACCTTCTGGAGGAGAAGAGCTGCTCATAGATTTGAACTCTGTCGCTGAAATTCCCGAGGAGAAAGACCTGCTGAAGCAACTACAAGGAACTCCATCCCCTACTACTACTACTCCTACCACCCCCAGTGTCATAGCACCTCAGCCAATTCGACCTGTGGGCTCGAGCATAAGCGTTGGCTGCATCAGGACAGACCCAAGGTTAGCCCCAGCTGTGCAAGCTCCTAAGAAGCCAGAGGATGTGGAGGAAGAGGTGGAGTCCGAGGCACTGCCAGCCATCATTTCGGATTCACACAACAAGGTGAGGATGGCAAATGCAGCTTACAAGGAGATGGTGGGTCAGCCAGAGTGTTCCTGGCTCGATTCAATGGTGGCCAGCTCGTGCAAAAGGATCAGTGGGGAGGTTACACTTCAGCTTTCTGATACAAGGGTGCCAACTCTATCAAATGGGTTTTCATGCTGGGTGAGGATAGAGTGGGGCAATGAGATGGACAAGCATGCTGTCAATGCTTTCTGTGATGTGATCAGACTGTCCTGCGAGTCCAAGGACTACCTCTTCACTTGGAGGTTCCACACCCACAGCAGAGAGGCTTCTCAGTCCAGTTCTAATGAAATTGCTACTTGTAACTAA
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

413

Amino Acids

45.14

Weight (kDa)

8.38

Isoelectric Point (pI)

55.25

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
DUF7950 PF25821 284 - 396 6.1e-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 1 cut(s) 690
AccB1I GGYRCC 2 cut(s) 589, 1042
AccB7I CCANNNNNTGG 2 cut(s) 368, 586
AccII CGCG 1 cut(s) 21
AciI CCGC 1 cut(s) 5
AclWI GGATC 2 cut(s) 484, 1010
AcoI YGGCCR 1 cut(s) 984
AcsI RAATTY 2 cut(s) 415, 663
AcuI CTGAAG 4 cut(s) 24, 525, 707, 1007
AfaI GTAC 1 cut(s) 173
AfiI CCNNNNNNNGG 6 cut(s) 174, 315, 351, 368, 586, 623
AflIII ACRYGT 1 cut(s) 19
AgsI TTSAA 4 cut(s) 121, 497, 649, 978
AhlI ACTAGT 1 cut(s) 200
AjnI CCWGG 4 cut(s) 66, 167, 308, 965
Alw26I GTCTC 2 cut(s) 191, 243
AlwI GGATC 2 cut(s) 484, 1010
Ama87I CYCGRG 2 cut(s) 668, 775
AoxI GGCC 5 cut(s) 6, 176, 191, 278, 984
ApeKI GCWGC 5 cut(s) 326, 566, 634, 792, 929
ApoI RAATTY 2 cut(s) 415, 663
AspLEI GCGC 1 cut(s) 38
AspS9I GGNCC 1 cut(s) 177
AsuHPI GGTGA 4 cut(s) 233, 523, 925, 1087
AsuII TTCGAA 1 cut(s) 268
AvaI CYCGRG 2 cut(s) 668, 775
BaeI ACNNNNGTAYC 2 cut(s) 1026, 1059
BalI TGGCCA 1 cut(s) 986
BanI GGYRCC 2 cut(s) 589, 1042
BanII GRGCYC 2 cut(s) 381, 776
BauI CACGAG 1 cut(s) 991
BbvCI CCTCAGC 1 cut(s) 753
BbvI GCAGC 5 cut(s) 313, 553, 621, 779, 941
BccI CCATC 6 cut(s) 422, 715, 896, 913, 937, 1093
BciT130I CCWGG 4 cut(s) 68, 169, 310, 967
BclI TGATCA 2 cut(s) 108, 1134
BcoDI GTCTC 2 cut(s) 191, 243
BcuI ACTAGT 1 cut(s) 200
BfaI CTAG 1 cut(s) 201
BfmI CTRYAG 2 cut(s) 216, 567
BfoI RGCGCY 1 cut(s) 39
BfuAI ACCTGC 1 cut(s) 690
BisI GCNGC 6 cut(s) 6, 327, 567, 635, 793, 930
BlsI GCNGC 6 cut(s) 7, 328, 568, 636, 794, 931
Bme1390I CCNGG 4 cut(s) 68, 169, 310, 967
BmeT110I CYCGRG 2 cut(s) 668, 775
BmgT120I GGNCC 1 cut(s) 177
BmiI GGNNCC 3 cut(s) 591, 1044, 1181
BmrFI CCNGG 4 cut(s) 68, 169, 310, 967
BmrI ACTGGG 1 cut(s) 732
BmsI GCATC 1 cut(s) 804
BmuI ACTGGG 1 cut(s) 732
BpmI CTGGAG 1 cut(s) 642
Bpu10I CCTNAGC 1 cut(s) 753
Bpu14I TTCGAA 1 cut(s) 268
BsaJI CCNNGG 7 cut(s) 188, 367, 423, 669, 809, 873, 1155
BsaXI ACNNNNNCTCC 2 cut(s) 709, 739
Bsc4I CCNNNNNNNGG 6 cut(s) 174, 315, 351, 368, 586, 623
Bse1I ACTGG 2 cut(s) 738, 1212
Bse3DI GCAATG 1 cut(s) 1099
BseBI CCWGG 4 cut(s) 68, 169, 310, 967
BseDI CCNNGG 7 cut(s) 188, 367, 423, 669, 809, 873, 1155
BseGI GGATG 6 cut(s) 401, 433, 439, 707, 856, 924
BseLI CCNNNNNNNGG 6 cut(s) 174, 315, 351, 368, 586, 623
BseMI GCAATG 1 cut(s) 1099
BseMII CTCAG 5 cut(s) 147, 186, 254, 767, 1220
BseNI ACTGG 2 cut(s) 738, 1212
BseRI GAGGAG 3 cut(s) 375, 639, 686
BseXI GCAGC 5 cut(s) 313, 553, 621, 779, 941
BseYI CCCAGC 2 cut(s) 820, 1071
Bsh1236I CGCG 1 cut(s) 21
BshFI GGCC 5 cut(s) 8, 178, 193, 280, 986
BshNI GGYRCC 2 cut(s) 589, 1042
BsiHKCI CYCGRG 2 cut(s) 668, 775
BslFI GGGAC 2 cut(s) 266, 539
BslI CCNNNNNNNGG 6 cut(s) 174, 315, 351, 368, 586, 623
BsmAI GTCTC 2 cut(s) 191, 243
BsmFI GGGAC 2 cut(s) 266, 539
BsnI GGCC 5 cut(s) 8, 178, 193, 280, 986
BsoBI CYCGRG 2 cut(s) 668, 775
Bsp119I TTCGAA 1 cut(s) 268
Bsp1286I GDGCHC 2 cut(s) 381, 776
Bsp143I GATC 5 cut(s) 108, 246, 476, 1002, 1134
Bsp19I CCATGG 1 cut(s) 367
BspACI CCGC 1 cut(s) 5
BspANI GGCC 5 cut(s) 8, 178, 193, 280, 986
BspCNI CTCAG 5 cut(s) 148, 187, 253, 766, 1219
BspFNI CGCG 1 cut(s) 21
BspLI GGNNCC 3 cut(s) 591, 1044, 1181
BspMAI CTGCAG 1 cut(s) 571
BspMI ACCTGC 1 cut(s) 690
BspPI GGATC 2 cut(s) 484, 1010
BspQI GCTCTTC 1 cut(s) 624
BspT104I TTCGAA 1 cut(s) 268
BspT107I GGYRCC 2 cut(s) 589, 1042
BsrDI GCAATG 1 cut(s) 1099
BsrI ACTGG 2 cut(s) 738, 1212
BssECI CCNNGG 7 cut(s) 188, 367, 423, 669, 809, 873, 1155
BssMI GATC 5 cut(s) 108, 246, 476, 1002, 1134
BssSI CACGAG 1 cut(s) 991
BssT1I CCWWGG 5 cut(s) 188, 367, 423, 809, 1155
Bst2BI CACGAG 1 cut(s) 991
Bst2UI CCWGG 4 cut(s) 68, 169, 310, 967
Bst4CI ACNGT 1 cut(s) 1143
Bst6I CTCTTC 5 cut(s) 308, 528, 624, 855, 1172
BstBI TTCGAA 1 cut(s) 268
BstC8I GCNNGC 7 cut(s) 59, 291, 594, 831, 885, 988, 1110
BstDEI CTNAG 6 cut(s) 156, 195, 240, 753, 837, 1206
BstDSI CCRYGG 1 cut(s) 367
BstENI CCTNNNNNAGG 1 cut(s) 621
BstF5I GGATG 6 cut(s) 401, 433, 439, 707, 856, 924
BstFNI CGCG 1 cut(s) 21
BstH2I RGCGCY 1 cut(s) 39
BstHHI GCGC 1 cut(s) 38
BstKTI GATC 5 cut(s) 111, 249, 479, 1005, 1137
BstMAI GTCTC 2 cut(s) 191, 243
BstMBI GATC 5 cut(s) 108, 246, 476, 1002, 1134
BstMWI GCNNNNNNNGC 8 cut(s) 63, 152, 286, 792, 830, 884, 929, 1118
BstNI CCWGG 4 cut(s) 68, 169, 310, 967
BstNSI RCATGY 2 cut(s) 61, 1112
BstSCI CCNGG 4 cut(s) 66, 167, 308, 965
BstSFI CTRYAG 2 cut(s) 216, 567
BstUI CGCG 1 cut(s) 21
BstV1I GCAGC 5 cut(s) 313, 553, 621, 779, 941
BstXI CCANNNNNNTGG 1 cut(s) 374
BsuRI GGCC 5 cut(s) 8, 178, 193, 280, 986
BtgI CCRYGG 1 cut(s) 367
BtsCI GGATG 6 cut(s) 401, 433, 439, 707, 856, 924
BtsI GCAGTG 3 cut(s) 576, 591, 878
BtsIMutI CAGTG 5 cut(s) 576, 591, 745, 878, 1012
BveI ACCTGC 1 cut(s) 690
Cac8I GCNNGC 7 cut(s) 59, 291, 594, 831, 885, 988, 1110
CfoI GCGC 1 cut(s) 38
Cfr13I GGNCC 1 cut(s) 177
Csp6I GTAC 1 cut(s) 172
CviAII CATG 5 cut(s) 58, 106, 368, 1068, 1109
CviQI GTAC 1 cut(s) 172
DdeI CTNAG 6 cut(s) 156, 195, 240, 753, 837, 1206
DpnI GATC 5 cut(s) 110, 248, 478, 1004, 1136
DpnII GATC 5 cut(s) 108, 246, 476, 1002, 1134
EaeI YGGCCR 1 cut(s) 984
Eam1104I CTCTTC 5 cut(s) 308, 528, 624, 855, 1172
EarI CTCTTC 5 cut(s) 308, 528, 624, 855, 1172
Eco130I CCWWGG 5 cut(s) 188, 367, 423, 809, 1155
Eco147I AGGCCT 1 cut(s) 193
Eco24I GRGCYC 2 cut(s) 381, 776
Eco57I CTGAAG 4 cut(s) 24, 525, 707, 1007
Eco88I CYCGRG 2 cut(s) 668, 775
EcoNI CCTNNNNNAGG 1 cut(s) 621
EcoRII CCWGG 4 cut(s) 66, 167, 308, 965
EcoT14I CCWWGG 5 cut(s) 188, 367, 423, 809, 1155
EcoT38I GRGCYC 2 cut(s) 381, 776
ErhI CCWWGG 5 cut(s) 188, 367, 423, 809, 1155
FaeI CATG 5 cut(s) 61, 109, 371, 1071, 1112
FaqI GGGAC 2 cut(s) 266, 539
FatI CATG 5 cut(s) 57, 105, 367, 1067, 1108
FbaI TGATCA 2 cut(s) 108, 1134
Fnu4HI GCNGC 6 cut(s) 6, 327, 567, 635, 793, 930
FokI GGATG 6 cut(s) 388, 426, 440, 694, 863, 931
FriOI GRGCYC 2 cut(s) 381, 776
Fsp4HI GCNGC 6 cut(s) 6, 327, 567, 635, 793, 930
FspBI CTAG 1 cut(s) 201
GlaI GCGC 1 cut(s) 37
GluI GCNGC 6 cut(s) 6, 327, 567, 635, 793, 930
GsaI CCCAGC 2 cut(s) 824, 1075
GsuI CTGGAG 1 cut(s) 642
HaeII RGCGCY 1 cut(s) 39
HaeIII GGCC 5 cut(s) 8, 178, 193, 280, 986
HhaI GCGC 1 cut(s) 38
Hin1II CATG 5 cut(s) 61, 109, 371, 1071, 1112
Hin6I GCGC 1 cut(s) 36
HinP1I GCGC 1 cut(s) 36
HinfI GANTC 7 cut(s) 121, 254, 514, 869, 899, 974, 1151
HphI GGTGA 4 cut(s) 233, 523, 925, 1087
Hpy188I TCNGA 5 cut(s) 243, 874, 898, 1033, 1139
Hpy188III TCNNGA 5 cut(s) 42, 112, 621, 668, 799
HpyAV CCTTC 3 cut(s) 275, 546, 627
HpyCH4III ACNGT 1 cut(s) 1143
HpyCH4V TGCA 9 cut(s) 61, 206, 289, 329, 569, 795, 829, 929, 996
HpyF10VI GCNNNNNNNGC 8 cut(s) 63, 152, 286, 792, 830, 884, 929, 1118
HpyF3I CTNAG 6 cut(s) 156, 195, 240, 753, 837, 1206
Hsp92II CATG 5 cut(s) 61, 109, 371, 1071, 1112
HspAI GCGC 1 cut(s) 36
Ksp22I TGATCA 2 cut(s) 108, 1134
Kzo9I GATC 5 cut(s) 108, 246, 476, 1002, 1134
LguI GCTCTTC 1 cut(s) 624
LmnI GCTCC 2 cut(s) 137, 838
Lsp1109I GCAGC 5 cut(s) 313, 553, 621, 779, 941
LweI GCATC 1 cut(s) 804
MaeI CTAG 1 cut(s) 201
MaeIII GTNAC 4 cut(s) 511, 571, 1015, 1235
MalI GATC 5 cut(s) 110, 248, 478, 1004, 1136
MboI GATC 5 cut(s) 108, 246, 476, 1002, 1134
MboII GAAGA 7 cut(s) 256, 325, 515, 531, 641, 872, 1159
MfeI CAATTG 1 cut(s) 284
MhlI GDGCHC 2 cut(s) 381, 776
MlsI TGGCCA 1 cut(s) 986
MluCI AATT 7 cut(s) 284, 330, 415, 604, 663, 759, 1224
MluI ACGCGT 1 cut(s) 19
MluNI TGGCCA 1 cut(s) 986
MlyI GAGTC 4 cut(s) 248, 508, 878, 1160
Mox20I TGGCCA 1 cut(s) 986
MscI TGGCCA 1 cut(s) 986
MseI TTAA 3 cut(s) 398, 419, 608
Msp20I TGGCCA 1 cut(s) 986
MspA1I CMGCKG 3 cut(s) 155, 596, 824
MspR9I CCNGG 4 cut(s) 68, 169, 310, 967
MunI CAATTG 1 cut(s) 284
MvaI CCWGG 4 cut(s) 68, 169, 310, 967
MvnI CGCG 1 cut(s) 21
MwoI GCNNNNNNNGC 8 cut(s) 63, 152, 286, 792, 830, 884, 929, 1118
NcoI CCATGG 1 cut(s) 367
NdeII GATC 5 cut(s) 108, 246, 476, 1002, 1134
NlaIII CATG 5 cut(s) 61, 109, 371, 1071, 1112
NlaIV GGNNCC 3 cut(s) 591, 1044, 1181
NmuCI GTSAC 2 cut(s) 511, 571
NspI RCATGY 2 cut(s) 61, 1112
NspV TTCGAA 1 cut(s) 268
PaeI GCATGC 2 cut(s) 61, 1112
PaeR7I CTCGAG 1 cut(s) 775
PceI AGGCCT 1 cut(s) 193
PciSI GCTCTTC 1 cut(s) 624
PfeI GAWTC 3 cut(s) 121, 899, 974
PflMI CCANNNNNTGG 2 cut(s) 368, 586
PkrI GCNGC 6 cut(s) 7, 328, 568, 636, 794, 931
PleI GAGTC 4 cut(s) 248, 508, 877, 1159
PpsI GAGTC 4 cut(s) 248, 508, 877, 1159
Psp6I CCWGG 4 cut(s) 66, 167, 308, 965
PspFI CCCAGC 2 cut(s) 820, 1071
PspGI CCWGG 4 cut(s) 66, 167, 308, 965
PspN4I GGNNCC 3 cut(s) 591, 1044, 1181
PspPI GGNCC 1 cut(s) 177
PspXI VCTCGAGB 1 cut(s) 775
PstI CTGCAG 1 cut(s) 571
PvuII CAGCTG 3 cut(s) 155, 596, 824
RsaI GTAC 1 cut(s) 173
RsaNI GTAC 1 cut(s) 172
SapI GCTCTTC 1 cut(s) 624
SaqAI TTAA 3 cut(s) 398, 419, 608
SatI GCNGC 6 cut(s) 6, 327, 567, 635, 793, 930
Sau3AI GATC 5 cut(s) 108, 246, 476, 1002, 1134
Sau96I GGNCC 1 cut(s) 177
SchI GAGTC 4 cut(s) 248, 508, 878, 1160
ScrFI CCNGG 4 cut(s) 68, 169, 310, 967
SduI GDGCHC 2 cut(s) 381, 776
SfaNI GCATC 1 cut(s) 804
SfcI CTRYAG 2 cut(s) 216, 567
Sfr274I CTCGAG 1 cut(s) 775
SfuI TTCGAA 1 cut(s) 268
SlaI CTCGAG 1 cut(s) 775
SmlI CTYRAG 1 cut(s) 775
SmoI CTYRAG 1 cut(s) 775
SpeI ACTAGT 1 cut(s) 200
SphI GCATGC 2 cut(s) 61, 1112
Sse9I AATT 7 cut(s) 284, 330, 415, 604, 663, 759, 1224
SseBI AGGCCT 1 cut(s) 193
SsiI CCGC 1 cut(s) 5
SspMI CTAG 1 cut(s) 201
StuI AGGCCT 1 cut(s) 193
StyD4I CCNGG 4 cut(s) 66, 167, 308, 965
StyI CCWWGG 5 cut(s) 188, 367, 423, 809, 1155
TaaI ACNGT 1 cut(s) 1143
TaqI TCGA 6 cut(s) 90, 268, 322, 763, 776, 972
TasI AATT 7 cut(s) 284, 330, 415, 604, 663, 759, 1224
TauI GCSGC 1 cut(s) 8
TfiI GAWTC 3 cut(s) 121, 899, 974
Tru1I TTAA 3 cut(s) 398, 419, 608
Tru9I TTAA 3 cut(s) 398, 419, 608
TscAI CASTG 5 cut(s) 576, 591, 745, 885, 1012
TseFI GTSAC 2 cut(s) 511, 571
TseI GCWGC 5 cut(s) 326, 566, 634, 792, 929
Tsp45I GTSAC 2 cut(s) 511, 571
TspDTI ATGAA 3 cut(s) 626, 1056, 1236
TspRI CASTG 5 cut(s) 576, 591, 745, 885, 1012
Van91I CCANNNNNTGG 2 cut(s) 368, 586
XagI CCTNNNNNAGG 1 cut(s) 621
XapI RAATTY 2 cut(s) 415, 663
XceI RCATGY 2 cut(s) 61, 1112
XcmI CCANNNNNNNNNTGG 2 cut(s) 583, 963
XhoI CTCGAG 1 cut(s) 775
XspI CTAG 1 cut(s) 201
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.