Rroxscaffold_3G00267820

UPF0160 protein-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000003
OG0012304
Physical Location & Seq
Forward (+)
60990029 .. 60992908
2880 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_3G00267820.1

Sequence Viewer

Length: 1092 bp
ATGCTTCCCTTGGTAAGCAGAAGGTTTAAGCTGTCGACTAGTCTCCCCTTAGTCTTCCACAGCCACCGCCACCGCCACCACCGCCCACGCTTCATGGCCTCCGTAGCTCCACCGCCCAAGCGCGTCGGAACCCACAATGGAAGCTTCCACTGCGACGAAGCCCTCGGCTGCTTCATGATTCGCCTCACCGATAAGTTCTCCAACGCCGAAATTGTCCGCACCCGCGACCCCAAGGTTCTGGAGGGTTTGGACGCTGTGCTTGATGTTGGGGGTGTGTATGACCCGAGCAGGGATCGGTACGATCATCACCAGAAGGGGTTTGAGGAGGTTTTTGGCCATGGGTTTAAGACCAAGCTGAGTAGTGCTGGACTGGTTTACAAGCATTTTGGGAAGGAAATCATAGCCAAGGAGCTTCAAGTTGATGAAGGACACCTTGATGTGCAGAGGCTGTTCTTGGCTATTTACAAAAGCTTTATGGAGGCGATTGATGCAGTTGACAATGGGATCAATCAGTATGATACAGACCAGCCTCCAAGATATGTGAATAATACACACTTATCTTCAAGGGTGGGGAGGTTGAATTTGGACTGGATAGATCCTGATCAATCATCTGAGAAAGAGAATGAAGCCTTTCAACAAGCAATGGCTCTAGCTGGAAGTGAATTTTTAAGTAGTCTGCGTTTTCATGCCAAATCATGGTTACCAGCACGGTCTATTGTGATGGAGTGTCTCCTAGCAAGATGGAGTATCGATCCTAGGGGAGAAATTATGGTTTTGAATCGGTTTTGTCCTTGGAAGCTTCATTTATTTGAACTTGAAGAGGAGATGAAGATTGACCCTCCCATCAAATATGTTCTCTATCAGGATGATAGGAGTAAAAGCTGGCGAGTTCAAGCGGTGGCAGTTGCTCCTGATAGATTCGAGAGCCGAAAGCCTCTTGCATCTCAATGGCGAGGGCTTAGAGACGATGAGCTCTCAACAGCGGCTGGGATTCCCGGATGTGTCTTTGTCCACATGAGCGGGTTTATCGGAGGAAATCAAACATACGAGGGTGCTCTGGCCATGGCAAAGGCTAGTCTGAAGCTTTCATAA
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
UPF0160

Protein Analysis

363

Amino Acids

41.29

Weight (kDa)

7.75

Isoelectric Point (pI)

34.56

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
MYG1_exonuc PF03690 42 - 360 1.2e-137 Uncharacterised protein family (UPF0160)
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: OG0012304)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G49320 AT3G49320 AT5G41970
fragaria_vesca FvH4_5g11020
malus_domestica MD06G1117500.v1.1 MD14G1124700.v1.1
prunus_persica Prupe.5G128600_v2.0.a1
pyrus_communis pycom07g04680 pycom14g11040
rosa_chinensis RchiOBHm_Chr7g0186791
rosa_laevigata RLG00000004815
rosa_multiflora Rmu_ssc0000024.1_g000044
rosa_roxburghii Rroxscaffold_3G00267820
rosa_rugosa Rorug06G0476700
rosa_samantha Rh7AG063800 Rh7BG080300 Rh7CG083700 Rh7DG084600
rosa_wichuraiana Rw7G007260

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB7I CCANNNNNTGG 1 cut(s) 696
AccBSI CCGCTC 1 cut(s) 1020
AccI GTMKAC 1 cut(s) 35
AccII CGCG 2 cut(s) 123, 225
AciI CCGC 9 cut(s) 67, 73, 82, 113, 217, 223, 896, 983, 1020
AclWI GGATC 4 cut(s) 300, 512, 590, 746
AcoI YGGCCR 2 cut(s) 334, 1059
AcsI RAATTY 2 cut(s) 580, 662
AfaI GTAC 1 cut(s) 299
AfiI CCNNNNNNNGG 2 cut(s) 289, 696
AgsI TTSAA 8 cut(s) 416, 564, 580, 635, 778, 812, 818, 893
AhlI ACTAGT 1 cut(s) 38
Alw21I GWGCWC 2 cut(s) 975, 1057
Alw26I GTCTC 3 cut(s) 47, 734, 957
AlwI GGATC 4 cut(s) 300, 512, 590, 746
AlwNI CAGNNNCTG 2 cut(s) 448, 986
Ama87I CYCGRG 1 cut(s) 283
AoxI GGCC 3 cut(s) 96, 334, 1059
ApeKI GCWGC 1 cut(s) 168
ApoI RAATTY 2 cut(s) 580, 662
Asp700I GAANNNNTTC 1 cut(s) 630
AspA2I CCTAGG 1 cut(s) 755
AspLEI GCGC 1 cut(s) 123
AsuC2I CCSGG 1 cut(s) 996
AsuHPI GGTGA 2 cut(s) 178, 299
AvaI CYCGRG 1 cut(s) 283
AvrII CCTAGG 1 cut(s) 755
BalI TGGCCA 2 cut(s) 336, 1061
BanII GRGCYC 1 cut(s) 975
BbsI GAAGAC 1 cut(s) 46
Bbv12I GWGCWC 2 cut(s) 975, 1057
BbvI GCAGC 1 cut(s) 155
BccI CCATC 3 cut(s) 715, 735, 851
BclI TGATCA 1 cut(s) 601
BcnI CCSGG 1 cut(s) 996
BcoDI GTCTC 3 cut(s) 47, 734, 957
BcuI ACTAGT 1 cut(s) 38
BfaI CTAG 5 cut(s) 39, 650, 734, 756, 1074
BisI GCNGC 2 cut(s) 169, 984
BlnI CCTAGG 1 cut(s) 755
BlsI GCNGC 2 cut(s) 170, 985
Bme1390I CCNGG 1 cut(s) 996
BmeT110I CYCGRG 1 cut(s) 283
BmiI GGNNCC 1 cut(s) 130
BmrFI CCNGG 1 cut(s) 996
BmsI GCATC 2 cut(s) 478, 950
BpiI GAAGAC 1 cut(s) 46
BpmI CTGGAG 1 cut(s) 260
BpuMI CCSGG 1 cut(s) 996
Bsa29I ATCGAT 1 cut(s) 750
BsaBI GATNNNNATC 1 cut(s) 600
BsaJI CCNNGG 8 cut(s) 9, 163, 231, 337, 405, 755, 791, 1062
Bsc4I CCNNNNNNNGG 2 cut(s) 289, 696
Bse1I ACTGG 2 cut(s) 375, 593
Bse3DI GCAATG 1 cut(s) 648
Bse8I GATNNNNATC 1 cut(s) 600
BseCI ATCGAT 1 cut(s) 750
BseDI CCNNGG 8 cut(s) 9, 163, 231, 337, 405, 755, 791, 1062
BseGI GGATG 2 cut(s) 871, 1004
BseJI GATNNNNATC 1 cut(s) 600
BseLI CCNNNNNNNGG 2 cut(s) 289, 696
BseMI GCAATG 1 cut(s) 648
BseMII CTCAG 2 cut(s) 347, 603
BseNI ACTGG 2 cut(s) 375, 593
BseRI GAGGAG 2 cut(s) 338, 836
BseXI GCAGC 1 cut(s) 155
BseYI CCCAGC 1 cut(s) 986
BsgI GTGCAG 1 cut(s) 461
Bsh1236I CGCG 2 cut(s) 123, 225
BshFI GGCC 3 cut(s) 98, 336, 1061
BshVI ATCGAT 1 cut(s) 750
BsiHKAI GWGCWC 2 cut(s) 975, 1057
BsiHKCI CYCGRG 1 cut(s) 283
BsiSI CCGG 1 cut(s) 996
BslI CCNNNNNNNGG 2 cut(s) 289, 696
BsmAI GTCTC 3 cut(s) 47, 734, 957
BsmBI CGTCTC 1 cut(s) 957
BsnI GGCC 3 cut(s) 98, 336, 1061
BsoBI CYCGRG 1 cut(s) 283
Bsp1286I GDGCHC 2 cut(s) 975, 1057
Bsp143I GATC 6 cut(s) 292, 301, 504, 595, 601, 751
Bsp19I CCATGG 2 cut(s) 337, 1062
BspACI CCGC 9 cut(s) 67, 73, 82, 113, 217, 223, 896, 983, 1020
BspANI GGCC 3 cut(s) 98, 336, 1061
BspCNI CTCAG 2 cut(s) 348, 604
BspDI ATCGAT 1 cut(s) 750
BspFNI CGCG 2 cut(s) 123, 225
BspHI TCATGA 1 cut(s) 174
BspLI GGNNCC 1 cut(s) 130
BspPI GGATC 4 cut(s) 300, 512, 590, 746
BsrBI CCGCTC 1 cut(s) 1020
BsrDI GCAATG 1 cut(s) 648
BsrI ACTGG 2 cut(s) 375, 593
BssECI CCNNGG 8 cut(s) 9, 163, 231, 337, 405, 755, 791, 1062
BssMI GATC 6 cut(s) 292, 301, 504, 595, 601, 751
BssT1I CCWWGG 7 cut(s) 9, 231, 337, 405, 755, 791, 1062
Bst4CI ACNGT 1 cut(s) 711
Bst6I CTCTTC 1 cut(s) 813
BstC8I GCNNGC 1 cut(s) 884
BstDEI CTNAG 4 cut(s) 49, 356, 612, 959
BstDSI CCRYGG 2 cut(s) 337, 1062
BstEII GGTNACC 1 cut(s) 699
BstF5I GGATG 2 cut(s) 871, 1004
BstFNI CGCG 2 cut(s) 123, 225
BstHHI GCGC 1 cut(s) 123
BstKTI GATC 6 cut(s) 295, 304, 507, 598, 604, 754
BstMAI GTCTC 3 cut(s) 47, 734, 957
BstMBI GATC 6 cut(s) 292, 301, 504, 595, 601, 751
BstMWI GCNNNNNNNGC 4 cut(s) 81, 104, 150, 488
BstPI GGTNACC 1 cut(s) 699
BstSCI CCNGG 1 cut(s) 994
BstUI CGCG 2 cut(s) 123, 225
BstV1I GCAGC 1 cut(s) 155
BstV2I GAAGAC 1 cut(s) 46
BstX2I RGATCY 1 cut(s) 595
BstXI CCANNNNNNTGG 1 cut(s) 238
BstYI RGATCY 1 cut(s) 595
Bsu15I ATCGAT 1 cut(s) 750
BsuRI GGCC 3 cut(s) 98, 336, 1061
BsuTUI ATCGAT 1 cut(s) 750
BtgI CCRYGG 2 cut(s) 337, 1062
BtsCI GGATG 2 cut(s) 871, 1004
BtsI GCAGTG 1 cut(s) 148
BtsIMutI CAGTG 1 cut(s) 148
Cac8I GCNNGC 1 cut(s) 884
CaiI CAGNNNCTG 2 cut(s) 448, 986
CciI TCATGA 1 cut(s) 174
CfoI GCGC 1 cut(s) 123
ClaI ATCGAT 1 cut(s) 750
CseI GACGC 2 cut(s) 112, 260
Csp6I GTAC 1 cut(s) 298
CviAII CATG 7 cut(s) 94, 175, 338, 686, 696, 1015, 1063
CviQI GTAC 1 cut(s) 298
DdeI CTNAG 4 cut(s) 49, 356, 612, 959
DpnI GATC 6 cut(s) 294, 303, 506, 597, 603, 753
DpnII GATC 6 cut(s) 292, 301, 504, 595, 601, 751
EaeI YGGCCR 2 cut(s) 334, 1059
Eam1104I CTCTTC 1 cut(s) 813
EarI CTCTTC 1 cut(s) 813
Ecl136II GAGCTC 1 cut(s) 973
Eco130I CCWWGG 7 cut(s) 9, 231, 337, 405, 755, 791, 1062
Eco24I GRGCYC 1 cut(s) 975
Eco53kI GAGCTC 1 cut(s) 973
Eco88I CYCGRG 1 cut(s) 283
Eco91I GGTNACC 1 cut(s) 699
EcoICRI GAGCTC 1 cut(s) 973
EcoO65I GGTNACC 1 cut(s) 699
EcoT14I CCWWGG 7 cut(s) 9, 231, 337, 405, 755, 791, 1062
EcoT38I GRGCYC 1 cut(s) 975
ErhI CCWWGG 7 cut(s) 9, 231, 337, 405, 755, 791, 1062
Esp3I CGTCTC 1 cut(s) 957
FaeI CATG 7 cut(s) 97, 178, 341, 689, 699, 1018, 1066
FalI AAGNNNNNCTT 2 cut(s) 417, 449
FatI CATG 7 cut(s) 93, 174, 337, 685, 695, 1014, 1062
FauI CCCGC 2 cut(s) 230, 1013
FbaI TGATCA 1 cut(s) 601
FblI GTMKAC 1 cut(s) 35
Fnu4HI GCNGC 2 cut(s) 169, 984
FokI GGATG 2 cut(s) 878, 1011
FriOI GRGCYC 1 cut(s) 975
Fsp4HI GCNGC 2 cut(s) 169, 984
FspBI CTAG 5 cut(s) 39, 650, 734, 756, 1074
GlaI GCGC 1 cut(s) 122
GluI GCNGC 2 cut(s) 169, 984
GsaI CCCAGC 1 cut(s) 990
GsuI CTGGAG 1 cut(s) 260
HaeIII GGCC 3 cut(s) 98, 336, 1061
HapII CCGG 1 cut(s) 996
HgaI GACGC 2 cut(s) 112, 260
HhaI GCGC 1 cut(s) 123
Hin1II CATG 7 cut(s) 97, 178, 341, 689, 699, 1018, 1066
Hin6I GCGC 1 cut(s) 121
HinP1I GCGC 1 cut(s) 121
HincII GTYRAC 2 cut(s) 36, 496
HindII GTYRAC 2 cut(s) 36, 496
HindIII AAGCTT 4 cut(s) 142, 469, 797, 1082
HinfI GANTC 4 cut(s) 178, 778, 918, 991
HpaII CCGG 1 cut(s) 996
HphI GGTGA 2 cut(s) 178, 299
Hpy166II GTNNAC 4 cut(s) 36, 376, 496, 1012
Hpy188I TCNGA 4 cut(s) 128, 613, 1031, 1080
Hpy188III TCNNGA 6 cut(s) 175, 239, 599, 863, 911, 922
Hpy8I GTNNAC 4 cut(s) 36, 376, 496, 1012
Hpy99I CGWCG 2 cut(s) 128, 158
HpyAV CCTTC 4 cut(s) 15, 307, 385, 419
HpyCH4III ACNGT 1 cut(s) 711
HpyCH4V TGCA 3 cut(s) 442, 491, 941
HpyF10VI GCNNNNNNNGC 4 cut(s) 81, 104, 150, 488
HpyF3I CTNAG 4 cut(s) 49, 356, 612, 959
Hsp92II CATG 7 cut(s) 97, 178, 341, 689, 699, 1018, 1066
HspAI GCGC 1 cut(s) 121
Ksp22I TGATCA 1 cut(s) 601
Kzo9I GATC 6 cut(s) 292, 301, 504, 595, 601, 751
LmnI GCTCC 3 cut(s) 112, 409, 913
Lsp1109I GCAGC 1 cut(s) 155
LweI GCATC 2 cut(s) 478, 950
MaeI CTAG 5 cut(s) 39, 650, 734, 756, 1074
MaeIII GTNAC 1 cut(s) 699
MalI GATC 6 cut(s) 294, 303, 506, 597, 603, 753
MbiI CCGCTC 1 cut(s) 1020
MboI GATC 6 cut(s) 292, 301, 504, 595, 601, 751
MboII GAAGA 4 cut(s) 46, 552, 830, 841
MflI RGATCY 1 cut(s) 595
MhlI GDGCHC 2 cut(s) 975, 1057
MlsI TGGCCA 2 cut(s) 336, 1061
MluCI AATT 4 cut(s) 210, 580, 662, 765
MluNI TGGCCA 2 cut(s) 336, 1061
MmeI TCCRAC 2 cut(s) 106, 225
Mox20I TGGCCA 2 cut(s) 336, 1061
MroXI GAANNNNTTC 1 cut(s) 630
MscI TGGCCA 2 cut(s) 336, 1061
MseI TTAA 3 cut(s) 27, 345, 668
MslI CAYNNNNRTG 2 cut(s) 435, 946
Msp20I TGGCCA 2 cut(s) 336, 1061
MspA1I CMGCKG 1 cut(s) 983
MspI CCGG 1 cut(s) 996
MspR9I CCNGG 1 cut(s) 996
MvnI CGCG 2 cut(s) 123, 225
MwoI GCNNNNNNNGC 4 cut(s) 81, 104, 150, 488
NciI CCSGG 1 cut(s) 996
NcoI CCATGG 2 cut(s) 337, 1062
NdeII GATC 6 cut(s) 292, 301, 504, 595, 601, 751
NlaIII CATG 7 cut(s) 97, 178, 341, 689, 699, 1018, 1066
NlaIV GGNNCC 1 cut(s) 130
NmeAIII GCCGAG 1 cut(s) 144
PagI TCATGA 1 cut(s) 174
PdmI GAANNNNTTC 1 cut(s) 630
PfeI GAWTC 4 cut(s) 178, 778, 918, 991
PflMI CCANNNNNTGG 1 cut(s) 696
PfoI TCCNGGA 1 cut(s) 994
PkrI GCNGC 2 cut(s) 170, 985
Psp124BI GAGCTC 1 cut(s) 975
PspEI GGTNACC 1 cut(s) 699
PspFI CCCAGC 1 cut(s) 986
PspN4I GGNNCC 1 cut(s) 130
PstNI CAGNNNCTG 2 cut(s) 448, 986
PsuI RGATCY 1 cut(s) 595
RsaI GTAC 1 cut(s) 299
RsaNI GTAC 1 cut(s) 298
RseI CAYNNNNRTG 2 cut(s) 435, 946
SacI GAGCTC 1 cut(s) 975
SalI GTCGAC 1 cut(s) 34
SaqAI TTAA 3 cut(s) 27, 345, 668
SatI GCNGC 2 cut(s) 169, 984
Sau3AI GATC 6 cut(s) 292, 301, 504, 595, 601, 751
ScrFI CCNGG 1 cut(s) 996
SduI GDGCHC 2 cut(s) 975, 1057
SfaNI GCATC 2 cut(s) 478, 950
SmiMI CAYNNNNRTG 2 cut(s) 435, 946
SpeI ACTAGT 1 cut(s) 38
Sse9I AATT 4 cut(s) 210, 580, 662, 765
SsiI CCGC 9 cut(s) 67, 73, 82, 113, 217, 223, 896, 983, 1020
SspMI CTAG 5 cut(s) 39, 650, 734, 756, 1074
SstI GAGCTC 1 cut(s) 975
StyD4I CCNGG 1 cut(s) 994
StyI CCWWGG 7 cut(s) 9, 231, 337, 405, 755, 791, 1062
TaaI ACNGT 1 cut(s) 711
TaqI TCGA 3 cut(s) 35, 750, 921
TasI AATT 4 cut(s) 210, 580, 662, 765
TauI GCSGC 1 cut(s) 986
TfiI GAWTC 4 cut(s) 178, 778, 918, 991
Tru1I TTAA 3 cut(s) 27, 345, 668
Tru9I TTAA 3 cut(s) 27, 345, 668
TscAI CASTG 1 cut(s) 155
TseI GCWGC 1 cut(s) 168
TspDTI ATGAA 8 cut(s) 82, 163, 438, 639, 674, 791, 842, 1077
TspGWI ACGGA 1 cut(s) 91
TspRI CASTG 1 cut(s) 155
Van91I CCANNNNNTGG 1 cut(s) 696
XapI RAATTY 2 cut(s) 580, 662
XmaJI CCTAGG 1 cut(s) 755
XmiI GTMKAC 1 cut(s) 35
XmnI GAANNNNTTC 1 cut(s) 630
XspI CTAG 5 cut(s) 39, 650, 734, 756, 1074
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.