Rroxscaffold_3G00237770

UPF0420 protein C16orf58 homolog

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000003
OG0000364
Physical Location & Seq
Forward (+)
25453691 .. 25463648
9958 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_3G00237770.1

Sequence Viewer

Length: 1059 bp
ATGTATAGTGCAGATGCTAACTTTCTTCGATCCTGCTTTGATTTTTGCAATGACTGGGGAGTGTGTGTTTGCAAAATTGTTTCCGGCAATGGTTCTCATTCCCATGAACAGAGCCTGAGGGATAGATTGGGGTCTATTGCTATTCGGAACCGGTTCCACCATGTTTGGCGGCAAGTTCTTCGAGCATCTGTACACGAGGGCCTTCCCAGCAATGTTACTCCGGATGATGTCCCTTTACAAAGGTGGGATTCACTTCGGGGTCTTTCTACTTGCATAAGGATGATGCTTTCTACCCAAGCTGCTGTTGGGTGCTATTGGGGTCGGTGGGAAATCGGCCACTGTGATTGGTGCCACCTTTCGGTGGTTCTTGAGAGACTTGGTGGAATGCTGGGAGATCTTATGAATGACCTTGAAATGTTGATGGATCTTGTTTTGCCTTTGTTTCCATCCGCTTTTGTGTTTGTGGCCTGTCGGGAAGCCTTCGCAAGTCGGCATCGTCCATTGCATCTTCGGCAACAAGGAGAGACGATTACGATTGCAAGACTAAGAAGAACAAGAAGAAGGAAGAGGCTGGACGCCGCGAGAAGCTTCGAAAGGCAAAGTTCGGAGTTGCCGAATGAACTCGAGTGCAAGTTCGACCAGTTCGTGGGGTTTTCTTTCTCTCAAGGAAATATGTACCGGAGGCTTGCTCGGCCTCTGCCGCCGATGCTCGAAAATGGGCAAGAGTGGATCTGTTTAAGCTATTTTGGATTTGTGAGAAAAAGGGCGAGGTTGATTGTGTTCGGATTCGGGGTTTGGGATTTTGCTGTGGGAAATAGTGAAGTTAGCGGGGAGGTTGGGTTGTATACGCTTCGGAAGAGAAGTTCTCAAAATGGGGTTATTCGAGGTTATGAAAATAAGAGAGGAGCTGGGTTGTGTGATCAAACTTTTATTGTTGGAGAATGTAGCACCTTCAATTTTGCCAAGCATTCTACCCCTTCCGGTTACCACATTGACTTGGTTCGGGCATACGGTCGAATTCTCGAAATAATGGTCGTTACATGCACCACTAGCTTTTGA
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
DUF647

Protein Analysis

352

Amino Acids

40.21

Weight (kDa)

9.06

Isoelectric Point (pI)

52.4

Instability Index
Protein Domains (Pfam)
No Pfam domains detected for this protein.
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: OG0000364)

Species Orthologous Gene IDs
arabidopsis_thaliana AT4G26485
fragaria_vesca FvH4_3g14860 FvH4_3g14860 FvH4_3g14861 FvH4_3g14862 FvH4_3g14862 FvH4_3g14880 FvH4_3g14880 FvH4_3g14890 FvH4_3g14891 FvH4_3g14892 FvH4_3g14901 FvH4_3g14902
malus_domestica MD05G1233500.v1.1 MD05G1233600.v1.1 MD10G1209900.v1.1 MD10G1210000.v1.1 MD10G1210100.v1.1 MD10G1210300.v1.1 MD10G1210400.v1.1
prunus_persica Prupe.4G132900_v2.0.a1 Prupe.4G133200_v2.0.a1 Prupe.4G133200_v2.0.a1 Prupe.4G133200_v2.0.a1 Prupe.4G133300_v2.0.a1 Prupe.4G133300_v2.0.a1 Prupe.4G133400_v2.0.a1 Prupe.4G133500_v2.0.a1 Prupe.4G133500_v2.0.a1 Prupe.4G133600_v2.0.a1 Prupe.4G133600_v2.0.a1
pyrus_communis pycom05g21110 pycom05g21120 pycom10g17840
rosa_chinensis RchiOBHm_Chr5g0024361 RchiOBHm_Chr5g0024391 RchiOBHm_Chr5g0024411 RchiOBHm_Chr5g0024431 RchiOBHm_Chr5g0024451 RchiOBHm_Chr5g0024461 RchiOBHm_Chr5g0024471 RchiOBHm_Chr5g0024481 RchiOBHm_Chr5g0024501 RchiOBHm_Chr5g0024511
rosa_laevigata RLG00000032799 RLG00000032800 RLG00000032801 RLG00000032802 RLG00000032803
rosa_multiflora Rmu_sc0000761.1_g000010 Rmu_sc0000761.1_g000014 Rmu_sc0000761.1_g000018 Rmu_sc0000761.1_g000025 Rmu_sc0005861.1_g000002 Rmu_sc0005861.1_g000004 Rmu_sc0005861.1_g000007 Rmu_sc0011809.1_g000001 Rmu_sc0011809.1_g000006
rosa_roxburghii Rroxscaffold_1G00054740 Rroxscaffold_1G00054750 Rroxscaffold_1G00054760 Rroxscaffold_1G00054770 Rroxscaffold_1G00054780 Rroxscaffold_1G00054790 Rroxscaffold_1G00054840 Rroxscaffold_1G00055860 Rroxscaffold_3G00237770 Rroxscaffold_6G00389330
rosa_rugosa Rorug05G0083300 Rorug05G0083400 Rorug05G0083400
rosa_samantha Rh5AG174100 Rh5AG174300 Rh5AG174600 Rh5AG174700 Rh5AG175000 Rh5AG175300 Rh5BG171000 Rh5BG171400 Rh5BG171500 Rh5BG171600 Rh5BG171700 Rh5BG172100 Rh5BG172300 Rh5BG172500 Rh5CG187400 Rh5CG187700 Rh5CG187900 Rh5CG188000 Rh5CG188200 Rh5CG188400 Rh5CG188500 Rh5CG188600 Rh5DG173200 Rh5DG173400 Rh5DG173500 Rh5DG173700 Rh5DG173900 Rh5DG174000 Rh5DG174100
rosa_wichuraiana Rw5G015700 Rw5G015730 Rw5G015740 Rw5G015770 Rw5G015790

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 1 cut(s) 348
AccB7I CCANNNNNTGG 1 cut(s) 646
AccI GTMKAC 1 cut(s) 845
AccII CGCG 1 cut(s) 581
AccIII TCCGGA 1 cut(s) 220
AciI CCGC 5 cut(s) 169, 450, 579, 701, 828
AclWI GGATC 3 cut(s) 24, 432, 737
AcoI YGGCCR 1 cut(s) 334
AcsI RAATTY 1 cut(s) 1017
AcyI GRCGYC 1 cut(s) 576
AfaI GTAC 2 cut(s) 192, 677
AfiI CCNNNNNNNGG 3 cut(s) 358, 361, 646
AgeI ACCGGT 1 cut(s) 150
AgsI TTSAA 2 cut(s) 413, 955
AloI GAACNNNNNNTCC 2 cut(s) 847, 879
AluBI AGCT 5 cut(s) 299, 588, 741, 908, 1053
AluI AGCT 5 cut(s) 299, 588, 741, 908, 1053
Alw26I GTCTC 2 cut(s) 367, 518
AlwI GGATC 3 cut(s) 24, 432, 737
AlwNI CAGNNNCTG 1 cut(s) 115
Ama87I CYCGRG 1 cut(s) 623
Aor13HI TCCGGA 1 cut(s) 220
AoxI GGCC 4 cut(s) 199, 334, 465, 692
ApeKI GCWGC 1 cut(s) 299
ApoI RAATTY 1 cut(s) 1017
ArsI GACNNNNNNTTYG 2 cut(s) 1017, 1049
AsiGI ACCGGT 1 cut(s) 150
Asp700I GAANNNNTTC 1 cut(s) 152
AspS9I GGNCC 1 cut(s) 199
AsuII TTCGAA 1 cut(s) 591
AvaI CYCGRG 1 cut(s) 623
AxyI CCTNAGG 1 cut(s) 116
BanI GGYRCC 1 cut(s) 348
BauI CACGAG 1 cut(s) 194
BbvI GCAGC 1 cut(s) 286
BccI CCATC 2 cut(s) 415, 454
BcgI CGANNNNNNTGC 2 cut(s) 161, 195
BclI TGATCA 1 cut(s) 919
BcoDI GTCTC 2 cut(s) 367, 518
BfaI CTAG 1 cut(s) 1050
BglII AGATCT 1 cut(s) 394
BisI GCNGC 4 cut(s) 170, 300, 579, 701
BlsI GCNGC 4 cut(s) 171, 301, 580, 702
BmeT110I CYCGRG 1 cut(s) 623
BmgT120I GGNCC 1 cut(s) 199
BmiI GGNNCC 3 cut(s) 149, 155, 350
BmrI ACTGGG 1 cut(s) 64
BmsI GCATC 6 cut(s) 4, 194, 273, 502, 514, 696
BmuI ACTGGG 1 cut(s) 64
BplI GAGNNNNNCTC 4 cut(s) 673, 705, 850, 882
Bpu14I TTCGAA 1 cut(s) 591
BpuEI CTTGAG 2 cut(s) 389, 648
BsaHI GRCGYC 1 cut(s) 576
BsaWI WCCGGW 4 cut(s) 150, 220, 678, 980
BsaXI ACNNNNNCTCC 4 cut(s) 51, 81, 824, 854
Bsc4I CCNNNNNNNGG 3 cut(s) 358, 361, 646
Bse118I RCCGGY 1 cut(s) 150
Bse1I ACTGG 2 cut(s) 59, 640
Bse21I CCTNAGG 1 cut(s) 116
Bse3DI GCAATG 4 cut(s) 55, 94, 217, 500
BseAI TCCGGA 1 cut(s) 220
BseGI GGATG 3 cut(s) 229, 285, 446
BseLI CCNNNNNNNGG 3 cut(s) 358, 361, 646
BseMI GCAATG 4 cut(s) 55, 94, 217, 500
BseMII CTCAG 1 cut(s) 107
BseNI ACTGG 2 cut(s) 59, 640
BseRI GAGGAG 1 cut(s) 918
BseXI GCAGC 1 cut(s) 286
BseYI CCCAGC 3 cut(s) 206, 388, 908
BsgI GTGCAG 1 cut(s) 30
Bsh1236I CGCG 1 cut(s) 581
Bsh1285I CGRYCG 1 cut(s) 1015
BshFI GGCC 4 cut(s) 201, 336, 467, 694
BshNI GGYRCC 1 cut(s) 348
BshTI ACCGGT 1 cut(s) 150
BsiEI CGRYCG 1 cut(s) 1015
BsiHKCI CYCGRG 1 cut(s) 623
BsiSI CCGG 5 cut(s) 84, 151, 221, 679, 981
BslFI GGGAC 1 cut(s) 215
BslI CCNNNNNNNGG 3 cut(s) 358, 361, 646
BsmAI GTCTC 2 cut(s) 367, 518
BsmBI CGTCTC 1 cut(s) 518
BsmFI GGGAC 1 cut(s) 215
BsmI GAATGC 2 cut(s) 390, 967
BsnI GGCC 4 cut(s) 201, 336, 467, 694
BsoBI CYCGRG 1 cut(s) 623
Bsp119I TTCGAA 1 cut(s) 591
Bsp13I TCCGGA 1 cut(s) 220
Bsp1407I TGTACA 1 cut(s) 190
Bsp143I GATC 5 cut(s) 29, 394, 424, 729, 919
BspACI CCGC 5 cut(s) 169, 450, 579, 701, 828
BspANI GGCC 4 cut(s) 201, 336, 467, 694
BspCNI CTCAG 1 cut(s) 108
BspEI TCCGGA 1 cut(s) 220
BspFNI CGCG 1 cut(s) 581
BspLI GGNNCC 3 cut(s) 149, 155, 350
BspPI GGATC 3 cut(s) 24, 432, 737
BspT104I TTCGAA 1 cut(s) 591
BspT107I GGYRCC 1 cut(s) 348
BsrDI GCAATG 4 cut(s) 55, 94, 217, 500
BsrFI RCCGGY 1 cut(s) 150
BsrGI TGTACA 1 cut(s) 190
BsrI ACTGG 2 cut(s) 59, 640
BssAI RCCGGY 1 cut(s) 150
BssMI GATC 5 cut(s) 29, 394, 424, 729, 919
BssNAI GTATAC 1 cut(s) 846
BssNI GRCGYC 1 cut(s) 576
BssSI CACGAG 1 cut(s) 194
Bst1107I GTATAC 1 cut(s) 846
Bst2BI CACGAG 1 cut(s) 194
Bst4CI ACNGT 2 cut(s) 341, 1013
Bst6I CTCTTC 2 cut(s) 560, 851
BstACI GRCGYC 1 cut(s) 576
BstAUI TGTACA 1 cut(s) 190
BstBI TTCGAA 1 cut(s) 591
BstC8I GCNNGC 1 cut(s) 687
BstDEI CTNAG 2 cut(s) 116, 545
BstEII GGTNACC 1 cut(s) 983
BstF5I GGATG 3 cut(s) 229, 285, 446
BstFNI CGCG 1 cut(s) 581
BstKTI GATC 5 cut(s) 32, 397, 427, 732, 922
BstMAI GTCTC 2 cut(s) 367, 518
BstMBI GATC 5 cut(s) 29, 394, 424, 729, 919
BstMCI CGRYCG 1 cut(s) 1015
BstMWI GCNNNNNNNGC 6 cut(s) 207, 511, 691, 700, 706, 1050
BstNSI RCATGY 1 cut(s) 1044
BstPI GGTNACC 1 cut(s) 983
BstUI CGCG 1 cut(s) 581
BstV1I GCAGC 1 cut(s) 286
BstX2I RGATCY 3 cut(s) 394, 424, 729
BstYI RGATCY 3 cut(s) 394, 424, 729
BstZ17I GTATAC 1 cut(s) 846
Bsu36I CCTNAGG 1 cut(s) 116
BsuRI GGCC 4 cut(s) 201, 336, 467, 694
BtsCI GGATG 3 cut(s) 229, 285, 446
BtsIMutI CAGTG 1 cut(s) 337
Cac8I GCNNGC 1 cut(s) 687
CaiI CAGNNNCTG 1 cut(s) 115
Cfr10I RCCGGY 1 cut(s) 150
Cfr13I GGNCC 1 cut(s) 199
CseI GACGC 1 cut(s) 584
Csp6I GTAC 2 cut(s) 191, 676
CspAI ACCGGT 1 cut(s) 150
CspCI CAANNNNNGTGG 4 cut(s) 146, 181, 326, 361
CviAII CATG 3 cut(s) 104, 161, 1041
CviQI GTAC 2 cut(s) 191, 676
DdeI CTNAG 2 cut(s) 116, 545
DpnI GATC 5 cut(s) 31, 396, 426, 731, 921
DpnII GATC 5 cut(s) 29, 394, 424, 729, 919
EaeI YGGCCR 1 cut(s) 334
Eam1104I CTCTTC 2 cut(s) 560, 851
EarI CTCTTC 2 cut(s) 560, 851
Eco81I CCTNAGG 1 cut(s) 116
Eco88I CYCGRG 1 cut(s) 623
Eco91I GGTNACC 1 cut(s) 983
EcoO109I RGGNCCY 1 cut(s) 199
EcoO65I GGTNACC 1 cut(s) 983
EcoRI GAATTC 1 cut(s) 1017
Esp3I CGTCTC 1 cut(s) 518
FaeI CATG 3 cut(s) 107, 164, 1044
FaqI GGGAC 1 cut(s) 215
FatI CATG 3 cut(s) 103, 160, 1040
FauI CCCGC 1 cut(s) 821
FbaI TGATCA 1 cut(s) 919
FblI GTMKAC 1 cut(s) 845
Fnu4HI GCNGC 4 cut(s) 170, 300, 579, 701
FokI GGATG 3 cut(s) 236, 292, 433
Fsp4HI GCNGC 4 cut(s) 170, 300, 579, 701
FspBI CTAG 1 cut(s) 1050
GluI GCNGC 4 cut(s) 170, 300, 579, 701
GsaI CCCAGC 3 cut(s) 210, 392, 912
HaeIII GGCC 4 cut(s) 201, 336, 467, 694
HapII CCGG 5 cut(s) 84, 151, 221, 679, 981
HgaI GACGC 1 cut(s) 584
Hin1I GRCGYC 1 cut(s) 576
Hin1II CATG 3 cut(s) 107, 164, 1044
HindIII AAGCTT 1 cut(s) 586
HinfI GANTC 2 cut(s) 248, 786
HpaII CCGG 5 cut(s) 84, 151, 221, 679, 981
Hpy166II GTNNAC 2 cut(s) 193, 846
Hpy188I TCNGA 4 cut(s) 147, 607, 785, 855
Hpy188III TCNNGA 4 cut(s) 221, 368, 473, 1022
Hpy8I GTNNAC 2 cut(s) 193, 846
HpyAV CCTTC 5 cut(s) 212, 490, 555, 961, 987
HpyCH4III ACNGT 2 cut(s) 341, 1013
HpyCH4V TGCA 8 cut(s) 11, 48, 72, 273, 505, 539, 630, 1044
HpyF10VI GCNNNNNNNGC 6 cut(s) 207, 511, 691, 700, 706, 1050
HpyF3I CTNAG 2 cut(s) 116, 545
Hsp92I GRCGYC 1 cut(s) 576
Hsp92II CATG 3 cut(s) 107, 164, 1044
Kpn2I TCCGGA 1 cut(s) 220
Ksp22I TGATCA 1 cut(s) 919
Kzo9I GATC 5 cut(s) 29, 394, 424, 729, 919
LmnI GCTCC 1 cut(s) 905
Lsp1109I GCAGC 1 cut(s) 286
LweI GCATC 6 cut(s) 4, 194, 273, 502, 514, 696
MaeI CTAG 1 cut(s) 1050
MaeIII GTNAC 3 cut(s) 214, 983, 1036
MalI GATC 5 cut(s) 31, 396, 426, 731, 921
MboI GATC 5 cut(s) 29, 394, 424, 729, 919
MboII GAAGA 7 cut(s) 17, 170, 500, 561, 570, 577, 868
MflI RGATCY 3 cut(s) 394, 424, 729
MluCI AATT 3 cut(s) 75, 955, 1017
MmeI TCCRAC 1 cut(s) 916
MnlI CCTC 9 cut(s) 111, 190, 561, 675, 705, 762, 826, 878, 896
MroI TCCGGA 1 cut(s) 220
MroXI GAANNNNTTC 1 cut(s) 152
MseI TTAA 1 cut(s) 737
MslI CAYNNNNRTG 2 cut(s) 102, 278
MspI CCGG 5 cut(s) 84, 151, 221, 679, 981
Mva1269I GAATGC 2 cut(s) 390, 967
MvnI CGCG 1 cut(s) 581
MwoI GCNNNNNNNGC 6 cut(s) 207, 511, 691, 700, 706, 1050
NdeII GATC 5 cut(s) 29, 394, 424, 729, 919
NlaIII CATG 3 cut(s) 107, 164, 1044
NlaIV GGNNCC 3 cut(s) 149, 155, 350
NmeAIII GCCGAG 1 cut(s) 670
NspI RCATGY 1 cut(s) 1044
NspV TTCGAA 1 cut(s) 591
PaeR7I CTCGAG 1 cut(s) 623
PcsI WCGNNNNNNNCGW 2 cut(s) 611, 642
PctI GAATGC 2 cut(s) 390, 967
PdmI GAANNNNTTC 1 cut(s) 152
PfeI GAWTC 2 cut(s) 248, 786
PflMI CCANNNNNTGG 1 cut(s) 646
PinAI ACCGGT 1 cut(s) 150
PkrI GCNGC 4 cut(s) 171, 301, 580, 702
PspEI GGTNACC 1 cut(s) 983
PspFI CCCAGC 3 cut(s) 206, 388, 908
PspN4I GGNNCC 3 cut(s) 149, 155, 350
PspPI GGNCC 1 cut(s) 199
PspXI VCTCGAGB 1 cut(s) 623
PstNI CAGNNNCTG 1 cut(s) 115
PsuI RGATCY 3 cut(s) 394, 424, 729
RsaI GTAC 2 cut(s) 192, 677
RsaNI GTAC 2 cut(s) 191, 676
RseI CAYNNNNRTG 2 cut(s) 102, 278
SaqAI TTAA 1 cut(s) 737
SatI GCNGC 4 cut(s) 170, 300, 579, 701
Sau3AI GATC 5 cut(s) 29, 394, 424, 729, 919
Sau96I GGNCC 1 cut(s) 199
SfaNI GCATC 6 cut(s) 4, 194, 273, 502, 514, 696
Sfr274I CTCGAG 1 cut(s) 623
SfuI TTCGAA 1 cut(s) 591
SlaI CTCGAG 1 cut(s) 623
SmiMI CAYNNNNRTG 2 cut(s) 102, 278
SmlI CTYRAG 3 cut(s) 368, 623, 663
SmoI CTYRAG 3 cut(s) 368, 623, 663
Sse9I AATT 3 cut(s) 75, 955, 1017
SsiI CCGC 5 cut(s) 169, 450, 579, 701, 828
SspMI CTAG 1 cut(s) 1050
TaaI ACNGT 2 cut(s) 341, 1013
TaqI TCGA 9 cut(s) 28, 181, 591, 624, 636, 711, 883, 1015, 1023
TasI AATT 3 cut(s) 75, 955, 1017
TatI WGTACW 1 cut(s) 190
TauI GCSGC 3 cut(s) 172, 581, 703
TfiI GAWTC 2 cut(s) 248, 786
Tru1I TTAA 1 cut(s) 737
Tru9I TTAA 1 cut(s) 737
TscAI CASTG 1 cut(s) 344
TseI GCWGC 1 cut(s) 299
TspDTI ATGAA 4 cut(s) 120, 416, 633, 906
TspRI CASTG 1 cut(s) 344
Van91I CCANNNNNTGG 1 cut(s) 646
XapI RAATTY 1 cut(s) 1017
XceI RCATGY 1 cut(s) 1044
XcmI CCANNNNNNNNNTGG 1 cut(s) 302
XhoI CTCGAG 1 cut(s) 623
XmiI GTMKAC 1 cut(s) 845
XmnI GAANNNNTTC 1 cut(s) 152
XspI CTAG 1 cut(s) 1050
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.