Rh4DG128600

UPF0505 protein C16orf62 homolog

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr4D
OG0000450
Physical Location & Seq
Forward (+)
21288199 .. 21302421
14223 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh4DG128600.1

Sequence Viewer

Length: 534 bp
ATGGAAGAATTTACTGTCCATGCATCAAATGTTGATGACACCAAGAATGAGAGTGAAGATTTTTTGTGCTGTTGGGGAAAGCTTCTAGGAAATGACATACTGTTCTTTGGTCATTCATCGTATTTAAGTGAGCTTGCCTTGATATGCAATTTTGTTCTTCAGAACCTAGCTGATACTATTCAACAAGAACCTTCCAAGGGTGCTCGTGGAAGTATGCCGCTTGAAGCTTGCAACTGCATCGCATCATCTTTCATTGATTTTTCTATTTGTAATTCATATCTATTTGCAACGAAACCAAAGAGTAGCAAAAGACCATTAAGCACATATAGTATTACACCTTCTAATGACAGTGAAGAGCAAGAAACTGAAGAGACAGGGTCTGAGTCTCAACCTTCAAATGCAACAGGTCCCCCTAAGAAGAAAGGTAGAGGGGGAGCCAAGGGTGAAAAGGGACATGACATGCCAGCTGATATACATGATGGAAGGATCATAACCCCTCAAGCAACACGTGCAATATTCCCACTCTTCAAGTAA
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
Vps35

Protein Analysis

177

Amino Acids

19.33

Weight (kDa)

5.09

Isoelectric Point (pI)

45.91

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: OG0000450)

Species Orthologous Gene IDs
fragaria_vesca FvH4_1g20080 FvH4_1g23272 FvH4_1g24190 FvH4_1g24191 FvH4_2g16992 FvH4_4g20600 FvH4_5g37430 FvH4_6g13850 FvH4_6g23331 FvH4_7g07732
prunus_persica Prupe.2G062800_v2.0.a1 Prupe.7G020400_v2.0.a1
rosa_chinensis RchiOBHm_Chr2g0159341 RchiOBHm_Chr3g0461151 RchiOBHm_Chr3g0471341 RchiOBHm_Chr5g0079051
rosa_laevigata RLG00000013771 RLG00000016694 RLG00000019616 RLG00000020143 RLG00000022642 RLG00000030165
rosa_multiflora Rmu_sc0000058.1_g000010 Rmu_sc0000898.1_g000045 Rmu_sc0001200.1_g000007 Rmu_sc0001200.1_g000008 Rmu_sc0001323.1_g000001 Rmu_sc0002194.1_g000008 Rmu_sc0002206.1_g000017 Rmu_sc0002230.1_g000001 Rmu_sc0002280.1_g000001 Rmu_sc0003047.1_g000022 Rmu_sc0003623.1_g000007 Rmu_sc0003835.1_g000012
rosa_roxburghii Rroxscaffold_1G00019590 Rroxscaffold_1G00029010 Rroxscaffold_1G00029250 Rroxscaffold_1G00031650 Rroxscaffold_1G00031660 Rroxscaffold_1G00052850 Rroxscaffold_2G00144000 Rroxscaffold_3G00231810 Rroxscaffold_3G00245070 Rroxscaffold_3G00268690 Rroxscaffold_4G00312920 Rroxscaffold_5G00350060 Rroxscaffold_6G00412590 Rroxscaffold_6G00412600 Rroxscaffold_6G00420320 Rroxscaffold_7G00192970 Rroxscaffold_7G00197810 Rroxscaffold_7G00208250
rosa_rugosa Rorug01G0074000 Rorug01G0273600.1 Rorug01G0273700 Rorug03G0275700 Rorug04G0060600 Rorug04G0063100 Rorug04G0170400 Rorug05G0185600 Rorug05G0224200 Rorug05G0234600
rosa_samantha Rh1CG227300 Rh1DG133300 Rh1DG133400 Rh2AG004600 Rh2BG038900 Rh3BG045400 Rh3BG359100 Rh3BG359200 Rh3CG044000 Rh3CG355700 Rh4CG188000 Rh4CG217400 Rh4DG018500 Rh4DG092800 Rh4DG128600 Rh4DG141700 Rh5CG305800 Rh5DG275100 Rh5DG430600 Rh6DG316100
rosa_wichuraiana Rw0G005510 Rw0G010440 Rw0G010450 Rw1G018670 Rw3G028280 Rw4G010530 Rw4G010930 Rw4G012110 Rw4G012720 Rw5G007170 Rw7G023020

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AciI CCGC 1 cut(s) 218
AclWI GGATC 1 cut(s) 494
AcsI RAATTY 1 cut(s) 8
AcuI CTGAAG 2 cut(s) 143, 387
AcvI CACGTG 1 cut(s) 509
AfiI CCNNNNNNNGG 1 cut(s) 197
AflIII ACRYGT 1 cut(s) 506
AgsI TTSAA 4 cut(s) 182, 224, 396, 529
AluBI AGCT 5 cut(s) 82, 133, 170, 227, 467
AluI AGCT 5 cut(s) 82, 133, 170, 227, 467
Alw21I GWGCWC 1 cut(s) 205
Alw26I GTCTC 2 cut(s) 365, 390
AlwI GGATC 1 cut(s) 494
AlwNI CAGNNNCTG 1 cut(s) 380
ApoI RAATTY 1 cut(s) 8
AspS9I GGNCC 1 cut(s) 407
AsuHPI GGTGA 1 cut(s) 455
AvaII GGWCC 1 cut(s) 407
BarI GAAGNNNNNNTAC 2 cut(s) 322, 354
BauI CACGAG 1 cut(s) 204
BbrPI CACGTG 1 cut(s) 509
Bbv12I GWGCWC 1 cut(s) 205
BccI CCATC 1 cut(s) 473
BcgI CGANNNNNNTGC 2 cut(s) 220, 254
BcoDI GTCTC 2 cut(s) 365, 390
BfaI CTAG 2 cut(s) 86, 167
BisI GCNGC 1 cut(s) 218
BlsI GCNGC 1 cut(s) 219
Bme18I GGWCC 1 cut(s) 407
BmgT120I GGNCC 1 cut(s) 407
BmiI GGNNCC 2 cut(s) 409, 436
BmsI GCATC 3 cut(s) 32, 246, 251
BpuEI CTTGAG 1 cut(s) 483
BsaAI YACGTR 1 cut(s) 509
BsaJI CCNNGG 2 cut(s) 195, 438
Bsc4I CCNNNNNNNGG 1 cut(s) 197
BseDI CCNNGG 2 cut(s) 195, 438
BseLI CCNNNNNNNGG 1 cut(s) 197
BseMII CTCAG 1 cut(s) 372
BsiHKAI GWGCWC 1 cut(s) 205
BslFI GGGAC 2 cut(s) 393, 465
BslI CCNNNNNNNGG 1 cut(s) 197
BsmAI GTCTC 2 cut(s) 365, 390
BsmFI GGGAC 2 cut(s) 393, 465
Bsp1286I GDGCHC 1 cut(s) 205
Bsp143I GATC 1 cut(s) 486
BspACI CCGC 1 cut(s) 218
BspCNI CTCAG 1 cut(s) 373
BspLI GGNNCC 2 cut(s) 409, 436
BspPI GGATC 1 cut(s) 494
BspQI GCTCTTC 1 cut(s) 348
BssECI CCNNGG 2 cut(s) 195, 438
BssMI GATC 1 cut(s) 486
BssSI CACGAG 1 cut(s) 204
BssT1I CCWWGG 2 cut(s) 195, 438
Bst2BI CACGAG 1 cut(s) 204
Bst4CI ACNGT 3 cut(s) 16, 102, 350
Bst6I CTCTTC 3 cut(s) 348, 363, 530
BstAPI GCANNNNNTGC 1 cut(s) 509
BstBAI YACGTR 1 cut(s) 509
BstC8I GCNNGC 3 cut(s) 135, 229, 465
BstDEI CTNAG 2 cut(s) 381, 414
BstKTI GATC 1 cut(s) 489
BstMAI GTCTC 2 cut(s) 365, 390
BstMBI GATC 1 cut(s) 486
BstMWI GCNNNNNNNGC 1 cut(s) 509
BstNSI RCATGY 1 cut(s) 463
BtgZI GCGATG 1 cut(s) 223
BtsIMutI CAGTG 1 cut(s) 355
Cac8I GCNNGC 3 cut(s) 135, 229, 465
CaiI CAGNNNCTG 1 cut(s) 380
Cfr13I GGNCC 1 cut(s) 407
CviAII CATG 4 cut(s) 20, 455, 460, 476
CviJI RGCY 6 cut(s) 82, 133, 170, 227, 437, 467
CviKI_1 RGCY 6 cut(s) 82, 133, 170, 227, 437, 467
DdeI CTNAG 2 cut(s) 381, 414
DpnI GATC 1 cut(s) 488
DpnII GATC 1 cut(s) 486
Eam1104I CTCTTC 3 cut(s) 348, 363, 530
EarI CTCTTC 3 cut(s) 348, 363, 530
Eco130I CCWWGG 2 cut(s) 195, 438
Eco47I GGWCC 1 cut(s) 407
Eco57I CTGAAG 2 cut(s) 143, 387
Eco72I CACGTG 1 cut(s) 509
EcoO109I RGGNCCY 1 cut(s) 407
EcoT14I CCWWGG 2 cut(s) 195, 438
EcoT22I ATGCAT 1 cut(s) 25
ErhI CCWWGG 2 cut(s) 195, 438
FaeI CATG 4 cut(s) 23, 458, 463, 479
FaqI GGGAC 2 cut(s) 393, 465
FatI CATG 4 cut(s) 19, 454, 459, 475
Fnu4HI GCNGC 1 cut(s) 218
Fsp4HI GCNGC 1 cut(s) 218
FspBI CTAG 2 cut(s) 86, 167
GluI GCNGC 1 cut(s) 218
Hin1II CATG 4 cut(s) 23, 458, 463, 479
HindIII AAGCTT 2 cut(s) 80, 225
HinfI GANTC 1 cut(s) 383
HphI GGTGA 1 cut(s) 455
Hpy188I TCNGA 2 cut(s) 162, 382
HpyAV CCTTC 4 cut(s) 201, 348, 402, 477
HpyCH4III ACNGT 3 cut(s) 16, 102, 350
HpyCH4IV ACGT 1 cut(s) 508
HpyCH4V TGCA 7 cut(s) 23, 147, 231, 237, 287, 401, 512
HpyF10VI GCNNNNNNNGC 1 cut(s) 509
HpyF3I CTNAG 2 cut(s) 381, 414
HpySE526I ACGT 1 cut(s) 508
Hsp92II CATG 4 cut(s) 23, 458, 463, 479
Kzo9I GATC 1 cut(s) 486
LguI GCTCTTC 1 cut(s) 348
LmnI GCTCC 1 cut(s) 434
LpnPI CCDG 3 cut(s) 360, 390, 477
LweI GCATC 3 cut(s) 32, 246, 251
MaeI CTAG 2 cut(s) 86, 167
MaeII ACGT 1 cut(s) 508
MalI GATC 1 cut(s) 488
MboI GATC 1 cut(s) 486
MboII GAAGA 7 cut(s) 17, 68, 149, 365, 380, 430, 517
MhlI GDGCHC 1 cut(s) 205
MluCI AATT 3 cut(s) 8, 148, 271
MlyI GAGTC 1 cut(s) 392
MnlI CCTC 2 cut(s) 422, 507
Mph1103I ATGCAT 1 cut(s) 25
MseI TTAA 2 cut(s) 125, 317
MspA1I CMGCKG 1 cut(s) 467
MwoI GCNNNNNNNGC 1 cut(s) 509
NdeII GATC 1 cut(s) 486
NlaIII CATG 4 cut(s) 23, 458, 463, 479
NlaIV GGNNCC 2 cut(s) 409, 436
NsiI ATGCAT 1 cut(s) 25
NspI RCATGY 1 cut(s) 463
PciSI GCTCTTC 1 cut(s) 348
PflFI GACNNNGTC 1 cut(s) 376
PkrI GCNGC 1 cut(s) 219
PleI GAGTC 1 cut(s) 391
PmaCI CACGTG 1 cut(s) 509
PmlI CACGTG 1 cut(s) 509
PpsI GAGTC 1 cut(s) 391
Ppu21I YACGTR 1 cut(s) 509
PpuMI RGGWCCY 1 cut(s) 407
Psp5II RGGWCCY 1 cut(s) 407
PspCI CACGTG 1 cut(s) 509
PspN4I GGNNCC 2 cut(s) 409, 436
PspPI GGNCC 1 cut(s) 407
PspPPI RGGWCCY 1 cut(s) 407
PstNI CAGNNNCTG 1 cut(s) 380
PsyI GACNNNGTC 1 cut(s) 376
PvuII CAGCTG 1 cut(s) 467
SapI GCTCTTC 1 cut(s) 348
SaqAI TTAA 2 cut(s) 125, 317
SatI GCNGC 1 cut(s) 218
Sau3AI GATC 1 cut(s) 486
Sau96I GGNCC 1 cut(s) 407
SchI GAGTC 1 cut(s) 392
SduI GDGCHC 1 cut(s) 205
SfaNI GCATC 3 cut(s) 32, 246, 251
SinI GGWCC 1 cut(s) 407
SmlI CTYRAG 1 cut(s) 498
SmoI CTYRAG 1 cut(s) 498
Sse9I AATT 3 cut(s) 8, 148, 271
SsiI CCGC 1 cut(s) 218
SspI AATATT 1 cut(s) 516
SspMI CTAG 2 cut(s) 86, 167
StyI CCWWGG 2 cut(s) 195, 438
TaaI ACNGT 3 cut(s) 16, 102, 350
TaiI ACGT 1 cut(s) 511
TasI AATT 3 cut(s) 8, 148, 271
TauI GCSGC 1 cut(s) 220
Tru1I TTAA 2 cut(s) 125, 317
Tru9I TTAA 2 cut(s) 125, 317
TscAI CASTG 1 cut(s) 355
TspDTI ATGAA 3 cut(s) 105, 241, 264
TspRI CASTG 1 cut(s) 355
Tth111I GACNNNGTC 1 cut(s) 376
VpaK11BI GGWCC 1 cut(s) 407
XapI RAATTY 1 cut(s) 8
XceI RCATGY 1 cut(s) 463
XspI CTAG 2 cut(s) 86, 167
Zsp2I ATGCAT 1 cut(s) 25
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.