Rroxscaffold_3G00276300

UPF0426 protein At1g28150

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000003
OG0014155
Physical Location & Seq
Reverse (-)
67568516 .. 67571038
2523 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_3G00276300.1

Sequence Viewer

Length: 558 bp
ATGGGAACAGATCCGGAAGGCGTTCCTTGTGCGTGGTGCGGCGATTGTGGTGCCACCGAGGTTGACCGAAGATGGCGGTGGGGGCCGAGGATGCCGAAGTGCGGTGGTGATGTCTCCGAAAAAGAGCGAGTTGAATACGGGAAGCAGAAGAAGCAGCAGAGGGGAAGGCAGCAGAGGAAGCTCAATATGTCAGTCTCACTTGTCAATGTTTCTTCGTGTGCACAGCCACTGTGGAAATCAAAGAAGCTCATAAAACCCTCGGCGTTAACAAAGAAGCTGAATCCCAGCAGCACAAGAGTGCGTTTGGGAAACAATCACGGGGTTAAAGCGTTTTTCTCCAATCCTATTGAAGAACCCATTGTCAGAAAAGCGCTTCAGGAACCAGTTGCTTTCATGGGAGGGATATTTGCAGGCCTTCTACGACTTGATTTGAATGATGATCCACTCAAGGAGTGGGTTTCAAGGACTGTGGAAGCCTCAGGCTTTACAGAGGAAGAAGTTGATGCTGAAGGATTAAACCCTGAAGAAGAAACCCCGCAACAGATTGAGATTGAATAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0009507 GO:0009532 GO:0009536 GO:0009570 GO:0010287 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044422 GO:0044424 GO:0044434 GO:0044435 GO:0044444 GO:0044446 GO:0044464
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
No domains found.

Protein Analysis

185

Amino Acids

20.71

Weight (kDa)

7.59

Isoelectric Point (pI)

60.12

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
UPF0426 PF26369 124 - 157 6.2e-18 UPF0426 family 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: OG0014155)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G28150 AT1G28150
fragaria_vesca FvH4_5g18600
malus_domestica MD06G1241100.v1.1 MD14G1247300.v1.1
prunus_persica Prupe.5G245400_v2.0.a1
pyrus_communis pycom06g21620
rosa_chinensis RchiOBHm_Chr7g0176901
rosa_laevigata RLG00000005574
rosa_multiflora Rmu_sc0005310.1_g000045
rosa_roxburghii Rroxscaffold_3G00276300
rosa_rugosa Rorug06G0401700
rosa_samantha Rh7AG001200 Rh7BG001600 Rh7CG001000 Rh7DG001300
rosa_wichuraiana Rw7G000090

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 1 cut(s) 50
AccIII TCCGGA 1 cut(s) 13
AciI CCGC 4 cut(s) 39, 76, 102, 536
AclWI GGATC 2 cut(s) 5, 434
AcuI CTGAAG 3 cut(s) 359, 528, 543
AfeI AGCGCT 1 cut(s) 372
AfiI CCNNNNNNNGG 1 cut(s) 101
AgsI TTSAA 5 cut(s) 134, 350, 433, 462, 554
AleI CACNNNNGTG 1 cut(s) 296
AluBI AGCT 3 cut(s) 181, 247, 277
AluI AGCT 3 cut(s) 181, 247, 277
Alw21I GWGCWC 1 cut(s) 223
Alw26I GTCTC 2 cut(s) 118, 199
Alw44I GTGCAC 1 cut(s) 219
AlwI GGATC 2 cut(s) 5, 434
AlwNI CAGNNNCTG 1 cut(s) 229
Aor13HI TCCGGA 1 cut(s) 13
Aor51HI AGCGCT 1 cut(s) 372
AoxI GGCC 2 cut(s) 83, 412
ApaLI GTGCAC 1 cut(s) 219
ApeKI GCWGC 3 cut(s) 154, 169, 288
Asp700I GAANNNNTTC 1 cut(s) 21
AspLEI GCGC 1 cut(s) 373
AspS9I GGNCC 1 cut(s) 83
AsuHPI GGTGA 1 cut(s) 119
AxyI CCTNAGG 1 cut(s) 478
BaeGI GKGCMC 1 cut(s) 223
BanI GGYRCC 1 cut(s) 50
Bbv12I GWGCWC 1 cut(s) 223
BbvI GCAGC 3 cut(s) 166, 181, 300
BccI CCATC 1 cut(s) 66
BcgI CGANNNNNNTGC 2 cut(s) 32, 66
BcoDI GTCTC 2 cut(s) 118, 199
BfoI RGCGCY 1 cut(s) 374
BisI GCNGC 4 cut(s) 40, 155, 170, 289
BlsI GCNGC 4 cut(s) 41, 156, 171, 290
BmgT120I GGNCC 1 cut(s) 83
BmiI GGNNCC 3 cut(s) 52, 84, 381
BmsI GCATC 2 cut(s) 81, 493
BpuEI CTTGAG 1 cut(s) 431
BsaJI CCNNGG 3 cut(s) 57, 86, 258
BsaWI WCCGGW 1 cut(s) 13
Bsc4I CCNNNNNNNGG 1 cut(s) 101
Bse1I ACTGG 1 cut(s) 383
Bse21I CCTNAGG 1 cut(s) 478
BseAI TCCGGA 1 cut(s) 13
BseDI CCNNGG 3 cut(s) 57, 86, 258
BseGI GGATG 1 cut(s) 96
BseLI CCNNNNNNNGG 1 cut(s) 101
BseMII CTCAG 1 cut(s) 492
BseNI ACTGG 1 cut(s) 383
BseSI GKGCMC 1 cut(s) 223
BseXI GCAGC 3 cut(s) 166, 181, 300
BseYI CCCAGC 1 cut(s) 284
BshFI GGCC 2 cut(s) 85, 414
BshNI GGYRCC 1 cut(s) 50
BsiHKAI GWGCWC 1 cut(s) 223
BsiSI CCGG 1 cut(s) 14
BslI CCNNNNNNNGG 1 cut(s) 101
BsmAI GTCTC 2 cut(s) 118, 199
BsnI GGCC 2 cut(s) 85, 414
Bsp1286I GDGCHC 1 cut(s) 223
Bsp13I TCCGGA 1 cut(s) 13
Bsp143I GATC 2 cut(s) 10, 439
BspACI CCGC 4 cut(s) 39, 76, 102, 536
BspANI GGCC 2 cut(s) 85, 414
BspCNI CTCAG 1 cut(s) 491
BspEI TCCGGA 1 cut(s) 13
BspLI GGNNCC 3 cut(s) 52, 84, 381
BspPI GGATC 2 cut(s) 5, 434
BspT107I GGYRCC 1 cut(s) 50
BsrI ACTGG 1 cut(s) 383
BssECI CCNNGG 3 cut(s) 57, 86, 258
BssMI GATC 2 cut(s) 10, 439
Bst4CI ACNGT 2 cut(s) 231, 469
BstC8I GCNNGC 1 cut(s) 412
BstDEI CTNAG 1 cut(s) 478
BstF5I GGATG 1 cut(s) 96
BstH2I RGCGCY 1 cut(s) 374
BstHHI GCGC 1 cut(s) 373
BstKTI GATC 2 cut(s) 13, 442
BstMAI GTCTC 2 cut(s) 118, 199
BstMBI GATC 2 cut(s) 10, 439
BstMWI GCNNNNNNNGC 4 cut(s) 82, 91, 151, 178
BstSLI GKGCMC 1 cut(s) 223
BstV1I GCAGC 3 cut(s) 166, 181, 300
BstX2I RGATCY 1 cut(s) 10
BstYI RGATCY 1 cut(s) 10
Bsu36I CCTNAGG 1 cut(s) 478
BsuRI GGCC 2 cut(s) 85, 414
BtsCI GGATG 1 cut(s) 96
BtsIMutI CAGTG 1 cut(s) 227
Cac8I GCNNGC 1 cut(s) 412
CaiI CAGNNNCTG 1 cut(s) 229
CfoI GCGC 1 cut(s) 373
Cfr13I GGNCC 1 cut(s) 83
CspCI CAANNNNNGTGG 4 cut(s) 43, 78, 450, 485
CviAII CATG 1 cut(s) 394
CviJI RGCY 8 cut(s) 85, 181, 226, 247, 277, 414, 476, 483
CviKI_1 RGCY 8 cut(s) 85, 181, 226, 247, 277, 414, 476, 483
DdeI CTNAG 1 cut(s) 478
DpnI GATC 2 cut(s) 12, 441
DpnII GATC 2 cut(s) 10, 439
Eco147I AGGCCT 1 cut(s) 414
Eco47III AGCGCT 1 cut(s) 372
Eco57I CTGAAG 3 cut(s) 359, 528, 543
Eco81I CCTNAGG 1 cut(s) 478
FaeI CATG 1 cut(s) 397
FaiI YATR 3 cut(s) 188, 251, 395
FatI CATG 1 cut(s) 393
FauI CCCGC 1 cut(s) 543
Fnu4HI GCNGC 4 cut(s) 40, 155, 170, 289
FokI GGATG 1 cut(s) 103
Fsp4HI GCNGC 4 cut(s) 40, 155, 170, 289
GlaI GCGC 1 cut(s) 372
GluI GCNGC 4 cut(s) 40, 155, 170, 289
GsaI CCCAGC 1 cut(s) 288
HaeII RGCGCY 1 cut(s) 374
HaeIII GGCC 2 cut(s) 85, 414
HapII CCGG 1 cut(s) 14
HhaI GCGC 1 cut(s) 373
Hin1II CATG 1 cut(s) 397
Hin6I GCGC 1 cut(s) 371
HinP1I GCGC 1 cut(s) 371
HincII GTYRAC 2 cut(s) 64, 267
HindII GTYRAC 2 cut(s) 64, 267
HinfI GANTC 1 cut(s) 280
HpaI GTTAAC 1 cut(s) 267
HpaII CCGG 1 cut(s) 14
HphI GGTGA 1 cut(s) 119
Hpy166II GTNNAC 3 cut(s) 64, 221, 267
Hpy188I TCNGA 2 cut(s) 118, 365
Hpy188III TCNNGA 2 cut(s) 14, 377
Hpy8I GTNNAC 3 cut(s) 64, 221, 267
HpyAV CCTTC 4 cut(s) 11, 159, 425, 503
HpyCH4III ACNGT 2 cut(s) 231, 469
HpyCH4V TGCA 2 cut(s) 221, 410
HpyF10VI GCNNNNNNNGC 4 cut(s) 82, 91, 151, 178
HpyF3I CTNAG 1 cut(s) 478
Hsp92II CATG 1 cut(s) 397
HspAI GCGC 1 cut(s) 371
Kpn2I TCCGGA 1 cut(s) 13
KspAI GTTAAC 1 cut(s) 267
Kzo9I GATC 2 cut(s) 10, 439
LpnPI CCDG 7 cut(s) 27, 298, 362, 396, 396, 465, 534
Lsp1109I GCAGC 3 cut(s) 166, 181, 300
LweI GCATC 2 cut(s) 81, 493
MalI GATC 2 cut(s) 12, 441
MboI GATC 2 cut(s) 10, 439
MboII GAAGA 7 cut(s) 81, 160, 204, 362, 506, 536, 539
MflI RGATCY 1 cut(s) 10
MhlI GDGCHC 1 cut(s) 223
MnlI CCTC 8 cut(s) 52, 81, 153, 168, 268, 392, 484, 487
MroI TCCGGA 1 cut(s) 13
MroXI GAANNNNTTC 1 cut(s) 21
MseI TTAA 3 cut(s) 266, 324, 515
MslI CAYNNNNRTG 1 cut(s) 296
MspI CCGG 1 cut(s) 14
MwoI GCNNNNNNNGC 4 cut(s) 82, 91, 151, 178
NdeII GATC 2 cut(s) 10, 439
NlaIII CATG 1 cut(s) 397
NlaIV GGNNCC 3 cut(s) 52, 84, 381
NmeAIII GCCGAG 2 cut(s) 111, 239
OliI CACNNNNGTG 1 cut(s) 296
PceI AGGCCT 1 cut(s) 414
PdmI GAANNNNTTC 1 cut(s) 21
PfeI GAWTC 1 cut(s) 280
PkrI GCNGC 4 cut(s) 41, 156, 171, 290
PspFI CCCAGC 1 cut(s) 284
PspN4I GGNNCC 3 cut(s) 52, 84, 381
PspPI GGNCC 1 cut(s) 83
PstNI CAGNNNCTG 1 cut(s) 229
PsuI RGATCY 1 cut(s) 10
RseI CAYNNNNRTG 1 cut(s) 296
SaqAI TTAA 3 cut(s) 266, 324, 515
SatI GCNGC 4 cut(s) 40, 155, 170, 289
Sau3AI GATC 2 cut(s) 10, 439
Sau96I GGNCC 1 cut(s) 83
SduI GDGCHC 1 cut(s) 223
SetI ASST 4 cut(s) 63, 183, 249, 279
SfaNI GCATC 2 cut(s) 81, 493
SmiMI CAYNNNNRTG 1 cut(s) 296
SmlI CTYRAG 1 cut(s) 446
SmoI CTYRAG 1 cut(s) 446
SseBI AGGCCT 1 cut(s) 414
SsiI CCGC 4 cut(s) 39, 76, 102, 536
StuI AGGCCT 1 cut(s) 414
TaaI ACNGT 2 cut(s) 231, 469
TaqII GACCGA 1 cut(s) 81
TauI GCSGC 1 cut(s) 42
TfiI GAWTC 1 cut(s) 280
Tru1I TTAA 3 cut(s) 266, 324, 515
Tru9I TTAA 3 cut(s) 266, 324, 515
TscAI CASTG 1 cut(s) 234
TseI GCWGC 3 cut(s) 154, 169, 288
TspDTI ATGAA 1 cut(s) 382
TspRI CASTG 1 cut(s) 234
VneI GTGCAC 1 cut(s) 219
XcmI CCANNNNNNNNNTGG 1 cut(s) 450
XmnI GAANNNNTTC 1 cut(s) 21
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.