Rw1G030360

Pfam:DUF1950

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr1
OG0017745
Physical Location & Seq
Forward (+)
58293668 .. 58294701
1034 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw1G030360.1

Sequence Viewer

Length: 510 bp
ATGCTAAGACGTCGTTGTCCTTTAAGCTACCAGCATCTACTTATGTCGGATTCAGAGACGGAGTCCGATGATCTAAGTGAAATGTGTAATGCTCGAGTTGGATTGAGCAAAAAGAGGGGAAAATCCACCGTAAATGAAGGAAGGAAAGTTGCGGAAGAGTATCAAGAACACATGAAGAAGATACCGATCCCAATGATTCGCCGATCGGATGCTATGTTTATCACTTGGCATTCATTAGCTAATTCCATGAAGCAATTTTATGGCCAACCATTGCACTACCTGACTCATGTTCTTGTGAAGCAGTGGGATCAGTCAAGAATAGGTAATGCGGATGAAGAGAAGCCAATGGACAACATTATTCATTCAAGGAAAGCTGAATCTACCATATGGGGTGTTGAGGAAGTCCACAGGCGTTGTACTTCTCACATTCATTTGGCTAAGCTGTGGCTTTCTGACCCGGATTACACTGCTGTTGTTGGTGACGTCATCACCTCTAAATTGGTTGCATGA
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
RdDM_RDM1

Protein Analysis

169

Amino Acids

19.55

Weight (kDa)

8.42

Isoelectric Point (pI)

61.42

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RdDM_RDM1 PF09187 49 - 163 3.9e-49 RNA-directed DNA methylation 1
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Orthologous Genes (Group: OG0017745)

Species Orthologous Gene IDs
prunus_persica Prupe.2G235500_v2.0.a1
rosa_chinensis RchiOBHm_Chr1g0367131
rosa_laevigata RLG00000027295
rosa_multiflora Rmu_sc0007844.1_g000004 Rmu_sc0017251.1_g000001
rosa_roxburghii Rroxscaffold_4G00289590
rosa_rugosa Rorug01G0334900
rosa_samantha Rh1AG341600 Rh1BG302100 Rh1CG318500 Rh1DG334600
rosa_wichuraiana Rw1G030360

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AasI GACNNNNNNGTC 1 cut(s) 15
AatII GACGTC 2 cut(s) 13, 486
AciI CCGC 2 cut(s) 152, 329
AclWI GGATC 2 cut(s) 181, 315
AcoI YGGCCR 1 cut(s) 262
AcyI GRCGYC 2 cut(s) 10, 483
AfaI GTAC 1 cut(s) 418
AgsI TTSAA 1 cut(s) 366
AluBI AGCT 4 cut(s) 27, 239, 374, 442
AluI AGCT 4 cut(s) 27, 239, 374, 442
Alw26I GTCTC 1 cut(s) 50
AlwI GGATC 2 cut(s) 181, 315
Ama87I CYCGRG 1 cut(s) 93
AoxI GGCC 1 cut(s) 262
AsuC2I CCSGG 1 cut(s) 458
AsuHPI GGTGA 2 cut(s) 481, 491
AvaI CYCGRG 1 cut(s) 93
BalI TGGCCA 1 cut(s) 264
BcnI CCSGG 1 cut(s) 458
BcoDI GTCTC 1 cut(s) 50
BlpI GCTNAGC 1 cut(s) 438
Bme1390I CCNGG 1 cut(s) 458
BmeT110I CYCGRG 1 cut(s) 93
BmrFI CCNGG 1 cut(s) 458
BmsI GCATC 2 cut(s) 43, 199
Bpu1102I GCTNAGC 1 cut(s) 438
BpuMI CCSGG 1 cut(s) 458
BsaBI GATNNNNATC 1 cut(s) 185
BsaHI GRCGYC 2 cut(s) 10, 483
Bse3DI GCAATG 1 cut(s) 269
Bse8I GATNNNNATC 1 cut(s) 185
BseGI GGATG 2 cut(s) 214, 337
BseJI GATNNNNATC 1 cut(s) 185
BseMI GCAATG 1 cut(s) 269
Bsh1285I CGRYCG 1 cut(s) 206
BshFI GGCC 1 cut(s) 264
BsiEI CGRYCG 1 cut(s) 206
BsiHKCI CYCGRG 1 cut(s) 93
BsiSI CCGG 1 cut(s) 458
BsmAI GTCTC 1 cut(s) 50
BsmBI CGTCTC 1 cut(s) 50
BsmI GAATGC 1 cut(s) 229
BsnI GGCC 1 cut(s) 264
BsoBI CYCGRG 1 cut(s) 93
Bsp143I GATC 4 cut(s) 70, 186, 203, 307
Bsp1720I GCTNAGC 1 cut(s) 438
BspACI CCGC 2 cut(s) 152, 329
BspANI GGCC 1 cut(s) 264
BspPI GGATC 2 cut(s) 181, 315
BsrDI GCAATG 1 cut(s) 269
BssMI GATC 4 cut(s) 70, 186, 203, 307
BssNI GRCGYC 2 cut(s) 10, 483
Bst4CI ACNGT 1 cut(s) 130
Bst6I CTCTTC 2 cut(s) 150, 330
BstACI GRCGYC 2 cut(s) 10, 483
BstDEI CTNAG 3 cut(s) 5, 74, 438
BstF5I GGATG 2 cut(s) 214, 337
BstKTI GATC 4 cut(s) 73, 189, 206, 310
BstMAI GTCTC 1 cut(s) 50
BstMBI GATC 4 cut(s) 70, 186, 203, 307
BstMCI CGRYCG 1 cut(s) 206
BstSCI CCNGG 1 cut(s) 456
BsuRI GGCC 1 cut(s) 264
BtsCI GGATG 2 cut(s) 214, 337
BtsI GCAGTG 2 cut(s) 308, 465
BtsIMutI CAGTG 2 cut(s) 308, 465
Csp6I GTAC 1 cut(s) 417
CspCI CAANNNNNGTGG 2 cut(s) 395, 430
CviAII CATG 4 cut(s) 172, 247, 287, 507
CviJI RGCY 8 cut(s) 27, 239, 264, 343, 374, 437, 442, 448
CviKI_1 RGCY 8 cut(s) 27, 239, 264, 343, 374, 437, 442, 448
CviQI GTAC 1 cut(s) 417
DdeI CTNAG 3 cut(s) 5, 74, 438
DpnI GATC 4 cut(s) 72, 188, 205, 309
DpnII GATC 4 cut(s) 70, 186, 203, 307
DrdI GACNNNNNNGTC 1 cut(s) 15
DseDI GACNNNNNNGTC 1 cut(s) 15
EaeI YGGCCR 1 cut(s) 262
Eam1104I CTCTTC 2 cut(s) 150, 330
EarI CTCTTC 2 cut(s) 150, 330
Eco88I CYCGRG 1 cut(s) 93
Esp3I CGTCTC 1 cut(s) 50
FaeI CATG 4 cut(s) 175, 250, 290, 510
FaiI YATR 9 cut(s) 44, 173, 215, 248, 261, 288, 386, 388, 508
FatI CATG 4 cut(s) 171, 246, 286, 506
FauNDI CATATG 1 cut(s) 386
FokI GGATG 2 cut(s) 221, 344
HaeIII GGCC 1 cut(s) 264
HapII CCGG 1 cut(s) 458
Hin1I GRCGYC 2 cut(s) 10, 483
Hin1II CATG 4 cut(s) 175, 250, 290, 510
HinfI GANTC 5 cut(s) 50, 62, 196, 283, 377
HpaII CCGG 1 cut(s) 458
HphI GGTGA 2 cut(s) 481, 491
Hpy166II GTNNAC 1 cut(s) 406
Hpy188I TCNGA 5 cut(s) 49, 55, 67, 208, 454
Hpy188III TCNNGA 2 cut(s) 164, 315
Hpy8I GTNNAC 1 cut(s) 406
Hpy99I CGWCG 1 cut(s) 15
HpyAV CCTTC 2 cut(s) 131, 135
HpyCH4III ACNGT 1 cut(s) 130
HpyCH4IV ACGT 2 cut(s) 10, 483
HpyCH4V TGCA 2 cut(s) 274, 506
HpyF3I CTNAG 3 cut(s) 5, 74, 438
HpySE526I ACGT 2 cut(s) 10, 483
Hsp92I GRCGYC 2 cut(s) 10, 483
Hsp92II CATG 4 cut(s) 175, 250, 290, 510
Kzo9I GATC 4 cut(s) 70, 186, 203, 307
LpnPI CCDG 4 cut(s) 44, 293, 394, 471
LweI GCATC 2 cut(s) 43, 199
MaeII ACGT 2 cut(s) 10, 483
MaeIII GTNAC 1 cut(s) 479
MalI GATC 4 cut(s) 72, 188, 205, 309
MboI GATC 4 cut(s) 70, 186, 203, 307
MboII GAAGA 4 cut(s) 167, 187, 190, 347
MlsI TGGCCA 1 cut(s) 264
MluCI AATT 3 cut(s) 241, 254, 497
MluNI TGGCCA 1 cut(s) 264
MlyI GAGTC 2 cut(s) 71, 277
MmeI TCCRAC 2 cut(s) 27, 79
MnlI CCTC 3 cut(s) 108, 391, 502
Mox20I TGGCCA 1 cut(s) 264
MscI TGGCCA 1 cut(s) 264
MseI TTAA 1 cut(s) 23
Msp20I TGGCCA 1 cut(s) 264
MspI CCGG 1 cut(s) 458
MspR9I CCNGG 1 cut(s) 458
Mva1269I GAATGC 1 cut(s) 229
NciI CCSGG 1 cut(s) 458
NdeI CATATG 1 cut(s) 386
NdeII GATC 4 cut(s) 70, 186, 203, 307
NlaIII CATG 4 cut(s) 175, 250, 290, 510
NmuCI GTSAC 1 cut(s) 479
PaeR7I CTCGAG 1 cut(s) 93
PctI GAATGC 1 cut(s) 229
PfeI GAWTC 3 cut(s) 50, 196, 377
PflFI GACNNNGTC 1 cut(s) 61
Ple19I CGATCG 1 cut(s) 206
PleI GAGTC 2 cut(s) 70, 277
PpsI GAGTC 2 cut(s) 70, 277
PspXI VCTCGAGB 1 cut(s) 93
PsyI GACNNNGTC 1 cut(s) 61
PvuI CGATCG 1 cut(s) 206
RsaI GTAC 1 cut(s) 418
RsaNI GTAC 1 cut(s) 417
SaqAI TTAA 1 cut(s) 23
Sau3AI GATC 4 cut(s) 70, 186, 203, 307
SchI GAGTC 2 cut(s) 71, 277
ScrFI CCNGG 1 cut(s) 458
SetI ASST 9 cut(s) 13, 29, 241, 282, 325, 376, 444, 486, 494
SfaNI GCATC 2 cut(s) 43, 199
Sfr274I CTCGAG 1 cut(s) 93
SlaI CTCGAG 1 cut(s) 93
SmlI CTYRAG 1 cut(s) 93
SmoI CTYRAG 1 cut(s) 93
Sse9I AATT 3 cut(s) 241, 254, 497
SsiI CCGC 2 cut(s) 152, 329
StyD4I CCNGG 1 cut(s) 456
TaaI ACNGT 1 cut(s) 130
TaiI ACGT 2 cut(s) 13, 486
TaqI TCGA 1 cut(s) 94
TasI AATT 3 cut(s) 241, 254, 497
TatI WGTACW 1 cut(s) 416
TfiI GAWTC 3 cut(s) 50, 196, 377
Tru1I TTAA 1 cut(s) 23
Tru9I TTAA 1 cut(s) 23
TscAI CASTG 2 cut(s) 308, 472
TseFI GTSAC 1 cut(s) 479
Tsp45I GTSAC 1 cut(s) 479
TspDTI ATGAA 7 cut(s) 150, 188, 222, 263, 348, 350, 419
TspGWI ACGGA 1 cut(s) 74
TspRI CASTG 2 cut(s) 308, 472
Tth111I GACNNNGTC 1 cut(s) 61
XhoI CTCGAG 1 cut(s) 93
ZraI GACGTC 2 cut(s) 11, 484
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.