RLG00000027295

Pfam:DUF1950

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_laevigata
Chr6
OG0017745
Physical Location & Seq
Reverse (-)
10400389 .. 10401407
1019 bp
Loading structure...
UTR
Exon/CDS
Intron
RLM00000027295

Sequence Viewer

Length: 336 bp
ATGCTAAGACGTCGTTGTCCTTTAAGCTACCAGCATCTACTTTTGTCGGATTCAGAGACGGAGTCCGATGATCTAAGTGAAATGTGTAATGCTCGAGTTGGATTGAGCAAAAAGAGGGGAAAATCCACCTGGGATCAGTCAAGAATAGGTAATGTGGATGAAGAGAATCCAATGGACAGCATTATTCATTCAAGGAAAGCTGAATCTACCATATGGGGTGTTGAGGAAGTCCACAGGCGTTGTACTTCTCACATTCATTTGGCTAAGCTGTGGCTTTCTGACCCGGATTACGGTGCTGTTGTTGGTGACGTTATCACCTCTAAATTGGTTGCATGA
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

112

Amino Acids

12.56

Weight (kDa)

6.18

Isoelectric Point (pI)

57.47

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RdDM_RDM1 PF09187 43 - 104 1.4e-22 RNA-directed DNA methylation 1
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
Loading...
Style Settings
Image
Tree File
Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

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 1 cut(s) 13
AclWI GGATC 1 cut(s) 141
AcyI GRCGYC 1 cut(s) 10
AfaI GTAC 1 cut(s) 244
AfiI CCNNNNNNNGG 1 cut(s) 290
AgsI TTSAA 1 cut(s) 192
AjnI CCWGG 1 cut(s) 128
AluBI AGCT 3 cut(s) 27, 200, 268
AluI AGCT 3 cut(s) 27, 200, 268
Alw26I GTCTC 1 cut(s) 50
AlwI GGATC 1 cut(s) 141
Ama87I CYCGRG 1 cut(s) 93
AsuC2I CCSGG 1 cut(s) 284
AsuHPI GGTGA 2 cut(s) 307, 317
AvaI CYCGRG 1 cut(s) 93
BciT130I CCWGG 1 cut(s) 130
BcnI CCSGG 1 cut(s) 284
BcoDI GTCTC 1 cut(s) 50
BlpI GCTNAGC 1 cut(s) 264
Bme1390I CCNGG 2 cut(s) 130, 284
BmeT110I CYCGRG 1 cut(s) 93
BmrFI CCNGG 2 cut(s) 130, 284
BmsI GCATC 1 cut(s) 43
Bpu1102I GCTNAGC 1 cut(s) 264
BpuMI CCSGG 1 cut(s) 284
BsaHI GRCGYC 1 cut(s) 10
BsaJI CCNNGG 1 cut(s) 129
Bsc4I CCNNNNNNNGG 1 cut(s) 290
BseBI CCWGG 1 cut(s) 130
BseDI CCNNGG 1 cut(s) 129
BseGI GGATG 1 cut(s) 163
BseLI CCNNNNNNNGG 1 cut(s) 290
BsiHKCI CYCGRG 1 cut(s) 93
BsiSI CCGG 1 cut(s) 284
BslI CCNNNNNNNGG 1 cut(s) 290
BsmAI GTCTC 1 cut(s) 50
BsmBI CGTCTC 1 cut(s) 50
BsoBI CYCGRG 1 cut(s) 93
Bsp143I GATC 2 cut(s) 70, 133
Bsp1720I GCTNAGC 1 cut(s) 264
BspPI GGATC 1 cut(s) 141
BssECI CCNNGG 1 cut(s) 129
BssMI GATC 2 cut(s) 70, 133
BssNI GRCGYC 1 cut(s) 10
Bst2UI CCWGG 1 cut(s) 130
Bst4CI ACNGT 1 cut(s) 293
Bst6I CTCTTC 1 cut(s) 156
BstACI GRCGYC 1 cut(s) 10
BstDEI CTNAG 3 cut(s) 5, 74, 264
BstF5I GGATG 1 cut(s) 163
BstKTI GATC 2 cut(s) 73, 136
BstMAI GTCTC 1 cut(s) 50
BstMBI GATC 2 cut(s) 70, 133
BstNI CCWGG 1 cut(s) 130
BstSCI CCNGG 2 cut(s) 128, 282
BtsCI GGATG 1 cut(s) 163
Csp6I GTAC 1 cut(s) 243
CspCI CAANNNNNGTGG 2 cut(s) 221, 256
CviAII CATG 1 cut(s) 333
CviJI RGCY 5 cut(s) 27, 200, 263, 268, 274
CviKI_1 RGCY 5 cut(s) 27, 200, 263, 268, 274
CviQI GTAC 1 cut(s) 243
DdeI CTNAG 3 cut(s) 5, 74, 264
DpnI GATC 2 cut(s) 72, 135
DpnII GATC 2 cut(s) 70, 133
DrdI GACNNNNNNGTC 1 cut(s) 15
DseDI GACNNNNNNGTC 1 cut(s) 15
Eam1104I CTCTTC 1 cut(s) 156
EarI CTCTTC 1 cut(s) 156
Eco88I CYCGRG 1 cut(s) 93
EcoRII CCWGG 1 cut(s) 128
Esp3I CGTCTC 1 cut(s) 50
FaeI CATG 1 cut(s) 336
FaiI YATR 3 cut(s) 212, 214, 334
FatI CATG 1 cut(s) 332
FauNDI CATATG 1 cut(s) 212
FokI GGATG 1 cut(s) 170
HapII CCGG 1 cut(s) 284
Hin1I GRCGYC 1 cut(s) 10
Hin1II CATG 1 cut(s) 336
HinfI GANTC 4 cut(s) 50, 62, 166, 203
HpaII CCGG 1 cut(s) 284
HphI GGTGA 2 cut(s) 307, 317
Hpy166II GTNNAC 1 cut(s) 232
Hpy188I TCNGA 4 cut(s) 49, 55, 67, 280
Hpy188III TCNNGA 1 cut(s) 141
Hpy8I GTNNAC 1 cut(s) 232
Hpy99I CGWCG 1 cut(s) 15
HpyCH4III ACNGT 1 cut(s) 293
HpyCH4IV ACGT 2 cut(s) 10, 309
HpyCH4V TGCA 1 cut(s) 332
HpyF3I CTNAG 3 cut(s) 5, 74, 264
HpySE526I ACGT 2 cut(s) 10, 309
Hsp92I GRCGYC 1 cut(s) 10
Hsp92II CATG 1 cut(s) 336
Kzo9I GATC 2 cut(s) 70, 133
LpnPI CCDG 5 cut(s) 44, 115, 142, 220, 297
LweI GCATC 1 cut(s) 43
MaeII ACGT 2 cut(s) 10, 309
MaeIII GTNAC 1 cut(s) 305
MalI GATC 2 cut(s) 72, 135
MboI GATC 2 cut(s) 70, 133
MboII GAAGA 1 cut(s) 173
MluCI AATT 1 cut(s) 323
MlyI GAGTC 1 cut(s) 71
MmeI TCCRAC 2 cut(s) 27, 79
MnlI CCTC 3 cut(s) 108, 217, 328
MseI TTAA 1 cut(s) 23
MspI CCGG 1 cut(s) 284
MspR9I CCNGG 2 cut(s) 130, 284
MvaI CCWGG 1 cut(s) 130
NciI CCSGG 1 cut(s) 284
NdeI CATATG 1 cut(s) 212
NdeII GATC 2 cut(s) 70, 133
NlaIII CATG 1 cut(s) 336
NmuCI GTSAC 1 cut(s) 305
PaeR7I CTCGAG 1 cut(s) 93
PfeI GAWTC 3 cut(s) 50, 166, 203
PflFI GACNNNGTC 1 cut(s) 61
PleI GAGTC 1 cut(s) 70
PpsI GAGTC 1 cut(s) 70
Psp6I CCWGG 1 cut(s) 128
PspGI CCWGG 1 cut(s) 128
PspXI VCTCGAGB 1 cut(s) 93
PsyI GACNNNGTC 1 cut(s) 61
RsaI GTAC 1 cut(s) 244
RsaNI GTAC 1 cut(s) 243
SaqAI TTAA 1 cut(s) 23
Sau3AI GATC 2 cut(s) 70, 133
SchI GAGTC 1 cut(s) 71
ScrFI CCNGG 2 cut(s) 130, 284
SetI ASST 8 cut(s) 13, 29, 131, 151, 202, 270, 312, 320
SfaNI GCATC 1 cut(s) 43
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 1 cut(s) 323
StyD4I CCNGG 2 cut(s) 128, 282
TaaI ACNGT 1 cut(s) 293
TaiI ACGT 2 cut(s) 13, 312
TaqI TCGA 1 cut(s) 94
TasI AATT 1 cut(s) 323
TatI WGTACW 1 cut(s) 242
TfiI GAWTC 3 cut(s) 50, 166, 203
Tru1I TTAA 1 cut(s) 23
Tru9I TTAA 1 cut(s) 23
TseFI GTSAC 1 cut(s) 305
Tsp45I GTSAC 1 cut(s) 305
TspDTI ATGAA 3 cut(s) 174, 176, 245
TspGWI ACGGA 1 cut(s) 74
Tth111I GACNNNGTC 1 cut(s) 61
XhoI CTCGAG 1 cut(s) 93
ZraI GACGTC 1 cut(s) 11
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.