Rorug06G0068300

Domain of unknown function (DUF3475)

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000006
OG0000458
Physical Location & Seq
Reverse (-)
9110472 .. 9111870
1399 bp
Loading structure...
UTR
Exon/CDS
Intron
Rorug06G0068300.1

Sequence Viewer

Length: 213 bp
ATGGACCAACTTAAGGCTGTGGGAGTTAGAATGTCTGATGAAGACATCATGGTGGCAACGTTGAATGGACTTCCTGTGGAGTATGATTCGGTGAAACAAATTGTGAGAGGAATAGAGACTCCTATTACTATGGCAGACTTCAGATCTCAACTTCTTGCTGTAGAAAGGGATGGCAGCTCCTTTTCACTCCTCTCTCACAACAATGGTGGCTAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko03013 ko03015 ko03040 ko05164 map03013 map03015 map03040 map05164
Pfam Domains
Protein Families
DUF3475 DUF668

Protein Analysis

70

Amino Acids

7.62

Weight (kDa)

4.6

Isoelectric Point (pI)

45.81

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Retrotran_gag_2 PF14223 2 - 57 1.7e-06 gag-polypeptide of LTR copia-type
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: OG0000458)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G34320 AT1G34320
fragaria_vesca FvH4_2g12340 FvH4_2g12350 FvH4_2g12350 FvH4_2g12350 FvH4_2g12350 FvH4_5g36070 FvH4_5g36100 FvH4_5g36130 FvH4_5g36140
malus_domestica MD05G1039900.v1.1 MD10G1045400.v1.1 MD10G1045600.v1.1 MD10G1045700.v1.1 MD10G1045800.v1.1 MD12G1057900.v1.1
prunus_persica Prupe.1G525500_v2.0.a1 Prupe.8G052300_v2.0.a1 Prupe.8G052300_v2.0.a1 Prupe.8G052300_v2.0.a1 Prupe.8G052300_v2.0.a1 Prupe.8G052300_v2.0.a1 Prupe.8G052300_v2.0.a1 Prupe.8G052600_v2.0.a1 Prupe.8G052600_v2.0.a1 Prupe.8G052600_v2.0.a1 Prupe.8G052600_v2.0.a1 Prupe.8G052600_v2.0.a1 Prupe.8G052600_v2.0.a1 Prupe.8G052600_v2.0.a1
pyrus_communis pycom05g03250 pycom10g03180 pycom10g03190 pycom15g33960
rosa_chinensis RchiOBHm_Chr3g0484671 RchiOBHm_Chr6g0272351 RchiOBHm_Chr6g0272361 RchiOBHm_Chr7g0237881
rosa_laevigata RLG00000000952 RLG00000000960 RLG00000001025 RLG00000008689 RLG00000010609 RLG00000013679 RLG00000013680
rosa_multiflora Rmu_sc0001339.1_g000015 Rmu_sc0002877.1_g000020 Rmu_sc0009379.1_g000003 Rmu_ssc0000199.1_g000001 Rmu_ssc0000321.1_g000001
rosa_roxburghii Rroxscaffold_1G00039160 Rroxscaffold_3G00223500 Rroxscaffold_3G00223670 Rroxscaffold_7G00196370 Rroxscaffold_7G00196380
rosa_rugosa Rorug06G0068200 Rorug06G0068300 Rorug06G0068400 Rorug07G0302100 Rorug07G0308600 Rorug07G0309200.1
rosa_samantha Rh3AG263300 Rh3DG292000 Rh6AG113700 Rh6AG184400 Rh6AG184500 Rh6BG187800 Rh6BG187900 Rh6CG185900 Rh6DG177600 Rh6DG177700 Rh7AG458500 Rh7AG464200 Rh7AG464500 Rh7BG429200 Rh7BG434200 Rh7CG476400 Rh7CG481600 Rh7CG482700 Rh7DG445700 Rh7DG450300 Rh7DG451400
rosa_wichuraiana Rw0G019450 Rw6G015900 Rw6G015910 Rw6G015940 Rw6G015950 Rw7G037980 Rw7G038410 Rw7G038470

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AclI AACGTT 1 cut(s) 59
AcuI CTGAAG 1 cut(s) 124
AfiI CCNNNNNNNGG 1 cut(s) 13
AflII CTTAAG 1 cut(s) 11
AgsI TTSAA 1 cut(s) 64
AluBI AGCT 1 cut(s) 177
AluI AGCT 1 cut(s) 177
Alw26I GTCTC 1 cut(s) 110
ApeKI GCWGC 1 cut(s) 174
AspS9I GGNCC 1 cut(s) 4
AsuHPI GGTGA 1 cut(s) 103
AvaII GGWCC 1 cut(s) 4
BbsI GAAGAC 1 cut(s) 48
BbvI GCAGC 1 cut(s) 186
BccI CCATC 1 cut(s) 164
BcoDI GTCTC 1 cut(s) 110
BfmI CTRYAG 1 cut(s) 159
BfrI CTTAAG 1 cut(s) 11
BglII AGATCT 1 cut(s) 143
BisI GCNGC 1 cut(s) 175
BlsI GCNGC 1 cut(s) 176
Bme18I GGWCC 1 cut(s) 4
BmgT120I GGNCC 1 cut(s) 4
BpiI GAAGAC 1 cut(s) 48
Bsc4I CCNNNNNNNGG 1 cut(s) 13
BseGI GGATG 1 cut(s) 175
BseLI CCNNNNNNNGG 1 cut(s) 13
BseRI GAGGAG 1 cut(s) 179
BseXI GCAGC 1 cut(s) 186
BslI CCNNNNNNNGG 1 cut(s) 13
BsmAI GTCTC 1 cut(s) 110
Bsp143I GATC 1 cut(s) 143
BspTI CTTAAG 1 cut(s) 11
BssMI GATC 1 cut(s) 143
BstAFI CTTAAG 1 cut(s) 11
BstF5I GGATG 1 cut(s) 175
BstKTI GATC 1 cut(s) 146
BstMAI GTCTC 1 cut(s) 110
BstMBI GATC 1 cut(s) 143
BstSFI CTRYAG 1 cut(s) 159
BstV1I GCAGC 1 cut(s) 186
BstV2I GAAGAC 1 cut(s) 48
BstX2I RGATCY 1 cut(s) 143
BstYI RGATCY 1 cut(s) 143
BtsCI GGATG 1 cut(s) 175
Cfr13I GGNCC 1 cut(s) 4
CspCI CAANNNNNGTGG 1 cut(s) 187
CviAII CATG 1 cut(s) 49
CviJI RGCY 3 cut(s) 17, 177, 210
CviKI_1 RGCY 3 cut(s) 17, 177, 210
DpnI GATC 1 cut(s) 145
DpnII GATC 1 cut(s) 143
Eco47I GGWCC 1 cut(s) 4
Eco57I CTGAAG 1 cut(s) 124
FaeI CATG 1 cut(s) 52
FaiI YATR 3 cut(s) 50, 84, 131
FatI CATG 1 cut(s) 48
Fnu4HI GCNGC 1 cut(s) 175
FokI GGATG 1 cut(s) 182
Fsp4HI GCNGC 1 cut(s) 175
GluI GCNGC 1 cut(s) 175
Hin1II CATG 1 cut(s) 52
HinfI GANTC 2 cut(s) 86, 118
HphI GGTGA 1 cut(s) 103
Hpy188I TCNGA 2 cut(s) 37, 143
HpyCH4IV ACGT 1 cut(s) 59
HpySE526I ACGT 1 cut(s) 59
Hsp92II CATG 1 cut(s) 52
Kzo9I GATC 1 cut(s) 143
LmnI GCTCC 1 cut(s) 182
LpnPI CCDG 1 cut(s) 87
Lsp1109I GCAGC 1 cut(s) 186
MaeII ACGT 1 cut(s) 59
MalI GATC 1 cut(s) 145
MboI GATC 1 cut(s) 143
MboII GAAGA 1 cut(s) 53
MflI RGATCY 1 cut(s) 143
MluCI AATT 1 cut(s) 99
MlyI GAGTC 1 cut(s) 112
MnlI CCTC 2 cut(s) 101, 200
MseI TTAA 1 cut(s) 12
MslI CAYNNNNRTG 2 cut(s) 50, 201
MspCI CTTAAG 1 cut(s) 11
NdeII GATC 1 cut(s) 143
NlaIII CATG 1 cut(s) 52
PfeI GAWTC 1 cut(s) 86
PkrI GCNGC 1 cut(s) 176
PleI GAGTC 1 cut(s) 112
PpsI GAGTC 1 cut(s) 112
Psp1406I AACGTT 1 cut(s) 59
PspPI GGNCC 1 cut(s) 4
PsuI RGATCY 1 cut(s) 143
RseI CAYNNNNRTG 2 cut(s) 50, 201
SaqAI TTAA 1 cut(s) 12
SatI GCNGC 1 cut(s) 175
Sau3AI GATC 1 cut(s) 143
Sau96I GGNCC 1 cut(s) 4
SchI GAGTC 1 cut(s) 112
SetI ASST 2 cut(s) 62, 179
SfcI CTRYAG 1 cut(s) 159
SgeI CNNG 3 cut(s) 61, 86, 167
SinI GGWCC 1 cut(s) 4
SmiMI CAYNNNNRTG 2 cut(s) 50, 201
SmlI CTYRAG 1 cut(s) 11
SmoI CTYRAG 1 cut(s) 11
Sse9I AATT 1 cut(s) 99
TaiI ACGT 1 cut(s) 62
TasI AATT 1 cut(s) 99
TfiI GAWTC 1 cut(s) 86
Tru1I TTAA 1 cut(s) 12
Tru9I TTAA 1 cut(s) 12
TseI GCWGC 1 cut(s) 174
TspDTI ATGAA 1 cut(s) 54
Vha464I CTTAAG 1 cut(s) 11
VpaK11BI GGWCC 1 cut(s) 4
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.