Rroxscaffold_4G00315960

No description available

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000004
OG0000530
Physical Location & Seq
Forward (+)
40551061 .. 40554236
3176 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_4G00315960.1

Sequence Viewer

Length: 297 bp
ATGATTGAAGCTTATTGTAAGGAAAAGAAGTCGGGCGAAGCGGTTAATTTGCTTAATGATATGGTGGAGAAGAGGTATATACCGAGCTCGGCGCTGTGTTGTAAGATGATTGATGTTCTGTGTTGCGAAGGGAAGGTGGAGGATGCTTGTGAACTGTGGAAGAGGCTTTTGAAGAAAAATTGCACGCCGGATAATGCAGTATTGGGCACACTCATGTACTGGCTTTGTGAGATGGGAGAAGTGTGGGAAGCCAGCAAATTGTTTGATCAGTTTGAGACGAGTGAGGCTTATTTCTGA
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
No domains found.

Protein Analysis

98

Amino Acids

11.29

Weight (kDa)

4.74

Isoelectric Point (pI)

37.56

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 33 - 66 3.2e-06 PPR repeat family
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: OG0000530)

Species Orthologous Gene IDs
arabidopsis_thaliana AT5G16420 AT5G16420 AT5G16420 AT5G16420
fragaria_vesca FvH4_7g08341 FvH4_7g08360
malus_domestica MD02G1232100.v1.1 MD07G1081300.v1.1
prunus_persica Prupe.2G106500_v2.0.a1
pyrus_communis pycom02g20040
rosa_chinensis RchiOBHm_Chr1g0340331 RchiOBHm_Chr1g0340431 RchiOBHm_Chr1g0340441 RchiOBHm_Chr1g0340491 RchiOBHm_Chr1g0340531 RchiOBHm_Chr1g0340541 RchiOBHm_Chr1g0340561 RchiOBHm_Chr1g0340621 RchiOBHm_Chr1g0340661 RchiOBHm_Chr1g0340691
rosa_laevigata RLG00000029013 RLG00000029018 RLG00000029020 RLG00000029024 RLG00000029026 RLG00000029029 RLG00000029030 RLG00000029032 RLG00000029033
rosa_multiflora Rmu_sc0000566.1_g000026 Rmu_sc0000566.1_g000034 Rmu_sc0000566.1_g000054 Rmu_sc0001836.1_g000016 Rmu_sc0001836.1_g000022 Rmu_sc0001836.1_g000023 Rmu_sc0001836.1_g000028 Rmu_sc0001836.1_g000058 Rmu_sc0001946.1_g000004 Rmu_sc0002595.1_g000001 Rmu_sc0002595.1_g000005 Rmu_sc0005167.1_g000003 Rmu_sc0005167.1_g000009 Rmu_sc0005167.1_g000018 Rmu_sc0024761.1_g000004
rosa_roxburghii Rroxscaffold_4G00311170 Rroxscaffold_4G00311190 Rroxscaffold_4G00311250 Rroxscaffold_4G00315930 Rroxscaffold_4G00315960 Rroxscaffold_5G00353270
rosa_rugosa Rorug01G0162000.1 Rorug01G0162500.1 Rorug01G0162800.1 Rorug01G0163000.1 Rorug01G0163400.1 Rorug01G0163700.1 Rorug01G0164100.1 Rorug01G0164300 Rorug05G0484800
rosa_samantha Rh1AG177800 Rh1AG178000 Rh1AG178300 Rh1AG178600 Rh1AG178900 Rh1BG145300 Rh1BG145600 Rh1BG145800 Rh1BG145900 Rh1BG146000 Rh1BG146700 Rh1CG165100 Rh1CG165200 Rh1CG165400 Rh1CG165600 Rh1CG165700 Rh1CG165900 Rh1DG177500 Rh1DG177600 Rh1DG177800 Rh1DG177900 Rh1DG178000 Rh1DG178800
rosa_wichuraiana Rw0G006210 Rw1G014800 Rw1G014890

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AciI CCGC 1 cut(s) 41
AfaI GTAC 1 cut(s) 218
AgsI TTSAA 2 cut(s) 8, 172
AluBI AGCT 2 cut(s) 11, 87
AluI AGCT 2 cut(s) 11, 87
Alw21I GWGCWC 1 cut(s) 89
Alw26I GTCTC 1 cut(s) 269
AspLEI GCGC 1 cut(s) 94
BaeGI GKGCMC 1 cut(s) 209
BanII GRGCYC 1 cut(s) 89
Bbv12I GWGCWC 1 cut(s) 89
BccI CCATC 1 cut(s) 226
BclI TGATCA 1 cut(s) 265
BcoDI GTCTC 1 cut(s) 269
BfoI RGCGCY 1 cut(s) 95
BmsI GCATC 1 cut(s) 133
BsaXI ACNNNNNCTCC 2 cut(s) 59, 89
Bse1I ACTGG 1 cut(s) 224
BseGI GGATG 1 cut(s) 148
BseNI ACTGG 1 cut(s) 224
BseSI GKGCMC 1 cut(s) 209
BsiHKAI GWGCWC 1 cut(s) 89
BsiSI CCGG 1 cut(s) 188
BsmAI GTCTC 1 cut(s) 269
BsmBI CGTCTC 1 cut(s) 269
Bsp1286I GDGCHC 2 cut(s) 89, 209
Bsp143I GATC 1 cut(s) 265
BspACI CCGC 1 cut(s) 41
BsrI ACTGG 1 cut(s) 224
BssMI GATC 1 cut(s) 265
Bst4CI ACNGT 1 cut(s) 156
Bst6I CTCTTC 2 cut(s) 65, 155
BstC8I GCNNGC 2 cut(s) 185, 253
BstF5I GGATG 1 cut(s) 148
BstH2I RGCGCY 1 cut(s) 95
BstHHI GCGC 1 cut(s) 94
BstKTI GATC 1 cut(s) 268
BstMAI GTCTC 1 cut(s) 269
BstMBI GATC 1 cut(s) 265
BstSLI GKGCMC 1 cut(s) 209
BtsCI GGATG 1 cut(s) 148
Cac8I GCNNGC 2 cut(s) 185, 253
CfoI GCGC 1 cut(s) 94
Csp6I GTAC 1 cut(s) 217
CviAII CATG 1 cut(s) 214
CviJI RGCY 6 cut(s) 11, 87, 166, 223, 251, 287
CviKI_1 RGCY 6 cut(s) 11, 87, 166, 223, 251, 287
CviQI GTAC 1 cut(s) 217
DpnI GATC 1 cut(s) 267
DpnII GATC 1 cut(s) 265
Eam1104I CTCTTC 2 cut(s) 65, 155
EarI CTCTTC 2 cut(s) 65, 155
Ecl136II GAGCTC 1 cut(s) 87
Eco24I GRGCYC 1 cut(s) 89
Eco53kI GAGCTC 1 cut(s) 87
EcoICRI GAGCTC 1 cut(s) 87
EcoT38I GRGCYC 1 cut(s) 89
Esp3I CGTCTC 1 cut(s) 269
FaeI CATG 1 cut(s) 217
FaiI YATR 4 cut(s) 62, 78, 80, 215
FatI CATG 1 cut(s) 213
FbaI TGATCA 1 cut(s) 265
FokI GGATG 1 cut(s) 155
FriOI GRGCYC 1 cut(s) 89
GlaI GCGC 1 cut(s) 93
HaeII RGCGCY 1 cut(s) 95
HapII CCGG 1 cut(s) 188
HhaI GCGC 1 cut(s) 94
Hin1II CATG 1 cut(s) 217
Hin6I GCGC 1 cut(s) 92
HinP1I GCGC 1 cut(s) 92
HindIII AAGCTT 1 cut(s) 9
HpaII CCGG 1 cut(s) 188
Hpy166II GTNNAC 1 cut(s) 152
Hpy188I TCNGA 1 cut(s) 296
Hpy8I GTNNAC 1 cut(s) 152
HpyAV CCTTC 2 cut(s) 122, 127
HpyCH4III ACNGT 1 cut(s) 156
HpyCH4V TGCA 2 cut(s) 183, 197
Hsp92II CATG 1 cut(s) 217
HspAI GCGC 1 cut(s) 92
Ksp22I TGATCA 1 cut(s) 265
Kzo9I GATC 1 cut(s) 265
LpnPI CCDG 3 cut(s) 201, 205, 265
LweI GCATC 1 cut(s) 133
MalI GATC 1 cut(s) 267
MboI GATC 1 cut(s) 265
MboII GAAGA 3 cut(s) 82, 172, 184
MhlI GDGCHC 2 cut(s) 89, 209
MluCI AATT 3 cut(s) 46, 178, 257
MnlI CCTC 4 cut(s) 66, 133, 156, 277
MseI TTAA 2 cut(s) 45, 54
MslI CAYNNNNRTG 1 cut(s) 212
MspI CCGG 1 cut(s) 188
NdeII GATC 1 cut(s) 265
NlaIII CATG 1 cut(s) 217
NmeAIII GCCGAG 1 cut(s) 68
Psp124BI GAGCTC 1 cut(s) 89
RsaI GTAC 1 cut(s) 218
RsaNI GTAC 1 cut(s) 217
RseI CAYNNNNRTG 1 cut(s) 212
SacI GAGCTC 1 cut(s) 89
SaqAI TTAA 2 cut(s) 45, 54
Sau3AI GATC 1 cut(s) 265
SduI GDGCHC 2 cut(s) 89, 209
SetI ASST 4 cut(s) 13, 77, 89, 138
SfaNI GCATC 1 cut(s) 133
SmiMI CAYNNNNRTG 1 cut(s) 212
Sse9I AATT 3 cut(s) 46, 178, 257
SsiI CCGC 1 cut(s) 41
SstI GAGCTC 1 cut(s) 89
TaaI ACNGT 1 cut(s) 156
TasI AATT 3 cut(s) 46, 178, 257
TatI WGTACW 1 cut(s) 216
Tru1I TTAA 2 cut(s) 45, 54
Tru9I TTAA 2 cut(s) 45, 54
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.