Rroxscaffold_2G00116130

PHD-finger

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000002
OG0000678
Physical Location & Seq
Forward (+)
43074281 .. 43074562
282 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_2G00116130.1

Sequence Viewer

Length: 282 bp
ATGGCCTGCCTCATCTCCAAAGATTCAAACTCATGCAGCAACCAACACCGCCACCACGACGATGATGTCGTTTTGCCCATTCTTCCGGCGAAGAAGAGAAAGGAGACTGGGGACCGGCCCATTCTCCCTGACCCAACTCCAGCCACCTTCGCCGTCTCCACCTATTCGTTGTGGGCACTTCCGCCGGATTTATTCCCCGAGAAGCCGGTTTCGGAGATGGATTTGAATCTCCAGTACAAGCCGGATCTTGGGAAAGAGATAGAGGCTGGTGGAGAAACTTGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0008150 GO:0009966 GO:0010646 GO:0023051 GO:0030111 GO:0048583 GO:0050789 GO:0050794 GO:0060828 GO:0065007
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
PHD PHD_2 zf-HC5HC2H_2

Protein Analysis

93

Amino Acids

10.3

Weight (kDa)

4.99

Isoelectric Point (pI)

62.72

Instability Index
Protein Domains (Pfam)
No Pfam domains detected for this 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: OG0000678)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G17700 AT3G17700
fragaria_vesca FvH4_5g18080 FvH4_5g18080 FvH4_5g18080 FvH4_6g44780
malus_domestica MD06G1236300.v1.1 MD09G1093300.v1.1 MD14G1243200.v1.1
prunus_persica Prupe.1G183800_v2.0.a1 Prupe.3G231900_v2.0.a1 Prupe.3G231900_v2.0.a1 Prupe.3G231900_v2.0.a1 Prupe.3G231900_v2.0.a1 Prupe.3G231900_v2.0.a1 Prupe.3G231900_v2.0.a1 Prupe.5G240800_v2.0.a1 Prupe.5G240800_v2.0.a1 Prupe.5G240800_v2.0.a1
pyrus_communis pycom06g21110 pycom06g21140 pycom06g21190 pycom14g20450
rosa_chinensis RchiOBHm_Chr2g0161941 RchiOBHm_Chr4g0441651 RchiOBHm_Chr5g0083381 RchiOBHm_Chr6g0281101 RchiOBHm_Chr7g0177531
rosa_laevigata RLG00000005528 RLG00000015203 RLG00000015445 RLG00000021309 RLG00000023742 RLG00000034422 RLG00000036136
rosa_multiflora Rmu_co8432259.1_g000001 Rmu_co8481019.1_g000001 Rmu_sc0003410.1_g000009 Rmu_sc0004618.1_g000030 Rmu_sc0005144.1_g000007 Rmu_sc0008565.1_g000001 Rmu_sc0018381.1_g000003 Rmu_ssc0000330.1_g000004
rosa_roxburghii Rroxscaffold_1G00051700 Rroxscaffold_2G00088450 Rroxscaffold_2G00116130 Rroxscaffold_2G00126580 Rroxscaffold_3G00275780 Rroxscaffold_5G00338690 Rroxscaffold_5G00375080
rosa_rugosa Rorug02G0493400 Rorug04G0058900 Rorug04G0059000 Rorug06G0407100
rosa_samantha Rh2AG220400 Rh2AG282700 Rh2AG329100 Rh2AG559300 Rh2BG572700 Rh2CG542900 Rh2DG582500 Rh4AG135300 Rh4BG096100 Rh4DG026800 Rh4DG329100 Rh5CG271500 Rh6DG096900 Rh7AG006400 Rh7BG006300 Rh7CG006800 Rh7DG006400 Rh7DG278200
rosa_wichuraiana Rw0G014790 Rw1G017310 Rw7G000530

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AasI GACNNNNNNGTC 1 cut(s) 65
AciI CCGC 2 cut(s) 49, 182
AclWI GGATC 1 cut(s) 252
AfaI GTAC 1 cut(s) 236
AfiI CCNNNNNNNGG 1 cut(s) 248
AgsI TTSAA 2 cut(s) 27, 226
Alw26I GTCTC 2 cut(s) 98, 160
AlwI GGATC 1 cut(s) 252
Ama87I CYCGRG 1 cut(s) 197
AoxI GGCC 2 cut(s) 3, 116
ApeKI GCWGC 1 cut(s) 36
AspS9I GGNCC 2 cut(s) 112, 117
AvaI CYCGRG 1 cut(s) 197
AvaII GGWCC 1 cut(s) 112
BaeGI GKGCMC 1 cut(s) 178
BbvI GCAGC 1 cut(s) 48
BccI CCATC 1 cut(s) 211
BceAI ACGGC 1 cut(s) 137
BcoDI GTCTC 2 cut(s) 98, 160
BisI GCNGC 1 cut(s) 37
BlsI GCNGC 1 cut(s) 38
Bme18I GGWCC 1 cut(s) 112
BmeT110I CYCGRG 1 cut(s) 197
BmgT120I GGNCC 2 cut(s) 112, 117
BmiI GGNNCC 1 cut(s) 113
BmrI ACTGGG 1 cut(s) 117
BmuI ACTGGG 1 cut(s) 117
BpmI CTGGAG 2 cut(s) 123, 215
BsaBI GATNNNNATC 1 cut(s) 225
Bsc4I CCNNNNNNNGG 1 cut(s) 248
Bse118I RCCGGY 2 cut(s) 114, 205
Bse1I ACTGG 2 cut(s) 112, 232
Bse8I GATNNNNATC 1 cut(s) 225
BseJI GATNNNNATC 1 cut(s) 225
BseLI CCNNNNNNNGG 1 cut(s) 248
BseNI ACTGG 2 cut(s) 112, 232
BseSI GKGCMC 1 cut(s) 178
BseXI GCAGC 1 cut(s) 48
BshFI GGCC 2 cut(s) 5, 118
BsiHKCI CYCGRG 1 cut(s) 197
BsiSI CCGG 5 cut(s) 86, 115, 185, 206, 242
BslFI GGGAC 1 cut(s) 125
BslI CCNNNNNNNGG 1 cut(s) 248
BsmAI GTCTC 2 cut(s) 98, 160
BsmBI CGTCTC 1 cut(s) 160
BsmFI GGGAC 1 cut(s) 125
BsnI GGCC 2 cut(s) 5, 118
BsoBI CYCGRG 1 cut(s) 197
Bsp1286I GDGCHC 1 cut(s) 178
Bsp143I GATC 1 cut(s) 244
BspACI CCGC 2 cut(s) 49, 182
BspANI GGCC 2 cut(s) 5, 118
BspLI GGNNCC 1 cut(s) 113
BspPI GGATC 1 cut(s) 252
BsrFI RCCGGY 2 cut(s) 114, 205
BsrI ACTGG 2 cut(s) 112, 232
BssAI RCCGGY 2 cut(s) 114, 205
BssMI GATC 1 cut(s) 244
Bst6I CTCTTC 1 cut(s) 89
BstC8I GCNNGC 1 cut(s) 7
BstKTI GATC 1 cut(s) 247
BstMAI GTCTC 2 cut(s) 98, 160
BstMBI GATC 1 cut(s) 244
BstMWI GCNNNNNNNGC 1 cut(s) 149
BstSLI GKGCMC 1 cut(s) 178
BstV1I GCAGC 1 cut(s) 48
BstX2I RGATCY 1 cut(s) 244
BstYI RGATCY 1 cut(s) 244
BsuRI GGCC 2 cut(s) 5, 118
Cac8I GCNNGC 1 cut(s) 7
Cfr10I RCCGGY 2 cut(s) 114, 205
Cfr13I GGNCC 2 cut(s) 112, 117
Csp6I GTAC 1 cut(s) 235
CviAII CATG 1 cut(s) 33
CviJI RGCY 6 cut(s) 5, 118, 143, 205, 241, 266
CviKI_1 RGCY 6 cut(s) 5, 118, 143, 205, 241, 266
CviQI GTAC 1 cut(s) 235
DpnI GATC 1 cut(s) 246
DpnII GATC 1 cut(s) 244
DrdI GACNNNNNNGTC 1 cut(s) 65
DseDI GACNNNNNNGTC 1 cut(s) 65
Eam1104I CTCTTC 1 cut(s) 89
EarI CTCTTC 1 cut(s) 89
EciI GGCGGA 1 cut(s) 171
Eco47I GGWCC 1 cut(s) 112
Eco88I CYCGRG 1 cut(s) 197
Esp3I CGTCTC 1 cut(s) 160
FaeI CATG 1 cut(s) 36
FaiI YATR 1 cut(s) 34
FaqI GGGAC 1 cut(s) 125
FatI CATG 1 cut(s) 32
Fnu4HI GCNGC 1 cut(s) 37
Fsp4HI GCNGC 1 cut(s) 37
GluI GCNGC 1 cut(s) 37
GsuI CTGGAG 2 cut(s) 123, 215
HaeIII GGCC 2 cut(s) 5, 118
HapII CCGG 5 cut(s) 86, 115, 185, 206, 242
Hin1II CATG 1 cut(s) 36
HinfI GANTC 2 cut(s) 23, 226
HpaII CCGG 5 cut(s) 86, 115, 185, 206, 242
Hpy188I TCNGA 1 cut(s) 214
Hpy99I CGWCG 1 cut(s) 62
HpyAV CCTTC 1 cut(s) 157
HpyCH4V TGCA 1 cut(s) 36
HpyF10VI GCNNNNNNNGC 1 cut(s) 149
Hsp92II CATG 1 cut(s) 36
Kzo9I GATC 1 cut(s) 244
Lsp1109I GCAGC 1 cut(s) 48
MalI GATC 1 cut(s) 246
MboI GATC 1 cut(s) 244
MboII GAAGA 3 cut(s) 74, 103, 106
MflI RGATCY 1 cut(s) 244
MhlI GDGCHC 1 cut(s) 178
MnlI CCTC 2 cut(s) 20, 256
MslI CAYNNNNRTG 1 cut(s) 60
MspI CCGG 5 cut(s) 86, 115, 185, 206, 242
MwoI GCNNNNNNNGC 1 cut(s) 149
NdeII GATC 1 cut(s) 244
NlaIII CATG 1 cut(s) 36
NlaIV GGNNCC 1 cut(s) 113
PcsI WCGNNNNNNNCGW 1 cut(s) 66
PfeI GAWTC 2 cut(s) 23, 226
PkrI GCNGC 1 cut(s) 38
PspN4I GGNNCC 1 cut(s) 113
PspPI GGNCC 2 cut(s) 112, 117
PsuI RGATCY 1 cut(s) 244
RsaI GTAC 1 cut(s) 236
RsaNI GTAC 1 cut(s) 235
RseI CAYNNNNRTG 1 cut(s) 60
SatI GCNGC 1 cut(s) 37
Sau3AI GATC 1 cut(s) 244
Sau96I GGNCC 2 cut(s) 112, 117
SduI GDGCHC 1 cut(s) 178
SetI ASST 2 cut(s) 149, 164
SinI GGWCC 1 cut(s) 112
SmiMI CAYNNNNRTG 1 cut(s) 60
SsiI CCGC 2 cut(s) 49, 182
TatI WGTACW 1 cut(s) 234
TfiI GAWTC 2 cut(s) 23, 226
TseI GCWGC 1 cut(s) 36
VpaK11BI GGWCC 1 cut(s) 112
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.