Rmu_sc0003410.1_g000009

PHD-finger

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_multiflora
Rmu_sc0003410.1
OG0000678
Physical Location & Seq
Reverse (-)
44392 .. 44697
306 bp
Loading structure...
UTR
Exon/CDS
Intron
Rmu_sc0003410.1_g000009.1.cds

Sequence Viewer

Length: 306 bp
atggcctacctcctctcaaaagattcaaacttatgcagcaaccagcaccgccaccaccttgatgatgtcattttgcccattcttcctgcgaagaagagaaaggagactagggaccagcccattctccctaacccaactcctgccaccttcaccgtcaccacctatttgttgtcggcgaagaagagggtgtgggcacttccacccgatttgttccccgagaagccagtttcagagctggatttgaatctagagtacaagccggatctcggggaagagttagaggctggtggagaaactgctgagtga
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

101

Amino Acids

11.39

Weight (kDa)

5.34

Isoelectric Point (pI)

47.64

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

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)
AciI CCGC 1 cut(s) 49
AclWI GGATC 1 cut(s) 270
AfaI GTAC 1 cut(s) 254
AfiI CCNNNNNNNGG 1 cut(s) 266
AgsI TTSAA 2 cut(s) 27, 244
AluBI AGCT 1 cut(s) 235
AluI AGCT 1 cut(s) 235
Alw26I GTCTC 1 cut(s) 98
AlwI GGATC 1 cut(s) 270
Ama87I CYCGRG 2 cut(s) 215, 266
AoxI GGCC 1 cut(s) 3
ApeKI GCWGC 1 cut(s) 36
AspS9I GGNCC 1 cut(s) 112
AsuHPI GGTGA 2 cut(s) 142, 148
AvaI CYCGRG 2 cut(s) 215, 266
AvaII GGWCC 1 cut(s) 112
BaeGI GKGCMC 1 cut(s) 196
BbvI GCAGC 1 cut(s) 48
BcoDI GTCTC 1 cut(s) 98
BfaI CTAG 2 cut(s) 108, 248
BisI GCNGC 1 cut(s) 37
BlsI GCNGC 1 cut(s) 38
Bme18I GGWCC 1 cut(s) 112
BmeT110I CYCGRG 2 cut(s) 215, 266
BmgT120I GGNCC 1 cut(s) 112
BmiI GGNNCC 1 cut(s) 113
BsaBI GATNNNNATC 1 cut(s) 243
Bsc4I CCNNNNNNNGG 1 cut(s) 266
Bse1I ACTGG 1 cut(s) 224
Bse8I GATNNNNATC 1 cut(s) 243
BseJI GATNNNNATC 1 cut(s) 243
BseLI CCNNNNNNNGG 1 cut(s) 266
BseMII CTCAG 1 cut(s) 291
BseNI ACTGG 1 cut(s) 224
BseSI GKGCMC 1 cut(s) 196
BseXI GCAGC 1 cut(s) 48
BshFI GGCC 1 cut(s) 5
BsiHKCI CYCGRG 2 cut(s) 215, 266
BsiSI CCGG 1 cut(s) 260
BslFI GGGAC 1 cut(s) 125
BslI CCNNNNNNNGG 1 cut(s) 266
BsmAI GTCTC 1 cut(s) 98
BsmFI GGGAC 1 cut(s) 125
BsnI GGCC 1 cut(s) 5
BsoBI CYCGRG 2 cut(s) 215, 266
Bsp1286I GDGCHC 1 cut(s) 196
Bsp143I GATC 1 cut(s) 262
BspACI CCGC 1 cut(s) 49
BspANI GGCC 1 cut(s) 5
BspCNI CTCAG 1 cut(s) 292
BspLI GGNNCC 1 cut(s) 113
BspPI GGATC 1 cut(s) 270
BsrI ACTGG 1 cut(s) 224
BssMI GATC 1 cut(s) 262
Bst4CI ACNGT 1 cut(s) 154
Bst6I CTCTTC 3 cut(s) 89, 176, 267
BstDEI CTNAG 1 cut(s) 300
BstKTI GATC 1 cut(s) 265
BstMAI GTCTC 1 cut(s) 98
BstMBI GATC 1 cut(s) 262
BstSLI GKGCMC 1 cut(s) 196
BstV1I GCAGC 1 cut(s) 48
BstX2I RGATCY 1 cut(s) 262
BstYI RGATCY 1 cut(s) 262
BsuRI GGCC 1 cut(s) 5
Cfr13I GGNCC 1 cut(s) 112
Csp6I GTAC 1 cut(s) 253
CspCI CAANNNNNGTGG 2 cut(s) 189, 224
CviJI RGCY 6 cut(s) 5, 118, 223, 235, 259, 284
CviKI_1 RGCY 6 cut(s) 5, 118, 223, 235, 259, 284
CviQI GTAC 1 cut(s) 253
DdeI CTNAG 1 cut(s) 300
DpnI GATC 1 cut(s) 264
DpnII GATC 1 cut(s) 262
Eam1104I CTCTTC 3 cut(s) 89, 176, 267
EarI CTCTTC 3 cut(s) 89, 176, 267
Eco47I GGWCC 1 cut(s) 112
Eco88I CYCGRG 2 cut(s) 215, 266
FaiI YATR 1 cut(s) 34
FaqI GGGAC 1 cut(s) 125
Fnu4HI GCNGC 1 cut(s) 37
Fsp4HI GCNGC 1 cut(s) 37
FspBI CTAG 2 cut(s) 108, 248
GluI GCNGC 1 cut(s) 37
HaeIII GGCC 1 cut(s) 5
HapII CCGG 1 cut(s) 260
HinfI GANTC 2 cut(s) 23, 244
HpaII CCGG 1 cut(s) 260
HphI GGTGA 2 cut(s) 142, 148
Hpy188I TCNGA 1 cut(s) 232
Hpy188III TCNNGA 1 cut(s) 248
HpyAV CCTTC 1 cut(s) 157
HpyCH4III ACNGT 1 cut(s) 154
HpyCH4V TGCA 1 cut(s) 36
HpyF3I CTNAG 1 cut(s) 300
Kzo9I GATC 1 cut(s) 262
LpnPI CCDG 8 cut(s) 56, 99, 128, 153, 221, 237, 270, 273
Lsp1109I GCAGC 1 cut(s) 48
MaeI CTAG 2 cut(s) 108, 248
MaeIII GTNAC 1 cut(s) 154
MalI GATC 1 cut(s) 264
MboI GATC 1 cut(s) 262
MboII GAAGA 6 cut(s) 74, 103, 106, 190, 193, 284
MflI RGATCY 1 cut(s) 262
MhlI GDGCHC 1 cut(s) 196
MnlI CCTC 4 cut(s) 20, 23, 177, 274
MslI CAYNNNNRTG 1 cut(s) 60
MspI CCGG 1 cut(s) 260
NdeII GATC 1 cut(s) 262
NlaIV GGNNCC 1 cut(s) 113
NmuCI GTSAC 1 cut(s) 154
PfeI GAWTC 2 cut(s) 23, 244
PkrI GCNGC 1 cut(s) 38
PspN4I GGNNCC 1 cut(s) 113
PspPI GGNCC 1 cut(s) 112
PsuI RGATCY 1 cut(s) 262
RsaI GTAC 1 cut(s) 254
RsaNI GTAC 1 cut(s) 253
RseI CAYNNNNRTG 1 cut(s) 60
SatI GCNGC 1 cut(s) 37
Sau3AI GATC 1 cut(s) 262
Sau96I GGNCC 1 cut(s) 112
SduI GDGCHC 1 cut(s) 196
SetI ASST 5 cut(s) 12, 60, 149, 164, 237
SinI GGWCC 1 cut(s) 112
SmiMI CAYNNNNRTG 1 cut(s) 60
SsiI CCGC 1 cut(s) 49
SspMI CTAG 2 cut(s) 108, 248
TaaI ACNGT 1 cut(s) 154
TatI WGTACW 1 cut(s) 252
TfiI GAWTC 2 cut(s) 23, 244
TseFI GTSAC 1 cut(s) 154
TseI GCWGC 1 cut(s) 36
Tsp45I GTSAC 1 cut(s) 154
VpaK11BI GGWCC 1 cut(s) 112
XbaI TCTAGA 1 cut(s) 247
XspI CTAG 2 cut(s) 108, 248
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.