Rroxscaffold_6G00398950

zinc finger CCCH domain-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000006
OG0000488
Physical Location & Seq
Forward (+)
20848220 .. 20848558
339 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_6G00398950.1

Sequence Viewer

Length: 285 bp
ATGGCCCCAGAGTATCACCACCACCCCTACGCCCAGACCACAGCTATAACTGGTATTGCCTTTCCCGAAAGGAGTAGCAAGCTTTATACGGCTAATAAAGATGGGACGGTCAGAGTTTGGGATTGTAATACCAGTCAATGTATCAGGGTAGTTAATCTTGGTAGTGAAGCAGGGGCTTTGATTAGTAAGGGTCCATGGGTTTTCTACGGTGCTCTTAATGTTGTCAAGGCATGGAGCATTGAATGGGGTATCAGATGGGGAACATGTTTGGGATTTTTGAGGTAG
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko03040 ko04120 map03040 map04120
Pfam Domains
Protein Families
WD40 zf-CCCH

Protein Analysis

94

Amino Acids

10.47

Weight (kDa)

8.93

Isoelectric Point (pI)

37.24

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Beta-prop_THOC3 PF25174 12 - 57 2.8e-06 THOC3 beta-propeller domain
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: OG0000488)

Species Orthologous Gene IDs
arabidopsis_thaliana AT4G25440 AT4G25440 AT4G25440 AT5G51980 AT5G51980
fragaria_vesca FvH4_2g11580 FvH4_3g29280 FvH4_4g05980 FvH4_7g28880 FvH4_7g28880
malus_domestica MD01G1195600.v1.1 MD02G1195200.v1.1 MD07G1262400.v1.1
prunus_persica Prupe.2G102200_v2.0.a1 Prupe.2G102200_v2.0.a1 Prupe.2G120800_v2.0.a1 Prupe.2G120800_v2.0.a1 Prupe.2G153300_v2.0.a1 Prupe.2G153300_v2.0.a1 Prupe.2G153400_v2.0.a1 Prupe.2G153400_v2.0.a1 Prupe.2G288900_v2.0.a1
pyrus_communis pycom01g20620 pycom02g15900 pycom07g24140
rosa_chinensis RchiOBHm_Chr1g0376561 RchiOBHm_Chr3g0483051 RchiOBHm_Chr3g0483061 RchiOBHm_Chr3g0483601 RchiOBHm_Chr3g0483611 RchiOBHm_Chr4g0402321 RchiOBHm_Chr6g0270771
rosa_laevigata RLG00000009464 RLG00000009486 RLG00000013770 RLG00000023264 RLG00000023325 RLG00000026601 RLG00000035049
rosa_multiflora Rmu_co8110388.1_g000001 Rmu_co8419409.1_g000001 Rmu_sc0000555.1_g000012 Rmu_sc0000642.1_g000020 Rmu_sc0001308.1_g000010 Rmu_sc0002963.1_g000021 Rmu_sc0004788.1_g000012 Rmu_sc0005594.1_g000015 Rmu_sc0022770.1_g000001
rosa_roxburghii Rroxscaffold_4G00282000 Rroxscaffold_5G00341940 Rroxscaffold_5G00341950 Rroxscaffold_6G00398950 Rroxscaffold_7G00197610
rosa_rugosa Rorug01G0396500 Rorug03G0207400 Rorug03G0346000 Rorug04G0166800 Rorug06G0056400 Rorug06G0056500
rosa_samantha Rh1AG412700 Rh1BG372400 Rh1BG372600 Rh1CG386200 Rh1CG386500 Rh1DG403300 Rh1DG403500 Rh3AG255500 Rh3AG255600 Rh3BG292600 Rh3CG290200 Rh3DG278800 Rh3DG286100 Rh4AG075500 Rh4AG111600 Rh4BG071900 Rh4BG072100 Rh4BG231300 Rh4CG080200 Rh4CG080300 Rh4DG069300 Rh4DG069500 Rh6AG175700 Rh6BG178900 Rh6CG175200 Rh6DG167500
rosa_wichuraiana Rw1G036190 Rw3G023110 Rw4G006070 Rw6G014960

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AflIII ACRYGT 1 cut(s) 263
AgsI TTSAA 1 cut(s) 242
AluBI AGCT 2 cut(s) 44, 82
AluI AGCT 2 cut(s) 44, 82
Alw21I GWGCWC 1 cut(s) 214
AoxI GGCC 1 cut(s) 3
AspS9I GGNCC 2 cut(s) 4, 191
AsuHPI GGTGA 1 cut(s) 8
AvaII GGWCC 1 cut(s) 191
Bbv12I GWGCWC 1 cut(s) 214
BccI CCATC 2 cut(s) 95, 249
BceAI ACGGC 1 cut(s) 105
Bme18I GGWCC 1 cut(s) 191
BmgT120I GGNCC 2 cut(s) 4, 191
BmiI GGNNCC 2 cut(s) 6, 192
BsaJI CCNNGG 1 cut(s) 194
Bse1I ACTGG 2 cut(s) 55, 132
BseDI CCNNGG 1 cut(s) 194
BseNI ACTGG 2 cut(s) 55, 132
BshFI GGCC 1 cut(s) 5
BsiHKAI GWGCWC 1 cut(s) 214
BslFI GGGAC 1 cut(s) 118
BsmFI GGGAC 1 cut(s) 118
BsnI GGCC 1 cut(s) 5
Bsp1286I GDGCHC 1 cut(s) 214
Bsp19I CCATGG 1 cut(s) 194
BspANI GGCC 1 cut(s) 5
BspLI GGNNCC 2 cut(s) 6, 192
BsrI ACTGG 2 cut(s) 55, 132
BssECI CCNNGG 1 cut(s) 194
BssT1I CCWWGG 1 cut(s) 194
Bst4CI ACNGT 2 cut(s) 109, 209
BstC8I GCNNGC 1 cut(s) 80
BstDSI CCRYGG 1 cut(s) 194
BstNSI RCATGY 1 cut(s) 267
BsuRI GGCC 1 cut(s) 5
BtgI CCRYGG 1 cut(s) 194
Cac8I GCNNGC 1 cut(s) 80
Cfr13I GGNCC 2 cut(s) 4, 191
CviAII CATG 3 cut(s) 195, 231, 264
CviJI RGCY 5 cut(s) 5, 44, 82, 92, 176
CviKI_1 RGCY 5 cut(s) 5, 44, 82, 92, 176
Eco130I CCWWGG 1 cut(s) 194
Eco47I GGWCC 1 cut(s) 191
EcoT14I CCWWGG 1 cut(s) 194
ErhI CCWWGG 1 cut(s) 194
FaeI CATG 3 cut(s) 198, 234, 267
FaiI YATR 5 cut(s) 47, 87, 196, 232, 265
FaqI GGGAC 1 cut(s) 118
FatI CATG 3 cut(s) 194, 230, 263
HaeIII GGCC 1 cut(s) 5
Hin1II CATG 3 cut(s) 198, 234, 267
HindIII AAGCTT 1 cut(s) 80
HphI GGTGA 1 cut(s) 8
Hpy188I TCNGA 2 cut(s) 113, 254
Hpy188III TCNNGA 1 cut(s) 65
HpyCH4III ACNGT 2 cut(s) 109, 209
Hsp92II CATG 3 cut(s) 198, 234, 267
LmnI GCTCC 1 cut(s) 234
LpnPI CCDG 6 cut(s) 21, 36, 47, 130, 145, 156
MhlI GDGCHC 1 cut(s) 214
MnlI CCTC 1 cut(s) 273
MseI TTAA 2 cut(s) 153, 216
NcoI CCATGG 1 cut(s) 194
NlaIII CATG 3 cut(s) 198, 234, 267
NlaIV GGNNCC 2 cut(s) 6, 192
NspI RCATGY 1 cut(s) 267
PciI ACATGT 1 cut(s) 263
PscI ACATGT 1 cut(s) 263
PspN4I GGNNCC 2 cut(s) 6, 192
PspPI GGNCC 2 cut(s) 4, 191
SaqAI TTAA 2 cut(s) 153, 216
Sau96I GGNCC 2 cut(s) 4, 191
SduI GDGCHC 1 cut(s) 214
SetI ASST 3 cut(s) 46, 84, 284
SinI GGWCC 1 cut(s) 191
StyI CCWWGG 1 cut(s) 194
TaaI ACNGT 2 cut(s) 109, 209
Tru1I TTAA 2 cut(s) 153, 216
Tru9I TTAA 2 cut(s) 153, 216
VpaK11BI GGWCC 1 cut(s) 191
XceI RCATGY 1 cut(s) 267
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.