Rorug04G0166800

zinc finger CCCH domain-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000004
OG0000488
Physical Location & Seq
Forward (+)
29229313 .. 29230719
1407 bp
Loading structure...
UTR
Exon/CDS
Intron
Rorug04G0166800.1

Sequence Viewer

Length: 273 bp
ATGACTGCCTCGCCTGCCAAGGTGGTTACTATGGCACTTGCTCAGCACCCAGTTGTGAATGCCAGCTGCAGATATGGAAAGAGCTTTCACTACAACAGTAGCATAAACATCGCCATTGCTGTGGCTATTGATGATGGGCTAATAACCCATATTCTTCAGGATGCAGATAAGTTGGATTTGTATTTGTTATCTCAGAAGTGGAAAGAGCTGATGGAGAAGGCTCGCTCAAAGCAACTTCAGCCCCATGAGTACAACTCAAGTCTTCATCATTGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0003674 GO:0003676 GO:0003723 GO:0003729 GO:0005488 GO:0097159 GO:1901363
KEGG Pathways
Metabolic & Signaling
ko04120 map04120
Pfam Domains
Protein Families
WD40 zf-CCCH

Protein Analysis

90

Amino Acids

10.1

Weight (kDa)

7.93

Isoelectric Point (pI)

58.2

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
2-oxoacid_dh PF00198 6 - 85 1.3e-19 2-oxoacid dehydrogenases acyltransferase (catalytic 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
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

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)
AcuI CTGAAG 2 cut(s) 140, 221
AfaI GTAC 1 cut(s) 251
AluBI AGCT 3 cut(s) 66, 84, 208
AluI AGCT 3 cut(s) 66, 84, 208
ApeKI GCWGC 1 cut(s) 66
BbsI GAAGAC 1 cut(s) 254
BbvI GCAGC 1 cut(s) 53
BccI CCATC 2 cut(s) 128, 205
BcgI CGANNNNNNTGC 2 cut(s) 91, 125
BfmI CTRYAG 1 cut(s) 67
BisI GCNGC 1 cut(s) 67
BlpI GCTNAGC 1 cut(s) 42
BlsI GCNGC 1 cut(s) 68
BmrI ACTGGG 1 cut(s) 44
BmsI GCATC 1 cut(s) 151
BmuI ACTGGG 1 cut(s) 44
BpiI GAAGAC 1 cut(s) 254
BplI GAGNNNNNCTC 2 cut(s) 239, 271
Bpu1102I GCTNAGC 1 cut(s) 42
BpuEI CTTGAG 1 cut(s) 241
BsaJI CCNNGG 1 cut(s) 18
Bse1I ACTGG 1 cut(s) 50
Bse3DI GCAATG 1 cut(s) 114
BseDI CCNNGG 1 cut(s) 18
BseGI GGATG 1 cut(s) 166
BseMI GCAATG 1 cut(s) 114
BseMII CTCAG 2 cut(s) 56, 206
BseNI ACTGG 1 cut(s) 50
BseXI GCAGC 1 cut(s) 53
BsmI GAATGC 1 cut(s) 64
Bsp1720I GCTNAGC 1 cut(s) 42
BspCNI CTCAG 2 cut(s) 55, 205
BspMAI CTGCAG 1 cut(s) 71
BsrDI GCAATG 1 cut(s) 114
BsrI ACTGG 1 cut(s) 50
BssECI CCNNGG 1 cut(s) 18
BssT1I CCWWGG 1 cut(s) 18
Bst4CI ACNGT 1 cut(s) 98
BstC8I GCNNGC 3 cut(s) 15, 64, 223
BstDEI CTNAG 2 cut(s) 42, 192
BstF5I GGATG 1 cut(s) 166
BstMWI GCNNNNNNNGC 2 cut(s) 14, 238
BstSFI CTRYAG 1 cut(s) 67
BstV1I GCAGC 1 cut(s) 53
BstV2I GAAGAC 1 cut(s) 254
BstXI CCANNNNNNTGG 1 cut(s) 121
BtgZI GCGATG 1 cut(s) 94
BtsCI GGATG 1 cut(s) 166
Cac8I GCNNGC 3 cut(s) 15, 64, 223
Csp6I GTAC 1 cut(s) 250
CviAII CATG 1 cut(s) 245
CviJI RGCY 7 cut(s) 66, 84, 125, 139, 208, 221, 241
CviKI_1 RGCY 7 cut(s) 66, 84, 125, 139, 208, 221, 241
CviQI GTAC 1 cut(s) 250
DdeI CTNAG 2 cut(s) 42, 192
Eco130I CCWWGG 1 cut(s) 18
Eco57I CTGAAG 2 cut(s) 140, 221
EcoT14I CCWWGG 1 cut(s) 18
ErhI CCWWGG 1 cut(s) 18
FaeI CATG 1 cut(s) 248
FaiI YATR 5 cut(s) 32, 75, 104, 150, 246
FatI CATG 1 cut(s) 244
Fnu4HI GCNGC 1 cut(s) 67
FokI GGATG 1 cut(s) 173
Fsp4HI GCNGC 1 cut(s) 67
GluI GCNGC 1 cut(s) 67
Hin1II CATG 1 cut(s) 248
Hpy188I TCNGA 1 cut(s) 195
Hpy188III TCNNGA 1 cut(s) 158
HpyAV CCTTC 1 cut(s) 211
HpyCH4III ACNGT 1 cut(s) 98
HpyCH4V TGCA 2 cut(s) 69, 164
HpyF10VI GCNNNNNNNGC 2 cut(s) 14, 238
HpyF3I CTNAG 2 cut(s) 42, 192
Hsp92II CATG 1 cut(s) 248
LpnPI CCDG 4 cut(s) 27, 63, 76, 143
Lsp1109I GCAGC 1 cut(s) 53
LweI GCATC 1 cut(s) 151
MaeIII GTNAC 1 cut(s) 25
MboII GAAGA 2 cut(s) 146, 254
MmeI TCCRAC 1 cut(s) 153
MnlI CCTC 1 cut(s) 19
MslI CAYNNNNRTG 1 cut(s) 119
MspA1I CMGCKG 1 cut(s) 66
Mva1269I GAATGC 1 cut(s) 64
MwoI GCNNNNNNNGC 2 cut(s) 14, 238
NlaIII CATG 1 cut(s) 248
PctI GAATGC 1 cut(s) 64
PkrI GCNGC 1 cut(s) 68
PstI CTGCAG 1 cut(s) 71
PvuII CAGCTG 1 cut(s) 66
RsaI GTAC 1 cut(s) 251
RsaNI GTAC 1 cut(s) 250
RseI CAYNNNNRTG 1 cut(s) 119
SatI GCNGC 1 cut(s) 67
SetI ASST 4 cut(s) 24, 68, 86, 210
SfaNI GCATC 1 cut(s) 151
SfcI CTRYAG 1 cut(s) 67
SgeI CNNG 9 cut(s) 22, 26, 31, 50, 62, 75, 170, 234, 257
SmiMI CAYNNNNRTG 1 cut(s) 119
SmlI CTYRAG 1 cut(s) 256
SmoI CTYRAG 1 cut(s) 256
StyI CCWWGG 1 cut(s) 18
TaaI ACNGT 1 cut(s) 98
TatI WGTACW 1 cut(s) 249
TseI GCWGC 1 cut(s) 66
TspDTI ATGAA 1 cut(s) 254
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.