Rh3AG255500

zinc finger CCCH domain-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr3A
OG0000488
Physical Location & Seq
Forward (+)
27946025 .. 27946351
327 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh3AG255500.1

Sequence Viewer

Length: 327 bp
ATGGCAGAAGCAGTCTGCAAGTTCTGGGCAGATGGAAAGTGTGTAAGAAGCTTAGGGTGCCCTTATTTGCACAGTTGGTTCCGTGGAGATGGCTTTTCTTCCTTGACAAAGCTCCAAGGCCATAAGAAGGGGGTAACTGGAATTGTGCTTTCGGAGAGAAGTAGCAATCTCTATTCTGCTGCCAAAAATGGGACTATTAGGGTTTGGGACTACAATACCGGTCAAGGCAGCAGGGTAATCAATCTTAATGTTGAAGCAGGCTGCTTGATTAGTAAGGGTGCATGGGTTTTCCGTGGTGCTTCCAATCTTGTCAAGGTGGAATATTGA
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

108

Amino Acids

11.82

Weight (kDa)

9.51

Isoelectric Point (pI)

17.2

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Beta-prop_WDR5 PF25175 5 - 79 3.1e-08 WDR5 beta-propeller domain
WD40 PF00400 34 - 70 2.9e-07 WD domain, G-beta repeat
Beta-prop_WDR3_1st PF25173 35 - 76 1.8e-06 WDR3 first beta-propeller domain
Beta-prop_THOC3 PF25174 35 - 86 7.9e-06 THOC3 beta-propeller domain
Beta-prop_WDR75_1st PF23869 35 - 74 8.3e-06 WD repeat-containing protein 75 first beta-propeller
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)
AccB1I GGYRCC 1 cut(s) 57
AfiI CCNNNNNNNGG 2 cut(s) 127, 189
AgeI ACCGGT 1 cut(s) 218
AgsI TTSAA 1 cut(s) 254
AluBI AGCT 2 cut(s) 51, 112
AluI AGCT 2 cut(s) 51, 112
AoxI GGCC 1 cut(s) 118
ApeKI GCWGC 3 cut(s) 179, 228, 261
AsiGI ACCGGT 1 cut(s) 218
BaeGI GKGCMC 1 cut(s) 62
BanI GGYRCC 1 cut(s) 57
BbvI GCAGC 3 cut(s) 166, 240, 248
BccI CCATC 2 cut(s) 26, 83
BisI GCNGC 3 cut(s) 180, 229, 262
BlsI GCNGC 3 cut(s) 181, 230, 263
BmiI GGNNCC 2 cut(s) 59, 80
Bpu10I CCTNAGC 1 cut(s) 52
BsaJI CCNNGG 3 cut(s) 82, 115, 292
BsaWI WCCGGW 1 cut(s) 218
Bsc4I CCNNNNNNNGG 2 cut(s) 127, 189
Bse118I RCCGGY 1 cut(s) 218
Bse1I ACTGG 1 cut(s) 142
BseDI CCNNGG 3 cut(s) 82, 115, 292
BseLI CCNNNNNNNGG 2 cut(s) 127, 189
BseNI ACTGG 1 cut(s) 142
BseSI GKGCMC 1 cut(s) 62
BseXI GCAGC 3 cut(s) 166, 240, 248
BshFI GGCC 1 cut(s) 120
BshNI GGYRCC 1 cut(s) 57
BshTI ACCGGT 1 cut(s) 218
BsiSI CCGG 1 cut(s) 219
BslFI GGGAC 2 cut(s) 205, 221
BslI CCNNNNNNNGG 2 cut(s) 127, 189
BsmFI GGGAC 2 cut(s) 205, 221
BsnI GGCC 1 cut(s) 120
Bsp1286I GDGCHC 1 cut(s) 62
BspANI GGCC 1 cut(s) 120
BspLI GGNNCC 2 cut(s) 59, 80
BspT107I GGYRCC 1 cut(s) 57
BsrFI RCCGGY 1 cut(s) 218
BsrI ACTGG 1 cut(s) 142
BssAI RCCGGY 1 cut(s) 218
BssECI CCNNGG 3 cut(s) 82, 115, 292
BssT1I CCWWGG 1 cut(s) 115
Bst4CI ACNGT 1 cut(s) 74
BstC8I GCNNGC 1 cut(s) 259
BstDEI CTNAG 1 cut(s) 52
BstDSI CCRYGG 2 cut(s) 82, 292
BstMWI GCNNNNNNNGC 1 cut(s) 57
BstSLI GKGCMC 1 cut(s) 62
BstV1I GCAGC 3 cut(s) 166, 240, 248
BsuRI GGCC 1 cut(s) 120
BtgI CCRYGG 2 cut(s) 82, 292
Cac8I GCNNGC 1 cut(s) 259
Cfr10I RCCGGY 1 cut(s) 218
CspAI ACCGGT 1 cut(s) 218
CviAII CATG 1 cut(s) 282
CviJI RGCY 5 cut(s) 51, 93, 112, 120, 261
CviKI_1 RGCY 5 cut(s) 51, 93, 112, 120, 261
DdeI CTNAG 1 cut(s) 52
Eco130I CCWWGG 1 cut(s) 115
EcoT14I CCWWGG 1 cut(s) 115
ErhI CCWWGG 1 cut(s) 115
FaeI CATG 1 cut(s) 285
FaiI YATR 2 cut(s) 123, 283
FaqI GGGAC 2 cut(s) 205, 221
FatI CATG 1 cut(s) 281
Fnu4HI GCNGC 3 cut(s) 180, 229, 262
Fsp4HI GCNGC 3 cut(s) 180, 229, 262
GluI GCNGC 3 cut(s) 180, 229, 262
HaeIII GGCC 1 cut(s) 120
HapII CCGG 1 cut(s) 219
Hin1II CATG 1 cut(s) 285
HindIII AAGCTT 1 cut(s) 49
HpaII CCGG 1 cut(s) 219
Hpy188I TCNGA 1 cut(s) 154
HpyAV CCTTC 1 cut(s) 121
HpyCH4III ACNGT 1 cut(s) 74
HpyCH4V TGCA 3 cut(s) 18, 70, 281
HpyF10VI GCNNNNNNNGC 1 cut(s) 57
HpyF3I CTNAG 1 cut(s) 52
Hsp92II CATG 1 cut(s) 285
LmnI GCTCC 1 cut(s) 117
LpnPI CCDG 5 cut(s) 10, 123, 217, 232, 243
Lsp1109I GCAGC 3 cut(s) 166, 240, 248
MaeIII GTNAC 1 cut(s) 133
MboII GAAGA 1 cut(s) 90
MhlI GDGCHC 1 cut(s) 62
MluCI AATT 1 cut(s) 141
MseI TTAA 1 cut(s) 246
MspI CCGG 1 cut(s) 219
MwoI GCNNNNNNNGC 1 cut(s) 57
NlaIII CATG 1 cut(s) 285
NlaIV GGNNCC 2 cut(s) 59, 80
PinAI ACCGGT 1 cut(s) 218
PkrI GCNGC 3 cut(s) 181, 230, 263
PspN4I GGNNCC 2 cut(s) 59, 80
SaqAI TTAA 1 cut(s) 246
SatI GCNGC 3 cut(s) 180, 229, 262
SduI GDGCHC 1 cut(s) 62
SetI ASST 3 cut(s) 53, 114, 318
Sse9I AATT 1 cut(s) 141
SspI AATATT 1 cut(s) 323
StyI CCWWGG 1 cut(s) 115
TaaI ACNGT 1 cut(s) 74
TasI AATT 1 cut(s) 141
Tru1I TTAA 1 cut(s) 246
Tru9I TTAA 1 cut(s) 246
TseI GCWGC 3 cut(s) 179, 228, 261
TspGWI ACGGA 2 cut(s) 71, 281
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.