RLG00000023264

zinc finger CCCH domain-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_laevigata
Chr5
OG0000488
Physical Location & Seq
Reverse (-)
20878098 .. 20879072
975 bp
Loading structure...
UTR
Exon/CDS
Intron
RLM00000023264

Sequence Viewer

Length: 975 bp
ATGGAGGAAAAGGGAAAATCTATTGGGAAAACATATGATTCTGCTAATGTTATTGTTGAGAATAGCACTGGTGCCCATAAAGGGAAAGCGGCCAAAGCAGTCTGCAAGTTCTGGGTAGATGGAAAGTGTGTAAGACGCGAAGGGTGCCCTTATTTGCACAATTGGTTCTGTGGAGATGGCTTTTCTTCCTTGGCAAAGCTCCAAGGCCATGAGAAGGGGATAACTGGAATTGTGCTTCCGGAGAGAAGTAGCAATCTCTATTCTGCTGCCAAAGACGGAACCATTAGTGTTTGGGACTGCAATACCGGTCAATGCAGTAGGGTAATCAATCTTGGCGCTGAAGCAAGCTGCTTGATTAGTAAGGCTGCATGGGTTTGCTATGGTGCTTCCAATCTTGTCAAGGTGTGGAATATTGAGTCTAATGCTGAATTTACCATAGCTGGACTTGTTGATAAAGTTCATGCCATGGAAGTTGGGAATGATATGGTATTCACAGGGACAGAGGAAGGTGTTATATATGTGTTGAAAGGCAAAGTCTGTTCCAATGCTAAAGTGAATCCATTTCACCCTCATCAGGCTCTTTGTGGCCACATTGCTGTTGTAGTTTCTTTAAGGTTTGGAAATATCAGATTCTACTTAGGTTCTGTGAACCATACAATAAGGGTATGGAATCTGGACACTTTGGAGTGTGCTATGCCTCTAAATGGACATTCTGATGTTGTGACGTCTCTTATATGTTGGACTACATGTCTGATCTCATGCTCATTAGATCACATGATAAAGGAGTGGACTATGTGTAAAGGAGGCAACATTGAAGAAATCTACACTCACACTGAAGAAGATGCTCTTCTTGCTCTCTCTGGAACGCATGATGTTAAAGATAAACCAGTCCTACTTTGCTCATCAAAAGACAATTTTGTCCGCATATATGATTTGCCATCCTTTGATGAGAAGGGAAGATTATATGCAAAATGA
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

325

Amino Acids

35.52

Weight (kDa)

6.63

Isoelectric Point (pI)

32.39

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Beta-prop_WDR5 PF25175 34 - 159 5.4e-08 WDR5 beta-propeller domain
Beta-prop_WDR3_1st PF25173 63 - 109 1.3e-06 WDR3 first beta-propeller domain
Beta-prop_THOC3 PF25174 65 - 244 3.9e-14 THOC3 beta-propeller domain
Beta-prop_WDR3_1st PF25173 125 - 281 7.7e-14 WDR3 first beta-propeller domain
WD40_WDHD1_1st PF24817 127 - 318 3.4e-06 WDHD1 first WD40 domain
WD40_Prp19 PF24814 158 - 314 4.3e-06 Prp19 WD40 domain
Beta-prop_SCAP PF24017 190 - 280 3.6e-08 SCAP Beta-propeller
Beta-prop_WDR5 PF25175 192 - 312 8.5e-12 WDR5 beta-propeller domain
Beta-prop_WDR3_2nd PF25172 213 - 311 9.9e-08 WDR3 second 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)
AasI GACNNNNNNGTC 1 cut(s) 917
AatII GACGTC 1 cut(s) 728
AccB1I GGYRCC 2 cut(s) 71, 144
AccII CGCG 1 cut(s) 138
AccIII TCCGGA 1 cut(s) 238
AciI CCGC 2 cut(s) 89, 922
AcoI YGGCCR 2 cut(s) 90, 586
AcsI RAATTY 1 cut(s) 428
AcuI CTGAAG 2 cut(s) 360, 855
AcyI GRCGYC 1 cut(s) 725
AfiI CCNNNNNNNGG 4 cut(s) 81, 214, 574, 704
AflIII ACRYGT 1 cut(s) 746
AgeI ACCGGT 1 cut(s) 305
AgsI TTSAA 2 cut(s) 526, 815
AhdI GACNNNNNGTC 1 cut(s) 747
AluBI AGCT 3 cut(s) 199, 348, 440
AluI AGCT 3 cut(s) 199, 348, 440
Alw26I GTCTC 1 cut(s) 732
Aor13HI TCCGGA 1 cut(s) 238
AoxI GGCC 3 cut(s) 90, 205, 586
ApeKI GCWGC 3 cut(s) 266, 348, 365
ApoI RAATTY 1 cut(s) 428
AsiGI ACCGGT 1 cut(s) 305
AspLEI GCGC 1 cut(s) 338
AsuHPI GGTGA 1 cut(s) 557
BaeGI GKGCMC 2 cut(s) 76, 149
BalI TGGCCA 1 cut(s) 588
BanI GGYRCC 2 cut(s) 71, 144
BbvI GCAGC 3 cut(s) 253, 335, 352
BccI CCATC 3 cut(s) 113, 170, 946
BcoDI GTCTC 1 cut(s) 732
BfoI RGCGCY 1 cut(s) 339
BisI GCNGC 4 cut(s) 90, 267, 349, 366
BlsI GCNGC 4 cut(s) 91, 268, 350, 367
BmeRI GACNNNNNGTC 1 cut(s) 747
BmiI GGNNCC 3 cut(s) 73, 146, 280
BmsI GCATC 1 cut(s) 832
BsaHI GRCGYC 1 cut(s) 725
BsaJI CCNNGG 3 cut(s) 189, 202, 465
BsaWI WCCGGW 2 cut(s) 238, 305
Bsc4I CCNNNNNNNGG 4 cut(s) 81, 214, 574, 704
Bse118I RCCGGY 1 cut(s) 305
Bse1I ACTGG 3 cut(s) 73, 229, 887
Bse3DI GCAATG 1 cut(s) 591
BseAI TCCGGA 1 cut(s) 238
BseDI CCNNGG 3 cut(s) 189, 202, 465
BseGI GGATG 1 cut(s) 938
BseLI CCNNNNNNNGG 4 cut(s) 81, 214, 574, 704
BseMI GCAATG 1 cut(s) 591
BseNI ACTGG 3 cut(s) 73, 229, 887
BseSI GKGCMC 2 cut(s) 76, 149
BseXI GCAGC 3 cut(s) 253, 335, 352
Bsh1236I CGCG 1 cut(s) 138
BshFI GGCC 3 cut(s) 92, 207, 588
BshNI GGYRCC 2 cut(s) 71, 144
BshTI ACCGGT 1 cut(s) 305
BsiSI CCGG 2 cut(s) 239, 306
BslFI GGGAC 2 cut(s) 308, 511
BslI CCNNNNNNNGG 4 cut(s) 81, 214, 574, 704
BsmAI GTCTC 1 cut(s) 732
BsmBI CGTCTC 1 cut(s) 732
BsmFI GGGAC 2 cut(s) 308, 511
BsnI GGCC 3 cut(s) 92, 207, 588
Bsp1286I GDGCHC 2 cut(s) 76, 149
Bsp13I TCCGGA 1 cut(s) 238
Bsp143I GATC 2 cut(s) 753, 769
Bsp19I CCATGG 1 cut(s) 465
BspACI CCGC 2 cut(s) 89, 922
BspANI GGCC 3 cut(s) 92, 207, 588
BspEI TCCGGA 1 cut(s) 238
BspFNI CGCG 1 cut(s) 138
BspLI GGNNCC 3 cut(s) 73, 146, 280
BspQI GCTCTTC 1 cut(s) 852
BspT107I GGYRCC 2 cut(s) 71, 144
BsrDI GCAATG 1 cut(s) 591
BsrFI RCCGGY 1 cut(s) 305
BsrI ACTGG 3 cut(s) 73, 229, 887
BssAI RCCGGY 1 cut(s) 305
BssECI CCNNGG 3 cut(s) 189, 202, 465
BssMI GATC 2 cut(s) 753, 769
BssNI GRCGYC 1 cut(s) 725
BssT1I CCWWGG 3 cut(s) 189, 202, 465
Bst6I CTCTTC 1 cut(s) 852
BstACI GRCGYC 1 cut(s) 725
BstC8I GCNNGC 1 cut(s) 346
BstDEI CTNAG 1 cut(s) 637
BstDSI CCRYGG 1 cut(s) 465
BstF5I GGATG 1 cut(s) 938
BstFNI CGCG 1 cut(s) 138
BstH2I RGCGCY 1 cut(s) 339
BstHHI GCGC 1 cut(s) 338
BstKTI GATC 2 cut(s) 756, 772
BstMAI GTCTC 1 cut(s) 732
BstMBI GATC 2 cut(s) 753, 769
BstMWI GCNNNNNNNGC 3 cut(s) 95, 144, 851
BstNSI RCATGY 1 cut(s) 750
BstSLI GKGCMC 2 cut(s) 76, 149
BstUI CGCG 1 cut(s) 138
BstV1I GCAGC 3 cut(s) 253, 335, 352
BsuRI GGCC 3 cut(s) 92, 207, 588
BtgI CCRYGG 1 cut(s) 465
BtsCI GGATG 1 cut(s) 938
BtsIMutI CAGTG 2 cut(s) 66, 831
Cac8I GCNNGC 1 cut(s) 346
CfoI GCGC 1 cut(s) 338
Cfr10I RCCGGY 1 cut(s) 305
CseI GACGC 1 cut(s) 144
CspAI ACCGGT 1 cut(s) 305
CviAII CATG 8 cut(s) 209, 369, 461, 466, 747, 759, 775, 869
CviJI RGCY 9 cut(s) 92, 180, 199, 207, 348, 365, 440, 578, 588
CviKI_1 RGCY 9 cut(s) 92, 180, 199, 207, 348, 365, 440, 578, 588
DdeI CTNAG 1 cut(s) 637
DpnI GATC 2 cut(s) 755, 771
DpnII GATC 2 cut(s) 753, 769
DrdI GACNNNNNNGTC 1 cut(s) 917
DriI GACNNNNNGTC 1 cut(s) 747
DseDI GACNNNNNNGTC 1 cut(s) 917
EaeI YGGCCR 2 cut(s) 90, 586
Eam1104I CTCTTC 1 cut(s) 852
Eam1105I GACNNNNNGTC 1 cut(s) 747
EarI CTCTTC 1 cut(s) 852
Eco130I CCWWGG 3 cut(s) 189, 202, 465
Eco57I CTGAAG 2 cut(s) 360, 855
EcoT14I CCWWGG 3 cut(s) 189, 202, 465
ErhI CCWWGG 3 cut(s) 189, 202, 465
Esp3I CGTCTC 1 cut(s) 732
FaeI CATG 8 cut(s) 212, 372, 464, 469, 750, 762, 778, 872
FalI AAGNNNNNCTT 2 cut(s) 831, 863
FaqI GGGAC 2 cut(s) 308, 511
FatI CATG 8 cut(s) 208, 368, 460, 465, 746, 758, 774, 868
FauNDI CATATG 1 cut(s) 34
Fnu4HI GCNGC 4 cut(s) 90, 267, 349, 366
FokI GGATG 1 cut(s) 925
Fsp4HI GCNGC 4 cut(s) 90, 267, 349, 366
GlaI GCGC 1 cut(s) 337
GluI GCNGC 4 cut(s) 90, 267, 349, 366
HaeII RGCGCY 1 cut(s) 339
HaeIII GGCC 3 cut(s) 92, 207, 588
HapII CCGG 2 cut(s) 239, 306
HgaI GACGC 1 cut(s) 144
HhaI GCGC 1 cut(s) 338
Hin1I GRCGYC 1 cut(s) 725
Hin1II CATG 8 cut(s) 212, 372, 464, 469, 750, 762, 778, 872
Hin6I GCGC 1 cut(s) 336
HinP1I GCGC 1 cut(s) 336
HinfI GANTC 5 cut(s) 38, 416, 556, 630, 670
HpaII CCGG 2 cut(s) 239, 306
HphI GGTGA 1 cut(s) 557
Hpy166II GTNNAC 2 cut(s) 649, 789
Hpy188I TCNGA 3 cut(s) 629, 715, 753
Hpy188III TCNNGA 3 cut(s) 239, 674, 861
Hpy8I GTNNAC 2 cut(s) 649, 789
HpyAV CCTTC 4 cut(s) 134, 208, 500, 946
HpyCH4IV ACGT 1 cut(s) 725
HpyCH4V TGCA 6 cut(s) 105, 157, 300, 315, 368, 968
HpyF10VI GCNNNNNNNGC 3 cut(s) 95, 144, 851
HpyF3I CTNAG 1 cut(s) 637
HpySE526I ACGT 1 cut(s) 725
Hsp92I GRCGYC 1 cut(s) 725
Hsp92II CATG 8 cut(s) 212, 372, 464, 469, 750, 762, 778, 872
HspAI GCGC 1 cut(s) 336
Kpn2I TCCGGA 1 cut(s) 238
Kzo9I GATC 2 cut(s) 753, 769
LguI GCTCTTC 1 cut(s) 852
LmnI GCTCC 1 cut(s) 204
Lsp1109I GCAGC 3 cut(s) 253, 335, 352
LweI GCATC 1 cut(s) 832
MaeII ACGT 1 cut(s) 725
MaeIII GTNAC 1 cut(s) 721
MalI GATC 2 cut(s) 755, 771
MboI GATC 2 cut(s) 753, 769
MboII GAAGA 6 cut(s) 177, 827, 839, 848, 851, 969
MfeI CAATTG 1 cut(s) 160
MhlI GDGCHC 2 cut(s) 76, 149
MlsI TGGCCA 1 cut(s) 588
MluCI AATT 4 cut(s) 160, 228, 428, 913
MluNI TGGCCA 1 cut(s) 588
MlyI GAGTC 1 cut(s) 425
MmeI TCCRAC 1 cut(s) 719
MnlI CCTC 4 cut(s) 496, 579, 708, 797
Mox20I TGGCCA 1 cut(s) 588
MroI TCCGGA 1 cut(s) 238
MscI TGGCCA 1 cut(s) 588
MseI TTAA 2 cut(s) 611, 876
MslI CAYNNNNRTG 1 cut(s) 714
Msp20I TGGCCA 1 cut(s) 588
MspI CCGG 2 cut(s) 239, 306
MunI CAATTG 1 cut(s) 160
MvnI CGCG 1 cut(s) 138
MwoI GCNNNNNNNGC 3 cut(s) 95, 144, 851
NcoI CCATGG 1 cut(s) 465
NdeI CATATG 1 cut(s) 34
NdeII GATC 2 cut(s) 753, 769
NlaIII CATG 8 cut(s) 212, 372, 464, 469, 750, 762, 778, 872
NlaIV GGNNCC 3 cut(s) 73, 146, 280
NmuCI GTSAC 1 cut(s) 721
NspI RCATGY 1 cut(s) 750
PciI ACATGT 1 cut(s) 746
PciSI GCTCTTC 1 cut(s) 852
PfeI GAWTC 4 cut(s) 38, 556, 630, 670
PinAI ACCGGT 1 cut(s) 305
PkrI GCNGC 4 cut(s) 91, 268, 350, 367
PleI GAGTC 1 cut(s) 424
PpsI GAGTC 1 cut(s) 424
PscI ACATGT 1 cut(s) 746
PspN4I GGNNCC 3 cut(s) 73, 146, 280
RseI CAYNNNNRTG 1 cut(s) 714
SapI GCTCTTC 1 cut(s) 852
SaqAI TTAA 2 cut(s) 611, 876
SatI GCNGC 4 cut(s) 90, 267, 349, 366
Sau3AI GATC 2 cut(s) 753, 769
SchI GAGTC 1 cut(s) 425
SduI GDGCHC 2 cut(s) 76, 149
SetI ASST 8 cut(s) 201, 350, 405, 442, 511, 617, 643, 728
SfaNI GCATC 1 cut(s) 832
SmiMI CAYNNNNRTG 1 cut(s) 714
Sse9I AATT 4 cut(s) 160, 228, 428, 913
SsiI CCGC 2 cut(s) 89, 922
SspI AATATT 1 cut(s) 412
StyI CCWWGG 3 cut(s) 189, 202, 465
TaiI ACGT 1 cut(s) 728
TasI AATT 4 cut(s) 160, 228, 428, 913
TauI GCSGC 1 cut(s) 92
TfiI GAWTC 4 cut(s) 38, 556, 630, 670
Tru1I TTAA 2 cut(s) 611, 876
Tru9I TTAA 2 cut(s) 611, 876
TscAI CASTG 2 cut(s) 73, 838
TseFI GTSAC 1 cut(s) 721
TseI GCWGC 3 cut(s) 266, 348, 365
Tsp45I GTSAC 1 cut(s) 721
TspDTI ATGAA 1 cut(s) 449
TspGWI ACGGA 1 cut(s) 291
TspRI CASTG 2 cut(s) 73, 838
XapI RAATTY 1 cut(s) 428
XceI RCATGY 1 cut(s) 750
ZraI GACGTC 1 cut(s) 726
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.