Rh3BG292600

zinc finger CCCH domain-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr3B
OG0000488
Physical Location & Seq
Forward (+)
29341012 .. 29342244
1233 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh3BG292600.1

Sequence Viewer

Length: 801 bp
ATGGCTCTCAGGGATTCCAATTCCAGACTCCCAAGGACAGAAGGATCCGTTTATGCAAGAAGACCTGCTTCCGAAACCGTCTGCAAGTTTTGGGTGATGTGCAGATGCCTCAAGAAAGAGTGTCGGTTCCTACACGCTGACCCGGAACAAAAGACTCTTGCATTAATGGAGGAGAAGGGAAAATCTATGGGGAAAGCATCTGATTATGTTAATGTTATGGTTGAGAATAGCATCGATACCCATAAAGGGAAAGTGGCCGAAGCAGTCTGCAAGTTCTGGGCAGATGGAAAGCTCTCAGTGGCCACTGATGATGTGGTTTCTTTAAGGGTTGGAAATATCAGACTCTACTCAGGTTTTGTGGACCATACAATAAGGGAATGGAATCTTGACACTTTGGAGTGTGCTATGACTCTAAATGGACATTCTGATGCTGTGACATCTCTTATATGTTGGACTACATGTCTGATCTCATGCTCATTAGACCACACGATAAAGGCGCGACTATGTGTAAAGGAGGCATGCAACATTGAAGAAATCTACACTCACAATGAAGAAGACGGTCTTCTTGCTCTCTCTGGAATGTATGATGCTGAAGATAAACCAGTCCTACTTTGCTCATCAAAAGACAATTCTGTCCGCATAGATGATTTGCCATCCTTTGATGAGAAAGGAAGATTATTTGCAAAACGAGAAGTTCGGGCTATTCAAGTGGACCTTGGAGGACTATTCTTCATTGGGGACGAAAATGGAGGACTTTCCATGTGGAAGTGGTTTGAACCTGCAGTCAAACAAGAGTCATGA
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

266

Amino Acids

29.86

Weight (kDa)

5.49

Isoelectric Point (pI)

40.55

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Beta-prop_WDR3_1st PF25173 114 - 255 1.1e-10 WDR3 first beta-propeller domain
Beta-prop_THOC3 PF25174 114 - 257 1.7e-08 THOC3 beta-propeller domain
Beta-prop_WDR5 PF25175 115 - 217 7.7e-08 WDR5 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) 632
Acc36I ACCTGC 2 cut(s) 73, 787
AccII CGCG 1 cut(s) 499
AciI CCGC 1 cut(s) 637
AclWI GGATC 2 cut(s) 39, 52
AcoI YGGCCR 2 cut(s) 255, 300
AcuI CTGAAG 1 cut(s) 612
AfiI CCNNNNNNNGG 1 cut(s) 246
AflIII ACRYGT 1 cut(s) 458
AgsI TTSAA 3 cut(s) 530, 707, 776
AhdI GACNNNNNGTC 1 cut(s) 459
AluBI AGCT 1 cut(s) 292
AluI AGCT 1 cut(s) 292
AlwI GGATC 2 cut(s) 39, 52
AoxI GGCC 2 cut(s) 255, 300
AseI ATTAAT 1 cut(s) 164
AspLEI GCGC 1 cut(s) 499
AspS9I GGNCC 2 cut(s) 361, 712
AsuC2I CCSGG 1 cut(s) 143
AsuHPI GGTGA 1 cut(s) 106
AvaII GGWCC 2 cut(s) 361, 712
BalI TGGCCA 1 cut(s) 302
BamHI GGATCC 1 cut(s) 44
BbsI GAAGAC 3 cut(s) 67, 554, 561
BccI CCATC 2 cut(s) 278, 661
BcnI CCSGG 1 cut(s) 143
BfmI CTRYAG 1 cut(s) 780
BfuAI ACCTGC 2 cut(s) 73, 787
Bme1390I CCNGG 1 cut(s) 143
Bme18I GGWCC 2 cut(s) 361, 712
BmeRI GACNNNNNGTC 1 cut(s) 459
BmgT120I GGNCC 2 cut(s) 361, 712
BmiI GGNNCC 2 cut(s) 46, 128
BmrFI CCNGG 1 cut(s) 143
BmsI GCATC 5 cut(s) 95, 206, 240, 418, 577
BpiI GAAGAC 3 cut(s) 67, 554, 561
BpuEI CTTGAG 1 cut(s) 95
BpuMI CCSGG 1 cut(s) 143
Bsa29I ATCGAT 1 cut(s) 234
BsaJI CCNNGG 2 cut(s) 32, 715
Bsc4I CCNNNNNNNGG 1 cut(s) 246
Bse1I ACTGG 1 cut(s) 602
BseCI ATCGAT 1 cut(s) 234
BseDI CCNNGG 2 cut(s) 32, 715
BseGI GGATG 1 cut(s) 653
BseLI CCNNNNNNNGG 1 cut(s) 246
BseMII CTCAG 3 cut(s) 22, 309, 363
BseNI ACTGG 1 cut(s) 602
BseRI GAGGAG 1 cut(s) 185
BsgI GTGCAG 1 cut(s) 121
Bsh1236I CGCG 1 cut(s) 499
BshFI GGCC 2 cut(s) 257, 302
BshVI ATCGAT 1 cut(s) 234
BsiSI CCGG 1 cut(s) 143
BslFI GGGAC 1 cut(s) 752
BslI CCNNNNNNNGG 1 cut(s) 246
BsmFI GGGAC 1 cut(s) 752
BsnI GGCC 2 cut(s) 257, 302
Bsp143I GATC 2 cut(s) 44, 465
BspACI CCGC 1 cut(s) 637
BspANI GGCC 2 cut(s) 257, 302
BspCNI CTCAG 3 cut(s) 21, 308, 362
BspDI ATCGAT 1 cut(s) 234
BspFNI CGCG 1 cut(s) 499
BspHI TCATGA 1 cut(s) 797
BspLI GGNNCC 2 cut(s) 46, 128
BspMAI CTGCAG 1 cut(s) 784
BspMI ACCTGC 2 cut(s) 73, 787
BspPI GGATC 2 cut(s) 39, 52
BsrI ACTGG 1 cut(s) 602
BssECI CCNNGG 2 cut(s) 32, 715
BssMI GATC 2 cut(s) 44, 465
BssT1I CCWWGG 2 cut(s) 32, 715
Bst4CI ACNGT 2 cut(s) 79, 560
BstC8I GCNNGC 1 cut(s) 520
BstDEI CTNAG 3 cut(s) 8, 295, 349
BstF5I GGATG 1 cut(s) 653
BstFNI CGCG 1 cut(s) 499
BstHHI GCGC 1 cut(s) 499
BstKTI GATC 2 cut(s) 47, 468
BstMBI GATC 2 cut(s) 44, 465
BstNSI RCATGY 2 cut(s) 462, 522
BstSCI CCNGG 1 cut(s) 141
BstSFI CTRYAG 1 cut(s) 780
BstUI CGCG 1 cut(s) 499
BstV2I GAAGAC 3 cut(s) 67, 554, 561
BstX2I RGATCY 1 cut(s) 44
BstYI RGATCY 1 cut(s) 44
Bsu15I ATCGAT 1 cut(s) 234
BsuRI GGCC 2 cut(s) 257, 302
BsuTUI ATCGAT 1 cut(s) 234
BtsCI GGATG 1 cut(s) 653
BtsIMutI CAGTG 2 cut(s) 303, 303
BveI ACCTGC 2 cut(s) 73, 787
Cac8I GCNNGC 1 cut(s) 520
CciI TCATGA 1 cut(s) 797
CfoI GCGC 1 cut(s) 499
Cfr13I GGNCC 2 cut(s) 361, 712
ClaI ATCGAT 1 cut(s) 234
CviAII CATG 5 cut(s) 459, 471, 519, 760, 798
CviJI RGCY 5 cut(s) 5, 257, 292, 302, 701
CviKI_1 RGCY 5 cut(s) 5, 257, 292, 302, 701
DdeI CTNAG 3 cut(s) 8, 295, 349
DpnI GATC 2 cut(s) 46, 467
DpnII GATC 2 cut(s) 44, 465
DrdI GACNNNNNNGTC 1 cut(s) 632
DriI GACNNNNNGTC 1 cut(s) 459
DseDI GACNNNNNNGTC 1 cut(s) 632
EaeI YGGCCR 2 cut(s) 255, 300
Eam1105I GACNNNNNGTC 1 cut(s) 459
Eco130I CCWWGG 2 cut(s) 32, 715
Eco47I GGWCC 2 cut(s) 361, 712
Eco57I CTGAAG 1 cut(s) 612
EcoT14I CCWWGG 2 cut(s) 32, 715
ErhI CCWWGG 2 cut(s) 32, 715
FaeI CATG 5 cut(s) 462, 474, 522, 763, 801
FalI AAGNNNNNCTT 6 cut(s) 52, 84, 546, 578, 699, 731
FaqI GGGAC 1 cut(s) 752
FatI CATG 5 cut(s) 458, 470, 518, 759, 797
FokI GGATG 1 cut(s) 640
GlaI GCGC 1 cut(s) 498
HaeIII GGCC 2 cut(s) 257, 302
HapII CCGG 1 cut(s) 143
HhaI GCGC 1 cut(s) 499
Hin1II CATG 5 cut(s) 462, 474, 522, 763, 801
Hin6I GCGC 1 cut(s) 497
HinP1I GCGC 1 cut(s) 497
HinfI GANTC 7 cut(s) 14, 27, 154, 342, 382, 409, 794
HpaII CCGG 1 cut(s) 143
HphI GGTGA 1 cut(s) 106
Hpy166II GTNNAC 2 cut(s) 361, 712
Hpy188I TCNGA 5 cut(s) 73, 202, 341, 427, 465
Hpy188III TCNNGA 5 cut(s) 24, 112, 386, 576, 798
Hpy8I GTNNAC 2 cut(s) 361, 712
HpyAV CCTTC 2 cut(s) 35, 169
HpyCH4III ACNGT 2 cut(s) 79, 560
HpyCH4V TGCA 8 cut(s) 56, 84, 102, 161, 270, 522, 683, 782
HpyF3I CTNAG 3 cut(s) 8, 295, 349
Hsp92II CATG 5 cut(s) 462, 474, 522, 763, 801
HspAI GCGC 1 cut(s) 497
Kzo9I GATC 2 cut(s) 44, 465
LpnPI CCDG 8 cut(s) 37, 78, 156, 262, 336, 561, 615, 792
LweI GCATC 5 cut(s) 95, 206, 240, 418, 577
MaeIII GTNAC 1 cut(s) 433
MalI GATC 2 cut(s) 46, 467
MboI GATC 2 cut(s) 44, 465
MboII GAAGA 8 cut(s) 72, 542, 554, 563, 566, 605, 684, 721
MflI RGATCY 1 cut(s) 44
MlsI TGGCCA 1 cut(s) 302
MluCI AATT 2 cut(s) 19, 628
MluNI TGGCCA 1 cut(s) 302
MlyI GAGTC 4 cut(s) 21, 148, 336, 403
MmeI TCCRAC 2 cut(s) 310, 431
MnlI CCTC 5 cut(s) 119, 163, 508, 713, 743
Mox20I TGGCCA 1 cut(s) 302
MscI TGGCCA 1 cut(s) 302
MseI TTAA 3 cut(s) 164, 210, 323
MslI CAYNNNNRTG 1 cut(s) 426
Msp20I TGGCCA 1 cut(s) 302
MspI CCGG 1 cut(s) 143
MspR9I CCNGG 1 cut(s) 143
MvnI CGCG 1 cut(s) 499
NciI CCSGG 1 cut(s) 143
NdeII GATC 2 cut(s) 44, 465
NlaIII CATG 5 cut(s) 462, 474, 522, 763, 801
NlaIV GGNNCC 2 cut(s) 46, 128
NmuCI GTSAC 1 cut(s) 433
NspI RCATGY 2 cut(s) 462, 522
PaeI GCATGC 1 cut(s) 522
PagI TCATGA 1 cut(s) 797
PciI ACATGT 1 cut(s) 458
PfeI GAWTC 2 cut(s) 14, 382
PleI GAGTC 4 cut(s) 21, 148, 336, 403
PpsI GAGTC 4 cut(s) 21, 148, 336, 403
PscI ACATGT 1 cut(s) 458
PshBI ATTAAT 1 cut(s) 164
PspN4I GGNNCC 2 cut(s) 46, 128
PspPI GGNCC 2 cut(s) 361, 712
PstI CTGCAG 1 cut(s) 784
PsuI RGATCY 1 cut(s) 44
RseI CAYNNNNRTG 1 cut(s) 426
SaqAI TTAA 3 cut(s) 164, 210, 323
Sau3AI GATC 2 cut(s) 44, 465
Sau96I GGNCC 2 cut(s) 361, 712
SchI GAGTC 4 cut(s) 21, 148, 336, 403
ScrFI CCNGG 1 cut(s) 143
SetI ASST 5 cut(s) 67, 294, 355, 717, 781
SfaNI GCATC 5 cut(s) 95, 206, 240, 418, 577
SfcI CTRYAG 1 cut(s) 780
SinI GGWCC 2 cut(s) 361, 712
SmiMI CAYNNNNRTG 1 cut(s) 426
SmlI CTYRAG 1 cut(s) 110
SmoI CTYRAG 1 cut(s) 110
SphI GCATGC 1 cut(s) 522
Sse9I AATT 2 cut(s) 19, 628
SsiI CCGC 1 cut(s) 637
StyD4I CCNGG 1 cut(s) 141
StyI CCWWGG 2 cut(s) 32, 715
TaaI ACNGT 2 cut(s) 79, 560
TaqI TCGA 1 cut(s) 234
TasI AATT 2 cut(s) 19, 628
TfiI GAWTC 2 cut(s) 14, 382
Tru1I TTAA 3 cut(s) 164, 210, 323
Tru9I TTAA 3 cut(s) 164, 210, 323
TscAI CASTG 2 cut(s) 303, 310
TseFI GTSAC 1 cut(s) 433
Tsp45I GTSAC 1 cut(s) 433
TspDTI ATGAA 2 cut(s) 564, 721
TspGWI ACGGA 1 cut(s) 37
TspRI CASTG 2 cut(s) 303, 310
VpaK11BI GGWCC 2 cut(s) 361, 712
VspI ATTAAT 1 cut(s) 164
XceI RCATGY 2 cut(s) 462, 522
XcmI CCANNNNNNNNNTGG 1 cut(s) 310
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.