Rorug01G0396500

zinc finger CCCH domain-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000001
OG0000488
Physical Location & Seq
Forward (+)
50601009 .. 50604174
3166 bp
Loading structure...
UTR
Exon/CDS
Intron
Rorug01G0396500.1

Sequence Viewer

Length: 702 bp
ATGGTGGATAAAGTCTCGGAGTTTAGTCAGGATCAAGAAGAAAGGTTTTTGTACTATGTATCTGTTGCAGAGGAGTTGGCGAAAGAGTTGAGTTCTTCAAATGGGAAATTGAAATCACTTATCGATGACTTGAGAAATGAAGTGGATTCTATCAGGACTTTCAGGAATGAACATTCTACGGAATACCAGAAGCTTCTGATGGAAGAGGAGCAGATGGCAGAAGAATTGAAGCTGTGTCTGGAAATTGGAAAGGACAGGTTCCAATCACAAGCTTATGAACCAACTTTTGTTGGGTCAATCAAAGAAGTGCATTGTACCGACTTTCAGAGGTCCTCCTTTGATGAAAAATGCATAGAGTCCATTAAGCTTCTGATGGATGAGAAGCAGAAGGCAGAGGAGTCTTTGAAAATTGAAAAGGAGATGACGCGATCCCAGGCTAATGAACTGGCTTCCCTTAGATCTGCCTTAAATGAAAAGTGCACCGAGTGGCAGGAGCTTCTAAGGGAAGAGAAGGTGAAGGCAGAGAAGTTAATGCTACTTTTGGAAATTGAAAAGGAGAGAACACAGGCTGATGAACTGGCTTCTATTAGATCCATCTTTGATGAAAAATGCGTCGAGTACCAGAAGCTTCTAATGGATGAAAGGCAGAAGGTAGAGGATTCAATGCGACTATTGAAAATTCAAAAGATCTGCCACAGATGA
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

233

Amino Acids

27.54

Weight (kDa)

4.93

Isoelectric Point (pI)

52.31

Instability Index
Protein Domains (Pfam)
No Pfam domains detected for this protein.
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)
AccII CGCG 1 cut(s) 427
AclWI GGATC 3 cut(s) 39, 423, 585
AcsI RAATTY 1 cut(s) 678
AdeI CACNNNGTG 1 cut(s) 486
AfaI GTAC 3 cut(s) 53, 316, 620
AgsI TTSAA 9 cut(s) 99, 112, 229, 406, 413, 551, 663, 676, 683
AjnI CCWGG 1 cut(s) 432
AluBI AGCT 6 cut(s) 193, 232, 272, 367, 496, 628
AluI AGCT 6 cut(s) 193, 232, 272, 367, 496, 628
Alw21I GWGCWC 1 cut(s) 482
Alw26I GTCTC 1 cut(s) 19
Alw44I GTGCAC 1 cut(s) 478
AlwI GGATC 3 cut(s) 39, 423, 585
ApaLI GTGCAC 1 cut(s) 478
ApoI RAATTY 1 cut(s) 678
AspS9I GGNCC 1 cut(s) 330
AsuHPI GGTGA 1 cut(s) 526
AvaII GGWCC 1 cut(s) 330
BaeGI GKGCMC 1 cut(s) 482
Bbv12I GWGCWC 1 cut(s) 482
BccI CCATC 4 cut(s) 193, 208, 367, 602
BciT130I CCWGG 1 cut(s) 434
BcoDI GTCTC 1 cut(s) 19
BglII AGATCT 2 cut(s) 458, 687
Bme1390I CCNGG 1 cut(s) 434
Bme18I GGWCC 1 cut(s) 330
BmgT120I GGNCC 1 cut(s) 330
BmiI GGNNCC 1 cut(s) 260
BmrFI CCNGG 1 cut(s) 434
BpuEI CTTGAG 1 cut(s) 151
Bsa29I ATCGAT 1 cut(s) 123
BsaJI CCNNGG 1 cut(s) 432
Bse1I ACTGG 2 cut(s) 450, 582
BseBI CCWGG 1 cut(s) 434
BseCI ATCGAT 1 cut(s) 123
BseDI CCNNGG 1 cut(s) 432
BseGI GGATG 2 cut(s) 382, 643
BseNI ACTGG 2 cut(s) 450, 582
BseRI GAGGAG 3 cut(s) 86, 221, 410
BseSI GKGCMC 1 cut(s) 482
Bsh1236I CGCG 1 cut(s) 427
BshVI ATCGAT 1 cut(s) 123
BsiHKAI GWGCWC 1 cut(s) 482
BsmAI GTCTC 1 cut(s) 19
Bsp1286I GDGCHC 1 cut(s) 482
Bsp143I GATC 5 cut(s) 31, 428, 458, 590, 687
BspDI ATCGAT 1 cut(s) 123
BspFNI CGCG 1 cut(s) 427
BspLI GGNNCC 1 cut(s) 260
BspPI GGATC 3 cut(s) 39, 423, 585
BsrI ACTGG 2 cut(s) 450, 582
BssECI CCNNGG 1 cut(s) 432
BssMI GATC 5 cut(s) 31, 428, 458, 590, 687
Bst2UI CCWGG 1 cut(s) 434
Bst6I CTCTTC 2 cut(s) 198, 501
BstDEI CTNAG 2 cut(s) 455, 500
BstF5I GGATG 2 cut(s) 382, 643
BstFNI CGCG 1 cut(s) 427
BstKTI GATC 5 cut(s) 34, 431, 461, 593, 690
BstMAI GTCTC 1 cut(s) 19
BstMBI GATC 5 cut(s) 31, 428, 458, 590, 687
BstNI CCWGG 1 cut(s) 434
BstSCI CCNGG 1 cut(s) 432
BstSLI GKGCMC 1 cut(s) 482
BstUI CGCG 1 cut(s) 427
BstX2I RGATCY 3 cut(s) 458, 590, 687
BstYI RGATCY 3 cut(s) 458, 590, 687
Bsu15I ATCGAT 1 cut(s) 123
BsuTUI ATCGAT 1 cut(s) 123
BtsCI GGATG 2 cut(s) 382, 643
Cfr13I GGNCC 1 cut(s) 330
ClaI ATCGAT 1 cut(s) 123
CseI GACGC 2 cut(s) 433, 601
Csp6I GTAC 3 cut(s) 52, 315, 619
CviQI GTAC 3 cut(s) 52, 315, 619
DdeI CTNAG 2 cut(s) 455, 500
DpnI GATC 5 cut(s) 33, 430, 460, 592, 689
DpnII GATC 5 cut(s) 31, 428, 458, 590, 687
DraIII CACNNNGTG 1 cut(s) 486
Eam1104I CTCTTC 2 cut(s) 198, 501
EarI CTCTTC 2 cut(s) 198, 501
Eco47I GGWCC 1 cut(s) 330
EcoO109I RGGNCCY 1 cut(s) 330
EcoRII CCWGG 1 cut(s) 432
EcoT22I ATGCAT 1 cut(s) 353
FaiI YATR 3 cut(s) 57, 276, 353
FokI GGATG 2 cut(s) 389, 650
HgaI GACGC 2 cut(s) 433, 601
HindIII AAGCTT 4 cut(s) 191, 270, 365, 626
HinfI GANTC 4 cut(s) 146, 356, 398, 659
HphI GGTGA 1 cut(s) 526
Hpy166II GTNNAC 1 cut(s) 480
Hpy188I TCNGA 4 cut(s) 19, 198, 327, 372
Hpy188III TCNNGA 5 cut(s) 29, 35, 154, 163, 239
Hpy8I GTNNAC 1 cut(s) 480
Hpy99I CGWCG 1 cut(s) 617
HpyAV CCTTC 4 cut(s) 382, 505, 511, 643
HpyCH4V TGCA 4 cut(s) 68, 310, 351, 480
HpyF3I CTNAG 2 cut(s) 455, 500
Kzo9I GATC 5 cut(s) 31, 428, 458, 590, 687
LmnI GCTCC 2 cut(s) 208, 493
MalI GATC 5 cut(s) 33, 430, 460, 592, 689
MboI GATC 5 cut(s) 31, 428, 458, 590, 687
MboII GAAGA 5 cut(s) 50, 87, 215, 233, 518
MflI RGATCY 3 cut(s) 458, 590, 687
MhlI GDGCHC 1 cut(s) 482
MluCI AATT 6 cut(s) 107, 224, 243, 408, 546, 678
MlyI GAGTC 2 cut(s) 365, 407
MnlI CCTC 6 cut(s) 64, 199, 321, 343, 388, 649
Mph1103I ATGCAT 1 cut(s) 353
MseI TTAA 3 cut(s) 363, 467, 530
MspR9I CCNGG 1 cut(s) 434
MvaI CCWGG 1 cut(s) 434
MvnI CGCG 1 cut(s) 427
NdeII GATC 5 cut(s) 31, 428, 458, 590, 687
NlaIV GGNNCC 1 cut(s) 260
NsiI ATGCAT 1 cut(s) 353
PfeI GAWTC 2 cut(s) 146, 659
PleI GAGTC 2 cut(s) 364, 406
PpsI GAGTC 2 cut(s) 364, 406
PpuMI RGGWCCY 1 cut(s) 330
Psp5II RGGWCCY 1 cut(s) 330
Psp6I CCWGG 1 cut(s) 432
PspGI CCWGG 1 cut(s) 432
PspN4I GGNNCC 1 cut(s) 260
PspPI GGNCC 1 cut(s) 330
PspPPI RGGWCCY 1 cut(s) 330
PsuI RGATCY 3 cut(s) 458, 590, 687
RsaI GTAC 3 cut(s) 53, 316, 620
RsaNI GTAC 3 cut(s) 52, 315, 619
SaqAI TTAA 3 cut(s) 363, 467, 530
Sau3AI GATC 5 cut(s) 31, 428, 458, 590, 687
Sau96I GGNCC 1 cut(s) 330
SchI GAGTC 2 cut(s) 365, 407
ScrFI CCNGG 1 cut(s) 434
SduI GDGCHC 1 cut(s) 482
SinI GGWCC 1 cut(s) 330
SmlI CTYRAG 1 cut(s) 130
SmoI CTYRAG 1 cut(s) 130
Sse9I AATT 6 cut(s) 107, 224, 243, 408, 546, 678
StyD4I CCNGG 1 cut(s) 432
TaqI TCGA 2 cut(s) 123, 615
TasI AATT 6 cut(s) 107, 224, 243, 408, 546, 678
TatI WGTACW 1 cut(s) 51
TfiI GAWTC 2 cut(s) 146, 659
Tru1I TTAA 3 cut(s) 363, 467, 530
Tru9I TTAA 3 cut(s) 363, 467, 530
TspDTI ATGAA 9 cut(s) 153, 183, 291, 357, 456, 486, 588, 618, 654
TspGWI ACGGA 1 cut(s) 194
VneI GTGCAC 1 cut(s) 478
VpaK11BI GGWCC 1 cut(s) 330
XapI RAATTY 1 cut(s) 678
Zsp2I ATGCAT 1 cut(s) 353
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.