Rh4CG080300

zinc finger CCCH domain-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr4C
OG0000488
Physical Location & Seq
Reverse (-)
14370961 .. 14373239
2279 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh4CG080300.1

Sequence Viewer

Length: 1233 bp
ATGGCTCTCAGGGTATCGAATTCCAGACTCACAAGAAGACCTGCTTCCGAAACCGTCTGCAAGTTTTGGGCGATGGGTAGATGCCTCAAGAAAGAGTGCCGGTTCCTACATGCTGACCCGGAACAAAAGACTCTTGCTTTAATGGAGGAGAAGGCCAAATCTATTGGGAAAGCATCTGATTCTGCTACTGTTAATGTTCATGTTGAGAAAAGCATTGGTACCCATAAAGAGAAAGCAGAGGCCGAAGCAGTCTGCAAGTTCTGGGCAGAAGGAAAGTGTGTAAGACGAGGGTGCCCTTATCTGCACAGTTGGTTCCGTGGAGATGGCTTTTCTTCCTTGGTAAAGCTCCAAGGCCATAAGAAGGGGATAACCGGAATTGTGCTTCCCGAGGGAAGTAGCAGTCTCTATTCTGCTGCCAAAGACGGAACCGTTAGGGTTTGGGACTGCAATACTGGTGAATGCAGCAGGGTCATCAATCTTGGTGCGGAAGCTGGCTGCTTGATTAGTAAGGGTGTGTGGATATTCTGCGGTGCTTCCAATCTCGTCAAGGTGTGGAATATTCAGTCCAATTCTGAATTTACCTTAGCTGGACCTGTTGGTCAAATCCATGCCATGGAAGTTGGGAATGATATGGTATTTGCTGGGGCAGAGGAGGGTGTTATATATGTGTGGAAAGGCAAAGCCTGTTCCGATGCTAAAGCGAATCCATTTCACCCTCATCAGGCTCTCAGTGGCCACACTGCTGCTGTGGTTTCTTTAAGGGTTGGAAATATCAGACTCTACTCAGGTTCTATGGACCATACAATAAGGGTGTGGAATCTGGACACTTTGGAGTGTGCTATGACTCTAAATGGACATTCTGATGCTGTGACGTCTCTTATTTGTTGGACCACATTTCTGATCTCATGCTCATTAGACCACACGATAAAGGTGTGGACTATGTGTAAAGGAGGCAACATTGAAGAAATCTACACTCACACTGAAGAAGACGGTCTTCTTGCTCTCTCTGGAATGCATGATGCTGAAGACAAACCAGTCCTACTTTGCTCATCAAAAGACAATTCTGTCCGCATATATGATTTGCCATCCTTTGATGAGAGGGGAAGATTATTTGCAAAACGGGAAGTTCGGGCTATTCAAGTTGGCCTTGGAGGACTATTCTTCACTGGAGATGAAGCTGGTGGACTTTCCGTGTGGAAGTGGTTGGAACCTGCAGTCAAACAAGAGTCTTGA
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

410

Amino Acids

44.86

Weight (kDa)

7.53

Isoelectric Point (pI)

38.72

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Beta-prop_WDR5 PF25175 111 - 158 8.3e-07 WDR5 beta-propeller domain
Beta-prop_WDR3_1st PF25173 112 - 158 2.2e-07 WDR3 first beta-propeller domain
WD40 PF00400 112 - 148 5.5e-06 WD domain, G-beta repeat
Beta-prop_THOC3 PF25174 114 - 254 5.2e-10 THOC3 beta-propeller domain
WD40_MABP1-WDR62_2nd PF24782 132 - 363 1.9e-06 MABP1/WDR62 second WD40 domain
Beta-prop_WDR3_1st PF25173 174 - 361 8.4e-24 WDR3 first beta-propeller domain
WD40_WDHD1_1st PF24817 174 - 399 4e-12 WDHD1 first WD40 domain
WD40_CDC20-Fz PF24807 174 - 370 2.6e-12 CDC20/Fizzy WD40 domain
Beta-prop_WDR5 PF25175 176 - 361 4.6e-19 WDR5 beta-propeller domain
Beta-prop_TEP1_2nd PF25047 178 - 328 2.4e-10 TEP-1 second beta-propeller
Beta-prop_IP5PC_F PF23754 204 - 294 4.6e-07 IP5P C-F beta-propeller
WD40_Prp19 PF24814 240 - 364 8.1e-12 Prp19 WD40 domain
Beta-prop_WDR3_2nd PF25172 241 - 360 4.3e-11 WDR3 second beta-propeller domain
Beta-prop_SCAP PF24017 244 - 327 2.1e-11 SCAP Beta-propeller
Beta-prop_THOC3 PF25174 259 - 401 2.2e-15 THOC3 beta-propeller domain
WD40 PF00400 278 - 312 4.7e-06 WD domain, G-beta repeat
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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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 3 cut(s) 597, 1034, 1064
AatII GACGTC 1 cut(s) 875
Acc36I ACCTGC 2 cut(s) 49, 1219
Acc65I GGTACC 1 cut(s) 218
AccB1I GGYRCC 2 cut(s) 218, 291
AccB7I CCANNNNNTGG 1 cut(s) 613
AciI CCGC 3 cut(s) 485, 528, 1069
AcoI YGGCCR 1 cut(s) 733
AcsI RAATTY 2 cut(s) 19, 575
AcuI CTGAAG 2 cut(s) 1002, 1044
AcyI GRCGYC 1 cut(s) 872
AfaI GTAC 1 cut(s) 220
AfiI CCNNNNNNNGG 3 cut(s) 361, 613, 721
AgsI TTSAA 2 cut(s) 962, 1139
AluBI AGCT 4 cut(s) 346, 491, 587, 1178
AluI AGCT 4 cut(s) 346, 491, 587, 1178
Alw26I GTCTC 2 cut(s) 407, 879
Ama87I CYCGRG 1 cut(s) 386
AoxI GGCC 5 cut(s) 153, 240, 352, 733, 1144
ApeKI GCWGC 4 cut(s) 413, 462, 495, 743
ApoI RAATTY 2 cut(s) 19, 575
Asp718I GGTACC 1 cut(s) 218
AspS9I GGNCC 3 cut(s) 590, 796, 888
AsuC2I CCSGG 1 cut(s) 119
AsuHPI GGTGA 2 cut(s) 467, 704
AvaI CYCGRG 1 cut(s) 386
AvaII GGWCC 3 cut(s) 590, 796, 888
BaeGI GKGCMC 1 cut(s) 296
BalI TGGCCA 1 cut(s) 735
BanI GGYRCC 2 cut(s) 218, 291
BbsI GAAGAC 4 cut(s) 43, 986, 993, 1032
BbvI GCAGC 4 cut(s) 400, 474, 482, 730
BccI CCATC 3 cut(s) 67, 317, 1093
BcnI CCSGG 1 cut(s) 119
BcoDI GTCTC 2 cut(s) 407, 879
BfmI CTRYAG 1 cut(s) 1212
BfuAI ACCTGC 2 cut(s) 49, 1219
BisI GCNGC 4 cut(s) 414, 463, 496, 744
BlsI GCNGC 4 cut(s) 415, 464, 497, 745
Bme1390I CCNGG 1 cut(s) 119
Bme18I GGWCC 3 cut(s) 590, 796, 888
BmeT110I CYCGRG 1 cut(s) 386
BmgT120I GGNCC 3 cut(s) 590, 796, 888
BmiI GGNNCC 6 cut(s) 104, 220, 293, 314, 427, 1209
BmrFI CCNGG 1 cut(s) 119
BmsI GCATC 5 cut(s) 71, 182, 682, 853, 1009
BpiI GAAGAC 4 cut(s) 43, 986, 993, 1032
BpmI CTGGAG 1 cut(s) 1188
Bpu10I CCTNAGC 1 cut(s) 583
BpuEI CTTGAG 1 cut(s) 71
BpuMI CCSGG 1 cut(s) 119
BsaHI GRCGYC 1 cut(s) 872
BsaJI CCNNGG 6 cut(s) 316, 336, 349, 387, 612, 1147
BsaWI WCCGGW 1 cut(s) 371
Bsc4I CCNNNNNNNGG 3 cut(s) 361, 613, 721
Bse118I RCCGGY 1 cut(s) 99
Bse1I ACTGG 3 cut(s) 457, 1034, 1171
BseDI CCNNGG 6 cut(s) 316, 336, 349, 387, 612, 1147
BseGI GGATG 1 cut(s) 1085
BseLI CCNNNNNNNGG 3 cut(s) 361, 613, 721
BseMII CTCAG 3 cut(s) 22, 742, 798
BseNI ACTGG 3 cut(s) 457, 1034, 1171
BseRI GAGGAG 2 cut(s) 161, 665
BseSI GKGCMC 1 cut(s) 296
BseXI GCAGC 4 cut(s) 400, 474, 482, 730
BseYI CCCAGC 1 cut(s) 641
BsgI GTGCAG 1 cut(s) 287
BshFI GGCC 5 cut(s) 155, 242, 354, 735, 1146
BshNI GGYRCC 2 cut(s) 218, 291
BsiHKCI CYCGRG 1 cut(s) 386
BsiSI CCGG 3 cut(s) 100, 119, 372
BslFI GGGAC 1 cut(s) 455
BslI CCNNNNNNNGG 3 cut(s) 361, 613, 721
BsmAI GTCTC 2 cut(s) 407, 879
BsmBI CGTCTC 1 cut(s) 879
BsmFI GGGAC 1 cut(s) 455
BsmI GAATGC 2 cut(s) 464, 1017
BsnI GGCC 5 cut(s) 155, 242, 354, 735, 1146
BsoBI CYCGRG 1 cut(s) 386
Bsp1286I GDGCHC 1 cut(s) 296
Bsp143I GATC 1 cut(s) 900
Bsp19I CCATGG 1 cut(s) 612
BspACI CCGC 3 cut(s) 485, 528, 1069
BspANI GGCC 5 cut(s) 155, 242, 354, 735, 1146
BspCNI CTCAG 3 cut(s) 21, 741, 797
BspLI GGNNCC 6 cut(s) 104, 220, 293, 314, 427, 1209
BspMAI CTGCAG 1 cut(s) 1216
BspMI ACCTGC 2 cut(s) 49, 1219
BspT107I GGYRCC 2 cut(s) 218, 291
BsrFI RCCGGY 1 cut(s) 99
BsrI ACTGG 3 cut(s) 457, 1034, 1171
BssAI RCCGGY 1 cut(s) 99
BssECI CCNNGG 6 cut(s) 316, 336, 349, 387, 612, 1147
BssMI GATC 1 cut(s) 900
BssNI GRCGYC 1 cut(s) 872
BssT1I CCWWGG 4 cut(s) 336, 349, 612, 1147
Bst4CI ACNGT 5 cut(s) 55, 190, 308, 430, 992
BstACI GRCGYC 1 cut(s) 872
BstC8I GCNNGC 1 cut(s) 493
BstDEI CTNAG 4 cut(s) 8, 583, 728, 784
BstDSI CCRYGG 2 cut(s) 316, 612
BstF5I GGATG 1 cut(s) 1085
BstKTI GATC 1 cut(s) 903
BstMAI GTCTC 2 cut(s) 407, 879
BstMBI GATC 1 cut(s) 900
BstNSI RCATGY 1 cut(s) 113
BstSCI CCNGG 1 cut(s) 117
BstSFI CTRYAG 1 cut(s) 1212
BstSLI GKGCMC 1 cut(s) 296
BstV1I GCAGC 4 cut(s) 400, 474, 482, 730
BstV2I GAAGAC 4 cut(s) 43, 986, 993, 1032
BsuRI GGCC 5 cut(s) 155, 242, 354, 735, 1146
BtgI CCRYGG 2 cut(s) 316, 612
BtgZI GCGATG 1 cut(s) 86
BtsCI GGATG 1 cut(s) 1085
BtsI GCAGTG 1 cut(s) 738
BtsIMutI CAGTG 4 cut(s) 736, 738, 978, 1164
BveI ACCTGC 2 cut(s) 49, 1219
Cac8I GCNNGC 1 cut(s) 493
Cfr10I RCCGGY 1 cut(s) 99
Cfr13I GGNCC 3 cut(s) 590, 796, 888
Csp6I GTAC 1 cut(s) 219
CviAII CATG 6 cut(s) 110, 200, 608, 613, 906, 1016
CviQI GTAC 1 cut(s) 219
DdeI CTNAG 4 cut(s) 8, 583, 728, 784
DpnI GATC 1 cut(s) 902
DpnII GATC 1 cut(s) 900
DrdI GACNNNNNNGTC 3 cut(s) 597, 1034, 1064
DseDI GACNNNNNNGTC 3 cut(s) 597, 1034, 1064
EaeI YGGCCR 1 cut(s) 733
Eco130I CCWWGG 4 cut(s) 336, 349, 612, 1147
Eco47I GGWCC 3 cut(s) 590, 796, 888
Eco57I CTGAAG 2 cut(s) 1002, 1044
Eco88I CYCGRG 1 cut(s) 386
EcoRI GAATTC 1 cut(s) 19
EcoT14I CCWWGG 4 cut(s) 336, 349, 612, 1147
EcoT22I ATGCAT 1 cut(s) 1017
ErhI CCWWGG 4 cut(s) 336, 349, 612, 1147
Esp3I CGTCTC 1 cut(s) 879
FaeI CATG 6 cut(s) 113, 203, 611, 616, 909, 1019
FalI AAGNNNNNCTT 6 cut(s) 28, 60, 978, 1010, 1131, 1163
FaqI GGGAC 1 cut(s) 455
FatI CATG 6 cut(s) 109, 199, 607, 612, 905, 1015
Fnu4HI GCNGC 4 cut(s) 414, 463, 496, 744
FokI GGATG 1 cut(s) 1072
Fsp4HI GCNGC 4 cut(s) 414, 463, 496, 744
GluI GCNGC 4 cut(s) 414, 463, 496, 744
GsaI CCCAGC 1 cut(s) 645
GsuI CTGGAG 1 cut(s) 1188
HaeIII GGCC 5 cut(s) 155, 242, 354, 735, 1146
HapII CCGG 3 cut(s) 100, 119, 372
Hin1I GRCGYC 1 cut(s) 872
Hin1II CATG 6 cut(s) 113, 203, 611, 616, 909, 1019
HinfI GANTC 8 cut(s) 27, 130, 179, 703, 777, 817, 844, 1226
HpaII CCGG 3 cut(s) 100, 119, 372
HphI GGTGA 2 cut(s) 467, 704
Hpy166II GTNNAC 2 cut(s) 936, 1184
Hpy188I TCNGA 7 cut(s) 49, 178, 574, 691, 776, 862, 900
Hpy188III TCNNGA 6 cut(s) 24, 88, 386, 821, 1008, 1230
Hpy8I GTNNAC 2 cut(s) 936, 1184
HpyAV CCTTC 3 cut(s) 145, 263, 355
HpyCH4III ACNGT 5 cut(s) 55, 190, 308, 430, 992
HpyCH4IV ACGT 1 cut(s) 872
HpyCH4V TGCA 8 cut(s) 60, 255, 304, 447, 462, 1015, 1115, 1214
HpyF3I CTNAG 4 cut(s) 8, 583, 728, 784
HpySE526I ACGT 1 cut(s) 872
Hsp92I GRCGYC 1 cut(s) 872
Hsp92II CATG 6 cut(s) 113, 203, 611, 616, 909, 1019
KpnI GGTACC 1 cut(s) 222
Kzo9I GATC 1 cut(s) 900
LmnI GCTCC 1 cut(s) 351
Lsp1109I GCAGC 4 cut(s) 400, 474, 482, 730
LweI GCATC 5 cut(s) 71, 182, 682, 853, 1009
MaeII ACGT 1 cut(s) 872
MaeIII GTNAC 1 cut(s) 868
MalI GATC 1 cut(s) 902
MboI GATC 1 cut(s) 900
MboII GAAGA 9 cut(s) 48, 324, 974, 986, 995, 998, 1037, 1116, 1153
MhlI GDGCHC 1 cut(s) 296
MlsI TGGCCA 1 cut(s) 735
MluCI AATT 5 cut(s) 19, 375, 568, 575, 1060
MluNI TGGCCA 1 cut(s) 735
MlyI GAGTC 4 cut(s) 21, 124, 771, 838
MmeI TCCRAC 3 cut(s) 745, 866, 1185
Mox20I TGGCCA 1 cut(s) 735
Mph1103I ATGCAT 1 cut(s) 1017
MscI TGGCCA 1 cut(s) 735
MseI TTAA 3 cut(s) 140, 192, 758
MslI CAYNNNNRTG 1 cut(s) 861
Msp20I TGGCCA 1 cut(s) 735
MspI CCGG 3 cut(s) 100, 119, 372
MspR9I CCNGG 1 cut(s) 119
Mva1269I GAATGC 2 cut(s) 464, 1017
NciI CCSGG 1 cut(s) 119
NcoI CCATGG 1 cut(s) 612
NdeII GATC 1 cut(s) 900
NlaIII CATG 6 cut(s) 113, 203, 611, 616, 909, 1019
NlaIV GGNNCC 6 cut(s) 104, 220, 293, 314, 427, 1209
NmuCI GTSAC 1 cut(s) 868
NsiI ATGCAT 1 cut(s) 1017
NspI RCATGY 1 cut(s) 113
PctI GAATGC 2 cut(s) 464, 1017
PfeI GAWTC 3 cut(s) 179, 703, 817
PflMI CCANNNNNTGG 1 cut(s) 613
PkrI GCNGC 4 cut(s) 415, 464, 497, 745
PleI GAGTC 4 cut(s) 21, 124, 771, 838
PpsI GAGTC 4 cut(s) 21, 124, 771, 838
PspFI CCCAGC 1 cut(s) 641
PspN4I GGNNCC 6 cut(s) 104, 220, 293, 314, 427, 1209
PspPI GGNCC 3 cut(s) 590, 796, 888
PstI CTGCAG 1 cut(s) 1216
RsaI GTAC 1 cut(s) 220
RsaNI GTAC 1 cut(s) 219
RseI CAYNNNNRTG 1 cut(s) 861
SaqAI TTAA 3 cut(s) 140, 192, 758
SatI GCNGC 4 cut(s) 414, 463, 496, 744
Sau3AI GATC 1 cut(s) 900
Sau96I GGNCC 3 cut(s) 590, 796, 888
SchI GAGTC 4 cut(s) 21, 124, 771, 838
ScrFI CCNGG 1 cut(s) 119
SduI GDGCHC 1 cut(s) 296
SfaNI GCATC 5 cut(s) 71, 182, 682, 853, 1009
SfcI CTRYAG 1 cut(s) 1212
SinI GGWCC 3 cut(s) 590, 796, 888
SmiMI CAYNNNNRTG 1 cut(s) 861
SmlI CTYRAG 1 cut(s) 86
SmoI CTYRAG 1 cut(s) 86
Sse9I AATT 5 cut(s) 19, 375, 568, 575, 1060
SsiI CCGC 3 cut(s) 485, 528, 1069
SspI AATATT 1 cut(s) 559
StyD4I CCNGG 1 cut(s) 117
StyI CCWWGG 4 cut(s) 336, 349, 612, 1147
TaaI ACNGT 5 cut(s) 55, 190, 308, 430, 992
TaiI ACGT 1 cut(s) 875
TaqI TCGA 1 cut(s) 17
TasI AATT 5 cut(s) 19, 375, 568, 575, 1060
TfiI GAWTC 3 cut(s) 179, 703, 817
Tru1I TTAA 3 cut(s) 140, 192, 758
Tru9I TTAA 3 cut(s) 140, 192, 758
TscAI CASTG 4 cut(s) 736, 745, 985, 1171
TseFI GTSAC 1 cut(s) 868
TseI GCWGC 4 cut(s) 413, 462, 495, 743
Tsp45I GTSAC 1 cut(s) 868
TspDTI ATGAA 2 cut(s) 188, 1188
TspGWI ACGGA 3 cut(s) 305, 438, 1180
TspRI CASTG 4 cut(s) 736, 745, 985, 1171
Van91I CCANNNNNTGG 1 cut(s) 613
VpaK11BI GGWCC 3 cut(s) 590, 796, 888
XapI RAATTY 2 cut(s) 19, 575
XceI RCATGY 1 cut(s) 113
ZraI GACGTC 1 cut(s) 873
Zsp2I ATGCAT 1 cut(s) 1017
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.