Rh1CG386500

zinc finger CCCH domain-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr1C
OG0000488
Physical Location & Seq
Reverse (-)
65655392 .. 65656619
1228 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh1CG386500.1

Sequence Viewer

Length: 612 bp
ATGGATGTAGACGGAGGCGGAAGCAAGCGGATCTTCACGAGATTGGGCGGGCCGCAATCCGACCCGAACAAGAATCAGAAGGTATGCTACCATTGGAGAGCGGGCAAGTGCAATCGCCACCCTTGCCCTTATCTCCACCGAGAGCTACCGGCGCCGCCTGGCGGGCTCAACGGAACGGCGTCGTCTAAGCGGCAACACGGCTTCGCCGCCGCCACCGACGGCCCGTCGTCGGGGCCACGTGGCCGGGGTCCGAATAACTTCAACGGCGGAGCTTCGAACACGTGGGGGCGGACCGGAGCGGGTAATAGGGTTTTCGTTAGGAAGATGGATAAGGTGTGTAATTATTGGGTTCAGGGGAATTGTAGCTATGGCGATAGGTGTAAGTTCTTGGATTCTTGGAGCATGGGGGACTGTGTTAGCTTGTTGACGACGCTTGAGGGGCATCAGAATGTTGTTAGTGGGATTGCATTGCCTTCTGGGTCTGATAAGCTTTATACTGGAAGTAAGGATGAGACTGTGAGAGTATGGGATTGCCAGTCTGGTCAGGATCATGTTCTTACTCAAGATTGTTGGATGGTATTTTCCACTTGTACTTTTCAGTCCCGTGGATGA
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

203

Amino Acids

22.08

Weight (kDa)

9.07

Isoelectric Point (pI)

29.71

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
zf-CCCH_4 PF18044 111 - 130 2e-06 CCCH-type zinc finger
zf_CCCH_4 PF18345 113 - 130 1.5e-06 Zinc finger domain
Beta-prop_WDR75_1st PF23869 121 - 181 9.8e-06 WD repeat-containing protein 75 first beta-propeller
Beta-prop_WDR5 PF25175 133 - 195 1.9e-07 WDR5 beta-propeller domain
WD40 PF00400 141 - 177 1.3e-07 WD domain, G-beta repeat
Beta-prop_THOC3 PF25174 141 - 182 2.2e-06 THOC3 beta-propeller domain
Beta-prop_WDR3_1st PF25173 141 - 182 5.3e-06 WDR3 first beta-propeller domain
EIF3I PF24805 142 - 199 8.5e-06 EIF3I
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) 151
AccBSI CCGCTC 2 cut(s) 101, 299
AccI GTMKAC 1 cut(s) 9
AclWI GGATC 2 cut(s) 38, 555
AcoI YGGCCR 1 cut(s) 241
AcvI CACGTG 2 cut(s) 239, 282
AcyI GRCGYC 2 cut(s) 152, 179
AfaI GTAC 1 cut(s) 592
AfiI CCNNNNNNNGG 3 cut(s) 161, 229, 230
AflIII ACRYGT 1 cut(s) 279
AgsI TTSAA 1 cut(s) 262
AhdI GACNNNNNGTC 1 cut(s) 223
AjnI CCWGG 1 cut(s) 157
AluBI AGCT 5 cut(s) 145, 272, 366, 420, 490
AluI AGCT 5 cut(s) 145, 272, 366, 420, 490
Alw26I GTCTC 1 cut(s) 506
AlwI GGATC 2 cut(s) 38, 555
AoxI GGCC 4 cut(s) 50, 220, 233, 241
Asp700I GAANNNNTTC 1 cut(s) 257
AspLEI GCGC 1 cut(s) 154
AspS9I GGNCC 5 cut(s) 50, 221, 233, 248, 291
AsuC2I CCSGG 1 cut(s) 245
AsuII TTCGAA 1 cut(s) 275
AvaII GGWCC 2 cut(s) 248, 291
BanI GGYRCC 1 cut(s) 151
BanII GRGCYC 1 cut(s) 168
BarI GAAGNNNNNNTAC 2 cut(s) 71, 103
BauI CACGAG 1 cut(s) 37
BbrPI CACGTG 2 cut(s) 239, 282
BccI CCATC 2 cut(s) 319, 568
BceAI ACGGC 4 cut(s) 192, 214, 235, 280
BciT130I CCWGG 1 cut(s) 159
BcnI CCSGG 1 cut(s) 245
BcoDI GTCTC 1 cut(s) 506
BfoI RGCGCY 1 cut(s) 155
BglI GCCNNNNNGGC 1 cut(s) 163
BisI GCNGC 5 cut(s) 53, 155, 191, 207, 210
BlsI GCNGC 5 cut(s) 54, 156, 192, 208, 211
Bme1390I CCNGG 2 cut(s) 159, 245
Bme18I GGWCC 2 cut(s) 248, 291
BmeRI GACNNNNNGTC 1 cut(s) 223
BmgT120I GGNCC 5 cut(s) 50, 221, 233, 248, 291
BmiI GGNNCC 3 cut(s) 153, 234, 249
BmrFI CCNGG 2 cut(s) 159, 245
BmsI GCATC 1 cut(s) 451
Bpu14I TTCGAA 1 cut(s) 275
BpuEI CTTGAG 2 cut(s) 455, 546
BpuMI CCSGG 1 cut(s) 245
BsaAI YACGTR 2 cut(s) 239, 282
BsaHI GRCGYC 2 cut(s) 152, 179
BsaJI CCNNGG 2 cut(s) 244, 604
BsaWI WCCGGW 1 cut(s) 293
Bsc4I CCNNNNNNNGG 3 cut(s) 161, 229, 230
Bse118I RCCGGY 1 cut(s) 148
Bse1I ACTGG 2 cut(s) 502, 535
Bse3DI GCAATG 1 cut(s) 467
BseBI CCWGG 1 cut(s) 159
BseDI CCNNGG 2 cut(s) 244, 604
BseGI GGATG 3 cut(s) 10, 514, 579
BseLI CCNNNNNNNGG 3 cut(s) 161, 229, 230
BseMI GCAATG 1 cut(s) 467
BseNI ACTGG 2 cut(s) 502, 535
BshFI GGCC 4 cut(s) 52, 222, 235, 243
BshNI GGYRCC 1 cut(s) 151
BsiSI CCGG 3 cut(s) 149, 244, 294
BslFI GGGAC 2 cut(s) 422, 586
BslI CCNNNNNNNGG 3 cut(s) 161, 229, 230
BsmAI GTCTC 1 cut(s) 506
BsmFI GGGAC 2 cut(s) 422, 586
BsnI GGCC 4 cut(s) 52, 222, 235, 243
Bsp119I TTCGAA 1 cut(s) 275
Bsp1286I GDGCHC 1 cut(s) 168
Bsp143I GATC 2 cut(s) 30, 547
BspANI GGCC 4 cut(s) 52, 222, 235, 243
BspLI GGNNCC 3 cut(s) 153, 234, 249
BspPI GGATC 2 cut(s) 38, 555
BspT104I TTCGAA 1 cut(s) 275
BspT107I GGYRCC 1 cut(s) 151
BsrBI CCGCTC 2 cut(s) 101, 299
BsrDI GCAATG 1 cut(s) 467
BsrFI RCCGGY 1 cut(s) 148
BsrI ACTGG 2 cut(s) 502, 535
BssAI RCCGGY 1 cut(s) 148
BssECI CCNNGG 2 cut(s) 244, 604
BssMI GATC 2 cut(s) 30, 547
BssNI GRCGYC 2 cut(s) 152, 179
BssSI CACGAG 1 cut(s) 37
Bst2BI CACGAG 1 cut(s) 37
Bst2UI CCWGG 1 cut(s) 159
Bst4CI ACNGT 2 cut(s) 413, 517
BstACI GRCGYC 2 cut(s) 152, 179
BstBAI YACGTR 2 cut(s) 239, 282
BstBI TTCGAA 1 cut(s) 275
BstC8I GCNNGC 4 cut(s) 26, 50, 103, 164
BstDEI CTNAG 1 cut(s) 186
BstDSI CCRYGG 1 cut(s) 604
BstF5I GGATG 3 cut(s) 10, 514, 579
BstH2I RGCGCY 1 cut(s) 155
BstHHI GCGC 1 cut(s) 154
BstKTI GATC 2 cut(s) 33, 550
BstMAI GTCTC 1 cut(s) 506
BstMBI GATC 2 cut(s) 30, 547
BstMWI GCNNNNNNNGC 4 cut(s) 123, 151, 163, 439
BstNI CCWGG 1 cut(s) 159
BstSCI CCNGG 2 cut(s) 157, 243
BstX2I RGATCY 1 cut(s) 30
BstYI RGATCY 1 cut(s) 30
BsuRI GGCC 4 cut(s) 52, 222, 235, 243
BtgI CCRYGG 1 cut(s) 604
BtsCI GGATG 3 cut(s) 10, 514, 579
Cac8I GCNNGC 4 cut(s) 26, 50, 103, 164
CfoI GCGC 1 cut(s) 154
Cfr10I RCCGGY 1 cut(s) 148
Cfr13I GGNCC 5 cut(s) 50, 221, 233, 248, 291
CpoI CGGWCCG 1 cut(s) 291
CseI GACGC 2 cut(s) 168, 439
Csp6I GTAC 1 cut(s) 591
CspI CGGWCCG 1 cut(s) 291
CviAII CATG 2 cut(s) 403, 551
CviQI GTAC 1 cut(s) 591
DdeI CTNAG 1 cut(s) 186
DinI GGCGCC 1 cut(s) 153
DpnI GATC 2 cut(s) 32, 549
DpnII GATC 2 cut(s) 30, 547
DriI GACNNNNNGTC 1 cut(s) 223
EaeI YGGCCR 1 cut(s) 241
Eam1105I GACNNNNNGTC 1 cut(s) 223
EciI GGCGGA 3 cut(s) 33, 282, 304
Eco24I GRGCYC 1 cut(s) 168
Eco47I GGWCC 2 cut(s) 248, 291
Eco72I CACGTG 2 cut(s) 239, 282
EcoRII CCWGG 1 cut(s) 157
EcoT38I GRGCYC 1 cut(s) 168
EgeI GGCGCC 1 cut(s) 153
EheI GGCGCC 1 cut(s) 153
FaeI CATG 2 cut(s) 406, 554
FaiI YATR 6 cut(s) 85, 369, 404, 495, 526, 552
FalI AAGNNNNNCTT 2 cut(s) 17, 49
FaqI GGGAC 2 cut(s) 422, 586
FatI CATG 2 cut(s) 402, 550
FauI CCCGC 4 cut(s) 41, 94, 155, 292
FblI GTMKAC 1 cut(s) 9
Fnu4HI GCNGC 5 cut(s) 53, 155, 191, 207, 210
FokI GGATG 3 cut(s) 17, 521, 586
FriOI GRGCYC 1 cut(s) 168
Fsp4HI GCNGC 5 cut(s) 53, 155, 191, 207, 210
GlaI GCGC 1 cut(s) 153
GluI GCNGC 5 cut(s) 53, 155, 191, 207, 210
HaeII RGCGCY 1 cut(s) 155
HaeIII GGCC 4 cut(s) 52, 222, 235, 243
HapII CCGG 3 cut(s) 149, 244, 294
HgaI GACGC 2 cut(s) 168, 439
HhaI GCGC 1 cut(s) 154
Hin1I GRCGYC 2 cut(s) 152, 179
Hin1II CATG 2 cut(s) 406, 554
Hin6I GCGC 1 cut(s) 152
HinP1I GCGC 1 cut(s) 152
HincII GTYRAC 1 cut(s) 426
HindII GTYRAC 1 cut(s) 426
HindIII AAGCTT 1 cut(s) 488
HinfI GANTC 2 cut(s) 73, 392
HpaII CCGG 3 cut(s) 149, 244, 294
Hpy166II GTNNAC 2 cut(s) 10, 426
Hpy188I TCNGA 5 cut(s) 61, 78, 252, 447, 484
Hpy188III TCNNGA 3 cut(s) 37, 545, 563
Hpy8I GTNNAC 2 cut(s) 10, 426
Hpy99I CGWCG 5 cut(s) 184, 221, 229, 232, 433
HpyAV CCTTC 2 cut(s) 73, 483
HpyCH4III ACNGT 2 cut(s) 413, 517
HpyCH4IV ACGT 2 cut(s) 238, 281
HpyCH4V TGCA 2 cut(s) 111, 467
HpyF10VI GCNNNNNNNGC 4 cut(s) 123, 151, 163, 439
HpyF3I CTNAG 1 cut(s) 186
HpySE526I ACGT 2 cut(s) 238, 281
Hsp92I GRCGYC 2 cut(s) 152, 179
Hsp92II CATG 2 cut(s) 406, 554
HspAI GCGC 1 cut(s) 152
KasI GGCGCC 1 cut(s) 151
Kzo9I GATC 2 cut(s) 30, 547
LmnI GCTCC 3 cut(s) 269, 296, 399
LweI GCATC 1 cut(s) 451
MaeII ACGT 2 cut(s) 238, 281
MalI GATC 2 cut(s) 32, 549
MbiI CCGCTC 2 cut(s) 101, 299
MboI GATC 2 cut(s) 30, 547
MboII GAAGA 2 cut(s) 25, 334
MflI RGATCY 1 cut(s) 30
MhlI GDGCHC 1 cut(s) 168
MluCI AATT 2 cut(s) 340, 358
Mly113I GGCGCC 1 cut(s) 152
MmeI TCCRAC 2 cut(s) 84, 551
MnlI CCTC 2 cut(s) 8, 430
MroXI GAANNNNTTC 1 cut(s) 257
MslI CAYNNNNRTG 1 cut(s) 447
MspI CCGG 3 cut(s) 149, 244, 294
MspR9I CCNGG 2 cut(s) 159, 245
MvaI CCWGG 1 cut(s) 159
MwoI GCNNNNNNNGC 4 cut(s) 123, 151, 163, 439
NarI GGCGCC 1 cut(s) 152
NciI CCSGG 1 cut(s) 245
NdeII GATC 2 cut(s) 30, 547
NlaIII CATG 2 cut(s) 406, 554
NlaIV GGNNCC 3 cut(s) 153, 234, 249
NspV TTCGAA 1 cut(s) 275
PdmI GAANNNNTTC 1 cut(s) 257
PfeI GAWTC 2 cut(s) 73, 392
PkrI GCNGC 5 cut(s) 54, 156, 192, 208, 211
PluTI GGCGCC 1 cut(s) 155
PmaCI CACGTG 2 cut(s) 239, 282
PmlI CACGTG 2 cut(s) 239, 282
Ppu21I YACGTR 2 cut(s) 239, 282
Psp6I CCWGG 1 cut(s) 157
PspCI CACGTG 2 cut(s) 239, 282
PspGI CCWGG 1 cut(s) 157
PspN4I GGNNCC 3 cut(s) 153, 234, 249
PspPI GGNCC 5 cut(s) 50, 221, 233, 248, 291
PsuI RGATCY 1 cut(s) 30
RsaI GTAC 1 cut(s) 592
RsaNI GTAC 1 cut(s) 591
RseI CAYNNNNRTG 1 cut(s) 447
Rsr2I CGGWCCG 1 cut(s) 291
RsrII CGGWCCG 1 cut(s) 291
SatI GCNGC 5 cut(s) 53, 155, 191, 207, 210
Sau3AI GATC 2 cut(s) 30, 547
Sau96I GGNCC 5 cut(s) 50, 221, 233, 248, 291
ScrFI CCNGG 2 cut(s) 159, 245
SduI GDGCHC 1 cut(s) 168
SfaNI GCATC 1 cut(s) 451
SfoI GGCGCC 1 cut(s) 153
SfuI TTCGAA 1 cut(s) 275
SinI GGWCC 2 cut(s) 248, 291
SmiMI CAYNNNNRTG 1 cut(s) 447
SmlI CTYRAG 2 cut(s) 434, 561
SmoI CTYRAG 2 cut(s) 434, 561
Sse9I AATT 2 cut(s) 340, 358
SspDI GGCGCC 1 cut(s) 151
StyD4I CCNGG 2 cut(s) 157, 243
TaaI ACNGT 2 cut(s) 413, 517
TaiI ACGT 2 cut(s) 241, 284
TaqI TCGA 1 cut(s) 275
TasI AATT 2 cut(s) 340, 358
TatI WGTACW 1 cut(s) 590
TauI GCSGC 5 cut(s) 55, 157, 193, 209, 212
TfiI GAWTC 2 cut(s) 73, 392
TspGWI ACGGA 2 cut(s) 27, 186
VpaK11BI GGWCC 2 cut(s) 248, 291
XmiI GTMKAC 1 cut(s) 9
XmnI GAANNNNTTC 1 cut(s) 257
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.