RchiOBHm_Chr3g0483611

zinc finger CCCH domain-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
3
OG0000488
Physical Location & Seq
Forward (+)
29898207 .. 29898800
594 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ44836

Sequence Viewer

Length: 594 bp
ATGGAAGTTGGGAATGATATGGTATTCGCAGGGACAGAGGAAGGTGTTATATATGTGTGGAAAGGCAAAGCCTGTTCTGATGCAAAAGTGAATCCATCTCACCCTGATCAGGCTCTCAGTGGCCATACTGCTGCTGTGGTTTCTTTAAGGGTTGGAAATATCAGACTCTACTCAGGTTATGTGGACCATACAATAAGGGTGTGGAATCTGGACACTTTGGAGTGTGCTATGACTCTAAATGGACATTCTGATGTTGTGACGTCTCTTATAAGTTGGACTACATGTCTGATCTCATGTTCATTAGACCACATGATAAAGGCATGGACTATGTGTAAAGGAGGCAACATTGAAGGAATCTACACTCACATTGAAGAAGACGATCTTCTTGCTCTCTCTGGAATGCATGGTACTGAAGATAAACCAGTCCTACTTTGCTCATCAAAAGACAATTCTATCCGCATATATGATTTGCCATCCTTTGATGAGAAGGGAAGATTATTTGACAAACGAGAAGTTCGGGCTATTCAAGTGGGCCTTGGAGGACTATTCTTCACTAGGATGAAACCGGTGGACTTTCTGTGTGGAATTGGTTAG
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

197

Amino Acids

21.67

Weight (kDa)

5.43

Isoelectric Point (pI)

33.88

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Beta-prop_WDR3_1st PF25173 6 - 157 3.9e-18 WDR3 first beta-propeller domain
WD40_CDC20-Fz PF24807 17 - 165 3.8e-06 CDC20/Fizzy WD40 domain
WD40_WDHD1_1st PF24817 36 - 173 4.4e-06 WDHD1 first WD40 domain
Beta-prop_WDR5 PF25175 37 - 157 3e-15 WDR5 beta-propeller domain
Beta-prop_WDR3_2nd PF25172 39 - 156 2.8e-09 WDR3 second beta-propeller domain
Beta-prop_SCAP PF24017 41 - 124 8.9e-10 SCAP Beta-propeller
Beta-prop_THOC3 PF25174 55 - 172 2.7e-10 THOC3 beta-propeller domain
WD40_Prp19 PF24814 56 - 159 4.9e-07 Prp19 WD40 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)
AanI TTATAA 1 cut(s) 269
AatII GACGTC 1 cut(s) 263
AciI CCGC 1 cut(s) 457
AcoI YGGCCR 1 cut(s) 121
AcuI CTGAAG 1 cut(s) 432
AcyI GRCGYC 1 cut(s) 260
AfaI GTAC 1 cut(s) 409
AfiI CCNNNNNNNGG 1 cut(s) 109
AflIII ACRYGT 1 cut(s) 281
AgeI ACCGGT 1 cut(s) 565
AgsI TTSAA 3 cut(s) 350, 371, 527
AhdI GACNNNNNGTC 1 cut(s) 282
Alw26I GTCTC 1 cut(s) 267
AoxI GGCC 2 cut(s) 121, 532
ApeKI GCWGC 1 cut(s) 131
AsiGI ACCGGT 1 cut(s) 565
AspS9I GGNCC 2 cut(s) 184, 532
AsuHPI GGTGA 1 cut(s) 92
AvaII GGWCC 1 cut(s) 184
BalI TGGCCA 1 cut(s) 123
BbsI GAAGAC 1 cut(s) 381
BbvI GCAGC 1 cut(s) 118
BccI CCATC 2 cut(s) 103, 481
BcgI CGANNNNNNTGC 2 cut(s) 368, 402
BclI TGATCA 1 cut(s) 106
BcoDI GTCTC 1 cut(s) 267
BfaI CTAG 1 cut(s) 555
BisI GCNGC 1 cut(s) 132
BlsI GCNGC 1 cut(s) 133
Bme18I GGWCC 1 cut(s) 184
BmeRI GACNNNNNGTC 1 cut(s) 282
BmgT120I GGNCC 2 cut(s) 184, 532
BmsI GCATC 1 cut(s) 70
BpiI GAAGAC 1 cut(s) 381
BsaHI GRCGYC 1 cut(s) 260
BsaJI CCNNGG 1 cut(s) 535
BsaWI WCCGGW 1 cut(s) 565
Bsc4I CCNNNNNNNGG 1 cut(s) 109
Bse118I RCCGGY 1 cut(s) 565
Bse1I ACTGG 1 cut(s) 422
BseDI CCNNGG 1 cut(s) 535
BseGI GGATG 2 cut(s) 473, 564
BseLI CCNNNNNNNGG 1 cut(s) 109
BseMII CTCAG 2 cut(s) 130, 186
BseNI ACTGG 1 cut(s) 422
BseXI GCAGC 1 cut(s) 118
BshFI GGCC 2 cut(s) 123, 534
BshTI ACCGGT 1 cut(s) 565
BsiSI CCGG 1 cut(s) 566
BslFI GGGAC 1 cut(s) 46
BslI CCNNNNNNNGG 1 cut(s) 109
BsmAI GTCTC 1 cut(s) 267
BsmBI CGTCTC 1 cut(s) 267
BsmFI GGGAC 1 cut(s) 46
BsmI GAATGC 1 cut(s) 405
BsnI GGCC 2 cut(s) 123, 534
Bsp143I GATC 3 cut(s) 106, 288, 379
BspACI CCGC 1 cut(s) 457
BspANI GGCC 2 cut(s) 123, 534
BspCNI CTCAG 2 cut(s) 129, 185
BsrFI RCCGGY 1 cut(s) 565
BsrI ACTGG 1 cut(s) 422
BssAI RCCGGY 1 cut(s) 565
BssECI CCNNGG 1 cut(s) 535
BssMI GATC 3 cut(s) 106, 288, 379
BssNI GRCGYC 1 cut(s) 260
BssT1I CCWWGG 1 cut(s) 535
BstACI GRCGYC 1 cut(s) 260
BstDEI CTNAG 2 cut(s) 116, 172
BstF5I GGATG 2 cut(s) 473, 564
BstKTI GATC 3 cut(s) 109, 291, 382
BstMAI GTCTC 1 cut(s) 267
BstMBI GATC 3 cut(s) 106, 288, 379
BstNSI RCATGY 1 cut(s) 285
BstV1I GCAGC 1 cut(s) 118
BstV2I GAAGAC 1 cut(s) 381
BsuRI GGCC 2 cut(s) 123, 534
BtsCI GGATG 2 cut(s) 473, 564
BtsIMutI CAGTG 1 cut(s) 124
Cfr10I RCCGGY 1 cut(s) 565
Cfr13I GGNCC 2 cut(s) 184, 532
Csp6I GTAC 1 cut(s) 408
CspAI ACCGGT 1 cut(s) 565
CviAII CATG 5 cut(s) 282, 294, 310, 321, 404
CviJI RGCY 5 cut(s) 71, 113, 123, 521, 534
CviKI_1 RGCY 5 cut(s) 71, 113, 123, 521, 534
CviQI GTAC 1 cut(s) 408
DdeI CTNAG 2 cut(s) 116, 172
DpnI GATC 3 cut(s) 108, 290, 381
DpnII GATC 3 cut(s) 106, 288, 379
DriI GACNNNNNGTC 1 cut(s) 282
EaeI YGGCCR 1 cut(s) 121
Eam1105I GACNNNNNGTC 1 cut(s) 282
Eco130I CCWWGG 1 cut(s) 535
Eco47I GGWCC 1 cut(s) 184
Eco57I CTGAAG 1 cut(s) 432
EcoT14I CCWWGG 1 cut(s) 535
EcoT22I ATGCAT 1 cut(s) 405
ErhI CCWWGG 1 cut(s) 535
Esp3I CGTCTC 1 cut(s) 267
FaeI CATG 5 cut(s) 285, 297, 313, 324, 407
FalI AAGNNNNNCTT 4 cut(s) 366, 398, 519, 551
FaqI GGGAC 1 cut(s) 46
FatI CATG 5 cut(s) 281, 293, 309, 320, 403
FbaI TGATCA 1 cut(s) 106
Fnu4HI GCNGC 1 cut(s) 132
FokI GGATG 2 cut(s) 460, 571
Fsp4HI GCNGC 1 cut(s) 132
FspBI CTAG 1 cut(s) 555
GluI GCNGC 1 cut(s) 132
HaeIII GGCC 2 cut(s) 123, 534
HapII CCGG 1 cut(s) 566
Hin1I GRCGYC 1 cut(s) 260
Hin1II CATG 5 cut(s) 285, 297, 313, 324, 407
HinfI GANTC 5 cut(s) 91, 165, 205, 232, 354
HpaII CCGG 1 cut(s) 566
HphI GGTGA 1 cut(s) 92
Hpy166II GTNNAC 2 cut(s) 184, 571
Hpy188I TCNGA 4 cut(s) 79, 164, 250, 288
Hpy188III TCNNGA 2 cut(s) 209, 396
Hpy8I GTNNAC 2 cut(s) 184, 571
HpyAV CCTTC 3 cut(s) 35, 344, 481
HpyCH4IV ACGT 1 cut(s) 260
HpyCH4V TGCA 2 cut(s) 83, 403
HpyF3I CTNAG 2 cut(s) 116, 172
HpySE526I ACGT 1 cut(s) 260
Hsp92I GRCGYC 1 cut(s) 260
Hsp92II CATG 5 cut(s) 285, 297, 313, 324, 407
Ksp22I TGATCA 1 cut(s) 106
Kzo9I GATC 3 cut(s) 106, 288, 379
LpnPI CCDG 9 cut(s) 15, 85, 95, 117, 159, 194, 381, 435, 579
Lsp1109I GCAGC 1 cut(s) 118
LweI GCATC 1 cut(s) 70
MaeI CTAG 1 cut(s) 555
MaeII ACGT 1 cut(s) 260
MaeIII GTNAC 1 cut(s) 256
MalI GATC 3 cut(s) 108, 290, 381
MboI GATC 3 cut(s) 106, 288, 379
MboII GAAGA 6 cut(s) 374, 383, 386, 425, 504, 541
MlsI TGGCCA 1 cut(s) 123
MluCI AATT 2 cut(s) 448, 585
MluNI TGGCCA 1 cut(s) 123
MlyI GAGTC 2 cut(s) 159, 226
MmeI TCCRAC 2 cut(s) 133, 254
MnlI CCTC 3 cut(s) 31, 332, 533
Mox20I TGGCCA 1 cut(s) 123
Mph1103I ATGCAT 1 cut(s) 405
MscI TGGCCA 1 cut(s) 123
MseI TTAA 1 cut(s) 146
MslI CAYNNNNRTG 2 cut(s) 249, 557
Msp20I TGGCCA 1 cut(s) 123
MspI CCGG 1 cut(s) 566
Mva1269I GAATGC 1 cut(s) 405
NdeII GATC 3 cut(s) 106, 288, 379
NlaIII CATG 5 cut(s) 285, 297, 313, 324, 407
NmuCI GTSAC 1 cut(s) 256
NsiI ATGCAT 1 cut(s) 405
NspI RCATGY 1 cut(s) 285
PciI ACATGT 1 cut(s) 281
PctI GAATGC 1 cut(s) 405
PfeI GAWTC 3 cut(s) 91, 205, 354
PinAI ACCGGT 1 cut(s) 565
PkrI GCNGC 1 cut(s) 133
PleI GAGTC 2 cut(s) 159, 226
PpsI GAGTC 2 cut(s) 159, 226
PscI ACATGT 1 cut(s) 281
PsiI TTATAA 1 cut(s) 269
PspPI GGNCC 2 cut(s) 184, 532
RsaI GTAC 1 cut(s) 409
RsaNI GTAC 1 cut(s) 408
RseI CAYNNNNRTG 2 cut(s) 249, 557
SaqAI TTAA 1 cut(s) 146
SatI GCNGC 1 cut(s) 132
Sau3AI GATC 3 cut(s) 106, 288, 379
Sau96I GGNCC 2 cut(s) 184, 532
SchI GAGTC 2 cut(s) 159, 226
SetI ASST 3 cut(s) 46, 178, 263
SfaNI GCATC 1 cut(s) 70
SinI GGWCC 1 cut(s) 184
SmiMI CAYNNNNRTG 2 cut(s) 249, 557
Sse9I AATT 2 cut(s) 448, 585
SsiI CCGC 1 cut(s) 457
SspMI CTAG 1 cut(s) 555
StyI CCWWGG 1 cut(s) 535
TaiI ACGT 1 cut(s) 263
TasI AATT 2 cut(s) 448, 585
TfiI GAWTC 3 cut(s) 91, 205, 354
Tru1I TTAA 1 cut(s) 146
Tru9I TTAA 1 cut(s) 146
TscAI CASTG 1 cut(s) 124
TseFI GTSAC 1 cut(s) 256
TseI GCWGC 1 cut(s) 131
Tsp45I GTSAC 1 cut(s) 256
TspDTI ATGAA 2 cut(s) 288, 575
TspRI CASTG 1 cut(s) 124
VpaK11BI GGWCC 1 cut(s) 184
XceI RCATGY 1 cut(s) 285
XspI CTAG 1 cut(s) 555
ZraI GACGTC 1 cut(s) 261
Zsp2I ATGCAT 1 cut(s) 405
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.