Rh3BG016400

RING-type zinc-finger

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr3B
OG0017318
Physical Location & Seq
Reverse (-)
1040971 .. 1041880
910 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh3BG016400.1

Sequence Viewer

Length: 762 bp
ATGGATCAAGAAGTCACTTCAGAGAACAATCGCTTCAAACATTCTGTTAATTTCGTCAAACCCACCAAACGTCGCCGGAGTCTACCTTCACCGGCTCAACTTCAGGTCCACTTCGTATGCCATACGCTCCACCAATACTTCAATAAATTATCATGTAGTAGTGAAAATTCTACCCGCATCCACTATCTTGAGGAGACCTCGGAAGAAACTTGCCAATTTGATCTGCGCGCAGTATTGAACCTCGACGATTTGCTCTCGAATCTCTCTCCAATTCTGTCAGAATTTGGAATCACAGAAGATAGTGACGACCACAGACAGATAGTGAGTAACATTAGATTTTCGGGTCAGAGATTTGGCCGAGACGTAATTCACAAAGAGGAGAGTCGAGGGTTATTCACCTTGGAAGTTTCTATTTCAAGAGAACATAATATGTATCGTTGCGAGAGTTGTCTGCTCGACAGGGTTGTAAGGGAGTCGATAATAATGGCAGAGGAGTCAGAAAGAGTAACAGTGCCCGCAAGCCAGTCATCGATCAAGAAGCTACTGAAGAAGAGGGTTAGGGTTGAAGAGGGAGAACTTTGTAGTGTTTGCTTGGAGGAGTTTAGGGTTGGGACTTATGAGACGAGCATGGACTGTTCACATGTGTTTCATAGGGAGTGCATAGAGAGATGGCTGAGACAGAGTCACTATTGTCCTGTCTGCAGGTATGAGATGCCTACTGATTATGATAGAGGAGGATTTCACGAGGATGATGAATACTGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
zf-RING_2

Protein Analysis

253

Amino Acids

29.73

Weight (kDa)

5.67

Isoelectric Point (pI)

73.77

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
zf-RING_2 PF13639 193 - 235 1.1e-13 Ring finger domain
zf-C3HC4_2 PF13923 194 - 234 9.1e-10 Zinc finger, C3HC4 type (RING finger)
zf-RING_UBOX PF13445 194 - 232 1.1e-08 RING-type zinc-finger
zf-C3HC4 PF00097 194 - 234 4.5e-08 Zinc finger, C3HC4 type (RING finger)
zf-RING_11 PF17123 194 - 221 9e-08 RING-like zinc finger
zf-rbx1 PF12678 208 - 235 2.6e-08 RING-H2 zinc finger 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: OG0017318)

Species Orthologous Gene IDs
fragaria_vesca FvH4_6g01430
malus_domestica MD13G1076400.v1.1
prunus_persica Prupe.1G270100_v2.0.a1 Prupe.1G270300_v2.0.a1 Prupe.2G025300_v2.0.a1
rosa_chinensis RchiOBHm_Chr3g0449061
rosa_laevigata RLG00000025857
rosa_multiflora Rmu_co8511853.1_g000002 Rmu_sc0003116.1_g000007
rosa_roxburghii Rroxscaffold_6G00427170
rosa_samantha Rh3BG016400 Rh3CG015400
rosa_wichuraiana Rw3G001220

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc36I ACCTGC 1 cut(s) 693
AccI GTMKAC 1 cut(s) 82
AccII CGCG 1 cut(s) 228
AciI CCGC 2 cut(s) 175, 516
AclWI GGATC 1 cut(s) 12
AcoI YGGCCR 1 cut(s) 355
AcsI RAATTY 2 cut(s) 166, 281
AcuI CTGAAG 2 cut(s) 86, 566
AflIII ACRYGT 1 cut(s) 640
AgsI TTSAA 5 cut(s) 37, 142, 238, 417, 566
AluBI AGCT 1 cut(s) 541
AluI AGCT 1 cut(s) 541
Alw26I GTCTC 4 cut(s) 188, 354, 614, 670
AlwI GGATC 1 cut(s) 12
AoxI GGCC 1 cut(s) 355
ApoI RAATTY 2 cut(s) 166, 281
AspLEI GCGC 2 cut(s) 228, 230
AspS9I GGNCC 1 cut(s) 106
AsuHPI GGTGA 2 cut(s) 81, 388
AvaII GGWCC 1 cut(s) 106
BaeGI GKGCMC 1 cut(s) 516
BauI CACGAG 1 cut(s) 743
BccI CCATC 1 cut(s) 663
BcoDI GTCTC 4 cut(s) 188, 354, 614, 670
BfmI CTRYAG 1 cut(s) 700
BfuAI ACCTGC 1 cut(s) 693
Bme18I GGWCC 1 cut(s) 106
BmgT120I GGNCC 1 cut(s) 106
BmsI GCATC 2 cut(s) 186, 702
BplI GAGNNNNNCTC 2 cut(s) 182, 214
BpuEI CTTGAG 1 cut(s) 209
Bsa29I ATCGAT 1 cut(s) 530
BsaI GGTCTC 1 cut(s) 188
BsaJI CCNNGG 2 cut(s) 198, 399
Bse118I RCCGGY 1 cut(s) 91
Bse1I ACTGG 1 cut(s) 523
BseCI ATCGAT 1 cut(s) 530
BseDI CCNNGG 2 cut(s) 198, 399
BseGI GGATG 2 cut(s) 177, 754
BseMII CTCAG 1 cut(s) 665
BseNI ACTGG 1 cut(s) 523
BsePI GCGCGC 1 cut(s) 226
BseRI GAGGAG 5 cut(s) 206, 392, 506, 611, 747
BseSI GKGCMC 1 cut(s) 516
Bsh1236I CGCG 1 cut(s) 228
BshFI GGCC 1 cut(s) 357
BshVI ATCGAT 1 cut(s) 530
BsiSI CCGG 2 cut(s) 76, 92
BslFI GGGAC 1 cut(s) 625
BsmAI GTCTC 4 cut(s) 188, 354, 614, 670
BsmBI CGTCTC 2 cut(s) 354, 614
BsmFI GGGAC 1 cut(s) 625
BsnI GGCC 1 cut(s) 357
Bso31I GGTCTC 1 cut(s) 188
Bsp1286I GDGCHC 1 cut(s) 516
Bsp143I GATC 3 cut(s) 4, 220, 531
BspACI CCGC 2 cut(s) 175, 516
BspANI GGCC 1 cut(s) 357
BspCNI CTCAG 1 cut(s) 666
BspDI ATCGAT 1 cut(s) 530
BspFNI CGCG 1 cut(s) 228
BspMAI CTGCAG 1 cut(s) 704
BspMI ACCTGC 1 cut(s) 693
BspPI GGATC 1 cut(s) 12
BspTNI GGTCTC 1 cut(s) 188
BsrFI RCCGGY 1 cut(s) 91
BsrI ACTGG 1 cut(s) 523
BssAI RCCGGY 1 cut(s) 91
BssECI CCNNGG 2 cut(s) 198, 399
BssHII GCGCGC 1 cut(s) 226
BssMI GATC 3 cut(s) 4, 220, 531
BssSI CACGAG 1 cut(s) 743
BssT1I CCWWGG 1 cut(s) 399
Bst2BI CACGAG 1 cut(s) 743
Bst4CI ACNGT 2 cut(s) 511, 635
Bst6I CTCTTC 2 cut(s) 545, 561
BstC8I GCNNGC 3 cut(s) 228, 516, 520
BstDEI CTNAG 1 cut(s) 674
BstF5I GGATG 2 cut(s) 177, 754
BstFNI CGCG 1 cut(s) 228
BstHHI GCGC 2 cut(s) 228, 230
BstKTI GATC 3 cut(s) 7, 223, 534
BstMAI GTCTC 4 cut(s) 188, 354, 614, 670
BstMBI GATC 3 cut(s) 4, 220, 531
BstNSI RCATGY 1 cut(s) 644
BstSFI CTRYAG 1 cut(s) 700
BstSLI GKGCMC 1 cut(s) 516
BstUI CGCG 1 cut(s) 228
Bsu15I ATCGAT 1 cut(s) 530
BsuRI GGCC 1 cut(s) 357
BsuTUI ATCGAT 1 cut(s) 530
BtsCI GGATG 2 cut(s) 177, 754
BtsIMutI CAGTG 1 cut(s) 516
BveI ACCTGC 1 cut(s) 693
Cac8I GCNNGC 3 cut(s) 228, 516, 520
CfoI GCGC 2 cut(s) 228, 230
Cfr10I RCCGGY 1 cut(s) 91
Cfr13I GGNCC 1 cut(s) 106
ClaI ATCGAT 1 cut(s) 530
CviAII CATG 3 cut(s) 153, 628, 641
CviJI RGCY 5 cut(s) 95, 357, 522, 541, 673
CviKI_1 RGCY 5 cut(s) 95, 357, 522, 541, 673
DdeI CTNAG 1 cut(s) 674
DpnI GATC 3 cut(s) 6, 222, 533
DpnII GATC 3 cut(s) 4, 220, 531
EaeI YGGCCR 1 cut(s) 355
Eam1104I CTCTTC 2 cut(s) 545, 561
EarI CTCTTC 2 cut(s) 545, 561
Eco130I CCWWGG 1 cut(s) 399
Eco31I GGTCTC 1 cut(s) 188
Eco47I GGWCC 1 cut(s) 106
Eco57I CTGAAG 2 cut(s) 86, 566
EcoT14I CCWWGG 1 cut(s) 399
ErhI CCWWGG 1 cut(s) 399
Esp3I CGTCTC 2 cut(s) 354, 614
FaeI CATG 3 cut(s) 156, 631, 644
FaqI GGGAC 1 cut(s) 625
FatI CATG 3 cut(s) 152, 627, 640
FauI CCCGC 2 cut(s) 182, 523
FblI GTMKAC 1 cut(s) 82
FokI GGATG 1 cut(s) 164
GlaI GCGC 2 cut(s) 227, 229
HaeIII GGCC 1 cut(s) 357
HapII CCGG 2 cut(s) 76, 92
HhaI GCGC 2 cut(s) 228, 230
Hin1II CATG 3 cut(s) 156, 631, 644
Hin6I GCGC 2 cut(s) 226, 228
HinP1I GCGC 2 cut(s) 226, 228
HinfI GANTC 7 cut(s) 79, 259, 288, 382, 473, 494, 682
HpaII CCGG 2 cut(s) 76, 92
HphI GGTGA 2 cut(s) 81, 388
Hpy166II GTNNAC 3 cut(s) 83, 109, 638
Hpy188I TCNGA 5 cut(s) 22, 202, 280, 348, 499
Hpy188III TCNNGA 6 cut(s) 8, 188, 256, 417, 535, 743
Hpy8I GTNNAC 3 cut(s) 83, 109, 638
Hpy99I CGWCG 2 cut(s) 75, 248
HpyAV CCTTC 1 cut(s) 96
HpyCH4III ACNGT 2 cut(s) 511, 635
HpyCH4IV ACGT 2 cut(s) 70, 363
HpyCH4V TGCA 2 cut(s) 660, 702
HpyF3I CTNAG 1 cut(s) 674
HpySE526I ACGT 2 cut(s) 70, 363
Hsp92II CATG 3 cut(s) 156, 631, 644
HspAI GCGC 2 cut(s) 226, 228
Kzo9I GATC 3 cut(s) 4, 220, 531
LmnI GCTCC 1 cut(s) 132
LpnPI CCDG 7 cut(s) 89, 89, 105, 445, 536, 688, 708
LweI GCATC 2 cut(s) 186, 702
MaeII ACGT 2 cut(s) 70, 363
MaeIII GTNAC 5 cut(s) 13, 302, 326, 505, 683
MalI GATC 3 cut(s) 6, 222, 533
MboI GATC 3 cut(s) 4, 220, 531
MboII GAAGA 5 cut(s) 215, 308, 559, 562, 578
MhlI GDGCHC 1 cut(s) 516
MluCI AATT 7 cut(s) 49, 146, 166, 215, 270, 281, 366
MlyI GAGTC 5 cut(s) 88, 391, 482, 503, 691
MseI TTAA 1 cut(s) 48
MslI CAYNNNNRTG 1 cut(s) 747
MspI CCGG 2 cut(s) 76, 92
MvnI CGCG 1 cut(s) 228
NdeII GATC 3 cut(s) 4, 220, 531
NlaIII CATG 3 cut(s) 156, 631, 644
NmeAIII GCCGAG 1 cut(s) 383
NmuCI GTSAC 3 cut(s) 13, 302, 683
NspI RCATGY 1 cut(s) 644
PauI GCGCGC 1 cut(s) 226
PciI ACATGT 1 cut(s) 640
PfeI GAWTC 2 cut(s) 259, 288
PflFI GACNNNGTC 1 cut(s) 681
PleI GAGTC 5 cut(s) 87, 390, 481, 502, 690
PpsI GAGTC 5 cut(s) 87, 390, 481, 502, 690
PscI ACATGT 1 cut(s) 640
PspPI GGNCC 1 cut(s) 106
PstI CTGCAG 1 cut(s) 704
PsyI GACNNNGTC 1 cut(s) 681
PteI GCGCGC 1 cut(s) 226
RseI CAYNNNNRTG 1 cut(s) 747
SaqAI TTAA 1 cut(s) 48
Sau3AI GATC 3 cut(s) 4, 220, 531
Sau96I GGNCC 1 cut(s) 106
SchI GAGTC 5 cut(s) 88, 391, 482, 503, 691
SduI GDGCHC 1 cut(s) 516
SetI ASST 9 cut(s) 73, 88, 108, 200, 243, 366, 401, 543, 707
SfaNI GCATC 2 cut(s) 186, 702
SfcI CTRYAG 1 cut(s) 700
SinI GGWCC 1 cut(s) 106
SmiMI CAYNNNNRTG 1 cut(s) 747
SmlI CTYRAG 1 cut(s) 188
SmoI CTYRAG 1 cut(s) 188
Sse9I AATT 7 cut(s) 49, 146, 166, 215, 270, 281, 366
SsiI CCGC 2 cut(s) 175, 516
StyI CCWWGG 1 cut(s) 399
TaaI ACNGT 2 cut(s) 511, 635
TaiI ACGT 2 cut(s) 73, 366
TaqI TCGA 6 cut(s) 243, 257, 385, 456, 476, 530
TasI AATT 7 cut(s) 49, 146, 166, 215, 270, 281, 366
TfiI GAWTC 2 cut(s) 259, 288
Tru1I TTAA 1 cut(s) 48
Tru9I TTAA 1 cut(s) 48
TscAI CASTG 1 cut(s) 516
TseFI GTSAC 3 cut(s) 13, 302, 683
Tsp45I GTSAC 3 cut(s) 13, 302, 683
TspDTI ATGAA 1 cut(s) 638
TspRI CASTG 1 cut(s) 516
Tth111I GACNNNGTC 1 cut(s) 681
VpaK11BI GGWCC 1 cut(s) 106
XapI RAATTY 2 cut(s) 166, 281
XceI RCATGY 1 cut(s) 644
XmiI GTMKAC 1 cut(s) 82
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.