Rh5BG083600

The RING-variant domain is a C4HC3 zinc-finger like motif found in a number of cellular and viral proteins. Some of these proteins have been shown both in vivo and in vitro to have ubiquitin E3 ligase activity.

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5B
OG0013321
Physical Location & Seq
Forward (+)
7228112 .. 7230079
1968 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5BG083600.1

Sequence Viewer

Length: 918 bp
ATGGATGCAGGGTCACATGATGTTCAAGGTAGCAGTGTAGTTTTGGGTGGGGTTGATCAGAATTCCCTTGAGAAATCAAGGAATTCTGTTGTTTGGTCAGTTGTTGAGTCTGTCATTGTCGAGGCGGCCACTGCTATTCGGAAAACTGAAGATTTGAAGGCATTGGGTGGGGAACTAGGGTCTAATAAGGCAGTAGGTGAAGAAGGGGTTGAGAGACTGAATAATAAGGAGGCATGTGAGCCGCGTACTAGTAGTGAGGTTTCGAGTCATGTTGAGCTAGAAACTAATAAGAACTCGAACAATTTGGCTGATGGGAATGTGTCTGAGACTGTTGTTGTCATCAACTCTGGTGAGGCTTCGCATGGTACTAGAGATGATGGAAGATTGGGTGTAAAGGGTGATGAACTGGGGTCGAGTAAGGTGGCAGAGTCAAAGATGAAGGTGCCTGCGGCAGAGAGGGATTCACATGTGATTAATATCAAGTGTGGGAGTGGTAAAGGATTTGGTGATAATTGGGAGGCGGAAAGTGTTTGTAGGATTTGCCATTTAAGTTCTGATCAATCGCCGGACAGAAAAACAGAATCTAGTTCTTGTTCTGTCACTATGGATTTAATTCATCTTGGCTGTGAGTGTAAAGATGAATTAGGTGTTGCACATGCTCATTGTGCTGAAGCTTGGTTTAAGCTAAAAGGAAACAGAATGTGTGAAATTTGTGGCGATACTGCAAAAAATGTTACTGGTCTTGGGGATAACAGATTTTTGGAGGAGTGGAACGAAAGAAGATTTTCTGGTCTTGGTGCGAACACATCAGAGAGGAATGTTGGATGTTGGCGGGGACAGCCATTTTGCAATTTCTTAATGGCATGCCTGGTAATAGCTTTTGTGCTGCCATGGTTTTTTCGTGTAAATATGTTCTAG
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
RINGv

Protein Analysis

305

Amino Acids

32.96

Weight (kDa)

5.22

Isoelectric Point (pI)

36.55

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RINGv PF12906 178 - 238 5.3e-06 RING-variant 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: OG0013321)

Species Orthologous Gene IDs
arabidopsis_thaliana AT2G34200 AT2G34200
fragaria_vesca FvH4_3g07460
malus_domestica MD10G1277000.v1.1
prunus_persica Prupe.4G064900_v2.0.a1 Prupe.4G064900_v2.0.a1
pyrus_communis pycom05g27540 pycom10g23130
rosa_chinensis RchiOBHm_Chr5g0011391
rosa_laevigata RLG00000031829
rosa_multiflora Rmu_sc0009975.1_g000013
rosa_roxburghii Rroxscaffold_1G00065060
rosa_rugosa Rorug04G0456800
rosa_samantha Rh5AG088500 Rh5BG083600 Rh5CG096900 Rh5DG083500
rosa_wichuraiana Rw5G007680

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 1 cut(s) 442
AccII CGCG 1 cut(s) 244
AciI CCGC 5 cut(s) 125, 242, 449, 521, 832
AcoI YGGCCR 1 cut(s) 126
AcsI RAATTY 3 cut(s) 61, 82, 708
AcuI CTGAAG 2 cut(s) 168, 690
AfaI GTAC 2 cut(s) 247, 367
AflIII ACRYGT 1 cut(s) 466
AgsI TTSAA 2 cut(s) 26, 157
AhlI ACTAGT 1 cut(s) 248
AjnI CCWGG 1 cut(s) 867
AluBI AGCT 4 cut(s) 277, 674, 685, 878
AluI AGCT 4 cut(s) 277, 674, 685, 878
Alw26I GTCTC 2 cut(s) 208, 320
AoxI GGCC 1 cut(s) 126
ApeKI GCWGC 1 cut(s) 886
ApoI RAATTY 3 cut(s) 61, 82, 708
ArsI GACNNNNNNTTYG 2 cut(s) 828, 860
AseI ATTAAT 1 cut(s) 474
Asp700I GAANNNNTTC 1 cut(s) 784
AsuHPI GGTGA 4 cut(s) 209, 362, 410, 518
BanI GGYRCC 1 cut(s) 442
BbvI GCAGC 1 cut(s) 873
BccI CCATC 2 cut(s) 305, 371
BciT130I CCWGG 1 cut(s) 869
BclI TGATCA 2 cut(s) 55, 556
BcoDI GTCTC 2 cut(s) 208, 320
BcuI ACTAGT 1 cut(s) 248
BfaI CTAG 6 cut(s) 176, 249, 278, 369, 585, 916
BisI GCNGC 4 cut(s) 126, 242, 450, 887
BlsI GCNGC 4 cut(s) 127, 243, 451, 888
Bme1390I CCNGG 1 cut(s) 869
BmiI GGNNCC 1 cut(s) 444
BmrFI CCNGG 1 cut(s) 869
BmrI ACTGGG 1 cut(s) 416
BmuI ACTGGG 1 cut(s) 416
BpuEI CTTGAG 1 cut(s) 89
BsaBI GATNNNNATC 1 cut(s) 476
BsaJI CCNNGG 1 cut(s) 890
Bse1I ACTGG 2 cut(s) 411, 742
Bse8I GATNNNNATC 1 cut(s) 476
BseBI CCWGG 1 cut(s) 869
BseDI CCNNGG 1 cut(s) 890
BseGI GGATG 2 cut(s) 10, 830
BseJI GATNNNNATC 1 cut(s) 476
BseMII CTCAG 1 cut(s) 315
BseNI ACTGG 2 cut(s) 411, 742
BseRI GAGGAG 1 cut(s) 779
BseXI GCAGC 1 cut(s) 873
Bsh1236I CGCG 1 cut(s) 244
BshFI GGCC 1 cut(s) 128
BshNI GGYRCC 1 cut(s) 442
BsiSI CCGG 1 cut(s) 566
BslFI GGGAC 1 cut(s) 849
BsmAI GTCTC 2 cut(s) 208, 320
BsmFI GGGAC 1 cut(s) 849
BsnI GGCC 1 cut(s) 128
Bsp143I GATC 2 cut(s) 55, 556
Bsp19I CCATGG 1 cut(s) 890
BspACI CCGC 5 cut(s) 125, 242, 449, 521, 832
BspANI GGCC 1 cut(s) 128
BspCNI CTCAG 1 cut(s) 316
BspFNI CGCG 1 cut(s) 244
BspLI GGNNCC 1 cut(s) 444
BspT107I GGYRCC 1 cut(s) 442
BsrI ACTGG 2 cut(s) 411, 742
BssECI CCNNGG 1 cut(s) 890
BssMI GATC 2 cut(s) 55, 556
BssT1I CCWWGG 1 cut(s) 890
Bst2UI CCWGG 1 cut(s) 869
Bst4CI ACNGT 1 cut(s) 331
BstC8I GCNNGC 2 cut(s) 447, 865
BstDEI CTNAG 1 cut(s) 324
BstDSI CCRYGG 1 cut(s) 890
BstF5I GGATG 2 cut(s) 10, 830
BstFNI CGCG 1 cut(s) 244
BstKTI GATC 2 cut(s) 58, 559
BstMAI GTCTC 2 cut(s) 208, 320
BstMBI GATC 2 cut(s) 55, 556
BstMWI GCNNNNNNNGC 3 cut(s) 131, 665, 838
BstNI CCWGG 1 cut(s) 869
BstNSI RCATGY 4 cut(s) 237, 470, 659, 867
BstSCI CCNGG 1 cut(s) 867
BstUI CGCG 1 cut(s) 244
BstV1I GCAGC 1 cut(s) 873
BsuRI GGCC 1 cut(s) 128
BtgI CCRYGG 1 cut(s) 890
BtsCI GGATG 2 cut(s) 10, 830
BtsI GCAGTG 2 cut(s) 40, 129
BtsIMutI CAGTG 2 cut(s) 40, 129
Cac8I GCNNGC 2 cut(s) 447, 865
Csp6I GTAC 2 cut(s) 246, 366
CviAII CATG 8 cut(s) 17, 234, 269, 362, 467, 656, 864, 891
CviQI GTAC 2 cut(s) 246, 366
DdeI CTNAG 1 cut(s) 324
DpnI GATC 2 cut(s) 57, 558
DpnII GATC 2 cut(s) 55, 556
EaeI YGGCCR 1 cut(s) 126
EciI GGCGGA 1 cut(s) 536
Eco130I CCWWGG 1 cut(s) 890
Eco57I CTGAAG 2 cut(s) 168, 690
EcoRI GAATTC 2 cut(s) 61, 82
EcoRII CCWGG 1 cut(s) 867
EcoT14I CCWWGG 1 cut(s) 890
ErhI CCWWGG 1 cut(s) 890
FaeI CATG 8 cut(s) 20, 237, 272, 365, 470, 659, 867, 894
FaqI GGGAC 1 cut(s) 849
FatI CATG 8 cut(s) 16, 233, 268, 361, 466, 655, 863, 890
FauI CCCGC 1 cut(s) 825
FbaI TGATCA 2 cut(s) 55, 556
Fnu4HI GCNGC 4 cut(s) 126, 242, 450, 887
FokI GGATG 2 cut(s) 17, 837
Fsp4HI GCNGC 4 cut(s) 126, 242, 450, 887
FspBI CTAG 6 cut(s) 176, 249, 278, 369, 585, 916
GluI GCNGC 4 cut(s) 126, 242, 450, 887
HaeIII GGCC 1 cut(s) 128
HapII CCGG 1 cut(s) 566
Hin1II CATG 8 cut(s) 20, 237, 272, 365, 470, 659, 867, 894
HindIII AAGCTT 1 cut(s) 672
HinfI GANTC 5 cut(s) 107, 265, 428, 461, 581
HpaII CCGG 1 cut(s) 566
HphI GGTGA 4 cut(s) 209, 362, 410, 518
Hpy188I TCNGA 5 cut(s) 60, 141, 325, 556, 811
HpyAV CCTTC 3 cut(s) 151, 197, 433
HpyCH4III ACNGT 1 cut(s) 331
HpyCH4V TGCA 4 cut(s) 8, 653, 725, 849
HpyF10VI GCNNNNNNNGC 3 cut(s) 131, 665, 838
HpyF3I CTNAG 1 cut(s) 324
Hsp92II CATG 8 cut(s) 20, 237, 272, 365, 470, 659, 867, 894
Ksp22I TGATCA 2 cut(s) 55, 556
Kzo9I GATC 2 cut(s) 55, 556
LpnPI CCDG 8 cut(s) 333, 392, 459, 579, 723, 774, 854, 881
Lsp1109I GCAGC 1 cut(s) 873
MaeI CTAG 6 cut(s) 176, 249, 278, 369, 585, 916
MaeIII GTNAC 3 cut(s) 12, 598, 733
MalI GATC 2 cut(s) 57, 558
MboI GATC 2 cut(s) 55, 556
MboII GAAGA 4 cut(s) 161, 212, 393, 792
MluCI AATT 8 cut(s) 61, 82, 301, 511, 612, 641, 708, 850
MlyI GAGTC 3 cut(s) 116, 274, 437
MmeI TCCRAC 1 cut(s) 802
MnlI CCTC 8 cut(s) 115, 223, 250, 346, 450, 511, 757, 807
MroXI GAANNNNTTC 1 cut(s) 784
MseI TTAA 5 cut(s) 474, 548, 611, 681, 857
MspI CCGG 1 cut(s) 566
MspR9I CCNGG 1 cut(s) 869
MvaI CCWGG 1 cut(s) 869
MvnI CGCG 1 cut(s) 244
MwoI GCNNNNNNNGC 3 cut(s) 131, 665, 838
NcoI CCATGG 1 cut(s) 890
NdeII GATC 2 cut(s) 55, 556
NlaIII CATG 8 cut(s) 20, 237, 272, 365, 470, 659, 867, 894
NlaIV GGNNCC 1 cut(s) 444
NmuCI GTSAC 2 cut(s) 12, 598
NspI RCATGY 4 cut(s) 237, 470, 659, 867
PaeI GCATGC 1 cut(s) 867
PciI ACATGT 1 cut(s) 466
PdmI GAANNNNTTC 1 cut(s) 784
PfeI GAWTC 2 cut(s) 461, 581
PkrI GCNGC 4 cut(s) 127, 243, 451, 888
PleI GAGTC 3 cut(s) 115, 273, 436
PpsI GAGTC 3 cut(s) 115, 273, 436
PscI ACATGT 1 cut(s) 466
PshBI ATTAAT 1 cut(s) 474
Psp6I CCWGG 1 cut(s) 867
PspGI CCWGG 1 cut(s) 867
PspN4I GGNNCC 1 cut(s) 444
RsaI GTAC 2 cut(s) 247, 367
RsaNI GTAC 2 cut(s) 246, 366
SaqAI TTAA 5 cut(s) 474, 548, 611, 681, 857
SatI GCNGC 4 cut(s) 126, 242, 450, 887
Sau3AI GATC 2 cut(s) 55, 556
SchI GAGTC 3 cut(s) 116, 274, 437
ScrFI CCNGG 1 cut(s) 869
SmlI CTYRAG 1 cut(s) 68
SmoI CTYRAG 1 cut(s) 68
SpeI ACTAGT 1 cut(s) 248
SphI GCATGC 1 cut(s) 867
Sse9I AATT 8 cut(s) 61, 82, 301, 511, 612, 641, 708, 850
SsiI CCGC 5 cut(s) 125, 242, 449, 521, 832
SspMI CTAG 6 cut(s) 176, 249, 278, 369, 585, 916
StyD4I CCNGG 1 cut(s) 867
StyI CCWWGG 1 cut(s) 890
TaaI ACNGT 1 cut(s) 331
TaqI TCGA 4 cut(s) 120, 263, 296, 413
TasI AATT 8 cut(s) 61, 82, 301, 511, 612, 641, 708, 850
TauI GCSGC 3 cut(s) 128, 244, 452
TfiI GAWTC 2 cut(s) 461, 581
Tru1I TTAA 5 cut(s) 474, 548, 611, 681, 857
Tru9I TTAA 5 cut(s) 474, 548, 611, 681, 857
TscAI CASTG 2 cut(s) 40, 136
TseFI GTSAC 2 cut(s) 12, 598
TseI GCWGC 1 cut(s) 886
Tsp45I GTSAC 2 cut(s) 12, 598
TspDTI ATGAA 4 cut(s) 417, 452, 605, 654
TspRI CASTG 2 cut(s) 40, 136
VspI ATTAAT 1 cut(s) 474
XapI RAATTY 3 cut(s) 61, 82, 708
XceI RCATGY 4 cut(s) 237, 470, 659, 867
XmnI GAANNNNTTC 1 cut(s) 784
XspI CTAG 6 cut(s) 176, 249, 278, 369, 585, 916
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.