RchiOBHm_Chr4g0440231

Ring finger domain

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
4
OG0018427
Physical Location & Seq
Forward (+)
62459942 .. 62460481
540 bp
Loading structure...
UTR
Exon/CDS
Intron
N/A

Sequence Viewer

Length: 540 bp
ATGGTAGATCACTCCAACCTCTCCTACCCTCTTCTTTCCCGGACACTGTCGTCGCTTGGAGTTGACCCCTCGCTGCACTCGTCCGCCGTGGATCTGATCACCTTGAACTGCAAAACGTCCGGCTACTGGCAATATTGTAACATGGGTGGTGGTTGGACGGTTCTGCCCTTGAGAGTTACCATCGAAGAAGTGCACTGCTACATGCTTCACTGCGAGACTTTTTATTGGCCCAGTGAAGTTATGGGCGATTTAATGGAACTGGAAGAAGAAGAAGAAAACCTAGCAAGTGATTATGAAGATGTAATTGGTATAAAACCTGCGAGTGAGTCGTCGATAAAGGAGTTATTGACGAGGGTAAGGGTTGGGAATAACAAAAAAGATGTGTGCACTGTTTGTCTCGAAGAATTGAGTACTGCAGGAATATCCTATGCTATGCAGATGCCTTCCAAACATGTGTTTCACGACGAGTGTGTTGTGAGATGGCTCAAGGAGAGTCATTATTGCCCAGTTTGCCGCTTTGAGATGCCTACTATATATTGA
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

179

Amino Acids

20.38

Weight (kDa)

4.83

Isoelectric Point (pI)

57.54

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
zf-rbx1 PF12678 127 - 172 8.8e-07 RING-H2 zinc finger domain
zf-RING_2 PF13639 128 - 172 3.1e-10 Ring finger domain
zf-C3HC4_2 PF13923 129 - 171 2.2e-08 Zinc finger, C3HC4 type (RING finger)
zf-C3HC4 PF00097 129 - 171 5.7e-06 Zinc finger, C3HC4 type (RING finger)
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: OG0018427)

Species Orthologous Gene IDs
fragaria_vesca FvH4_4g31700
rosa_chinensis RchiOBHm_Chr4g0440231
rosa_laevigata RLG00000006195
rosa_multiflora Rmu_sc0001685.1_g000030
rosa_roxburghii Rroxscaffold_5G00381160
rosa_rugosa Rorug04G0325400
rosa_samantha Rh4AG376100 Rh4CG403800 Rh4DG382900
rosa_wichuraiana Rw4G032190

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AasI GACNNNNNNGTC 1 cut(s) 49
Acc36I ACCTGC 1 cut(s) 325
AciI CCGC 2 cut(s) 84, 514
AclWI GGATC 1 cut(s) 99
AfaI GTAC 1 cut(s) 412
AfiI CCNNNNNNNGG 1 cut(s) 126
AflIII ACRYGT 1 cut(s) 451
AgsI TTSAA 1 cut(s) 106
AjuI GAANNNNNNNTTGG 2 cut(s) 288, 320
Alw21I GWGCWC 2 cut(s) 195, 389
Alw26I GTCTC 2 cut(s) 209, 401
Alw44I GTGCAC 2 cut(s) 191, 385
AlwI GGATC 1 cut(s) 99
AoxI GGCC 1 cut(s) 227
ApaLI GTGCAC 2 cut(s) 191, 385
ApeKI GCWGC 1 cut(s) 73
AspS9I GGNCC 1 cut(s) 228
AsuC2I CCSGG 1 cut(s) 40
AsuHPI GGTGA 1 cut(s) 91
BaeGI GKGCMC 2 cut(s) 195, 389
Bbv12I GWGCWC 2 cut(s) 195, 389
BbvI GCAGC 1 cut(s) 60
BccI CCATC 2 cut(s) 188, 474
BceAI ACGGC 1 cut(s) 71
BclI TGATCA 1 cut(s) 96
BcnI CCSGG 1 cut(s) 40
BcoDI GTCTC 2 cut(s) 209, 401
BfaI CTAG 1 cut(s) 281
BfmI CTRYAG 1 cut(s) 414
BfuAI ACCTGC 1 cut(s) 325
BisI GCNGC 2 cut(s) 74, 514
BlsI GCNGC 2 cut(s) 75, 515
BmcAI AGTACT 1 cut(s) 412
Bme1390I CCNGG 1 cut(s) 40
BmgT120I GGNCC 1 cut(s) 228
BmrFI CCNGG 1 cut(s) 40
BmrI ACTGGG 2 cut(s) 225, 500
BmsI GCATC 2 cut(s) 429, 513
BmuI ACTGGG 2 cut(s) 225, 500
BpuEI CTTGAG 2 cut(s) 190, 470
BpuMI CCSGG 1 cut(s) 40
BsaJI CCNNGG 1 cut(s) 87
Bsc4I CCNNNNNNNGG 1 cut(s) 126
Bse1I ACTGG 4 cut(s) 131, 231, 264, 506
BseDI CCNNGG 1 cut(s) 87
BseLI CCNNNNNNNGG 1 cut(s) 126
BseNI ACTGG 4 cut(s) 131, 231, 264, 506
BseSI GKGCMC 2 cut(s) 195, 389
BseXI GCAGC 1 cut(s) 60
BsgI GTGCAG 1 cut(s) 59
BshFI GGCC 1 cut(s) 229
BsiHKAI GWGCWC 2 cut(s) 195, 389
BsiSI CCGG 2 cut(s) 40, 120
BslI CCNNNNNNNGG 1 cut(s) 126
BsmAI GTCTC 2 cut(s) 209, 401
BsnI GGCC 1 cut(s) 229
Bsp1286I GDGCHC 2 cut(s) 195, 389
Bsp143I GATC 3 cut(s) 7, 91, 96
BspACI CCGC 2 cut(s) 84, 514
BspANI GGCC 1 cut(s) 229
BspMAI CTGCAG 1 cut(s) 418
BspMI ACCTGC 1 cut(s) 325
BspPI GGATC 1 cut(s) 99
BsrI ACTGG 4 cut(s) 131, 231, 264, 506
BssECI CCNNGG 1 cut(s) 87
BssMI GATC 3 cut(s) 7, 91, 96
Bst4CI ACNGT 3 cut(s) 48, 160, 391
Bst6I CTCTTC 1 cut(s) 36
BstDSI CCRYGG 1 cut(s) 87
BstKTI GATC 3 cut(s) 10, 94, 99
BstMAI GTCTC 2 cut(s) 209, 401
BstMBI GATC 3 cut(s) 7, 91, 96
BstMWI GCNNNNNNNGC 1 cut(s) 510
BstNSI RCATGY 2 cut(s) 205, 455
BstSCI CCNGG 1 cut(s) 38
BstSFI CTRYAG 1 cut(s) 414
BstSLI GKGCMC 2 cut(s) 195, 389
BstV1I GCAGC 1 cut(s) 60
BstX2I RGATCY 1 cut(s) 91
BstYI RGATCY 1 cut(s) 91
BsuRI GGCC 1 cut(s) 229
BtgI CCRYGG 1 cut(s) 87
BtsI GCAGTG 2 cut(s) 193, 208
BtsIMutI CAGTG 5 cut(s) 44, 193, 208, 238, 387
BveI ACCTGC 1 cut(s) 325
Cfr13I GGNCC 1 cut(s) 228
Csp6I GTAC 1 cut(s) 411
CviAII CATG 3 cut(s) 142, 202, 452
CviJI RGCY 3 cut(s) 123, 229, 484
CviKI_1 RGCY 3 cut(s) 123, 229, 484
CviQI GTAC 1 cut(s) 411
DpnI GATC 3 cut(s) 9, 93, 98
DpnII GATC 3 cut(s) 7, 91, 96
DrdI GACNNNNNNGTC 1 cut(s) 49
DseDI GACNNNNNNGTC 1 cut(s) 49
Eam1104I CTCTTC 1 cut(s) 36
EarI CTCTTC 1 cut(s) 36
EciI GGCGGA 1 cut(s) 73
FaeI CATG 3 cut(s) 145, 205, 455
FatI CATG 3 cut(s) 141, 201, 451
FbaI TGATCA 1 cut(s) 96
Fnu4HI GCNGC 2 cut(s) 74, 514
Fsp4HI GCNGC 2 cut(s) 74, 514
FspBI CTAG 1 cut(s) 281
GluI GCNGC 2 cut(s) 74, 514
HaeIII GGCC 1 cut(s) 229
HapII CCGG 2 cut(s) 40, 120
Hin1II CATG 3 cut(s) 145, 205, 455
HincII GTYRAC 1 cut(s) 64
HindII GTYRAC 1 cut(s) 64
HinfI GANTC 2 cut(s) 326, 493
HpaII CCGG 2 cut(s) 40, 120
HphI GGTGA 1 cut(s) 91
Hpy166II GTNNAC 3 cut(s) 64, 193, 387
Hpy188I TCNGA 1 cut(s) 96
Hpy188III TCNNGA 2 cut(s) 398, 461
Hpy8I GTNNAC 3 cut(s) 64, 193, 387
Hpy99I CGWCG 3 cut(s) 55, 334, 467
HpyAV CCTTC 1 cut(s) 453
HpyCH4III ACNGT 3 cut(s) 48, 160, 391
HpyCH4IV ACGT 1 cut(s) 116
HpyCH4V TGCA 6 cut(s) 76, 111, 193, 387, 416, 436
HpyF10VI GCNNNNNNNGC 1 cut(s) 510
HpySE526I ACGT 1 cut(s) 116
Hsp92II CATG 3 cut(s) 145, 205, 455
Ksp22I TGATCA 1 cut(s) 96
Kzo9I GATC 3 cut(s) 7, 91, 96
LpnPI CCDG 8 cut(s) 53, 112, 133, 244, 245, 330, 402, 519
Lsp1109I GCAGC 1 cut(s) 60
LweI GCATC 2 cut(s) 429, 513
MaeI CTAG 1 cut(s) 281
MaeII ACGT 1 cut(s) 116
MaeIII GTNAC 2 cut(s) 137, 175
MalI GATC 3 cut(s) 9, 93, 98
MboI GATC 3 cut(s) 7, 91, 96
MboII GAAGA 8 cut(s) 23, 197, 275, 278, 281, 284, 308, 413
MflI RGATCY 1 cut(s) 91
MhlI GDGCHC 2 cut(s) 195, 389
MluCI AATT 2 cut(s) 303, 404
MlyI GAGTC 2 cut(s) 335, 502
MmeI TCCRAC 2 cut(s) 39, 134
MnlI CCTC 4 cut(s) 29, 39, 79, 345
MseI TTAA 1 cut(s) 251
MspI CCGG 2 cut(s) 40, 120
MspR9I CCNGG 1 cut(s) 40
MwoI GCNNNNNNNGC 1 cut(s) 510
NciI CCSGG 1 cut(s) 40
NdeII GATC 3 cut(s) 7, 91, 96
NlaIII CATG 3 cut(s) 145, 205, 455
NspI RCATGY 2 cut(s) 205, 455
PciI ACATGT 1 cut(s) 451
PcsI WCGNNNNNNNCGW 1 cut(s) 77
PflFI GACNNNGTC 1 cut(s) 46
PfoI TCCNGGA 1 cut(s) 38
PkrI GCNGC 2 cut(s) 75, 515
PleI GAGTC 2 cut(s) 334, 501
PpsI GAGTC 2 cut(s) 334, 501
PscI ACATGT 1 cut(s) 451
PspPI GGNCC 1 cut(s) 228
PstI CTGCAG 1 cut(s) 418
PsuI RGATCY 1 cut(s) 91
PsyI GACNNNGTC 1 cut(s) 46
RsaI GTAC 1 cut(s) 412
RsaNI GTAC 1 cut(s) 411
SaqAI TTAA 1 cut(s) 251
SatI GCNGC 2 cut(s) 74, 514
Sau3AI GATC 3 cut(s) 7, 91, 96
Sau96I GGNCC 1 cut(s) 228
ScaI AGTACT 1 cut(s) 412
SchI GAGTC 2 cut(s) 335, 502
ScrFI CCNGG 1 cut(s) 40
SduI GDGCHC 2 cut(s) 195, 389
SetI ASST 5 cut(s) 21, 104, 119, 282, 319
SfaNI GCATC 2 cut(s) 429, 513
SfcI CTRYAG 1 cut(s) 414
SmlI CTYRAG 2 cut(s) 169, 485
SmoI CTYRAG 2 cut(s) 169, 485
Sse9I AATT 2 cut(s) 303, 404
SsiI CCGC 2 cut(s) 84, 514
SspI AATATT 1 cut(s) 134
SspMI CTAG 1 cut(s) 281
StyD4I CCNGG 1 cut(s) 38
TaaI ACNGT 3 cut(s) 48, 160, 391
TaiI ACGT 1 cut(s) 119
TaqI TCGA 3 cut(s) 183, 332, 399
TasI AATT 2 cut(s) 303, 404
TatI WGTACW 1 cut(s) 410
TauI GCSGC 1 cut(s) 516
Tru1I TTAA 1 cut(s) 251
Tru9I TTAA 1 cut(s) 251
TscAI CASTG 5 cut(s) 51, 200, 215, 238, 394
TseI GCWGC 1 cut(s) 73
TspDTI ATGAA 1 cut(s) 309
TspRI CASTG 5 cut(s) 51, 200, 215, 238, 394
Tth111I GACNNNGTC 1 cut(s) 46
VneI GTGCAC 2 cut(s) 191, 385
XceI RCATGY 2 cut(s) 205, 455
XcmI CCANNNNNNNNNTGG 1 cut(s) 238
XspI CTAG 1 cut(s) 281
ZrmI AGTACT 1 cut(s) 412
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.