RchiOBHm_Chr3g0486481

TRAF-type zinc finger

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
3
OG0024908
Physical Location & Seq
Reverse (-)
33398033 .. 33400635
2603 bp
Loading structure...
UTR
Exon/CDS
Intron
N/A

Sequence Viewer

Length: 279 bp
ATGAAGGATGTAATGCCATATTTTGTGCATGTCAGGTGTATAAACATGATGCAACATGCTCCTTCAAGAATCAAGATAATTCCACGCGAACAAAACTGCACCGACACGATCATGAGACGTGAGATGGATAGACATTGTATTACCGTCTGTCCAATGAAGCTTGTTAGTTGTCCTTTCTATGCAGTGGGATGGCAATCCCCAGTACCACGTTGTAAGCTTGAGCAGCATCATTCAGATGATCCATTCTCACATGCTGTTTGTTTTACAAAGTATTCATAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko00130 map00130
Pfam Domains
Protein Families
zf-TRAF

Protein Analysis

92

Amino Acids

10.86

Weight (kDa)

8.77

Isoelectric Point (pI)

58.01

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
zf-TRAF PF02176 26 - 76 2.8e-07 TRAF-type zinc finger
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: OG0024908)

Species Orthologous Gene IDs
rosa_chinensis RchiOBHm_Chr3g0486361 RchiOBHm_Chr3g0486481
rosa_samantha Rh3AG274700

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccII CGCG 1 cut(s) 87
AclWI GGATC 1 cut(s) 233
AfaI GTAC 1 cut(s) 204
AgsI TTSAA 1 cut(s) 66
AjiI CACGTC 1 cut(s) 119
AluBI AGCT 2 cut(s) 160, 217
AluI AGCT 2 cut(s) 160, 217
Alw26I GTCTC 1 cut(s) 109
AlwI GGATC 1 cut(s) 233
ApeKI GCWGC 1 cut(s) 223
BbvI GCAGC 1 cut(s) 235
BccI CCATC 2 cut(s) 118, 183
BcoDI GTCTC 1 cut(s) 109
BisI GCNGC 1 cut(s) 224
BlsI GCNGC 1 cut(s) 225
BmgBI CACGTC 1 cut(s) 119
BmrI ACTGGG 1 cut(s) 194
BmsI GCATC 2 cut(s) 39, 235
BmuI ACTGGG 1 cut(s) 194
BpuEI CTTGAG 1 cut(s) 239
BsaBI GATNNNNATC 1 cut(s) 193
Bse1I ACTGG 1 cut(s) 200
Bse8I GATNNNNATC 1 cut(s) 193
BseGI GGATG 2 cut(s) 13, 194
BseJI GATNNNNATC 1 cut(s) 193
BseNI ACTGG 1 cut(s) 200
BseXI GCAGC 1 cut(s) 235
BsgI GTGCAG 1 cut(s) 82
Bsh1236I CGCG 1 cut(s) 87
BsmAI GTCTC 1 cut(s) 109
BsmBI CGTCTC 1 cut(s) 109
Bsp143I GATC 2 cut(s) 108, 238
BspFNI CGCG 1 cut(s) 87
BspHI TCATGA 1 cut(s) 111
BspPI GGATC 1 cut(s) 233
BsrI ACTGG 1 cut(s) 200
BssMI GATC 2 cut(s) 108, 238
Bst4CI ACNGT 1 cut(s) 145
BstF5I GGATG 2 cut(s) 13, 194
BstFNI CGCG 1 cut(s) 87
BstKTI GATC 2 cut(s) 111, 241
BstMAI GTCTC 1 cut(s) 109
BstMBI GATC 2 cut(s) 108, 238
BstMWI GCNNNNNNNGC 1 cut(s) 223
BstNSI RCATGY 3 cut(s) 32, 59, 254
BstUI CGCG 1 cut(s) 87
BstV1I GCAGC 1 cut(s) 235
BtrI CACGTC 1 cut(s) 119
BtsCI GGATG 2 cut(s) 13, 194
BtsI GCAGTG 1 cut(s) 189
BtsIMutI CAGTG 1 cut(s) 189
CciI TCATGA 1 cut(s) 111
Csp6I GTAC 1 cut(s) 203
CviAII CATG 5 cut(s) 29, 46, 56, 112, 251
CviJI RGCY 2 cut(s) 160, 217
CviKI_1 RGCY 2 cut(s) 160, 217
CviQI GTAC 1 cut(s) 203
DpnI GATC 2 cut(s) 110, 240
DpnII GATC 2 cut(s) 108, 238
Esp3I CGTCTC 1 cut(s) 109
FaeI CATG 5 cut(s) 32, 49, 59, 115, 254
FaiI YATR 9 cut(s) 19, 30, 41, 47, 57, 113, 180, 252, 277
FatI CATG 5 cut(s) 28, 45, 55, 111, 250
Fnu4HI GCNGC 1 cut(s) 224
FokI GGATG 2 cut(s) 20, 201
Fsp4HI GCNGC 1 cut(s) 224
GluI GCNGC 1 cut(s) 224
Hin1II CATG 5 cut(s) 32, 49, 59, 115, 254
HindIII AAGCTT 2 cut(s) 158, 215
HinfI GANTC 1 cut(s) 69
Hpy188I TCNGA 1 cut(s) 235
Hpy188III TCNNGA 3 cut(s) 66, 73, 112
HpyAV CCTTC 1 cut(s) 72
HpyCH4III ACNGT 1 cut(s) 145
HpyCH4IV ACGT 2 cut(s) 118, 208
HpyCH4V TGCA 4 cut(s) 28, 52, 99, 182
HpyF10VI GCNNNNNNNGC 1 cut(s) 223
HpySE526I ACGT 2 cut(s) 118, 208
Hsp92II CATG 5 cut(s) 32, 49, 59, 115, 254
Kzo9I GATC 2 cut(s) 108, 238
LmnI GCTCC 1 cut(s) 64
LpnPI CCDG 2 cut(s) 19, 213
Lsp1109I GCAGC 1 cut(s) 235
LweI GCATC 2 cut(s) 39, 235
MaeII ACGT 2 cut(s) 118, 208
MalI GATC 2 cut(s) 110, 240
MboI GATC 2 cut(s) 108, 238
MluCI AATT 1 cut(s) 78
MslI CAYNNNNRTG 2 cut(s) 110, 234
MvnI CGCG 1 cut(s) 87
MwoI GCNNNNNNNGC 1 cut(s) 223
NdeII GATC 2 cut(s) 108, 238
NlaIII CATG 5 cut(s) 32, 49, 59, 115, 254
NspI RCATGY 3 cut(s) 32, 59, 254
PagI TCATGA 1 cut(s) 111
PfeI GAWTC 1 cut(s) 69
PkrI GCNGC 1 cut(s) 225
RsaI GTAC 1 cut(s) 204
RsaNI GTAC 1 cut(s) 203
RseI CAYNNNNRTG 2 cut(s) 110, 234
SatI GCNGC 1 cut(s) 224
Sau3AI GATC 2 cut(s) 108, 238
SetI ASST 5 cut(s) 38, 121, 162, 211, 219
SfaNI GCATC 2 cut(s) 39, 235
SmiMI CAYNNNNRTG 2 cut(s) 110, 234
SmlI CTYRAG 1 cut(s) 218
SmoI CTYRAG 1 cut(s) 218
Sse9I AATT 1 cut(s) 78
TaaI ACNGT 1 cut(s) 145
TaiI ACGT 2 cut(s) 121, 211
TasI AATT 1 cut(s) 78
TfiI GAWTC 1 cut(s) 69
TscAI CASTG 1 cut(s) 189
TseI GCWGC 1 cut(s) 223
TspDTI ATGAA 3 cut(s) 17, 170, 264
TspRI CASTG 1 cut(s) 189
XceI RCATGY 3 cut(s) 32, 59, 254
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.