Rh4CG402000

transcription factor

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr4C
OG0018720
Physical Location & Seq
Forward (+)
65047251 .. 65048680
1430 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh4CG402000.1

Sequence Viewer

Length: 291 bp
ATGTCTGGCAGAAGATCATCACGTTCGAGGCAGTCGGGCGGTTCCAGGAATAACAACATCAGCGACGACCAGATCGCTGATCTCGTATCCAAGTTACAGCAACTTCTTCCTGAGATTCGCAATAGGCGCTCGGACAAGGTGTCAGCATCCAAGGTCCTGCAGGAGACTTGCAACTACATCAAAAACTTACACAGAGAGGTCGACGACCTGAGTGACCGCTTATCTCAGCTTTTGGCTACGACTGACATGGATTCCGACCAAGCCGCCATTATCCGGAGCTTACTTATGTGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0008150 GO:0009314 GO:0009416 GO:0009628 GO:0050896
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
HLH

Protein Analysis

96

Amino Acids

10.83

Weight (kDa)

9.03

Isoelectric Point (pI)

80.74

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
bHLH_ILI PF23174 21 - 95 5.8e-38 ILI bHLH domain
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: OG0018720)

Species Orthologous Gene IDs
fragaria_vesca FvH4_4g31600
malus_domestica MD13G1074300.v1.1 MD16G1075700.v1.1
prunus_persica Prupe.1G271700_v2.0.a1
rosa_chinensis RchiOBHm_Chr4g0440111
rosa_samantha Rh4AG375200 Rh4BG387500 Rh4CG402000
rosa_wichuraiana Rw4G032100

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccI GTMKAC 1 cut(s) 201
AccIII TCCGGA 1 cut(s) 273
AciI CCGC 3 cut(s) 39, 217, 264
AfiI CCNNNNNNNGG 1 cut(s) 273
AhdI GACNNNNNGTC 1 cut(s) 139
AjnI CCWGG 1 cut(s) 44
AluBI AGCT 2 cut(s) 229, 279
AluI AGCT 2 cut(s) 229, 279
Alw26I GTCTC 1 cut(s) 158
Aor13HI TCCGGA 1 cut(s) 273
AspLEI GCGC 1 cut(s) 129
AspS9I GGNCC 1 cut(s) 154
AvaII GGWCC 1 cut(s) 154
BciT130I CCWGG 1 cut(s) 46
BciVI GTATCC 1 cut(s) 97
BcoDI GTCTC 1 cut(s) 158
BfmI CTRYAG 1 cut(s) 158
BfoI RGCGCY 1 cut(s) 130
BfuI GTATCC 1 cut(s) 97
BisI GCNGC 1 cut(s) 264
BlsI GCNGC 1 cut(s) 265
Bme1390I CCNGG 1 cut(s) 46
Bme18I GGWCC 1 cut(s) 154
BmeRI GACNNNNNGTC 1 cut(s) 139
BmgT120I GGNCC 1 cut(s) 154
BmiI GGNNCC 1 cut(s) 43
BmrFI CCNGG 1 cut(s) 46
BmsI GCATC 1 cut(s) 155
BsaJI CCNNGG 1 cut(s) 150
BsaWI WCCGGW 1 cut(s) 273
Bsc4I CCNNNNNNNGG 1 cut(s) 273
BseAI TCCGGA 1 cut(s) 273
BseBI CCWGG 1 cut(s) 46
BseDI CCNNGG 1 cut(s) 150
BseGI GGATG 1 cut(s) 146
BseLI CCNNNNNNNGG 1 cut(s) 273
BseMII CTCAG 3 cut(s) 102, 200, 239
BsiSI CCGG 1 cut(s) 274
BslI CCNNNNNNNGG 1 cut(s) 273
BsmAI GTCTC 1 cut(s) 158
Bsp13I TCCGGA 1 cut(s) 273
Bsp143I GATC 3 cut(s) 14, 72, 79
BspACI CCGC 3 cut(s) 39, 217, 264
BspCNI CTCAG 3 cut(s) 103, 201, 238
BspEI TCCGGA 1 cut(s) 273
BspLI GGNNCC 1 cut(s) 43
BspMAI CTGCAG 1 cut(s) 162
BssECI CCNNGG 1 cut(s) 150
BssMI GATC 3 cut(s) 14, 72, 79
BssT1I CCWWGG 1 cut(s) 150
Bst2UI CCWGG 1 cut(s) 46
BstDEI CTNAG 3 cut(s) 111, 209, 225
BstF5I GGATG 1 cut(s) 146
BstH2I RGCGCY 1 cut(s) 130
BstHHI GCGC 1 cut(s) 129
BstKTI GATC 3 cut(s) 17, 75, 82
BstMAI GTCTC 1 cut(s) 158
BstMBI GATC 3 cut(s) 14, 72, 79
BstMWI GCNNNNNNNGC 1 cut(s) 126
BstNI CCWGG 1 cut(s) 46
BstSCI CCNGG 1 cut(s) 44
BstSFI CTRYAG 1 cut(s) 158
BsuI GTATCC 1 cut(s) 97
BtsCI GGATG 1 cut(s) 146
CfoI GCGC 1 cut(s) 129
Cfr13I GGNCC 1 cut(s) 154
CviAII CATG 1 cut(s) 247
CviJI RGCY 4 cut(s) 229, 236, 263, 279
CviKI_1 RGCY 4 cut(s) 229, 236, 263, 279
DdeI CTNAG 3 cut(s) 111, 209, 225
DpnI GATC 3 cut(s) 16, 74, 81
DpnII GATC 3 cut(s) 14, 72, 79
DriI GACNNNNNGTC 1 cut(s) 139
Eam1105I GACNNNNNGTC 1 cut(s) 139
Eco130I CCWWGG 1 cut(s) 150
Eco47I GGWCC 1 cut(s) 154
EcoO109I RGGNCCY 1 cut(s) 154
EcoRII CCWGG 1 cut(s) 44
EcoT14I CCWWGG 1 cut(s) 150
ErhI CCWWGG 1 cut(s) 150
FaeI CATG 1 cut(s) 250
FaiI YATR 2 cut(s) 248, 287
FatI CATG 1 cut(s) 246
FblI GTMKAC 1 cut(s) 201
Fnu4HI GCNGC 1 cut(s) 264
FokI GGATG 1 cut(s) 133
Fsp4HI GCNGC 1 cut(s) 264
GlaI GCGC 1 cut(s) 128
GluI GCNGC 1 cut(s) 264
HaeII RGCGCY 1 cut(s) 130
HapII CCGG 1 cut(s) 274
HhaI GCGC 1 cut(s) 129
Hin1II CATG 1 cut(s) 250
Hin6I GCGC 1 cut(s) 127
HinP1I GCGC 1 cut(s) 127
HincII GTYRAC 1 cut(s) 202
HindII GTYRAC 1 cut(s) 202
HinfI GANTC 2 cut(s) 115, 251
HpaII CCGG 1 cut(s) 274
Hpy166II GTNNAC 1 cut(s) 202
Hpy188I TCNGA 2 cut(s) 133, 256
Hpy188III TCNNGA 2 cut(s) 110, 274
Hpy8I GTNNAC 1 cut(s) 202
Hpy99I CGWCG 2 cut(s) 68, 206
HpyCH4IV ACGT 1 cut(s) 22
HpyCH4V TGCA 2 cut(s) 160, 171
HpyF10VI GCNNNNNNNGC 1 cut(s) 126
HpyF3I CTNAG 3 cut(s) 111, 209, 225
HpySE526I ACGT 1 cut(s) 22
Hsp92II CATG 1 cut(s) 250
HspAI GCGC 1 cut(s) 127
Kpn2I TCCGGA 1 cut(s) 273
Kzo9I GATC 3 cut(s) 14, 72, 79
LmnI GCTCC 1 cut(s) 276
LpnPI CCDG 8 cut(s) 31, 58, 83, 123, 146, 170, 221, 287
LweI GCATC 1 cut(s) 155
MaeII ACGT 1 cut(s) 22
MaeIII GTNAC 2 cut(s) 93, 212
MalI GATC 3 cut(s) 16, 74, 81
MboI GATC 3 cut(s) 14, 72, 79
MboII GAAGA 2 cut(s) 24, 98
MmeI TCCRAC 1 cut(s) 279
MnlI CCTC 2 cut(s) 21, 190
MroI TCCGGA 1 cut(s) 273
MspI CCGG 1 cut(s) 274
MspR9I CCNGG 1 cut(s) 46
MvaI CCWGG 1 cut(s) 46
MwoI GCNNNNNNNGC 1 cut(s) 126
NdeII GATC 3 cut(s) 14, 72, 79
NlaIII CATG 1 cut(s) 250
NlaIV GGNNCC 1 cut(s) 43
NmuCI GTSAC 1 cut(s) 212
PcsI WCGNNNNNNNCGW 1 cut(s) 81
PfeI GAWTC 2 cut(s) 115, 251
PfoI TCCNGGA 1 cut(s) 44
PkrI GCNGC 1 cut(s) 265
PpuMI RGGWCCY 1 cut(s) 154
Psp5II RGGWCCY 1 cut(s) 154
Psp6I CCWGG 1 cut(s) 44
PspGI CCWGG 1 cut(s) 44
PspN4I GGNNCC 1 cut(s) 43
PspPI GGNCC 1 cut(s) 154
PspPPI RGGWCCY 1 cut(s) 154
PstI CTGCAG 1 cut(s) 162
SalI GTCGAC 1 cut(s) 200
SatI GCNGC 1 cut(s) 264
Sau3AI GATC 3 cut(s) 14, 72, 79
Sau96I GGNCC 1 cut(s) 154
SbfI CCTGCAGG 1 cut(s) 162
ScrFI CCNGG 1 cut(s) 46
SdaI CCTGCAGG 1 cut(s) 162
SetI ASST 7 cut(s) 25, 141, 156, 201, 210, 231, 281
SfaNI GCATC 1 cut(s) 155
SfcI CTRYAG 1 cut(s) 158
SinI GGWCC 1 cut(s) 154
Sse8387I CCTGCAGG 1 cut(s) 162
SsiI CCGC 3 cut(s) 39, 217, 264
StyD4I CCNGG 1 cut(s) 44
StyI CCWWGG 1 cut(s) 150
TaiI ACGT 1 cut(s) 25
TaqI TCGA 2 cut(s) 26, 201
TauI GCSGC 1 cut(s) 266
TfiI GAWTC 2 cut(s) 115, 251
TseFI GTSAC 1 cut(s) 212
Tsp45I GTSAC 1 cut(s) 212
VpaK11BI GGWCC 1 cut(s) 154
XmiI GTMKAC 1 cut(s) 201
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.