Rh4CG378200

transcription factor

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr4C
OG0012004
Physical Location & Seq
Forward (+)
63108007 .. 63111889
3883 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh4CG378200.1

Sequence Viewer

Length: 858 bp
ATGAGAAGCGCAGGGAAAGGTAGTCAGGAGGAGGATGAGTACGAAGACGACGACTTTGGCTCCAAGAAAGATGGGCCTTCTTCCAATTCATCCAATCCCAACAGTAAAGATGCTAAGAGCAACGATAAGGCTAGTGCTATACGGTCGAAGCATTCGGTGACGGAGCAGCGGAGAAGGAGCAAGATCAATGAGAGATTCCAGATATTGAGAGATCTAATACCCCATAGTGAGCAAAAGCGAGATACGGCATCGTTCTTGCTAGAGGTGATCGAATATGTCCAGTATTTACAGGAAAGGGTCAACAAACATGAAGGTTCGTGCCAGGGGTGGAGTGCAGAGCCCACAAAGTTAATGCCATGGAGAAATAGCCACTGGCGTGTTCAGAGTTTTGTTGGTCCTCCTCAGCCGATAAAGAATGATACTGGTGTAATTTCACCATTTCCTGGAAAGTTTGATGAAAATAACATCTCTATTACTCCGAATATTCTTGCAAACAGCACAAAGAATCCCGTAGAATCTGAACCTAGCAGGGACGTTGCCTCTAAAGTCATGGATCAGCCACCTGAGATAGTGAATAAGGGACTTCCTCTGCCTATGCCTCTGCCAGAAAATCTGCTCCCCCCTGTCAGAAATGATGGTATGCTTGCCCGTCCTCTGCACGGACCAATTTCTGATGCTCAATCAACTCAATGCCCCACCACCAGTGGTGATGCACTGAATCAACGGGAGGAGCTGACTATCGAAGGTGGAACAATAAGCATCTCAAGTGTTTACTCACAAGGGTGGGCTCTCGTACAAAATCTAAATCCTTCTTTGATAGGACTTATAATAAAAACAAAATTTAGGTGTCTCATATAA
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
HLH

Protein Analysis

285

Amino Acids

31.67

Weight (kDa)

6.25

Isoelectric Point (pI)

62.4

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
HLH PF00010 48 - 97 2.1e-14 Helix-loop-helix DNA-binding domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
Loading...
Style Settings
Image
Tree File
Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0012004)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G69010
fragaria_vesca FvH4_4g29230 FvH4_4g29230
malus_domestica MD13G1056100.v1.1 MD16G1055100.v1.1
prunus_persica Prupe.1G294200_v2.0.a1 Prupe.1G294200_v2.0.a1
pyrus_communis pycom13g04970 pycom16g04800
rosa_chinensis RchiOBHm_Chr4g0437281
rosa_laevigata RLG00000006450
rosa_multiflora Rmu_sc0004339.1_g000031
rosa_roxburghii Rroxscaffold_5G00378420
rosa_rugosa Rorug04G0299200
rosa_samantha Rh4AG354000 Rh4BG363900 Rh4CG378200 Rh4DG357900
rosa_wichuraiana Rw4G031050

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 827
AccB7I CCANNNNNTGG 1 cut(s) 443
AciI CCGC 1 cut(s) 169
AclWI GGATC 1 cut(s) 561
AcsI RAATTY 1 cut(s) 839
AfaI GTAC 2 cut(s) 41, 795
AfiI CCNNNNNNNGG 2 cut(s) 443, 659
AjnI CCWGG 2 cut(s) 321, 442
AleI CACNNNNGTG 2 cut(s) 375, 781
AluBI AGCT 1 cut(s) 733
AluI AGCT 1 cut(s) 733
Alw26I GTCTC 1 cut(s) 854
AlwI GGATC 1 cut(s) 561
AoxI GGCC 1 cut(s) 74
ApeKI GCWGC 1 cut(s) 166
ApoI RAATTY 1 cut(s) 839
ArsI GACNNNNNNTTYG 2 cut(s) 38, 70
AspLEI GCGC 1 cut(s) 11
AspS9I GGNCC 3 cut(s) 74, 395, 662
AsuHPI GGTGA 4 cut(s) 169, 277, 426, 719
AvaII GGWCC 2 cut(s) 395, 662
BaeI ACNNNNGTAYC 2 cut(s) 411, 444
BanII GRGCYC 2 cut(s) 342, 790
BbsI GAAGAC 1 cut(s) 51
BbvCI CCTCAGC 1 cut(s) 402
BbvI GCAGC 1 cut(s) 178
BccI CCATC 2 cut(s) 65, 629
BceAI ACGGC 1 cut(s) 261
BciT130I CCWGG 2 cut(s) 323, 444
BcoDI GTCTC 1 cut(s) 854
BfaI CTAG 3 cut(s) 132, 260, 525
BglII AGATCT 1 cut(s) 211
BisI GCNGC 1 cut(s) 167
BlsI GCNGC 1 cut(s) 168
Bme1390I CCNGG 2 cut(s) 323, 444
Bme18I GGWCC 2 cut(s) 395, 662
BmgT120I GGNCC 3 cut(s) 74, 395, 662
BmiI GGNNCC 1 cut(s) 61
BmrFI CCNGG 2 cut(s) 323, 444
BmsI GCATC 5 cut(s) 100, 257, 664, 700, 768
BpiI GAAGAC 1 cut(s) 51
Bpu10I CCTNAGC 1 cut(s) 402
BpuEI CTTGAG 1 cut(s) 748
BsaJI CCNNGG 2 cut(s) 322, 356
BsaXI ACNNNNNCTCC 4 cut(s) 23, 44, 53, 74
Bsc4I CCNNNNNNNGG 2 cut(s) 443, 659
Bse1I ACTGG 4 cut(s) 280, 377, 427, 702
BseBI CCWGG 2 cut(s) 323, 444
BseDI CCNNGG 2 cut(s) 322, 356
BseGI GGATG 2 cut(s) 40, 89
BseLI CCNNNNNNNGG 2 cut(s) 443, 659
BseMII CTCAG 2 cut(s) 416, 555
BseNI ACTGG 4 cut(s) 280, 377, 427, 702
BseRI GAGGAG 3 cut(s) 44, 390, 743
BseXI GCAGC 1 cut(s) 178
BsgI GTGCAG 2 cut(s) 354, 641
Bsh1285I CGRYCG 1 cut(s) 146
BshFI GGCC 1 cut(s) 76
BsiEI CGRYCG 1 cut(s) 146
BslFI GGGAC 2 cut(s) 545, 594
BslI CCNNNNNNNGG 2 cut(s) 443, 659
BsmAI GTCTC 1 cut(s) 854
BsmFI GGGAC 2 cut(s) 545, 594
BsmI GAATGC 1 cut(s) 151
BsnI GGCC 1 cut(s) 76
Bsp1286I GDGCHC 2 cut(s) 342, 790
Bsp143I GATC 4 cut(s) 183, 211, 267, 553
Bsp19I CCATGG 1 cut(s) 356
BspACI CCGC 1 cut(s) 169
BspANI GGCC 1 cut(s) 76
BspCNI CTCAG 2 cut(s) 415, 556
BspLI GGNNCC 1 cut(s) 61
BspPI GGATC 1 cut(s) 561
BsrI ACTGG 4 cut(s) 280, 377, 427, 702
BssECI CCNNGG 2 cut(s) 322, 356
BssMI GATC 4 cut(s) 183, 211, 267, 553
BssT1I CCWWGG 1 cut(s) 356
Bst2UI CCWGG 2 cut(s) 323, 444
Bst4CI ACNGT 2 cut(s) 104, 144
BstC8I GCNNGC 1 cut(s) 645
BstDEI CTNAG 3 cut(s) 114, 402, 564
BstDSI CCRYGG 1 cut(s) 356
BstF5I GGATG 2 cut(s) 40, 89
BstHHI GCGC 1 cut(s) 11
BstKTI GATC 4 cut(s) 186, 214, 270, 556
BstMAI GTCTC 1 cut(s) 854
BstMBI GATC 4 cut(s) 183, 211, 267, 553
BstMCI CGRYCG 1 cut(s) 146
BstNI CCWGG 2 cut(s) 323, 444
BstSCI CCNGG 2 cut(s) 321, 442
BstV1I GCAGC 1 cut(s) 178
BstV2I GAAGAC 1 cut(s) 51
BstX2I RGATCY 1 cut(s) 211
BstYI RGATCY 1 cut(s) 211
BsuRI GGCC 1 cut(s) 76
BtgI CCRYGG 1 cut(s) 356
BtsCI GGATG 2 cut(s) 40, 89
BtsIMutI CAGTG 3 cut(s) 370, 709, 713
Cac8I GCNNGC 1 cut(s) 645
CfoI GCGC 1 cut(s) 11
Cfr13I GGNCC 3 cut(s) 74, 395, 662
Csp6I GTAC 2 cut(s) 40, 794
CviAII CATG 3 cut(s) 308, 357, 550
CviJI RGCY 9 cut(s) 60, 76, 131, 340, 369, 406, 559, 733, 788
CviKI_1 RGCY 9 cut(s) 60, 76, 131, 340, 369, 406, 559, 733, 788
CviQI GTAC 2 cut(s) 40, 794
DdeI CTNAG 3 cut(s) 114, 402, 564
DpnI GATC 4 cut(s) 185, 213, 269, 555
DpnII GATC 4 cut(s) 183, 211, 267, 553
Eco130I CCWWGG 1 cut(s) 356
Eco24I GRGCYC 2 cut(s) 342, 790
Eco47I GGWCC 2 cut(s) 395, 662
EcoRII CCWGG 2 cut(s) 321, 442
EcoT14I CCWWGG 1 cut(s) 356
EcoT38I GRGCYC 2 cut(s) 342, 790
ErhI CCWWGG 1 cut(s) 356
FaeI CATG 3 cut(s) 311, 360, 553
FaqI GGGAC 2 cut(s) 545, 594
FatI CATG 3 cut(s) 307, 356, 549
Fnu4HI GCNGC 1 cut(s) 167
FokI GGATG 2 cut(s) 47, 76
FriOI GRGCYC 2 cut(s) 342, 790
Fsp4HI GCNGC 1 cut(s) 167
FspBI CTAG 3 cut(s) 132, 260, 525
GlaI GCGC 1 cut(s) 10
GluI GCNGC 1 cut(s) 167
HaeIII GGCC 1 cut(s) 76
HhaI GCGC 1 cut(s) 11
Hin1II CATG 3 cut(s) 311, 360, 553
Hin6I GCGC 1 cut(s) 9
HinP1I GCGC 1 cut(s) 9
HincII GTYRAC 1 cut(s) 301
HindII GTYRAC 1 cut(s) 301
HinfI GANTC 4 cut(s) 195, 505, 515, 718
HphI GGTGA 4 cut(s) 169, 277, 426, 719
Hpy166II GTNNAC 2 cut(s) 301, 772
Hpy188I TCNGA 5 cut(s) 384, 480, 520, 629, 673
Hpy188III TCNNGA 2 cut(s) 26, 199
Hpy8I GTNNAC 2 cut(s) 301, 772
Hpy99I CGWCG 1 cut(s) 53
HpyAV CCTTC 5 cut(s) 87, 168, 305, 737, 819
HpyCH4III ACNGT 2 cut(s) 104, 144
HpyCH4IV ACGT 1 cut(s) 534
HpyCH4V TGCA 4 cut(s) 335, 491, 658, 713
HpyF3I CTNAG 3 cut(s) 114, 402, 564
HpySE526I ACGT 1 cut(s) 534
Hsp92II CATG 3 cut(s) 311, 360, 553
HspAI GCGC 1 cut(s) 9
Kzo9I GATC 4 cut(s) 183, 211, 267, 553
LmnI GCTCC 5 cut(s) 65, 163, 177, 621, 730
Lsp1109I GCAGC 1 cut(s) 178
LweI GCATC 5 cut(s) 100, 257, 664, 700, 768
MaeI CTAG 3 cut(s) 132, 260, 525
MaeII ACGT 1 cut(s) 534
MaeIII GTNAC 1 cut(s) 157
MalI GATC 4 cut(s) 185, 213, 269, 555
MboI GATC 4 cut(s) 183, 211, 267, 553
MboII GAAGA 2 cut(s) 56, 72
MflI RGATCY 1 cut(s) 211
MhlI GDGCHC 2 cut(s) 342, 790
MluCI AATT 4 cut(s) 85, 429, 666, 839
MseI TTAA 1 cut(s) 350
MslI CAYNNNNRTG 2 cut(s) 375, 781
MspA1I CMGCKG 1 cut(s) 169
MspR9I CCNGG 2 cut(s) 323, 444
Mva1269I GAATGC 1 cut(s) 151
MvaI CCWGG 2 cut(s) 323, 444
NcoI CCATGG 1 cut(s) 356
NdeII GATC 4 cut(s) 183, 211, 267, 553
NlaIII CATG 3 cut(s) 311, 360, 553
NlaIV GGNNCC 1 cut(s) 61
NmuCI GTSAC 1 cut(s) 157
OliI CACNNNNGTG 2 cut(s) 375, 781
PcsI WCGNNNNNNNCGW 1 cut(s) 48
PctI GAATGC 1 cut(s) 151
PfeI GAWTC 4 cut(s) 195, 505, 515, 718
PflMI CCANNNNNTGG 1 cut(s) 443
PfoI TCCNGGA 1 cut(s) 442
PkrI GCNGC 1 cut(s) 168
PsiI TTATAA 1 cut(s) 827
Psp6I CCWGG 2 cut(s) 321, 442
PspGI CCWGG 2 cut(s) 321, 442
PspN4I GGNNCC 1 cut(s) 61
PspPI GGNCC 3 cut(s) 74, 395, 662
PsuI RGATCY 1 cut(s) 211
RsaI GTAC 2 cut(s) 41, 795
RsaNI GTAC 2 cut(s) 40, 794
RseI CAYNNNNRTG 2 cut(s) 375, 781
SaqAI TTAA 1 cut(s) 350
SatI GCNGC 1 cut(s) 167
Sau3AI GATC 4 cut(s) 183, 211, 267, 553
Sau96I GGNCC 3 cut(s) 74, 395, 662
ScrFI CCNGG 2 cut(s) 323, 444
SduI GDGCHC 2 cut(s) 342, 790
SetI ASST 9 cut(s) 22, 267, 316, 526, 537, 565, 735, 748, 848
SfaNI GCATC 5 cut(s) 100, 257, 664, 700, 768
SinI GGWCC 2 cut(s) 395, 662
SmiMI CAYNNNNRTG 2 cut(s) 375, 781
SmlI CTYRAG 1 cut(s) 763
SmoI CTYRAG 1 cut(s) 763
Sse9I AATT 4 cut(s) 85, 429, 666, 839
SsiI CCGC 1 cut(s) 169
SspI AATATT 1 cut(s) 484
SspMI CTAG 3 cut(s) 132, 260, 525
StyD4I CCNGG 2 cut(s) 321, 442
StyI CCWWGG 1 cut(s) 356
TaaI ACNGT 2 cut(s) 104, 144
TaiI ACGT 1 cut(s) 537
TaqI TCGA 3 cut(s) 146, 270, 741
TasI AATT 4 cut(s) 85, 429, 666, 839
TfiI GAWTC 4 cut(s) 195, 505, 515, 718
Tru1I TTAA 1 cut(s) 350
Tru9I TTAA 1 cut(s) 350
TscAI CASTG 3 cut(s) 377, 709, 720
TseFI GTSAC 1 cut(s) 157
TseI GCWGC 1 cut(s) 166
Tsp45I GTSAC 1 cut(s) 157
TspDTI ATGAA 3 cut(s) 78, 324, 471
TspGWI ACGGA 2 cut(s) 176, 675
TspRI CASTG 3 cut(s) 377, 709, 720
Van91I CCANNNNNTGG 1 cut(s) 443
VpaK11BI GGWCC 2 cut(s) 395, 662
XapI RAATTY 1 cut(s) 839
XspI CTAG 3 cut(s) 132, 260, 525
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.