Rw3G027280

Transcription factor

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr3
OG0012195
Physical Location & Seq
Forward (+)
38452034 .. 38453582
1549 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw3G027280.1

Sequence Viewer

Length: 891 bp
ATGGCACTTGCCAAGGATAGGATGCCCCATGATTCACTTCAGTATCAAGTAATTTCTTCAGATCATCATCTTTCTAATAATGGTTTTGTTTTTAGATCAGCAGCTTCCACAACAAGTTGTTATCAAGCTGAAGATGATCATGATCAGGTAGCTGCAGGCCACTCAGTCATCAACTTCAAGAATAATGGCTACAACAGTAGTTTCATCCATGCCAACAGTGCGTCTCTGCTTAGTTTTGAGAAAAGCAACAACGGCATTACTCATGACAACGATAGTTACAACTGCATCAGCAGGGACGACCCAGTTCGCCTGTCCGGTGATTTCAATTGCTTTCAGACAGCTAGCAATAACAGCAGCTCCTTATCCAATCCCTCAAATGAAAGCCATGGATCAGAATTAGGGTCAGCTTATGGGTGGTTGTACTCGGACGCAACTCTAATGGCAGAAAGCTTCCCTGAATCGGAAACACAAGTCGAAGCAGCCTTTCAAAAGCGCCCCCATAAGGGAGAGAACATGCAACCTTTAAAGAGGCAATGCACCAGTGCTGTTGTTGCTGCTGCTACTGCTACAACCAAGAAGCCCAAACCTAAGTCTTCAAGTCCCTCAAAGGATCCCCAAAGTATTGCCGCCAAGAATCGGAGAGAGCGCATTAGCGAGCGGCTTAAGATACTCCAGGAACTGGTGCCCAATGGCTGCAAGGTTGATTTAGTAACCATGTTAGAGAAAGCCATTAGTTATGTCAAATTCCTTCAATTGCAAGTCAAGGTCTTGGCAACCGATGAATTTTGGCCCGTTCAAGGTGGGAAAGCTCCTGATATTTCTCAAGTAAAAGAAGCCATTGATGCCATCCTCTCATCTCAAAGAGACACAAGTTCAAGCTCAAAGCTGTAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0000902 GO:0000904 GO:0000976 GO:0000981 GO:0001046 GO:0001047 GO:0001067 GO:0001228 GO:0003674 GO:0003676 GO:0003677 GO:0003690 GO:0003700 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005737 GO:0005739 GO:0006139 GO:0006351 GO:0006355 GO:0006357 GO:0006366 GO:0006725 GO:0006807 GO:0007275 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009653 GO:0009888 GO:0009889 GO:0009891 GO:0009893 GO:0009987 GO:0010015 GO:0010053 GO:0010054 GO:0010467 GO:0010468 GO:0010556 GO:0010557 GO:0010604 GO:0010628 GO:0016043 GO:0016070 GO:0018130 GO:0019219 GO:0019222 GO:0019438 GO:0021700 GO:0022622 GO:0030154 GO:0031323 GO:0031325 GO:0031326 GO:0031328 GO:0032501 GO:0032502 GO:0032774 GO:0032989 GO:0034641 GO:0034645 GO:0034654 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043565 GO:0044212 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044271 GO:0044424 GO:0044444 GO:0044464 GO:0045893 GO:0045935 GO:0045944 GO:0046483 GO:0048364 GO:0048468 GO:0048469 GO:0048518 GO:0048522 GO:0048731 GO:0048764 GO:0048765 GO:0048766 GO:0048856 GO:0048869 GO:0050789 GO:0050794 GO:0051171 GO:0051173 GO:0051252 GO:0051254 GO:0060255 GO:0065007 GO:0071695 GO:0071704 GO:0071840 GO:0080090 GO:0090304 GO:0090558 GO:0090627 GO:0097159 GO:0097659 GO:0099402 GO:0140110 GO:1901360 GO:1901362 GO:1901363 GO:1901576 GO:1902680 GO:1903506 GO:1903508 GO:1905392 GO:1990837 GO:2000112 GO:2001141
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
HLH

Protein Analysis

296

Amino Acids

32.4

Weight (kDa)

6.5

Isoelectric Point (pI)

41.7

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
HLH PF00010 209 - 251 4.8e-08 Helix-loop-helix DNA-binding domain
bHLH_LHW PF23176 214 - 251 2.8e-06 Transcription factor LHW bHLH 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: OG0012195)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G66470 AT5G37800
fragaria_vesca FvH4_1g28930 FvH4_1g28930
malus_domestica MD09G1262000.v1.1 MD17G1257000.v1.1
prunus_persica Prupe.3G159800_v2.0.a1
pyrus_communis pycom09g17630 pycom17g25930
rosa_chinensis RchiOBHm_Chr3g0493491
rosa_laevigata RLG00000022711
rosa_multiflora Rmu_sc0002343.1_g000071
rosa_roxburghii Rroxscaffold_6G00391560
rosa_rugosa Rorug03G0261100.1
rosa_samantha Rh3AG310400 Rh3BG346600 Rh3CG344400 Rh3DG345700
rosa_wichuraiana Rw3G027280

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 1 cut(s) 682
AccB7I CCANNNNNTGG 1 cut(s) 679
AccBSI CCGCTC 1 cut(s) 658
AciI CCGC 2 cut(s) 627, 658
AclWI GGATC 3 cut(s) 397, 605, 618
AcsI RAATTY 2 cut(s) 743, 782
AcuI CTGAAG 3 cut(s) 23, 42, 150
AfaI GTAC 1 cut(s) 422
AfiI CCNNNNNNNGG 7 cut(s) 18, 460, 502, 503, 636, 679, 797
AflII CTTAAG 1 cut(s) 662
AgsI TTSAA 7 cut(s) 178, 325, 488, 597, 752, 797, 876
AjnI CCWGG 1 cut(s) 672
Alw26I GTCTC 2 cut(s) 228, 858
AlwI GGATC 3 cut(s) 397, 605, 618
AlwNI CAGNNNCTG 1 cut(s) 679
AoxI GGCC 2 cut(s) 157, 788
ApeKI GCWGC 7 cut(s) 101, 152, 354, 479, 554, 557, 693
ApoI RAATTY 2 cut(s) 743, 782
AspLEI GCGC 2 cut(s) 495, 648
AspS9I GGNCC 1 cut(s) 789
AsuHPI GGTGA 1 cut(s) 329
AsuNHI GCTAGC 1 cut(s) 341
BaeGI GKGCMC 1 cut(s) 687
BaeI ACNNNNGTAYC 2 cut(s) 26, 59
BamHI GGATCC 1 cut(s) 610
BanI GGYRCC 1 cut(s) 682
BbsI GAAGAC 1 cut(s) 585
BbvI GCAGC 7 cut(s) 113, 139, 366, 491, 541, 544, 680
BccI CCATC 1 cut(s) 854
BceAI ACGGC 1 cut(s) 268
BciT130I CCWGG 1 cut(s) 674
BclI TGATCA 2 cut(s) 136, 142
BcoDI GTCTC 2 cut(s) 228, 858
BfaI CTAG 1 cut(s) 342
BfmI CTRYAG 1 cut(s) 153
BfoI RGCGCY 1 cut(s) 496
BfrI CTTAAG 1 cut(s) 662
BisI GCNGC 9 cut(s) 102, 153, 355, 480, 555, 558, 627, 659, 694
BlsI GCNGC 9 cut(s) 103, 154, 356, 481, 556, 559, 628, 660, 695
Bme1390I CCNGG 1 cut(s) 674
BmgT120I GGNCC 1 cut(s) 789
BmiI GGNNCC 2 cut(s) 612, 684
BmrFI CCNGG 1 cut(s) 674
BmrI ACTGGG 1 cut(s) 296
BmsI GCATC 3 cut(s) 12, 294, 832
BmtI GCTAGC 1 cut(s) 345
BmuI ACTGGG 1 cut(s) 296
BpiI GAAGAC 1 cut(s) 585
BpmI CTGGAG 1 cut(s) 656
BpuEI CTTGAG 1 cut(s) 807
BsaBI GATNNNNATC 2 cut(s) 66, 141
BsaJI CCNNGG 2 cut(s) 12, 385
BsaWI WCCGGW 1 cut(s) 314
BsaXI ACNNNNNCTCC 2 cut(s) 341, 371
Bsc4I CCNNNNNNNGG 7 cut(s) 18, 460, 502, 503, 636, 679, 797
Bse1I ACTGG 3 cut(s) 302, 540, 684
Bse3DI GCAATG 1 cut(s) 539
Bse8I GATNNNNATC 2 cut(s) 66, 141
BseBI CCWGG 1 cut(s) 674
BseDI CCNNGG 2 cut(s) 12, 385
BseGI GGATG 3 cut(s) 27, 204, 846
BseJI GATNNNNATC 2 cut(s) 66, 141
BseLI CCNNNNNNNGG 7 cut(s) 18, 460, 502, 503, 636, 679, 797
BseMI GCAATG 1 cut(s) 539
BseMII CTCAG 1 cut(s) 177
BseNI ACTGG 3 cut(s) 302, 540, 684
BseSI GKGCMC 1 cut(s) 687
BseXI GCAGC 7 cut(s) 113, 139, 366, 491, 541, 544, 680
BshFI GGCC 2 cut(s) 159, 790
BshNI GGYRCC 1 cut(s) 682
BsiSI CCGG 1 cut(s) 315
BslFI GGGAC 2 cut(s) 308, 585
BslI CCNNNNNNNGG 7 cut(s) 18, 460, 502, 503, 636, 679, 797
BsmAI GTCTC 2 cut(s) 228, 858
BsmBI CGTCTC 1 cut(s) 228
BsmFI GGGAC 2 cut(s) 308, 585
BsnI GGCC 2 cut(s) 159, 790
Bsp1286I GDGCHC 1 cut(s) 687
Bsp143I GATC 6 cut(s) 61, 95, 136, 142, 389, 610
Bsp19I CCATGG 1 cut(s) 385
BspACI CCGC 2 cut(s) 627, 658
BspANI GGCC 2 cut(s) 159, 790
BspCNI CTCAG 1 cut(s) 176
BspHI TCATGA 2 cut(s) 139, 262
BspLI GGNNCC 2 cut(s) 612, 684
BspMAI CTGCAG 1 cut(s) 157
BspOI GCTAGC 1 cut(s) 345
BspPI GGATC 3 cut(s) 397, 605, 618
BspT107I GGYRCC 1 cut(s) 682
BspTI CTTAAG 1 cut(s) 662
BsrBI CCGCTC 1 cut(s) 658
BsrDI GCAATG 1 cut(s) 539
BsrI ACTGG 3 cut(s) 302, 540, 684
BssECI CCNNGG 2 cut(s) 12, 385
BssMI GATC 6 cut(s) 61, 95, 136, 142, 389, 610
BssT1I CCWWGG 2 cut(s) 12, 385
Bst2UI CCWGG 1 cut(s) 674
Bst4CI ACNGT 2 cut(s) 197, 218
BstAFI CTTAAG 1 cut(s) 662
BstC8I GCNNGC 3 cut(s) 157, 343, 656
BstDEI CTNAG 3 cut(s) 163, 230, 588
BstDSI CCRYGG 1 cut(s) 385
BstF5I GGATG 3 cut(s) 27, 204, 846
BstH2I RGCGCY 1 cut(s) 496
BstHHI GCGC 2 cut(s) 495, 648
BstKTI GATC 6 cut(s) 64, 98, 139, 145, 392, 613
BstMAI GTCTC 2 cut(s) 228, 858
BstMBI GATC 6 cut(s) 61, 95, 136, 142, 389, 610
BstMWI GCNNNNNNNGC 6 cut(s) 218, 252, 351, 551, 563, 842
BstNI CCWGG 1 cut(s) 674
BstNSI RCATGY 1 cut(s) 517
BstSCI CCNGG 1 cut(s) 672
BstSFI CTRYAG 1 cut(s) 153
BstSLI GKGCMC 1 cut(s) 687
BstV1I GCAGC 7 cut(s) 113, 139, 366, 491, 541, 544, 680
BstV2I GAAGAC 1 cut(s) 585
BstX2I RGATCY 1 cut(s) 610
BstYI RGATCY 1 cut(s) 610
BsuRI GGCC 2 cut(s) 159, 790
BtgI CCRYGG 1 cut(s) 385
BtsCI GGATG 3 cut(s) 27, 204, 846
BtsIMutI CAGTG 2 cut(s) 223, 547
Cac8I GCNNGC 3 cut(s) 157, 343, 656
CaiI CAGNNNCTG 1 cut(s) 679
CciI TCATGA 2 cut(s) 139, 262
CfoI GCGC 2 cut(s) 495, 648
Cfr13I GGNCC 1 cut(s) 789
CseI GACGC 2 cut(s) 210, 437
Csp6I GTAC 1 cut(s) 421
CviAII CATG 7 cut(s) 29, 140, 209, 263, 386, 514, 715
CviQI GTAC 1 cut(s) 421
DdeI CTNAG 3 cut(s) 163, 230, 588
DpnI GATC 6 cut(s) 63, 97, 138, 144, 391, 612
DpnII GATC 6 cut(s) 61, 95, 136, 142, 389, 610
DraI TTTAAA 1 cut(s) 525
Eco130I CCWWGG 2 cut(s) 12, 385
Eco57I CTGAAG 3 cut(s) 23, 42, 150
EcoRII CCWGG 1 cut(s) 672
EcoT14I CCWWGG 2 cut(s) 12, 385
ErhI CCWWGG 2 cut(s) 12, 385
Esp3I CGTCTC 1 cut(s) 228
FaeI CATG 7 cut(s) 32, 143, 212, 266, 389, 517, 718
FaqI GGGAC 2 cut(s) 308, 585
FatI CATG 7 cut(s) 28, 139, 208, 262, 385, 513, 714
FbaI TGATCA 2 cut(s) 136, 142
Fnu4HI GCNGC 9 cut(s) 102, 153, 355, 480, 555, 558, 627, 659, 694
FokI GGATG 3 cut(s) 34, 191, 833
Fsp4HI GCNGC 9 cut(s) 102, 153, 355, 480, 555, 558, 627, 659, 694
FspBI CTAG 1 cut(s) 342
GlaI GCGC 2 cut(s) 494, 647
GluI GCNGC 9 cut(s) 102, 153, 355, 480, 555, 558, 627, 659, 694
GsuI CTGGAG 1 cut(s) 656
HaeII RGCGCY 1 cut(s) 496
HaeIII GGCC 2 cut(s) 159, 790
HapII CCGG 1 cut(s) 315
HgaI GACGC 2 cut(s) 210, 437
HhaI GCGC 2 cut(s) 495, 648
Hin1II CATG 7 cut(s) 32, 143, 212, 266, 389, 517, 718
Hin6I GCGC 2 cut(s) 493, 646
HinP1I GCGC 2 cut(s) 493, 646
HindIII AAGCTT 1 cut(s) 448
HinfI GANTC 3 cut(s) 32, 458, 634
HpaII CCGG 1 cut(s) 315
HphI GGTGA 1 cut(s) 329
Hpy188I TCNGA 6 cut(s) 61, 336, 394, 427, 463, 639
Hpy188III TCNNGA 4 cut(s) 140, 178, 263, 812
HpyAV CCTTC 1 cut(s) 758
HpyCH4III ACNGT 2 cut(s) 197, 218
HpyCH4V TGCA 6 cut(s) 155, 285, 517, 537, 696, 757
HpyF10VI GCNNNNNNNGC 6 cut(s) 218, 252, 351, 551, 563, 842
HpyF3I CTNAG 3 cut(s) 163, 230, 588
Hsp92II CATG 7 cut(s) 32, 143, 212, 266, 389, 517, 718
HspAI GCGC 2 cut(s) 493, 646
Ksp22I TGATCA 2 cut(s) 136, 142
Kzo9I GATC 6 cut(s) 61, 95, 136, 142, 389, 610
LmnI GCTCC 2 cut(s) 362, 814
Lsp1109I GCAGC 7 cut(s) 113, 139, 366, 491, 541, 544, 680
LweI GCATC 3 cut(s) 12, 294, 832
MaeI CTAG 1 cut(s) 342
MaeIII GTNAC 2 cut(s) 275, 709
MalI GATC 6 cut(s) 63, 97, 138, 144, 391, 612
MbiI CCGCTC 1 cut(s) 658
MboI GATC 6 cut(s) 61, 95, 136, 142, 389, 610
MboII GAAGA 3 cut(s) 48, 143, 585
MfeI CAATTG 2 cut(s) 325, 752
MflI RGATCY 1 cut(s) 610
MhlI GDGCHC 1 cut(s) 687
MluCI AATT 6 cut(s) 51, 325, 395, 743, 752, 782
MnlI CCTC 4 cut(s) 382, 522, 613, 860
MseI TTAA 2 cut(s) 524, 663
MspCI CTTAAG 1 cut(s) 662
MspI CCGG 1 cut(s) 315
MspR9I CCNGG 1 cut(s) 674
MunI CAATTG 2 cut(s) 325, 752
MvaI CCWGG 1 cut(s) 674
MwoI GCNNNNNNNGC 6 cut(s) 218, 252, 351, 551, 563, 842
NcoI CCATGG 1 cut(s) 385
NdeII GATC 6 cut(s) 61, 95, 136, 142, 389, 610
NheI GCTAGC 1 cut(s) 341
NlaIII CATG 7 cut(s) 32, 143, 212, 266, 389, 517, 718
NlaIV GGNNCC 2 cut(s) 612, 684
NspI RCATGY 1 cut(s) 517
PagI TCATGA 2 cut(s) 139, 262
PfeI GAWTC 3 cut(s) 32, 458, 634
PflMI CCANNNNNTGG 1 cut(s) 679
PfoI TCCNGGA 1 cut(s) 672
PkrI GCNGC 9 cut(s) 103, 154, 356, 481, 556, 559, 628, 660, 695
Psp6I CCWGG 1 cut(s) 672
PspGI CCWGG 1 cut(s) 672
PspN4I GGNNCC 2 cut(s) 612, 684
PspPI GGNCC 1 cut(s) 789
PstI CTGCAG 1 cut(s) 157
PstNI CAGNNNCTG 1 cut(s) 679
PsuI RGATCY 1 cut(s) 610
RsaI GTAC 1 cut(s) 422
RsaNI GTAC 1 cut(s) 421
SaqAI TTAA 2 cut(s) 524, 663
SatI GCNGC 9 cut(s) 102, 153, 355, 480, 555, 558, 627, 659, 694
Sau3AI GATC 6 cut(s) 61, 95, 136, 142, 389, 610
Sau96I GGNCC 1 cut(s) 789
ScrFI CCNGG 1 cut(s) 674
SduI GDGCHC 1 cut(s) 687
SfaNI GCATC 3 cut(s) 12, 294, 832
SfcI CTRYAG 1 cut(s) 153
SmlI CTYRAG 2 cut(s) 662, 822
SmoI CTYRAG 2 cut(s) 662, 822
Sse9I AATT 6 cut(s) 51, 325, 395, 743, 752, 782
SsiI CCGC 2 cut(s) 627, 658
SspMI CTAG 1 cut(s) 342
StyD4I CCNGG 1 cut(s) 672
StyI CCWWGG 2 cut(s) 12, 385
TaaI ACNGT 2 cut(s) 197, 218
TaqI TCGA 1 cut(s) 474
TasI AATT 6 cut(s) 51, 325, 395, 743, 752, 782
TatI WGTACW 1 cut(s) 420
TauI GCSGC 2 cut(s) 629, 661
TfiI GAWTC 3 cut(s) 32, 458, 634
Tru1I TTAA 2 cut(s) 524, 663
Tru9I TTAA 2 cut(s) 524, 663
TscAI CASTG 2 cut(s) 223, 547
TseI GCWGC 7 cut(s) 101, 152, 354, 479, 554, 557, 693
TspDTI ATGAA 3 cut(s) 193, 393, 795
TspRI CASTG 2 cut(s) 223, 547
Van91I CCANNNNNTGG 1 cut(s) 679
Vha464I CTTAAG 1 cut(s) 662
XapI RAATTY 2 cut(s) 743, 782
XceI RCATGY 1 cut(s) 517
XspI CTAG 1 cut(s) 342
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.