Rh4AG344900

transcription factor

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr4A
OG0012088
Physical Location & Seq
Reverse (-)
65327572 .. 65329267
1696 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh4AG344900.1

Sequence Viewer

Length: 1068 bp
ATGATGTGTGGAAAGAAAGAAGATCAAGGCGAGTGTTCACAGAGTCATCATCATCAACAAGTCCAAAACTTTCAAGAGCAGTTGCTTCTCCAACAACAACAACAACAGATGATGCAACAACAACAACAAAACCACAACGAATTGTACGGTCGAGGATTGATTTTCCCTCATGATCAAGCTCCACCTCCAATCCTGCAGCCATGGACTCTCCCTCCGATCCACACTTTCAACCCGGCCCACTTTCCTGTCCGAGGGGACAACAACATCGACCCATTTCTAGTCCCTCCTCCAGCTCCCTCATCATCCTATGCCAGTTTCTTCAACAGAAGAGGAGCTCCATCACTACAGTTCACGTACGACGGTTCAGCATCCGATCATCACCACCTCAGAATTTTATCGGAGGCGCTAGGACCGATGGTCCAGCCCGGTTCGGCTCCTTTCGGTCTTCAAGCCGAGCTGGGGAAGTTGACAGCCCAAGAAATCATGGACGCCAAGGCACTCGCAGCTTCCAAAAGTCACAGCGAGGCCGAAAGAAGAAGAAGAGAGAGAATAAATAACCACCTTGCTAAGCTGCGCAGCCTATTACCCAGCACCACGAAAACCGACAAAGCCTCATTGCTAGCCGAAGTGATACAACATGTGAAGGAGCTGAAACGGCAGACGTCTGTAATAGCAGAGACCAGTCCGGTGCCGACCGAAACAGACGAGCTGATCGTGGACGACGCGTCGGACGAGGAGGGCAAGTTCGTAATCAAAGCCTCGCTGTGTTGCGAGGACCGGTCGGATCTGTTGCCTGATCTCATCAAGACACTCAAGGCATTACGTTTGAGAACATTGAAAGCTGAGATCACAACGTTAGGTGGACGCGTGAAGAATGTTTTGTTCATCACTGGAGAAGAAGATTCAAGTAGTAGCGAAGAGCAGCAGCAACAGCAGTACTGTATAAGCTCGATACAAGAAGCGCTCAAGGCTGTGATGGAGAAGAGCGGCGGAGGAGACGACTCTAATTCTTCAGGCAGTGTTAAACGGCAAAGGACTACTAATAATACCAACATCAATATCCTCTAA
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

355

Amino Acids

39.47

Weight (kDa)

6.12

Isoelectric Point (pI)

68.36

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
HLH PF00010 171 - 218 8.7e-13 Helix-loop-helix DNA-binding 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: OG0012088)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G68810
fragaria_vesca FvH4_4g28130 FvH4_4g28130
malus_domestica MD13G1047100.v1.1 MD16G1048700.v1.1
prunus_persica Prupe.1G304900_v2.0.a1
pyrus_communis pycom13g04120 pycom16g04260
rosa_chinensis RchiOBHm_Chr4g0435901
rosa_laevigata RLG00000006551
rosa_multiflora Rmu_sc0003165.1_g000008
rosa_roxburghii Rroxscaffold_5G00377070
rosa_rugosa Rorug04G0290700 Rorug04G0290700
rosa_samantha Rh4AG344900 Rh4BG353700 Rh4CG368100 Rh4DG347500
rosa_wichuraiana Rw4G030120

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AatII GACGTC 1 cut(s) 665
Acc16I TGCGCA 1 cut(s) 575
AccB1I GGYRCC 1 cut(s) 688
AccBSI CCGCTC 1 cut(s) 987
AccII CGCG 2 cut(s) 725, 867
AciI CCGC 2 cut(s) 987, 990
AclI AACGTT 1 cut(s) 854
AclWI GGATC 2 cut(s) 211, 792
AcsI RAATTY 1 cut(s) 390
AcuI CTGAAG 1 cut(s) 996
AcyI GRCGYC 2 cut(s) 489, 662
AfaI GTAC 3 cut(s) 146, 356, 938
AfeI AGCGCT 1 cut(s) 963
AfiI CCNNNNNNNGG 2 cut(s) 251, 459
AflIII ACRYGT 3 cut(s) 637, 723, 865
AgeI ACCGGT 1 cut(s) 777
AgsI TTSAA 6 cut(s) 74, 229, 322, 449, 838, 906
AhdI GACNNNNNGTC 2 cut(s) 416, 724
AloI GAACNNNNNNTCC 2 cut(s) 728, 760
Alw21I GWGCWC 1 cut(s) 337
Alw26I GTCTC 2 cut(s) 671, 990
AlwI GGATC 2 cut(s) 211, 792
Aor51HI AGCGCT 1 cut(s) 963
AoxI GGCC 2 cut(s) 234, 525
ApeKI GCWGC 6 cut(s) 196, 503, 571, 576, 922, 925
ApoI RAATTY 1 cut(s) 390
AsiGI ACCGGT 1 cut(s) 777
AspLEI GCGC 3 cut(s) 406, 576, 964
AspS9I GGNCC 4 cut(s) 235, 410, 418, 775
AsuC2I CCSGG 2 cut(s) 233, 426
AsuHPI GGTGA 1 cut(s) 371
AsuNHI GCTAGC 1 cut(s) 619
AvaII GGWCC 3 cut(s) 410, 418, 775
BanI GGYRCC 1 cut(s) 688
BanII GRGCYC 1 cut(s) 337
BbsI GAAGAC 1 cut(s) 437
Bbv12I GWGCWC 1 cut(s) 337
BbvI GCAGC 6 cut(s) 208, 515, 558, 588, 934, 937
BccI CCATC 3 cut(s) 346, 409, 970
BceAI ACGGC 2 cut(s) 671, 1043
BclI TGATCA 1 cut(s) 172
BcnI CCSGG 2 cut(s) 233, 426
BcoDI GTCTC 2 cut(s) 671, 990
BfaI CTAG 3 cut(s) 278, 407, 620
BfmI CTRYAG 2 cut(s) 194, 344
BfoI RGCGCY 2 cut(s) 407, 965
BisI GCNGC 7 cut(s) 197, 504, 572, 577, 923, 926, 988
BlpI GCTNAGC 1 cut(s) 567
BlsI GCNGC 7 cut(s) 198, 505, 573, 578, 924, 927, 989
BmcAI AGTACT 1 cut(s) 938
Bme1390I CCNGG 2 cut(s) 233, 426
Bme18I GGWCC 3 cut(s) 410, 418, 775
BmeRI GACNNNNNGTC 2 cut(s) 416, 724
BmgT120I GGNCC 4 cut(s) 235, 410, 418, 775
BmiI GGNNCC 2 cut(s) 435, 690
BmrFI CCNGG 2 cut(s) 233, 426
BmsI GCATC 2 cut(s) 102, 377
BmtI GCTAGC 1 cut(s) 623
BpiI GAAGAC 1 cut(s) 437
BpmI CTGGAG 2 cut(s) 273, 912
Bpu1102I GCTNAGC 1 cut(s) 567
BpuEI CTTGAG 2 cut(s) 797, 950
BpuMI CCSGG 2 cut(s) 233, 426
BsaAI YACGTR 1 cut(s) 354
BsaHI GRCGYC 2 cut(s) 489, 662
BsaI GGTCTC 1 cut(s) 671
BsaJI CCNNGG 3 cut(s) 200, 250, 492
BsaWI WCCGGW 2 cut(s) 685, 777
BsaXI ACNNNNNCTCC 4 cut(s) 196, 226, 728, 758
Bsc4I CCNNNNNNNGG 2 cut(s) 251, 459
Bse118I RCCGGY 1 cut(s) 777
Bse1I ACTGG 3 cut(s) 312, 681, 895
Bse3DI GCAATG 1 cut(s) 614
BseDI CCNNGG 3 cut(s) 200, 250, 492
BseGI GGATG 2 cut(s) 302, 368
BseLI CCNNNNNNNGG 2 cut(s) 251, 459
BseMI GCAATG 1 cut(s) 614
BseMII CTCAG 2 cut(s) 400, 834
BseNI ACTGG 3 cut(s) 312, 681, 895
BseRI GAGGAG 4 cut(s) 276, 345, 749, 1008
BseXI GCAGC 6 cut(s) 208, 515, 558, 588, 934, 937
BseYI CCCAGC 2 cut(s) 457, 587
Bsh1236I CGCG 2 cut(s) 725, 867
Bsh1285I CGRYCG 3 cut(s) 151, 696, 782
BshFI GGCC 2 cut(s) 236, 527
BshNI GGYRCC 1 cut(s) 688
BshTI ACCGGT 1 cut(s) 777
BsiEI CGRYCG 3 cut(s) 151, 696, 782
BsiHKAI GWGCWC 1 cut(s) 337
BsiSI CCGG 4 cut(s) 233, 426, 686, 778
BsiWI CGTACG 1 cut(s) 354
BslFI GGGAC 2 cut(s) 266, 269
BslI CCNNNNNNNGG 2 cut(s) 251, 459
BsmAI GTCTC 2 cut(s) 671, 990
BsmBI CGTCTC 1 cut(s) 990
BsmFI GGGAC 2 cut(s) 266, 269
BsnI GGCC 2 cut(s) 236, 527
Bso31I GGTCTC 1 cut(s) 671
Bsp1286I GDGCHC 1 cut(s) 337
Bsp143I GATC 8 cut(s) 22, 172, 216, 373, 711, 784, 796, 846
Bsp1720I GCTNAGC 1 cut(s) 567
Bsp19I CCATGG 1 cut(s) 200
BspACI CCGC 2 cut(s) 987, 990
BspANI GGCC 2 cut(s) 236, 527
BspCNI CTCAG 2 cut(s) 399, 835
BspFNI CGCG 2 cut(s) 725, 867
BspHI TCATGA 1 cut(s) 169
BspLI GGNNCC 2 cut(s) 435, 690
BspMAI CTGCAG 1 cut(s) 198
BspOI GCTAGC 1 cut(s) 623
BspPI GGATC 2 cut(s) 211, 792
BspQI GCTCTTC 2 cut(s) 912, 977
BspT107I GGYRCC 1 cut(s) 688
BspTNI GGTCTC 1 cut(s) 671
BsrBI CCGCTC 1 cut(s) 987
BsrDI GCAATG 1 cut(s) 614
BsrFI RCCGGY 1 cut(s) 777
BsrI ACTGG 3 cut(s) 312, 681, 895
BssAI RCCGGY 1 cut(s) 777
BssECI CCNNGG 3 cut(s) 200, 250, 492
BssMI GATC 8 cut(s) 22, 172, 216, 373, 711, 784, 796, 846
BssNI GRCGYC 2 cut(s) 489, 662
BssT1I CCWWGG 2 cut(s) 200, 492
Bst4CI ACNGT 4 cut(s) 149, 348, 362, 941
Bst6I CTCTTC 4 cut(s) 322, 535, 912, 977
BstACI GRCGYC 2 cut(s) 489, 662
BstBAI YACGTR 1 cut(s) 354
BstC8I GCNNGC 1 cut(s) 621
BstDEI CTNAG 3 cut(s) 386, 567, 843
BstDSI CCRYGG 1 cut(s) 200
BstENI CCTNNNNNAGG 1 cut(s) 249
BstF5I GGATG 2 cut(s) 302, 368
BstFNI CGCG 2 cut(s) 725, 867
BstH2I RGCGCY 2 cut(s) 407, 965
BstHHI GCGC 3 cut(s) 406, 576, 964
BstKTI GATC 8 cut(s) 25, 175, 219, 376, 714, 787, 799, 849
BstMAI GTCTC 2 cut(s) 671, 990
BstMBI GATC 8 cut(s) 22, 172, 216, 373, 711, 784, 796, 846
BstMCI CGRYCG 3 cut(s) 151, 696, 782
BstMWI GCNNNNNNNGC 4 cut(s) 503, 655, 931, 968
BstNSI RCATGY 1 cut(s) 641
BstSCI CCNGG 2 cut(s) 231, 424
BstSFI CTRYAG 2 cut(s) 194, 344
BstUI CGCG 2 cut(s) 725, 867
BstV1I GCAGC 6 cut(s) 208, 515, 558, 588, 934, 937
BstV2I GAAGAC 1 cut(s) 437
BstX2I RGATCY 1 cut(s) 784
BstYI RGATCY 1 cut(s) 784
BsuRI GGCC 2 cut(s) 236, 527
BtgI CCRYGG 1 cut(s) 200
BtsCI GGATG 2 cut(s) 302, 368
BtsI GCAGTG 1 cut(s) 1024
BtsIMutI CAGTG 2 cut(s) 888, 1024
Cac8I GCNNGC 1 cut(s) 621
CciI TCATGA 1 cut(s) 169
CfoI GCGC 3 cut(s) 406, 576, 964
Cfr10I RCCGGY 1 cut(s) 777
Cfr13I GGNCC 4 cut(s) 235, 410, 418, 775
CseI GACGC 4 cut(s) 497, 714, 731, 873
Csp6I GTAC 3 cut(s) 145, 355, 937
CspAI ACCGGT 1 cut(s) 777
CviAII CATG 4 cut(s) 170, 201, 484, 638
CviQI GTAC 3 cut(s) 145, 355, 937
DdeI CTNAG 3 cut(s) 386, 567, 843
DpnI GATC 8 cut(s) 24, 174, 218, 375, 713, 786, 798, 848
DpnII GATC 8 cut(s) 22, 172, 216, 373, 711, 784, 796, 846
DriI GACNNNNNGTC 2 cut(s) 416, 724
Eam1104I CTCTTC 4 cut(s) 322, 535, 912, 977
Eam1105I GACNNNNNGTC 2 cut(s) 416, 724
EarI CTCTTC 4 cut(s) 322, 535, 912, 977
EciI GGCGGA 1 cut(s) 1005
Ecl136II GAGCTC 1 cut(s) 335
Eco130I CCWWGG 2 cut(s) 200, 492
Eco24I GRGCYC 1 cut(s) 337
Eco31I GGTCTC 1 cut(s) 671
Eco47I GGWCC 3 cut(s) 410, 418, 775
Eco47III AGCGCT 1 cut(s) 963
Eco53kI GAGCTC 1 cut(s) 335
Eco57I CTGAAG 1 cut(s) 996
EcoICRI GAGCTC 1 cut(s) 335
EcoNI CCTNNNNNAGG 1 cut(s) 249
EcoT14I CCWWGG 2 cut(s) 200, 492
EcoT38I GRGCYC 1 cut(s) 337
ErhI CCWWGG 2 cut(s) 200, 492
Esp3I CGTCTC 1 cut(s) 990
FaeI CATG 4 cut(s) 173, 204, 487, 641
FaiI YATR 6 cut(s) 171, 202, 309, 485, 639, 944
FaqI GGGAC 2 cut(s) 266, 269
FatI CATG 4 cut(s) 169, 200, 483, 637
FbaI TGATCA 1 cut(s) 172
Fnu4HI GCNGC 7 cut(s) 197, 504, 572, 577, 923, 926, 988
FokI GGATG 2 cut(s) 289, 355
FriOI GRGCYC 1 cut(s) 337
Fsp4HI GCNGC 7 cut(s) 197, 504, 572, 577, 923, 926, 988
FspBI CTAG 3 cut(s) 278, 407, 620
FspI TGCGCA 1 cut(s) 575
GlaI GCGC 3 cut(s) 405, 575, 963
GluI GCNGC 7 cut(s) 197, 504, 572, 577, 923, 926, 988
GsaI CCCAGC 2 cut(s) 461, 591
GsuI CTGGAG 2 cut(s) 273, 912
HaeII RGCGCY 2 cut(s) 407, 965
HaeIII GGCC 2 cut(s) 236, 527
HapII CCGG 4 cut(s) 233, 426, 686, 778
HgaI GACGC 4 cut(s) 497, 714, 731, 873
HhaI GCGC 3 cut(s) 406, 576, 964
Hin1I GRCGYC 2 cut(s) 489, 662
Hin1II CATG 4 cut(s) 173, 204, 487, 641
Hin6I GCGC 3 cut(s) 404, 574, 962
HinP1I GCGC 3 cut(s) 404, 574, 962
HincII GTYRAC 1 cut(s) 468
HindII GTYRAC 1 cut(s) 468
HinfI GANTC 4 cut(s) 43, 205, 902, 1001
HpaII CCGG 4 cut(s) 233, 426, 686, 778
HphI GGTGA 1 cut(s) 371
Hpy166II GTNNAC 5 cut(s) 38, 351, 468, 718, 863
Hpy188I TCNGA 7 cut(s) 216, 251, 373, 389, 400, 730, 784
Hpy188III TCNNGA 3 cut(s) 74, 170, 805
Hpy8I GTNNAC 5 cut(s) 38, 351, 468, 718, 863
Hpy99I CGWCG 3 cut(s) 362, 725, 730
HpyAV CCTTC 1 cut(s) 637
HpyCH4III ACNGT 4 cut(s) 149, 348, 362, 941
HpyCH4IV ACGT 4 cut(s) 353, 662, 823, 854
HpyCH4V TGCA 2 cut(s) 115, 196
HpyF10VI GCNNNNNNNGC 4 cut(s) 503, 655, 931, 968
HpyF3I CTNAG 3 cut(s) 386, 567, 843
HpySE526I ACGT 4 cut(s) 353, 662, 823, 854
Hsp92I GRCGYC 2 cut(s) 489, 662
Hsp92II CATG 4 cut(s) 173, 204, 487, 641
HspAI GCGC 3 cut(s) 404, 574, 962
Ksp22I TGATCA 1 cut(s) 172
Kzo9I GATC 8 cut(s) 22, 172, 216, 373, 711, 784, 796, 846
LguI GCTCTTC 2 cut(s) 912, 977
LmnI GCTCC 6 cut(s) 184, 298, 332, 340, 439, 646
Lsp1109I GCAGC 6 cut(s) 208, 515, 558, 588, 934, 937
LweI GCATC 2 cut(s) 102, 377
MaeI CTAG 3 cut(s) 278, 407, 620
MaeII ACGT 4 cut(s) 353, 662, 823, 854
MaeIII GTNAC 1 cut(s) 515
MalI GATC 8 cut(s) 24, 174, 218, 375, 713, 786, 798, 848
MbiI CCGCTC 1 cut(s) 987
MboI GATC 8 cut(s) 22, 172, 216, 373, 711, 784, 796, 846
MflI RGATCY 1 cut(s) 784
MhlI GDGCHC 1 cut(s) 337
MluCI AATT 3 cut(s) 140, 390, 1006
MluI ACGCGT 2 cut(s) 723, 865
MlyI GAGTC 3 cut(s) 52, 199, 995
MmeI TCCRAC 3 cut(s) 115, 708, 762
MseI TTAA 1 cut(s) 1023
MspI CCGG 4 cut(s) 233, 426, 686, 778
MspR9I CCNGG 2 cut(s) 233, 426
MvnI CGCG 2 cut(s) 725, 867
MwoI GCNNNNNNNGC 4 cut(s) 503, 655, 931, 968
NciI CCSGG 2 cut(s) 233, 426
NcoI CCATGG 1 cut(s) 200
NdeII GATC 8 cut(s) 22, 172, 216, 373, 711, 784, 796, 846
NheI GCTAGC 1 cut(s) 619
NlaIII CATG 4 cut(s) 173, 204, 487, 641
NlaIV GGNNCC 2 cut(s) 435, 690
NmeAIII GCCGAG 1 cut(s) 478
NmuCI GTSAC 1 cut(s) 515
NsbI TGCGCA 1 cut(s) 575
NspI RCATGY 1 cut(s) 641
PagI TCATGA 1 cut(s) 169
PciI ACATGT 1 cut(s) 637
PciSI GCTCTTC 2 cut(s) 912, 977
PcsI WCGNNNNNNNCGW 2 cut(s) 711, 729
PfeI GAWTC 1 cut(s) 902
Pfl23II CGTACG 1 cut(s) 354
PinAI ACCGGT 1 cut(s) 777
PkrI GCNGC 7 cut(s) 198, 505, 573, 578, 924, 927, 989
PleI GAGTC 3 cut(s) 51, 199, 995
PpsI GAGTC 3 cut(s) 51, 199, 995
Ppu21I YACGTR 1 cut(s) 354
PscI ACATGT 1 cut(s) 637
Psp124BI GAGCTC 1 cut(s) 337
Psp1406I AACGTT 1 cut(s) 854
PspFI CCCAGC 2 cut(s) 457, 587
PspLI CGTACG 1 cut(s) 354
PspN4I GGNNCC 2 cut(s) 435, 690
PspPI GGNCC 4 cut(s) 235, 410, 418, 775
PstI CTGCAG 1 cut(s) 198
PsuI RGATCY 1 cut(s) 784
RsaI GTAC 3 cut(s) 146, 356, 938
RsaNI GTAC 3 cut(s) 145, 355, 937
SacI GAGCTC 1 cut(s) 337
SapI GCTCTTC 2 cut(s) 912, 977
SaqAI TTAA 1 cut(s) 1023
SatI GCNGC 7 cut(s) 197, 504, 572, 577, 923, 926, 988
Sau3AI GATC 8 cut(s) 22, 172, 216, 373, 711, 784, 796, 846
Sau96I GGNCC 4 cut(s) 235, 410, 418, 775
ScaI AGTACT 1 cut(s) 938
SchI GAGTC 3 cut(s) 52, 199, 995
ScrFI CCNGG 2 cut(s) 233, 426
SduI GDGCHC 1 cut(s) 337
SfaNI GCATC 2 cut(s) 102, 377
SfcI CTRYAG 2 cut(s) 194, 344
SinI GGWCC 3 cut(s) 410, 418, 775
SmlI CTYRAG 2 cut(s) 812, 965
SmoI CTYRAG 2 cut(s) 812, 965
Sse9I AATT 3 cut(s) 140, 390, 1006
SsiI CCGC 2 cut(s) 987, 990
SspMI CTAG 3 cut(s) 278, 407, 620
SstI GAGCTC 1 cut(s) 337
StyD4I CCNGG 2 cut(s) 231, 424
StyI CCWWGG 2 cut(s) 200, 492
TaaI ACNGT 4 cut(s) 149, 348, 362, 941
TaiI ACGT 4 cut(s) 356, 665, 826, 857
TaqI TCGA 3 cut(s) 151, 267, 950
TaqII GACCGA 3 cut(s) 427, 431, 710
TasI AATT 3 cut(s) 140, 390, 1006
TatI WGTACW 1 cut(s) 936
TauI GCSGC 1 cut(s) 990
TfiI GAWTC 1 cut(s) 902
Tru1I TTAA 1 cut(s) 1023
Tru9I TTAA 1 cut(s) 1023
TscAI CASTG 2 cut(s) 895, 1024
TseFI GTSAC 1 cut(s) 515
TseI GCWGC 6 cut(s) 196, 503, 571, 576, 922, 925
Tsp45I GTSAC 1 cut(s) 515
TspDTI ATGAA 1 cut(s) 874
TspRI CASTG 2 cut(s) 895, 1024
VpaK11BI GGWCC 3 cut(s) 410, 418, 775
XagI CCTNNNNNAGG 1 cut(s) 249
XapI RAATTY 1 cut(s) 390
XceI RCATGY 1 cut(s) 641
XspI CTAG 3 cut(s) 278, 407, 620
ZraI GACGTC 1 cut(s) 663
ZrmI AGTACT 1 cut(s) 938
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.