Rh4BG353700

transcription factor

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr4B
OG0012088
Physical Location & Seq
Reverse (-)
51384116 .. 51385806
1691 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh4BG353700.1

Sequence Viewer

Length: 1065 bp
ATGATGTGTGGAAAGAAAGAAGATCAAGGCGAGTGTTCACAGAGTCATCATCATCAACAAGTCCAAAACTTTCAAGAGCAGTTGCTTCTCCAACAACAACAACAGATGATGCAACAACAACAACAAAACCACAACGATTTGTACGGTCGAGGATTGGTTTTCCCTCATGATCAAGCTCCACCTCCAATCCTGCAGCCATGGACTCTCCCTCCGATCCACGCTTTCAACCCGGCCCACTTTCCGGTCCGAGGGGACAACAACATCGACCCATTTCTAGTCCCTCCTCCAGCTCCCTCATCATCCTATGCCAGTTTCTTCAACAGAAGAGGAGCTCCATCACTACAGTTCACGTACGACGGTTCAGCATCCGATCATCACCACCTCAGAATTTTATCGGAGGCGCTAGGACCGATGGTCCAGCCCGGTTCGGCTCCTTTCGGTCTTCAAGCCGAGCTGGGGAAGTTGACAGCCCAAGAAATCATGGACGCCAAGGCACTCGCAGCTTCCAAAAGTCACAGCGAGGCCGAAAGAAGAAGAAGAGAGAGAATAAATAACCACCTTGCTAAGCTGCGCAGCCTATTACCCAGCACCACCAAAACGGACAAAGCCTCATTGCTAGCCGAAGTGATACAACATGTGAAGGAGCTGAAACGGCAGACGTCTGTAATAGCAGAGACCAGTCCGGTGCCGACCGAAACAGACGAGCTGATCGTGGACGACGCGTCGGACGAGGAGGGCAAGTTCGTAATCAAAGCCTCGCTGTGTTGCGAGGACCGGTCAGATCTGTTGCCTGATCTCATCAAGACACTCAAGGCATTACGTTTGAGAACATTGAAAGCTGAGATCACAACGTTAGGTGGACGCGTGAAGAATGTTTTGTTCATCACCGGAGAAGAAGATTCAAGTAGTAGCGAAGAGCAGCAGCAACAGCAGTACTGTATAAGCTCGATACAAGAAGCGCTCAAGGCGGTGATGGAGAAGAGCGGCGGAGGAGACGACTCTAATTCTTCAGGCAGTGTTAAACGGCAAAGGACTACTAATAATACCAACATCAATATCCTCTAA
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

354

Amino Acids

39.28

Weight (kDa)

6.12

Isoelectric Point (pI)

67.84

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
HLH PF00010 170 - 217 8.6e-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) 662
Acc16I TGCGCA 1 cut(s) 572
AccB1I GGYRCC 1 cut(s) 685
AccBSI CCGCTC 1 cut(s) 984
AccII CGCG 2 cut(s) 722, 864
AciI CCGC 3 cut(s) 968, 984, 987
AclI AACGTT 1 cut(s) 851
AclWI GGATC 1 cut(s) 208
AcsI RAATTY 1 cut(s) 387
AcuI CTGAAG 1 cut(s) 993
AcyI GRCGYC 2 cut(s) 486, 659
AfaI GTAC 3 cut(s) 143, 353, 935
AfeI AGCGCT 1 cut(s) 960
AfiI CCNNNNNNNGG 3 cut(s) 241, 248, 456
AflIII ACRYGT 3 cut(s) 634, 720, 862
AgeI ACCGGT 1 cut(s) 774
AgsI TTSAA 6 cut(s) 74, 226, 319, 446, 835, 903
AhdI GACNNNNNGTC 2 cut(s) 413, 721
AloI GAACNNNNNNTCC 2 cut(s) 725, 757
Alw21I GWGCWC 1 cut(s) 334
Alw26I GTCTC 2 cut(s) 668, 987
AlwI GGATC 1 cut(s) 208
Aor51HI AGCGCT 1 cut(s) 960
AoxI GGCC 2 cut(s) 231, 522
ApeKI GCWGC 6 cut(s) 193, 500, 568, 573, 919, 922
ApoI RAATTY 1 cut(s) 387
AsiGI ACCGGT 1 cut(s) 774
AspLEI GCGC 3 cut(s) 403, 573, 961
AspS9I GGNCC 5 cut(s) 232, 244, 407, 415, 772
AsuC2I CCSGG 2 cut(s) 230, 423
AsuHPI GGTGA 3 cut(s) 368, 877, 982
AsuNHI GCTAGC 1 cut(s) 616
AvaII GGWCC 4 cut(s) 244, 407, 415, 772
BanI GGYRCC 1 cut(s) 685
BanII GRGCYC 1 cut(s) 334
BbsI GAAGAC 1 cut(s) 434
Bbv12I GWGCWC 1 cut(s) 334
BbvI GCAGC 6 cut(s) 205, 512, 555, 585, 931, 934
BccI CCATC 3 cut(s) 343, 406, 967
BceAI ACGGC 2 cut(s) 668, 1040
BclI TGATCA 1 cut(s) 169
BcnI CCSGG 2 cut(s) 230, 423
BcoDI GTCTC 2 cut(s) 668, 987
BfaI CTAG 3 cut(s) 275, 404, 617
BfmI CTRYAG 2 cut(s) 191, 341
BfoI RGCGCY 2 cut(s) 404, 962
BglII AGATCT 1 cut(s) 781
BisI GCNGC 7 cut(s) 194, 501, 569, 574, 920, 923, 985
BlpI GCTNAGC 1 cut(s) 564
BlsI GCNGC 7 cut(s) 195, 502, 570, 575, 921, 924, 986
BmcAI AGTACT 1 cut(s) 935
Bme1390I CCNGG 2 cut(s) 230, 423
Bme18I GGWCC 4 cut(s) 244, 407, 415, 772
BmeRI GACNNNNNGTC 2 cut(s) 413, 721
BmgT120I GGNCC 5 cut(s) 232, 244, 407, 415, 772
BmiI GGNNCC 2 cut(s) 432, 687
BmrFI CCNGG 2 cut(s) 230, 423
BmsI GCATC 2 cut(s) 99, 374
BmtI GCTAGC 1 cut(s) 620
BpiI GAAGAC 1 cut(s) 434
BpmI CTGGAG 1 cut(s) 270
Bpu1102I GCTNAGC 1 cut(s) 564
BpuEI CTTGAG 2 cut(s) 794, 947
BpuMI CCSGG 2 cut(s) 230, 423
BsaAI YACGTR 1 cut(s) 351
BsaHI GRCGYC 2 cut(s) 486, 659
BsaI GGTCTC 1 cut(s) 668
BsaJI CCNNGG 3 cut(s) 197, 247, 489
BsaWI WCCGGW 4 cut(s) 241, 682, 774, 887
BsaXI ACNNNNNCTCC 4 cut(s) 193, 223, 725, 755
Bsc4I CCNNNNNNNGG 3 cut(s) 241, 248, 456
Bse118I RCCGGY 1 cut(s) 774
Bse1I ACTGG 2 cut(s) 309, 678
Bse3DI GCAATG 1 cut(s) 611
BseDI CCNNGG 3 cut(s) 197, 247, 489
BseGI GGATG 2 cut(s) 299, 365
BseLI CCNNNNNNNGG 3 cut(s) 241, 248, 456
BseMI GCAATG 1 cut(s) 611
BseMII CTCAG 2 cut(s) 397, 831
BseNI ACTGG 2 cut(s) 309, 678
BseRI GAGGAG 4 cut(s) 273, 342, 746, 1005
BseXI GCAGC 6 cut(s) 205, 512, 555, 585, 931, 934
BseYI CCCAGC 2 cut(s) 454, 584
Bsh1236I CGCG 2 cut(s) 722, 864
Bsh1285I CGRYCG 2 cut(s) 148, 693
BshFI GGCC 2 cut(s) 233, 524
BshNI GGYRCC 1 cut(s) 685
BshTI ACCGGT 1 cut(s) 774
BsiEI CGRYCG 2 cut(s) 148, 693
BsiHKAI GWGCWC 1 cut(s) 334
BsiSI CCGG 6 cut(s) 230, 242, 423, 683, 775, 888
BsiWI CGTACG 1 cut(s) 351
BslFI GGGAC 2 cut(s) 263, 266
BslI CCNNNNNNNGG 3 cut(s) 241, 248, 456
BsmAI GTCTC 2 cut(s) 668, 987
BsmBI CGTCTC 1 cut(s) 987
BsmFI GGGAC 2 cut(s) 263, 266
BsnI GGCC 2 cut(s) 233, 524
Bso31I GGTCTC 1 cut(s) 668
Bsp1286I GDGCHC 1 cut(s) 334
Bsp143I GATC 8 cut(s) 22, 169, 213, 370, 708, 781, 793, 843
Bsp1720I GCTNAGC 1 cut(s) 564
Bsp19I CCATGG 1 cut(s) 197
BspACI CCGC 3 cut(s) 968, 984, 987
BspANI GGCC 2 cut(s) 233, 524
BspCNI CTCAG 2 cut(s) 396, 832
BspFNI CGCG 2 cut(s) 722, 864
BspHI TCATGA 1 cut(s) 166
BspLI GGNNCC 2 cut(s) 432, 687
BspMAI CTGCAG 1 cut(s) 195
BspOI GCTAGC 1 cut(s) 620
BspPI GGATC 1 cut(s) 208
BspQI GCTCTTC 2 cut(s) 909, 974
BspT107I GGYRCC 1 cut(s) 685
BspTNI GGTCTC 1 cut(s) 668
BsrBI CCGCTC 1 cut(s) 984
BsrDI GCAATG 1 cut(s) 611
BsrFI RCCGGY 1 cut(s) 774
BsrI ACTGG 2 cut(s) 309, 678
BssAI RCCGGY 1 cut(s) 774
BssECI CCNNGG 3 cut(s) 197, 247, 489
BssMI GATC 8 cut(s) 22, 169, 213, 370, 708, 781, 793, 843
BssNI GRCGYC 2 cut(s) 486, 659
BssT1I CCWWGG 2 cut(s) 197, 489
Bst4CI ACNGT 4 cut(s) 146, 345, 359, 938
Bst6I CTCTTC 4 cut(s) 319, 532, 909, 974
BstACI GRCGYC 2 cut(s) 486, 659
BstBAI YACGTR 1 cut(s) 351
BstC8I GCNNGC 1 cut(s) 618
BstDEI CTNAG 3 cut(s) 383, 564, 840
BstDSI CCRYGG 1 cut(s) 197
BstF5I GGATG 2 cut(s) 299, 365
BstFNI CGCG 2 cut(s) 722, 864
BstH2I RGCGCY 2 cut(s) 404, 962
BstHHI GCGC 3 cut(s) 403, 573, 961
BstKTI GATC 8 cut(s) 25, 172, 216, 373, 711, 784, 796, 846
BstMAI GTCTC 2 cut(s) 668, 987
BstMBI GATC 8 cut(s) 22, 169, 213, 370, 708, 781, 793, 843
BstMCI CGRYCG 2 cut(s) 148, 693
BstMWI GCNNNNNNNGC 4 cut(s) 500, 652, 928, 965
BstNSI RCATGY 1 cut(s) 638
BstSCI CCNGG 2 cut(s) 228, 421
BstSFI CTRYAG 2 cut(s) 191, 341
BstUI CGCG 2 cut(s) 722, 864
BstV1I GCAGC 6 cut(s) 205, 512, 555, 585, 931, 934
BstV2I GAAGAC 1 cut(s) 434
BstX2I RGATCY 1 cut(s) 781
BstYI RGATCY 1 cut(s) 781
BsuRI GGCC 2 cut(s) 233, 524
BtgI CCRYGG 1 cut(s) 197
BtsCI GGATG 2 cut(s) 299, 365
BtsI GCAGTG 1 cut(s) 1021
BtsIMutI CAGTG 1 cut(s) 1021
Cac8I GCNNGC 1 cut(s) 618
CciI TCATGA 1 cut(s) 166
CfoI GCGC 3 cut(s) 403, 573, 961
Cfr10I RCCGGY 1 cut(s) 774
Cfr13I GGNCC 5 cut(s) 232, 244, 407, 415, 772
CpoI CGGWCCG 1 cut(s) 244
CseI GACGC 4 cut(s) 494, 711, 728, 870
Csp6I GTAC 3 cut(s) 142, 352, 934
CspAI ACCGGT 1 cut(s) 774
CspI CGGWCCG 1 cut(s) 244
CviAII CATG 4 cut(s) 167, 198, 481, 635
CviQI GTAC 3 cut(s) 142, 352, 934
DdeI CTNAG 3 cut(s) 383, 564, 840
DpnI GATC 8 cut(s) 24, 171, 215, 372, 710, 783, 795, 845
DpnII GATC 8 cut(s) 22, 169, 213, 370, 708, 781, 793, 843
DriI GACNNNNNGTC 2 cut(s) 413, 721
Eam1104I CTCTTC 4 cut(s) 319, 532, 909, 974
Eam1105I GACNNNNNGTC 2 cut(s) 413, 721
EarI CTCTTC 4 cut(s) 319, 532, 909, 974
EciI GGCGGA 1 cut(s) 1002
Ecl136II GAGCTC 1 cut(s) 332
Eco130I CCWWGG 2 cut(s) 197, 489
Eco24I GRGCYC 1 cut(s) 334
Eco31I GGTCTC 1 cut(s) 668
Eco47I GGWCC 4 cut(s) 244, 407, 415, 772
Eco47III AGCGCT 1 cut(s) 960
Eco53kI GAGCTC 1 cut(s) 332
Eco57I CTGAAG 1 cut(s) 993
EcoICRI GAGCTC 1 cut(s) 332
EcoT14I CCWWGG 2 cut(s) 197, 489
EcoT38I GRGCYC 1 cut(s) 334
ErhI CCWWGG 2 cut(s) 197, 489
Esp3I CGTCTC 1 cut(s) 987
FaeI CATG 4 cut(s) 170, 201, 484, 638
FaiI YATR 6 cut(s) 168, 199, 306, 482, 636, 941
FaqI GGGAC 2 cut(s) 263, 266
FatI CATG 4 cut(s) 166, 197, 480, 634
FbaI TGATCA 1 cut(s) 169
Fnu4HI GCNGC 7 cut(s) 194, 501, 569, 574, 920, 923, 985
FokI GGATG 2 cut(s) 286, 352
FriOI GRGCYC 1 cut(s) 334
Fsp4HI GCNGC 7 cut(s) 194, 501, 569, 574, 920, 923, 985
FspBI CTAG 3 cut(s) 275, 404, 617
FspI TGCGCA 1 cut(s) 572
GlaI GCGC 3 cut(s) 402, 572, 960
GluI GCNGC 7 cut(s) 194, 501, 569, 574, 920, 923, 985
GsaI CCCAGC 2 cut(s) 458, 588
GsuI CTGGAG 1 cut(s) 270
HaeII RGCGCY 2 cut(s) 404, 962
HaeIII GGCC 2 cut(s) 233, 524
HapII CCGG 6 cut(s) 230, 242, 423, 683, 775, 888
HgaI GACGC 4 cut(s) 494, 711, 728, 870
HhaI GCGC 3 cut(s) 403, 573, 961
Hin1I GRCGYC 2 cut(s) 486, 659
Hin1II CATG 4 cut(s) 170, 201, 484, 638
Hin6I GCGC 3 cut(s) 401, 571, 959
HinP1I GCGC 3 cut(s) 401, 571, 959
HincII GTYRAC 1 cut(s) 465
HindII GTYRAC 1 cut(s) 465
HinfI GANTC 4 cut(s) 43, 202, 899, 998
HpaII CCGG 6 cut(s) 230, 242, 423, 683, 775, 888
HphI GGTGA 3 cut(s) 368, 877, 982
Hpy166II GTNNAC 5 cut(s) 38, 348, 465, 715, 860
Hpy188I TCNGA 7 cut(s) 213, 248, 370, 386, 397, 727, 781
Hpy188III TCNNGA 3 cut(s) 74, 167, 802
Hpy8I GTNNAC 5 cut(s) 38, 348, 465, 715, 860
Hpy99I CGWCG 3 cut(s) 359, 722, 727
HpyAV CCTTC 1 cut(s) 634
HpyCH4III ACNGT 4 cut(s) 146, 345, 359, 938
HpyCH4IV ACGT 4 cut(s) 350, 659, 820, 851
HpyCH4V TGCA 2 cut(s) 112, 193
HpyF10VI GCNNNNNNNGC 4 cut(s) 500, 652, 928, 965
HpyF3I CTNAG 3 cut(s) 383, 564, 840
HpySE526I ACGT 4 cut(s) 350, 659, 820, 851
Hsp92I GRCGYC 2 cut(s) 486, 659
Hsp92II CATG 4 cut(s) 170, 201, 484, 638
HspAI GCGC 3 cut(s) 401, 571, 959
Ksp22I TGATCA 1 cut(s) 169
Kzo9I GATC 8 cut(s) 22, 169, 213, 370, 708, 781, 793, 843
LguI GCTCTTC 2 cut(s) 909, 974
LmnI GCTCC 6 cut(s) 181, 295, 329, 337, 436, 643
Lsp1109I GCAGC 6 cut(s) 205, 512, 555, 585, 931, 934
LweI GCATC 2 cut(s) 99, 374
MaeI CTAG 3 cut(s) 275, 404, 617
MaeII ACGT 4 cut(s) 350, 659, 820, 851
MaeIII GTNAC 1 cut(s) 512
MalI GATC 8 cut(s) 24, 171, 215, 372, 710, 783, 795, 845
MbiI CCGCTC 1 cut(s) 984
MboI GATC 8 cut(s) 22, 169, 213, 370, 708, 781, 793, 843
MflI RGATCY 1 cut(s) 781
MhlI GDGCHC 1 cut(s) 334
MluCI AATT 2 cut(s) 387, 1003
MluI ACGCGT 2 cut(s) 720, 862
MlyI GAGTC 3 cut(s) 52, 196, 992
MmeI TCCRAC 2 cut(s) 115, 705
MseI TTAA 1 cut(s) 1020
MspI CCGG 6 cut(s) 230, 242, 423, 683, 775, 888
MspR9I CCNGG 2 cut(s) 230, 423
MvnI CGCG 2 cut(s) 722, 864
MwoI GCNNNNNNNGC 4 cut(s) 500, 652, 928, 965
NciI CCSGG 2 cut(s) 230, 423
NcoI CCATGG 1 cut(s) 197
NdeII GATC 8 cut(s) 22, 169, 213, 370, 708, 781, 793, 843
NheI GCTAGC 1 cut(s) 616
NlaIII CATG 4 cut(s) 170, 201, 484, 638
NlaIV GGNNCC 2 cut(s) 432, 687
NmeAIII GCCGAG 1 cut(s) 475
NmuCI GTSAC 1 cut(s) 512
NsbI TGCGCA 1 cut(s) 572
NspI RCATGY 1 cut(s) 638
PagI TCATGA 1 cut(s) 166
PciI ACATGT 1 cut(s) 634
PciSI GCTCTTC 2 cut(s) 909, 974
PcsI WCGNNNNNNNCGW 2 cut(s) 708, 726
PfeI GAWTC 1 cut(s) 899
Pfl23II CGTACG 1 cut(s) 351
PinAI ACCGGT 1 cut(s) 774
PkrI GCNGC 7 cut(s) 195, 502, 570, 575, 921, 924, 986
PleI GAGTC 3 cut(s) 51, 196, 992
PpsI GAGTC 3 cut(s) 51, 196, 992
Ppu21I YACGTR 1 cut(s) 351
PscI ACATGT 1 cut(s) 634
Psp124BI GAGCTC 1 cut(s) 334
Psp1406I AACGTT 1 cut(s) 851
PspFI CCCAGC 2 cut(s) 454, 584
PspLI CGTACG 1 cut(s) 351
PspN4I GGNNCC 2 cut(s) 432, 687
PspPI GGNCC 5 cut(s) 232, 244, 407, 415, 772
PstI CTGCAG 1 cut(s) 195
PsuI RGATCY 1 cut(s) 781
RsaI GTAC 3 cut(s) 143, 353, 935
RsaNI GTAC 3 cut(s) 142, 352, 934
Rsr2I CGGWCCG 1 cut(s) 244
RsrII CGGWCCG 1 cut(s) 244
SacI GAGCTC 1 cut(s) 334
SapI GCTCTTC 2 cut(s) 909, 974
SaqAI TTAA 1 cut(s) 1020
SatI GCNGC 7 cut(s) 194, 501, 569, 574, 920, 923, 985
Sau3AI GATC 8 cut(s) 22, 169, 213, 370, 708, 781, 793, 843
Sau96I GGNCC 5 cut(s) 232, 244, 407, 415, 772
ScaI AGTACT 1 cut(s) 935
SchI GAGTC 3 cut(s) 52, 196, 992
ScrFI CCNGG 2 cut(s) 230, 423
SduI GDGCHC 1 cut(s) 334
SfaNI GCATC 2 cut(s) 99, 374
SfcI CTRYAG 2 cut(s) 191, 341
SinI GGWCC 4 cut(s) 244, 407, 415, 772
SmlI CTYRAG 2 cut(s) 809, 962
SmoI CTYRAG 2 cut(s) 809, 962
Sse9I AATT 2 cut(s) 387, 1003
SsiI CCGC 3 cut(s) 968, 984, 987
SspMI CTAG 3 cut(s) 275, 404, 617
SstI GAGCTC 1 cut(s) 334
StyD4I CCNGG 2 cut(s) 228, 421
StyI CCWWGG 2 cut(s) 197, 489
TaaI ACNGT 4 cut(s) 146, 345, 359, 938
TaiI ACGT 4 cut(s) 353, 662, 823, 854
TaqI TCGA 3 cut(s) 148, 264, 947
TaqII GACCGA 3 cut(s) 424, 428, 707
TasI AATT 2 cut(s) 387, 1003
TatI WGTACW 1 cut(s) 933
TauI GCSGC 1 cut(s) 987
TfiI GAWTC 1 cut(s) 899
Tru1I TTAA 1 cut(s) 1020
Tru9I TTAA 1 cut(s) 1020
TscAI CASTG 1 cut(s) 1021
TseFI GTSAC 1 cut(s) 512
TseI GCWGC 6 cut(s) 193, 500, 568, 573, 919, 922
Tsp45I GTSAC 1 cut(s) 512
TspDTI ATGAA 1 cut(s) 871
TspGWI ACGGA 1 cut(s) 614
TspRI CASTG 1 cut(s) 1021
VpaK11BI GGWCC 4 cut(s) 244, 407, 415, 772
XapI RAATTY 1 cut(s) 387
XceI RCATGY 1 cut(s) 638
XspI CTAG 3 cut(s) 275, 404, 617
ZraI GACGTC 1 cut(s) 660
ZrmI AGTACT 1 cut(s) 935
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.