RchiOBHm_Chr4g0435901

transcription factor

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
4
OG0012088
Physical Location & Seq
Reverse (-)
59308327 .. 59312260
3934 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ40429

Sequence Viewer

Length: 1062 bp
ATGTGTGGAAAGAAAGAAGATCAAGGCGAGTGTTCACAGAGTCATCATCATCAACAAGTCCAAAACTTTCAAGAGCAGTTGCTTCTCCAACAACAACAACAGATGATGCAACAACAACAACAAAACCACAACGAATTGTACGGTCGGGGATTGATTTCCCCCCATGATCAAGCTCCACCTCCAATCCTGCAGCCATGGACCCTCCCTCCGATCCACGCTTTCAACCCGGCCCACTTTCCTGTCCGAGGGGACAACAACATCGACCCATTTCTAGTCCCTCCTCCAGCTCCCTCATCATCCTATGCCAGTTTCTTCAACAGAAGAGGAGCTCCATCACTACAGTTCACGTACGACGGTTCATCATCCGATCATCACCACCTCAGAATTTTATCGGAGGCGCTAGGACCGATGGTCCAGCCCGGTTCGGCTCCTTTCGGTCTTCAAGCCGAGCTGGGGAAGTTGACAGCCCAAGAAATCATGGATGCCAAGGCACTCGCAGCTTCCAAAAGTCACAGCGAGGCCGAAAGAAGAAGAAGAGAGAGAATAAATAACCACCTTGCTAAGCTGCGCAGCCTATTACCCAGCACCACGAAAACAGACAAAGCCTCATTGCTAGCCGAAGTGATACAACATGTGAAGGAGCTGAAACGGCAGACGTCTGTAATAGCAGAGACCAGTCCGGTGCCGACCGAAACAGACGAGCTGATCGTGGACGACGCGTCGGACGAGGAGGGCAAGTTCGTAATCAAAGCCTCGCTGTGTTGCGAGGACCGGTCGGATCTGTTGCCTGATCTCATCAAGACACTCAAGGCATTACGTTTGAGAACATTGAAAGCTGAGATCACAACGTTAGGTGGACGCGTGAAGAATGTTTTATTCATCACCGGAGAAGAAGATTCAAGTAGTAGCGAAGAGCAGCAGCAACAGCAGTACTGTATAAGCTCGATACAAGAAGCGCTCAAGGCTGTGATGGAGAAGAGCGGCGGAGGAGACGACTCTAATTCTTCAGGCAGTGTTAAACGGCAAAGGACTACTAATAATACCAACATCAATATCCTCTAA
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

353

Amino Acids

39.14

Weight (kDa)

6.12

Isoelectric Point (pI)

69.88

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
HLH PF00010 169 - 216 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) 659
Acc16I TGCGCA 1 cut(s) 569
AccB1I GGYRCC 1 cut(s) 682
AccBSI CCGCTC 1 cut(s) 981
AccII CGCG 2 cut(s) 719, 861
AciI CCGC 2 cut(s) 981, 984
AclI AACGTT 1 cut(s) 848
AclWI GGATC 2 cut(s) 205, 786
AcsI RAATTY 1 cut(s) 384
AcuI CTGAAG 1 cut(s) 990
AcyI GRCGYC 1 cut(s) 656
AfaI GTAC 3 cut(s) 140, 350, 932
AfeI AGCGCT 1 cut(s) 957
AfiI CCNNNNNNNGG 2 cut(s) 245, 453
AflIII ACRYGT 3 cut(s) 631, 717, 859
AgeI ACCGGT 1 cut(s) 771
AgsI TTSAA 6 cut(s) 71, 223, 316, 443, 832, 900
AhdI GACNNNNNGTC 2 cut(s) 410, 718
AloI GAACNNNNNNTCC 2 cut(s) 722, 754
Alw21I GWGCWC 1 cut(s) 331
Alw26I GTCTC 2 cut(s) 665, 984
AlwI GGATC 2 cut(s) 205, 786
Aor51HI AGCGCT 1 cut(s) 957
AoxI GGCC 2 cut(s) 228, 519
ApeKI GCWGC 6 cut(s) 190, 497, 565, 570, 916, 919
ApoI RAATTY 1 cut(s) 384
AsiGI ACCGGT 1 cut(s) 771
AspLEI GCGC 3 cut(s) 400, 570, 958
AspS9I GGNCC 5 cut(s) 198, 229, 404, 412, 769
AsuC2I CCSGG 2 cut(s) 227, 420
AsuHPI GGTGA 2 cut(s) 365, 874
AsuNHI GCTAGC 1 cut(s) 613
AvaII GGWCC 4 cut(s) 198, 404, 412, 769
BanI GGYRCC 1 cut(s) 682
BanII GRGCYC 1 cut(s) 331
BbsI GAAGAC 1 cut(s) 431
Bbv12I GWGCWC 1 cut(s) 331
BbvI GCAGC 6 cut(s) 202, 509, 552, 582, 928, 931
BccI CCATC 3 cut(s) 340, 403, 964
BceAI ACGGC 2 cut(s) 665, 1037
BclI TGATCA 1 cut(s) 166
BcnI CCSGG 2 cut(s) 227, 420
BcoDI GTCTC 2 cut(s) 665, 984
BfaI CTAG 3 cut(s) 272, 401, 614
BfmI CTRYAG 2 cut(s) 188, 338
BfoI RGCGCY 2 cut(s) 401, 959
BisI GCNGC 7 cut(s) 191, 498, 566, 571, 917, 920, 982
BlpI GCTNAGC 1 cut(s) 561
BlsI GCNGC 7 cut(s) 192, 499, 567, 572, 918, 921, 983
BmcAI AGTACT 1 cut(s) 932
Bme1390I CCNGG 2 cut(s) 227, 420
Bme18I GGWCC 4 cut(s) 198, 404, 412, 769
BmeRI GACNNNNNGTC 2 cut(s) 410, 718
BmgT120I GGNCC 5 cut(s) 198, 229, 404, 412, 769
BmiI GGNNCC 3 cut(s) 200, 429, 684
BmrFI CCNGG 2 cut(s) 227, 420
BmsI GCATC 2 cut(s) 96, 472
BmtI GCTAGC 1 cut(s) 617
BpiI GAAGAC 1 cut(s) 431
BpmI CTGGAG 1 cut(s) 267
Bpu1102I GCTNAGC 1 cut(s) 561
BpuEI CTTGAG 2 cut(s) 791, 944
BpuMI CCSGG 2 cut(s) 227, 420
BsaAI YACGTR 1 cut(s) 348
BsaHI GRCGYC 1 cut(s) 656
BsaI GGTCTC 1 cut(s) 665
BsaJI CCNNGG 3 cut(s) 194, 244, 486
BsaWI WCCGGW 3 cut(s) 679, 771, 884
BsaXI ACNNNNNCTCC 4 cut(s) 190, 220, 722, 752
Bsc4I CCNNNNNNNGG 2 cut(s) 245, 453
Bse118I RCCGGY 1 cut(s) 771
Bse1I ACTGG 2 cut(s) 306, 675
Bse3DI GCAATG 1 cut(s) 608
BseDI CCNNGG 3 cut(s) 194, 244, 486
BseGI GGATG 3 cut(s) 296, 362, 487
BseLI CCNNNNNNNGG 2 cut(s) 245, 453
BseMI GCAATG 1 cut(s) 608
BseMII CTCAG 2 cut(s) 394, 828
BseNI ACTGG 2 cut(s) 306, 675
BseRI GAGGAG 4 cut(s) 270, 339, 743, 1002
BseXI GCAGC 6 cut(s) 202, 509, 552, 582, 928, 931
BseYI CCCAGC 2 cut(s) 451, 581
Bsh1236I CGCG 2 cut(s) 719, 861
Bsh1285I CGRYCG 3 cut(s) 145, 690, 776
BshFI GGCC 2 cut(s) 230, 521
BshNI GGYRCC 1 cut(s) 682
BshTI ACCGGT 1 cut(s) 771
BsiEI CGRYCG 3 cut(s) 145, 690, 776
BsiHKAI GWGCWC 1 cut(s) 331
BsiSI CCGG 5 cut(s) 227, 420, 680, 772, 885
BsiWI CGTACG 1 cut(s) 348
BslFI GGGAC 2 cut(s) 260, 263
BslI CCNNNNNNNGG 2 cut(s) 245, 453
BsmAI GTCTC 2 cut(s) 665, 984
BsmBI CGTCTC 1 cut(s) 984
BsmFI GGGAC 2 cut(s) 260, 263
BsnI GGCC 2 cut(s) 230, 521
Bso31I GGTCTC 1 cut(s) 665
Bsp1286I GDGCHC 1 cut(s) 331
Bsp143I GATC 8 cut(s) 19, 166, 210, 367, 705, 778, 790, 840
Bsp1720I GCTNAGC 1 cut(s) 561
Bsp19I CCATGG 1 cut(s) 194
BspACI CCGC 2 cut(s) 981, 984
BspANI GGCC 2 cut(s) 230, 521
BspCNI CTCAG 2 cut(s) 393, 829
BspFNI CGCG 2 cut(s) 719, 861
BspLI GGNNCC 3 cut(s) 200, 429, 684
BspMAI CTGCAG 1 cut(s) 192
BspOI GCTAGC 1 cut(s) 617
BspPI GGATC 2 cut(s) 205, 786
BspQI GCTCTTC 2 cut(s) 906, 971
BspT107I GGYRCC 1 cut(s) 682
BspTNI GGTCTC 1 cut(s) 665
BsrBI CCGCTC 1 cut(s) 981
BsrDI GCAATG 1 cut(s) 608
BsrFI RCCGGY 1 cut(s) 771
BsrI ACTGG 2 cut(s) 306, 675
BssAI RCCGGY 1 cut(s) 771
BssECI CCNNGG 3 cut(s) 194, 244, 486
BssMI GATC 8 cut(s) 19, 166, 210, 367, 705, 778, 790, 840
BssNI GRCGYC 1 cut(s) 656
BssT1I CCWWGG 2 cut(s) 194, 486
Bst4CI ACNGT 4 cut(s) 143, 342, 356, 935
Bst6I CTCTTC 4 cut(s) 316, 529, 906, 971
BstACI GRCGYC 1 cut(s) 656
BstBAI YACGTR 1 cut(s) 348
BstC8I GCNNGC 1 cut(s) 615
BstDEI CTNAG 3 cut(s) 380, 561, 837
BstDSI CCRYGG 1 cut(s) 194
BstENI CCTNNNNNAGG 1 cut(s) 243
BstF5I GGATG 3 cut(s) 296, 362, 487
BstFNI CGCG 2 cut(s) 719, 861
BstH2I RGCGCY 2 cut(s) 401, 959
BstHHI GCGC 3 cut(s) 400, 570, 958
BstKTI GATC 8 cut(s) 22, 169, 213, 370, 708, 781, 793, 843
BstMAI GTCTC 2 cut(s) 665, 984
BstMBI GATC 8 cut(s) 19, 166, 210, 367, 705, 778, 790, 840
BstMCI CGRYCG 3 cut(s) 145, 690, 776
BstMWI GCNNNNNNNGC 4 cut(s) 497, 649, 925, 962
BstNSI RCATGY 1 cut(s) 635
BstSCI CCNGG 2 cut(s) 225, 418
BstSFI CTRYAG 2 cut(s) 188, 338
BstUI CGCG 2 cut(s) 719, 861
BstV1I GCAGC 6 cut(s) 202, 509, 552, 582, 928, 931
BstV2I GAAGAC 1 cut(s) 431
BstX2I RGATCY 1 cut(s) 778
BstYI RGATCY 1 cut(s) 778
BsuRI GGCC 2 cut(s) 230, 521
BtgI CCRYGG 1 cut(s) 194
BtsCI GGATG 3 cut(s) 296, 362, 487
BtsI GCAGTG 1 cut(s) 1018
BtsIMutI CAGTG 1 cut(s) 1018
Cac8I GCNNGC 1 cut(s) 615
CfoI GCGC 3 cut(s) 400, 570, 958
Cfr10I RCCGGY 1 cut(s) 771
Cfr13I GGNCC 5 cut(s) 198, 229, 404, 412, 769
CseI GACGC 3 cut(s) 708, 725, 867
Csp6I GTAC 3 cut(s) 139, 349, 931
CspAI ACCGGT 1 cut(s) 771
CviAII CATG 4 cut(s) 164, 195, 478, 632
CviQI GTAC 3 cut(s) 139, 349, 931
DdeI CTNAG 3 cut(s) 380, 561, 837
DpnI GATC 8 cut(s) 21, 168, 212, 369, 707, 780, 792, 842
DpnII GATC 8 cut(s) 19, 166, 210, 367, 705, 778, 790, 840
DriI GACNNNNNGTC 2 cut(s) 410, 718
Eam1104I CTCTTC 4 cut(s) 316, 529, 906, 971
Eam1105I GACNNNNNGTC 2 cut(s) 410, 718
EarI CTCTTC 4 cut(s) 316, 529, 906, 971
EciI GGCGGA 1 cut(s) 999
Ecl136II GAGCTC 1 cut(s) 329
Eco130I CCWWGG 2 cut(s) 194, 486
Eco24I GRGCYC 1 cut(s) 331
Eco31I GGTCTC 1 cut(s) 665
Eco47I GGWCC 4 cut(s) 198, 404, 412, 769
Eco47III AGCGCT 1 cut(s) 957
Eco53kI GAGCTC 1 cut(s) 329
Eco57I CTGAAG 1 cut(s) 990
EcoICRI GAGCTC 1 cut(s) 329
EcoNI CCTNNNNNAGG 1 cut(s) 243
EcoT14I CCWWGG 2 cut(s) 194, 486
EcoT38I GRGCYC 1 cut(s) 331
ErhI CCWWGG 2 cut(s) 194, 486
Esp3I CGTCTC 1 cut(s) 984
FaeI CATG 4 cut(s) 167, 198, 481, 635
FaiI YATR 6 cut(s) 165, 196, 303, 479, 633, 938
FaqI GGGAC 2 cut(s) 260, 263
FatI CATG 4 cut(s) 163, 194, 477, 631
FbaI TGATCA 1 cut(s) 166
Fnu4HI GCNGC 7 cut(s) 191, 498, 566, 571, 917, 920, 982
FokI GGATG 3 cut(s) 283, 349, 494
FriOI GRGCYC 1 cut(s) 331
Fsp4HI GCNGC 7 cut(s) 191, 498, 566, 571, 917, 920, 982
FspBI CTAG 3 cut(s) 272, 401, 614
FspI TGCGCA 1 cut(s) 569
GlaI GCGC 3 cut(s) 399, 569, 957
GluI GCNGC 7 cut(s) 191, 498, 566, 571, 917, 920, 982
GsaI CCCAGC 2 cut(s) 455, 585
GsuI CTGGAG 1 cut(s) 267
HaeII RGCGCY 2 cut(s) 401, 959
HaeIII GGCC 2 cut(s) 230, 521
HapII CCGG 5 cut(s) 227, 420, 680, 772, 885
HgaI GACGC 3 cut(s) 708, 725, 867
HhaI GCGC 3 cut(s) 400, 570, 958
Hin1I GRCGYC 1 cut(s) 656
Hin1II CATG 4 cut(s) 167, 198, 481, 635
Hin6I GCGC 3 cut(s) 398, 568, 956
HinP1I GCGC 3 cut(s) 398, 568, 956
HincII GTYRAC 1 cut(s) 462
HindII GTYRAC 1 cut(s) 462
HinfI GANTC 3 cut(s) 40, 896, 995
HpaII CCGG 5 cut(s) 227, 420, 680, 772, 885
HphI GGTGA 2 cut(s) 365, 874
Hpy166II GTNNAC 5 cut(s) 35, 345, 462, 712, 857
Hpy188I TCNGA 7 cut(s) 210, 245, 367, 383, 394, 724, 778
Hpy188III TCNNGA 2 cut(s) 71, 799
Hpy8I GTNNAC 5 cut(s) 35, 345, 462, 712, 857
Hpy99I CGWCG 3 cut(s) 356, 719, 724
HpyAV CCTTC 1 cut(s) 631
HpyCH4III ACNGT 4 cut(s) 143, 342, 356, 935
HpyCH4IV ACGT 4 cut(s) 347, 656, 817, 848
HpyCH4V TGCA 2 cut(s) 109, 190
HpyF10VI GCNNNNNNNGC 4 cut(s) 497, 649, 925, 962
HpyF3I CTNAG 3 cut(s) 380, 561, 837
HpySE526I ACGT 4 cut(s) 347, 656, 817, 848
Hsp92I GRCGYC 1 cut(s) 656
Hsp92II CATG 4 cut(s) 167, 198, 481, 635
HspAI GCGC 3 cut(s) 398, 568, 956
Ksp22I TGATCA 1 cut(s) 166
Kzo9I GATC 8 cut(s) 19, 166, 210, 367, 705, 778, 790, 840
LguI GCTCTTC 2 cut(s) 906, 971
LmnI GCTCC 6 cut(s) 178, 292, 326, 334, 433, 640
Lsp1109I GCAGC 6 cut(s) 202, 509, 552, 582, 928, 931
LweI GCATC 2 cut(s) 96, 472
MaeI CTAG 3 cut(s) 272, 401, 614
MaeII ACGT 4 cut(s) 347, 656, 817, 848
MaeIII GTNAC 1 cut(s) 509
MalI GATC 8 cut(s) 21, 168, 212, 369, 707, 780, 792, 842
MbiI CCGCTC 1 cut(s) 981
MboI GATC 8 cut(s) 19, 166, 210, 367, 705, 778, 790, 840
MflI RGATCY 1 cut(s) 778
MhlI GDGCHC 1 cut(s) 331
MluCI AATT 3 cut(s) 134, 384, 1000
MluI ACGCGT 2 cut(s) 717, 859
MlyI GAGTC 2 cut(s) 49, 989
MmeI TCCRAC 3 cut(s) 112, 702, 756
MseI TTAA 1 cut(s) 1017
MspI CCGG 5 cut(s) 227, 420, 680, 772, 885
MspR9I CCNGG 2 cut(s) 227, 420
MvnI CGCG 2 cut(s) 719, 861
MwoI GCNNNNNNNGC 4 cut(s) 497, 649, 925, 962
NciI CCSGG 2 cut(s) 227, 420
NcoI CCATGG 1 cut(s) 194
NdeII GATC 8 cut(s) 19, 166, 210, 367, 705, 778, 790, 840
NheI GCTAGC 1 cut(s) 613
NlaIII CATG 4 cut(s) 167, 198, 481, 635
NlaIV GGNNCC 3 cut(s) 200, 429, 684
NmeAIII GCCGAG 1 cut(s) 472
NmuCI GTSAC 1 cut(s) 509
NsbI TGCGCA 1 cut(s) 569
NspI RCATGY 1 cut(s) 635
PciI ACATGT 1 cut(s) 631
PciSI GCTCTTC 2 cut(s) 906, 971
PcsI WCGNNNNNNNCGW 2 cut(s) 705, 723
PfeI GAWTC 1 cut(s) 896
Pfl23II CGTACG 1 cut(s) 348
PinAI ACCGGT 1 cut(s) 771
PkrI GCNGC 7 cut(s) 192, 499, 567, 572, 918, 921, 983
PleI GAGTC 2 cut(s) 48, 989
PpsI GAGTC 2 cut(s) 48, 989
Ppu21I YACGTR 1 cut(s) 348
PscI ACATGT 1 cut(s) 631
Psp124BI GAGCTC 1 cut(s) 331
Psp1406I AACGTT 1 cut(s) 848
PspFI CCCAGC 2 cut(s) 451, 581
PspLI CGTACG 1 cut(s) 348
PspN4I GGNNCC 3 cut(s) 200, 429, 684
PspPI GGNCC 5 cut(s) 198, 229, 404, 412, 769
PstI CTGCAG 1 cut(s) 192
PsuI RGATCY 1 cut(s) 778
RsaI GTAC 3 cut(s) 140, 350, 932
RsaNI GTAC 3 cut(s) 139, 349, 931
SacI GAGCTC 1 cut(s) 331
SapI GCTCTTC 2 cut(s) 906, 971
SaqAI TTAA 1 cut(s) 1017
SatI GCNGC 7 cut(s) 191, 498, 566, 571, 917, 920, 982
Sau3AI GATC 8 cut(s) 19, 166, 210, 367, 705, 778, 790, 840
Sau96I GGNCC 5 cut(s) 198, 229, 404, 412, 769
ScaI AGTACT 1 cut(s) 932
SchI GAGTC 2 cut(s) 49, 989
ScrFI CCNGG 2 cut(s) 227, 420
SduI GDGCHC 1 cut(s) 331
SfaNI GCATC 2 cut(s) 96, 472
SfcI CTRYAG 2 cut(s) 188, 338
SinI GGWCC 4 cut(s) 198, 404, 412, 769
SmlI CTYRAG 2 cut(s) 806, 959
SmoI CTYRAG 2 cut(s) 806, 959
Sse9I AATT 3 cut(s) 134, 384, 1000
SsiI CCGC 2 cut(s) 981, 984
SspMI CTAG 3 cut(s) 272, 401, 614
SstI GAGCTC 1 cut(s) 331
StyD4I CCNGG 2 cut(s) 225, 418
StyI CCWWGG 2 cut(s) 194, 486
TaaI ACNGT 4 cut(s) 143, 342, 356, 935
TaiI ACGT 4 cut(s) 350, 659, 820, 851
TaqI TCGA 2 cut(s) 261, 944
TaqII GACCGA 3 cut(s) 421, 425, 704
TasI AATT 3 cut(s) 134, 384, 1000
TatI WGTACW 1 cut(s) 930
TauI GCSGC 1 cut(s) 984
TfiI GAWTC 1 cut(s) 896
Tru1I TTAA 1 cut(s) 1017
Tru9I TTAA 1 cut(s) 1017
TscAI CASTG 1 cut(s) 1018
TseFI GTSAC 1 cut(s) 509
TseI GCWGC 6 cut(s) 190, 497, 565, 570, 916, 919
Tsp45I GTSAC 1 cut(s) 509
TspDTI ATGAA 2 cut(s) 348, 868
TspRI CASTG 1 cut(s) 1018
VpaK11BI GGWCC 4 cut(s) 198, 404, 412, 769
XagI CCTNNNNNAGG 1 cut(s) 243
XapI RAATTY 1 cut(s) 384
XceI RCATGY 1 cut(s) 635
XspI CTAG 3 cut(s) 272, 401, 614
ZraI GACGTC 1 cut(s) 657
ZrmI AGTACT 1 cut(s) 932
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.