Rh1CG199600

Transcription factor

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr1C
OG0011387
Physical Location & Seq
Forward (+)
43442169 .. 43445259
3091 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh1CG199600.1

Sequence Viewer

Length: 981 bp
ATGACCATGGACGCGTTGGTCCCTTGCAGGAACAACCAACCTGATGAACCAAACAGTAGCCTTATGATAGACTCTGTAGATACCGTGCCAGGAGTGCTCGGCAGTTCTGGCACGGGCGTGATCAATGGGTGCTCCACTCGAGTGGGGTCGTGCAGCGCTACCGCGACCCACAACGAGGACACCCGCCGACTGGGAAAACACAAGGCGGGCGTTGCACGTGTACCTGCTACACCCGAGTGCAGATCCCCCAGCGTGAGCGGTAGTGCCACGTTTGGGATGGATAGTCAGCAAGCCACACTTGATACTAAGGGAAGCGACCGTGACTCAGTTTGTCACAGCAGACCACAGAGAGAGGAAAGCGACGAGGAGGAAAGAAAGAGGCGAAGTACTGGAAAATCCTCAGTTTCTACAAAAAGGAGTAGGGCTGCTGCTATACATAACCAATCTGAACGTAAAAGGAGAGATAAGATCAACCAGAGGATGAAGACGCTGCAGAAGCTGGTCCCAAATTCCAGTAAGACTGATAAAGCTTCAATGCTGGACGAAGTGATTGAATACTTGAAACAATTGCAAGCTCAAGTCCATGTGATAAGCAGAATGAACATGCCAGCCATGATGTTGCCTATGGCTATGCAGCAACAACTTCAAATGTCTATGATGGCCCCAAGAAATATGGGCATGGGGATTGGGATGGGAATGGGAATGGGAATGGGAATGGACATGAACAACATCGGCCGCCCCAACATAGGGGGAGTCCCTCCGGTTCTTCACCCAACTGCATTCATGCCCATGGCTTCATGGGATGGCTCTGCCTGCGGCGCTGAGAGGTTACAAGCTGCTTCAACGACTGTGATGCCTGATCCCTTGCCAGGTTTTCTTGCATGCCAATCGCAGCCGATGACCATGGATGCTTACAGTATGATGGCGGCCATGTATCAACAATTCCATCAGCAATCAGCAGCATCTAGTTCTAAGAGCTAA

Protein Analysis

326

Amino Acids

35.24

Weight (kDa)

9.12

Isoelectric Point (pI)

72.0

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
HLH PF00010 146 - 191 2.7e-14 Helix-loop-helix DNA-binding domain
bHLH_SAC51 PF23173 149 - 196 1.2e-08 Transcription factor SAC51 bHLH domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Orthologous Genes (Group: OG0011387)

Species Orthologous Gene IDs
arabidopsis_thaliana AT4G00050 AT4G00050 AT4G00050
fragaria_vesca FvH4_7g10840
malus_domestica MD07G1113200.v1.1
prunus_persica Prupe.2G136300_v2.0.a1 Prupe.2G136300_v2.0.a1 Prupe.2G136300_v2.0.a1
pyrus_communis pycom07g09800
rosa_chinensis RchiOBHm_Chr1g0348781
rosa_laevigata RLG00000028624
rosa_multiflora Rmu_co8207186.1_g000001 Rmu_sc0002970.1_g000013
rosa_roxburghii Rroxscaffold_4G00306600
rosa_rugosa Rorug01G0197900
rosa_samantha Rh1AG215200 Rh1BG181500 Rh1CG199600 Rh1DG211400
rosa_wichuraiana Rw1G018230

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AasI GACNNNNNNGTC 1 cut(s) 17
Acc36I ACCTGC 1 cut(s) 232
AccBSI CCGCTC 1 cut(s) 258
AccII CGCG 2 cut(s) 14, 164
AciI CCGC 7 cut(s) 162, 184, 206, 258, 736, 816, 926
AclWI GGATC 2 cut(s) 237, 854
AcoI YGGCCR 2 cut(s) 733, 927
AcsI RAATTY 1 cut(s) 508
AcvI CACGTG 1 cut(s) 218
AfaI GTAC 2 cut(s) 222, 388
AfeI AGCGCT 1 cut(s) 157
AfiI CCNNNNNNNGG 6 cut(s) 175, 190, 273, 746, 747, 869
AflIII ACRYGT 2 cut(s) 12, 217
AgsI TTSAA 5 cut(s) 534, 554, 562, 647, 843
AjnI CCWGG 2 cut(s) 88, 868
AleI CACNNNNGTG 3 cut(s) 116, 140, 235
AluBI AGCT 5 cut(s) 499, 530, 575, 836, 978
AluI AGCT 5 cut(s) 499, 530, 575, 836, 978
Alw21I GWGCWC 2 cut(s) 99, 134
AlwI GGATC 2 cut(s) 237, 854
AlwNI CAGNNNCTG 1 cut(s) 499
Ama87I CYCGRG 2 cut(s) 138, 233
Aor51HI AGCGCT 1 cut(s) 157
AoxI GGCC 3 cut(s) 660, 733, 927
ApeKI GCWGC 8 cut(s) 153, 425, 428, 490, 634, 836, 892, 959
ApoI RAATTY 1 cut(s) 508
AspLEI GCGC 2 cut(s) 158, 821
AspS9I GGNCC 3 cut(s) 19, 502, 661
AsuHPI GGTGA 1 cut(s) 761
AvaI CYCGRG 2 cut(s) 138, 233
AvaII GGWCC 2 cut(s) 19, 502
BbrPI CACGTG 1 cut(s) 218
BbsI GAAGAC 1 cut(s) 491
Bbv12I GWGCWC 2 cut(s) 99, 134
BbvI GCAGC 8 cut(s) 165, 412, 415, 477, 646, 823, 904, 971
BccI CCATC 6 cut(s) 271, 652, 685, 797, 916, 954
BcgI CGANNNNNNTGC 4 cut(s) 835, 869, 870, 904
BciT130I CCWGG 2 cut(s) 90, 870
BclI TGATCA 1 cut(s) 120
BfaI CTAG 1 cut(s) 966
BfmI CTRYAG 2 cut(s) 75, 491
BfoI RGCGCY 2 cut(s) 159, 822
BfuAI ACCTGC 1 cut(s) 232
BmcAI AGTACT 1 cut(s) 388
Bme1390I CCNGG 2 cut(s) 90, 870
Bme18I GGWCC 2 cut(s) 19, 502
BmeT110I CYCGRG 2 cut(s) 138, 233
BmgT120I GGNCC 3 cut(s) 19, 502, 661
BmiI GGNNCC 3 cut(s) 21, 504, 663
BmrFI CCNGG 2 cut(s) 90, 870
BmrI ACTGGG 1 cut(s) 200
BmsI GCATC 3 cut(s) 843, 898, 971
BmuI ACTGGG 1 cut(s) 200
BpiI GAAGAC 1 cut(s) 491
BpuEI CTTGAG 1 cut(s) 561
BsaAI YACGTR 1 cut(s) 218
BsaJI CCNNGG 3 cut(s) 6, 789, 903
BsaWI WCCGGW 1 cut(s) 760
Bsc4I CCNNNNNNNGG 6 cut(s) 175, 190, 273, 746, 747, 869
Bse1I ACTGG 3 cut(s) 195, 394, 513
BseBI CCWGG 2 cut(s) 90, 870
BseDI CCNNGG 3 cut(s) 6, 789, 903
BseGI GGATG 5 cut(s) 282, 486, 696, 808, 913
BseLI CCNNNNNNNGG 6 cut(s) 175, 190, 273, 746, 747, 869
BseMII CTCAG 3 cut(s) 339, 414, 813
BseNI ACTGG 3 cut(s) 195, 394, 513
BseRI GAGGAG 1 cut(s) 380
BseX3I CGGCCG 1 cut(s) 733
BseXI GCAGC 8 cut(s) 165, 412, 415, 477, 646, 823, 904, 971
BseYI CCCAGC 1 cut(s) 248
BsgI GTGCAG 2 cut(s) 172, 259
Bsh1236I CGCG 2 cut(s) 14, 164
Bsh1285I CGRYCG 2 cut(s) 319, 736
BshFI GGCC 3 cut(s) 662, 735, 929
BsiEI CGRYCG 2 cut(s) 319, 736
BsiHKAI GWGCWC 2 cut(s) 99, 134
BsiHKCI CYCGRG 2 cut(s) 138, 233
BsiSI CCGG 1 cut(s) 761
BslFI GGGAC 3 cut(s) 5, 488, 740
BslI CCNNNNNNNGG 6 cut(s) 175, 190, 273, 746, 747, 869
BsmFI GGGAC 3 cut(s) 5, 488, 740
BsmI GAATGC 1 cut(s) 779
BsnI GGCC 3 cut(s) 662, 735, 929
BsoBI CYCGRG 2 cut(s) 138, 233
Bsp1286I GDGCHC 2 cut(s) 99, 134
Bsp143I GATC 4 cut(s) 120, 242, 468, 859
Bsp19I CCATGG 3 cut(s) 6, 789, 903
BspACI CCGC 7 cut(s) 162, 184, 206, 258, 736, 816, 926
BspANI GGCC 3 cut(s) 662, 735, 929
BspCNI CTCAG 3 cut(s) 338, 413, 814
BspFNI CGCG 2 cut(s) 14, 164
BspLI GGNNCC 3 cut(s) 21, 504, 663
BspMAI CTGCAG 1 cut(s) 495
BspMI ACCTGC 1 cut(s) 232
BspPI GGATC 2 cut(s) 237, 854
BsrBI CCGCTC 1 cut(s) 258
BsrI ACTGG 3 cut(s) 195, 394, 513
BssECI CCNNGG 3 cut(s) 6, 789, 903
BssMI GATC 4 cut(s) 120, 242, 468, 859
BssT1I CCWWGG 3 cut(s) 6, 789, 903
Bst2UI CCWGG 2 cut(s) 90, 870
Bst4CI ACNGT 5 cut(s) 56, 85, 320, 850, 917
BstBAI YACGTR 1 cut(s) 218
BstC8I GCNNGC 6 cut(s) 208, 291, 573, 609, 814, 883
BstDEI CTNAG 5 cut(s) 306, 325, 400, 822, 972
BstDSI CCRYGG 3 cut(s) 6, 789, 903
BstF5I GGATG 5 cut(s) 282, 486, 696, 808, 913
BstFNI CGCG 2 cut(s) 14, 164
BstH2I RGCGCY 2 cut(s) 159, 822
BstHHI GCGC 2 cut(s) 158, 821
BstKTI GATC 4 cut(s) 123, 245, 471, 862
BstMBI GATC 4 cut(s) 120, 242, 468, 859
BstMCI CGRYCG 2 cut(s) 319, 736
BstMWI GCNNNNNNNGC 6 cut(s) 94, 108, 212, 496, 813, 818
BstNI CCWGG 2 cut(s) 90, 870
BstNSI RCATGY 2 cut(s) 607, 885
BstSCI CCNGG 2 cut(s) 88, 868
BstSFI CTRYAG 2 cut(s) 75, 491
BstUI CGCG 2 cut(s) 14, 164
BstV1I GCAGC 8 cut(s) 165, 412, 415, 477, 646, 823, 904, 971
BstV2I GAAGAC 1 cut(s) 491
BstX2I RGATCY 1 cut(s) 242
BstXI CCANNNNNNTGG 1 cut(s) 142
BstYI RGATCY 1 cut(s) 242
BstZI CGGCCG 1 cut(s) 733
BsuRI GGCC 3 cut(s) 662, 735, 929
BtgI CCRYGG 3 cut(s) 6, 789, 903
BtsCI GGATG 5 cut(s) 282, 486, 696, 808, 913
BveI ACCTGC 1 cut(s) 232
Cac8I GCNNGC 6 cut(s) 208, 291, 573, 609, 814, 883
CaiI CAGNNNCTG 1 cut(s) 499
CfoI GCGC 2 cut(s) 158, 821
Cfr13I GGNCC 3 cut(s) 19, 502, 661
CseI GACGC 2 cut(s) 20, 496
Csp6I GTAC 2 cut(s) 221, 387
CviQI GTAC 2 cut(s) 221, 387
DdeI CTNAG 5 cut(s) 306, 325, 400, 822, 972
DpnI GATC 4 cut(s) 122, 244, 470, 861
DpnII GATC 4 cut(s) 120, 242, 468, 859
DrdI GACNNNNNNGTC 1 cut(s) 17
DseDI GACNNNNNNGTC 1 cut(s) 17
EaeI YGGCCR 2 cut(s) 733, 927
EagI CGGCCG 1 cut(s) 733
EclXI CGGCCG 1 cut(s) 733
Eco130I CCWWGG 3 cut(s) 6, 789, 903
Eco47I GGWCC 2 cut(s) 19, 502
Eco47III AGCGCT 1 cut(s) 157
Eco52I CGGCCG 1 cut(s) 733
Eco72I CACGTG 1 cut(s) 218
Eco88I CYCGRG 2 cut(s) 138, 233
EcoRII CCWGG 2 cut(s) 88, 868
EcoT14I CCWWGG 3 cut(s) 6, 789, 903
ErhI CCWWGG 3 cut(s) 6, 789, 903
FalI AAGNNNNNCTT 2 cut(s) 282, 314
FaqI GGGAC 3 cut(s) 5, 488, 740
FauI CCCGC 2 cut(s) 191, 199
FbaI TGATCA 1 cut(s) 120
FokI GGATG 5 cut(s) 289, 493, 703, 815, 920
FspBI CTAG 1 cut(s) 966
GlaI GCGC 2 cut(s) 157, 820
GsaI CCCAGC 1 cut(s) 252
HaeII RGCGCY 2 cut(s) 159, 822
HaeIII GGCC 3 cut(s) 662, 735, 929
HapII CCGG 1 cut(s) 761
HgaI GACGC 2 cut(s) 20, 496
HhaI GCGC 2 cut(s) 158, 821
Hin6I GCGC 2 cut(s) 156, 819
HinP1I GCGC 2 cut(s) 156, 819
HindIII AAGCTT 1 cut(s) 528
HinfI GANTC 3 cut(s) 71, 323, 753
HpaII CCGG 1 cut(s) 761
HphI GGTGA 1 cut(s) 761
Hpy166II GTNNAC 1 cut(s) 221
Hpy188I TCNGA 1 cut(s) 448
Hpy8I GTNNAC 1 cut(s) 221
Hpy99I CGWCG 1 cut(s) 365
HpyCH4III ACNGT 5 cut(s) 56, 85, 320, 850, 917
HpyCH4IV ACGT 3 cut(s) 217, 269, 451
HpyCH4V TGCA 9 cut(s) 27, 153, 215, 240, 493, 571, 634, 779, 881
HpyF10VI GCNNNNNNNGC 6 cut(s) 94, 108, 212, 496, 813, 818
HpyF3I CTNAG 5 cut(s) 306, 325, 400, 822, 972
HpySE526I ACGT 3 cut(s) 217, 269, 451
HspAI GCGC 2 cut(s) 156, 819
Ksp22I TGATCA 1 cut(s) 120
Kzo9I GATC 4 cut(s) 120, 242, 468, 859
LmnI GCTCC 1 cut(s) 137
Lsp1109I GCAGC 8 cut(s) 165, 412, 415, 477, 646, 823, 904, 971
LweI GCATC 3 cut(s) 843, 898, 971
MaeI CTAG 1 cut(s) 966
MaeII ACGT 3 cut(s) 217, 269, 451
MaeIII GTNAC 3 cut(s) 320, 332, 828
MalI GATC 4 cut(s) 122, 244, 470, 861
MbiI CCGCTC 1 cut(s) 258
MboI GATC 4 cut(s) 120, 242, 468, 859
MboII GAAGA 2 cut(s) 496, 758
MfeI CAATTG 1 cut(s) 566
MflI RGATCY 1 cut(s) 242
MhlI GDGCHC 2 cut(s) 99, 134
MluCI AATT 3 cut(s) 508, 566, 941
MluI ACGCGT 1 cut(s) 12
MlyI GAGTC 3 cut(s) 65, 317, 762
MnlI CCTC 9 cut(s) 169, 346, 358, 361, 372, 409, 471, 768, 819
MslI CAYNNNNRTG 4 cut(s) 116, 140, 235, 788
MspI CCGG 1 cut(s) 761
MspR9I CCNGG 2 cut(s) 90, 870
MunI CAATTG 1 cut(s) 566
Mva1269I GAATGC 1 cut(s) 779
MvaI CCWGG 2 cut(s) 90, 870
MvnI CGCG 2 cut(s) 14, 164
MwoI GCNNNNNNNGC 6 cut(s) 94, 108, 212, 496, 813, 818
NcoI CCATGG 3 cut(s) 6, 789, 903
NdeII GATC 4 cut(s) 120, 242, 468, 859
NlaIV GGNNCC 3 cut(s) 21, 504, 663
NmeAIII GCCGAG 1 cut(s) 78
NmuCI GTSAC 2 cut(s) 320, 332
NspI RCATGY 2 cut(s) 607, 885
OliI CACNNNNGTG 3 cut(s) 116, 140, 235
PaeI GCATGC 1 cut(s) 885
PaeR7I CTCGAG 1 cut(s) 138
PctI GAATGC 1 cut(s) 779
PleI GAGTC 3 cut(s) 65, 317, 761
PmaCI CACGTG 1 cut(s) 218
PmlI CACGTG 1 cut(s) 218
PpsI GAGTC 3 cut(s) 65, 317, 761
Ppu21I YACGTR 1 cut(s) 218
Psp6I CCWGG 2 cut(s) 88, 868
PspCI CACGTG 1 cut(s) 218
PspFI CCCAGC 1 cut(s) 248
PspGI CCWGG 2 cut(s) 88, 868
PspN4I GGNNCC 3 cut(s) 21, 504, 663
PspPI GGNCC 3 cut(s) 19, 502, 661
PspXI VCTCGAGB 1 cut(s) 138
PstI CTGCAG 1 cut(s) 495
PstNI CAGNNNCTG 1 cut(s) 499
PsuI RGATCY 1 cut(s) 242
RsaI GTAC 2 cut(s) 222, 388
RsaNI GTAC 2 cut(s) 221, 387
RseI CAYNNNNRTG 4 cut(s) 116, 140, 235, 788
Sau3AI GATC 4 cut(s) 120, 242, 468, 859
Sau96I GGNCC 3 cut(s) 19, 502, 661
ScaI AGTACT 1 cut(s) 388
SchI GAGTC 3 cut(s) 65, 317, 762
ScrFI CCNGG 2 cut(s) 90, 870
SduI GDGCHC 2 cut(s) 99, 134
SfaNI GCATC 3 cut(s) 843, 898, 971
SfcI CTRYAG 2 cut(s) 75, 491
Sfr274I CTCGAG 1 cut(s) 138
SinI GGWCC 2 cut(s) 19, 502
SlaI CTCGAG 1 cut(s) 138
SmiMI CAYNNNNRTG 4 cut(s) 116, 140, 235, 788
SmlI CTYRAG 2 cut(s) 138, 576
SmoI CTYRAG 2 cut(s) 138, 576
SphI GCATGC 1 cut(s) 885
Sse9I AATT 3 cut(s) 508, 566, 941
SsiI CCGC 7 cut(s) 162, 184, 206, 258, 736, 816, 926
SspMI CTAG 1 cut(s) 966
StyD4I CCNGG 2 cut(s) 88, 868
StyI CCWWGG 3 cut(s) 6, 789, 903
TaaI ACNGT 5 cut(s) 56, 85, 320, 850, 917
TaiI ACGT 3 cut(s) 220, 272, 454
TaqI TCGA 1 cut(s) 139
TasI AATT 3 cut(s) 508, 566, 941
TatI WGTACW 1 cut(s) 386
TauI GCSGC 3 cut(s) 738, 819, 929
TseFI GTSAC 2 cut(s) 320, 332
TseI GCWGC 8 cut(s) 153, 425, 428, 490, 634, 836, 892, 959
Tsp45I GTSAC 2 cut(s) 320, 332
TspDTI ATGAA 6 cut(s) 60, 497, 614, 737, 772, 786
VpaK11BI GGWCC 2 cut(s) 19, 502
XapI RAATTY 1 cut(s) 508
XceI RCATGY 2 cut(s) 607, 885
XcmI CCANNNNNNNNNTGG 2 cut(s) 13, 274
XhoI CTCGAG 1 cut(s) 138
XspI CTAG 1 cut(s) 966
ZrmI AGTACT 1 cut(s) 388
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.