Rh1AG442600

Transcription factor

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr1A
OG0015416
Physical Location & Seq
Forward (+)
66383564 .. 66385661
2098 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh1AG442600.1

Sequence Viewer

Length: 1095 bp
ATGGATGATCATCTTTTGTTTGAATTTTTCGAAGAACACGATCACTGCTACGGTGGCGGCGATGCTAGCGGCTTGGCTCCCGGTGATGATCTTTTTAGCATATTGGAGAGCTTAGATGCAGGAGCACTCATGGATAGTTTTCCTCCGCCAACACCGTGCAATGAACTCGTGTTTAGCTCATCAAAAGGAGGGATAGAAGTGTCACCGGAGCTCGAAACTTCACCAAAATCATCCAAGAGAGTGAAGCTTTCAAAAGAGGCTTCCCCCGGCGGGACAGGTTCTAATTCTGACGATGGACAGCAAAGGATGTCGCATATAACGGTGGAGCGCAACCGGAGGAAGCAAATGAACGAGCACTTGACAGTCTTGCGCTCTCTCATGCCTTGTTTCTATGTCAAAAGAGGGGATCAAGCATCAATTATTGGAGGGGTGGTTGACTACATCAATGAATTGCAGCAAGTTCTTCAATCACTAGAGGCCAAGAAGCAACGAAAGGCATACAGTGAAGTGTTAAGCCCTAGGCTACCAGTTTCAAGTAGTCCCAGATTACCTTCATCACCACTAGTACTTAGCCCTAGAAAACCCCCAATAAGTCCTTTAGCTAGTCCCAGAATCAGCTGCAGCAGCTTGCCTATTAGTCCAAGAACCCCACAGCCAACCAGCCCTTACAAGCCTCCCAGGACGACGTCGTTACAACAGTTGCAACAACCAGTTTACCTCTCTAGTCCAACCATAACTGCAGCTAGCTCATCACTTGAACCATCTCCTTCAAATTCGTCTACTACTAATTTTTCCTCCGTTAATCATGTTATTGACAATCTCAATGAGCTTTTTGCCAATTCTAAGTCCGCCATTGCCCATGTGGAAGTGAAGTTTTCAGGTGCAAATGTTCTTTTAAACACGGTGTCTCCTCGGATACCAGGACAAGCTTTCAAAATCATTTCGGCTCTCGAAGATCTTTCCCTCGAGATTCTCCACGTCGAAATAAAGACGGAAGACGAAAAGTTGCTTAATTCCTTCACCATCAAGATTGGAATTGAATGCCAACTTAGTGCTGAGGAACTCGCTCACCAAATTCAGCAAACATTCCGCTAA

Protein Analysis

364

Amino Acids

39.66

Weight (kDa)

5.89

Isoelectric Point (pI)

66.07

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
HLH PF00010 101 - 152 4.9e-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: OG0015416)

Species Orthologous Gene IDs
arabidopsis_thaliana AT5G53210 AT5G53210
fragaria_vesca FvH4_7g31020
malus_domestica MD01G1215200.v1.1 MD07G1285100.v1.1
prunus_persica Prupe.2G307300_v2.0.a1
rosa_chinensis RchiOBHm_Chr1g0380101
rosa_laevigata RLG00000026332
rosa_multiflora Rmu_sc0001232.1_g000008
rosa_roxburghii Rroxscaffold_4G00279700
rosa_rugosa Rorug01G0417400
rosa_samantha Rh1AG442600 Rh1BG397600 Rh1CG411000 Rh1DG428400
rosa_wichuraiana Rw1G038430

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AatII GACGTC 1 cut(s) 689
AccI GTMKAC 1 cut(s) 779
AciI CCGC 6 cut(s) 57, 69, 146, 270, 849, 1090
AclWI GGATC 1 cut(s) 414
AcsI RAATTY 3 cut(s) 23, 772, 1074
AcyI GRCGYC 1 cut(s) 686
AfaI GTAC 1 cut(s) 567
AfiI CCNNNNNNNGG 1 cut(s) 270
AgsI TTSAA 8 cut(s) 23, 252, 467, 534, 758, 771, 934, 1040
AhlI ACTAGT 1 cut(s) 562
AjiI CACGTC 1 cut(s) 979
AjnI CCWGG 2 cut(s) 677, 919
Alw21I GWGCWC 3 cut(s) 127, 213, 357
Alw26I GTCTC 1 cut(s) 912
AlwI GGATC 1 cut(s) 414
Ama87I CYCGRG 1 cut(s) 965
AoxI GGCC 1 cut(s) 477
ApeKI GCWGC 5 cut(s) 454, 618, 621, 624, 740
ApoI RAATTY 3 cut(s) 23, 772, 1074
AspA2I CCTAGG 1 cut(s) 518
AspLEI GCGC 2 cut(s) 330, 372
AsuC2I CCSGG 2 cut(s) 81, 267
AsuHPI GGTGA 6 cut(s) 95, 195, 213, 549, 1012, 1061
AsuII TTCGAA 1 cut(s) 30
AsuNHI GCTAGC 2 cut(s) 65, 743
AvaI CYCGRG 1 cut(s) 965
AvrII CCTAGG 1 cut(s) 518
BanII GRGCYC 1 cut(s) 213
BauI CACGAG 1 cut(s) 167
BbsI GAAGAC 1 cut(s) 1002
Bbv12I GWGCWC 3 cut(s) 127, 213, 357
BbvCI CCTCAGC 1 cut(s) 1056
BbvI GCAGC 5 cut(s) 466, 605, 633, 636, 752
BccI CCATC 3 cut(s) 287, 769, 1031
BcgI CGANNNNNNTGC 2 cut(s) 148, 182
BciT130I CCWGG 2 cut(s) 679, 921
BciVI GTATCC 1 cut(s) 909
BclI TGATCA 1 cut(s) 7
BcnI CCSGG 2 cut(s) 81, 267
BcoDI GTCTC 1 cut(s) 912
BcuI ACTAGT 1 cut(s) 562
BfaI CTAG 8 cut(s) 66, 473, 519, 563, 576, 603, 723, 744
BfmI CTRYAG 2 cut(s) 619, 738
BfuI GTATCC 1 cut(s) 909
BglII AGATCT 1 cut(s) 955
BisI GCNGC 7 cut(s) 58, 70, 455, 619, 622, 625, 741
BlnI CCTAGG 1 cut(s) 518
BlsI GCNGC 7 cut(s) 59, 71, 456, 620, 623, 626, 742
BmcAI AGTACT 1 cut(s) 567
Bme1390I CCNGG 4 cut(s) 81, 267, 679, 921
BmeT110I CYCGRG 1 cut(s) 965
BmgBI CACGTC 1 cut(s) 979
BmiI GGNNCC 1 cut(s) 78
BmrFI CCNGG 4 cut(s) 81, 267, 679, 921
BmsI GCATC 3 cut(s) 52, 106, 422
BmtI GCTAGC 2 cut(s) 69, 747
BpiI GAAGAC 1 cut(s) 1002
Bpu10I CCTNAGC 1 cut(s) 1056
Bpu14I TTCGAA 1 cut(s) 30
BpuMI CCSGG 2 cut(s) 81, 267
BsaBI GATNNNNATC 1 cut(s) 9
BsaHI GRCGYC 1 cut(s) 686
BsaJI CCNNGG 4 cut(s) 265, 518, 677, 911
BsaWI WCCGGW 2 cut(s) 205, 333
BsaXI ACNNNNNCTCC 4 cut(s) 417, 447, 892, 922
Bsc4I CCNNNNNNNGG 1 cut(s) 270
Bse1I ACTGG 2 cut(s) 527, 710
Bse3DI GCAATG 2 cut(s) 166, 852
Bse8I GATNNNNATC 1 cut(s) 9
BseBI CCWGG 2 cut(s) 679, 921
BseDI CCNNGG 4 cut(s) 265, 518, 677, 911
BseGI GGATG 3 cut(s) 10, 230, 312
BseJI GATNNNNATC 1 cut(s) 9
BseLI CCNNNNNNNGG 1 cut(s) 270
BseMI GCAATG 2 cut(s) 166, 852
BseMII CTCAG 1 cut(s) 1047
BseNI ACTGG 2 cut(s) 527, 710
BseRI GAGGAG 1 cut(s) 900
BseXI GCAGC 5 cut(s) 466, 605, 633, 636, 752
BshFI GGCC 1 cut(s) 479
BsiHKAI GWGCWC 3 cut(s) 127, 213, 357
BsiHKCI CYCGRG 1 cut(s) 965
BsiSI CCGG 4 cut(s) 81, 206, 267, 334
BslFI GGGAC 3 cut(s) 286, 525, 591
BslI CCNNNNNNNGG 1 cut(s) 270
BsmAI GTCTC 1 cut(s) 912
BsmFI GGGAC 3 cut(s) 286, 525, 591
BsmI GAATGC 1 cut(s) 1046
BsnI GGCC 1 cut(s) 479
BsoBI CYCGRG 1 cut(s) 965
Bsp119I TTCGAA 1 cut(s) 30
Bsp1286I GDGCHC 3 cut(s) 127, 213, 357
Bsp143I GATC 5 cut(s) 7, 40, 88, 406, 955
BspACI CCGC 6 cut(s) 57, 69, 146, 270, 849, 1090
BspANI GGCC 1 cut(s) 479
BspCNI CTCAG 1 cut(s) 1048
BspLI GGNNCC 1 cut(s) 78
BspMAI CTGCAG 2 cut(s) 623, 742
BspOI GCTAGC 2 cut(s) 69, 747
BspPI GGATC 1 cut(s) 414
BspT104I TTCGAA 1 cut(s) 30
BsrDI GCAATG 2 cut(s) 166, 852
BsrI ACTGG 2 cut(s) 527, 710
BssECI CCNNGG 4 cut(s) 265, 518, 677, 911
BssMI GATC 5 cut(s) 7, 40, 88, 406, 955
BssNI GRCGYC 1 cut(s) 686
BssSI CACGAG 1 cut(s) 167
BssT1I CCWWGG 1 cut(s) 518
Bst2BI CACGAG 1 cut(s) 167
Bst2UI CCWGG 2 cut(s) 679, 921
Bst4CI ACNGT 7 cut(s) 53, 156, 322, 364, 503, 699, 904
BstACI GRCGYC 1 cut(s) 686
BstBI TTCGAA 1 cut(s) 30
BstC8I GCNNGC 3 cut(s) 67, 629, 745
BstDEI CTNAG 5 cut(s) 112, 569, 843, 1049, 1056
BstF5I GGATG 3 cut(s) 10, 230, 312
BstHHI GCGC 2 cut(s) 330, 372
BstKTI GATC 5 cut(s) 10, 43, 91, 409, 958
BstMAI GTCTC 1 cut(s) 912
BstMBI GATC 5 cut(s) 7, 40, 88, 406, 955
BstMWI GCNNNNNNNGC 3 cut(s) 54, 66, 624
BstNI CCWGG 2 cut(s) 679, 921
BstSCI CCNGG 4 cut(s) 79, 265, 677, 919
BstSFI CTRYAG 2 cut(s) 619, 738
BstV1I GCAGC 5 cut(s) 466, 605, 633, 636, 752
BstV2I GAAGAC 1 cut(s) 1002
BstX2I RGATCY 1 cut(s) 955
BstYI RGATCY 1 cut(s) 955
BsuI GTATCC 1 cut(s) 909
BsuRI GGCC 1 cut(s) 479
BtgZI GCGATG 1 cut(s) 75
BtrI CACGTC 1 cut(s) 979
BtsCI GGATG 3 cut(s) 10, 230, 312
BtsI GCAGTG 1 cut(s) 43
BtsIMutI CAGTG 2 cut(s) 43, 508
Cac8I GCNNGC 3 cut(s) 67, 629, 745
CfoI GCGC 2 cut(s) 330, 372
Csp6I GTAC 1 cut(s) 566
CviAII CATG 4 cut(s) 130, 379, 806, 860
CviQI GTAC 1 cut(s) 566
DdeI CTNAG 5 cut(s) 112, 569, 843, 1049, 1056
DpnI GATC 5 cut(s) 9, 42, 90, 408, 957
DpnII GATC 5 cut(s) 7, 40, 88, 406, 955
DraI TTTAAA 1 cut(s) 897
EciI GGCGGA 2 cut(s) 135, 838
Ecl136II GAGCTC 1 cut(s) 211
Eco130I CCWWGG 1 cut(s) 518
Eco24I GRGCYC 1 cut(s) 213
Eco53kI GAGCTC 1 cut(s) 211
Eco88I CYCGRG 1 cut(s) 965
EcoICRI GAGCTC 1 cut(s) 211
EcoRII CCWGG 2 cut(s) 677, 919
EcoT14I CCWWGG 1 cut(s) 518
EcoT38I GRGCYC 1 cut(s) 213
ErhI CCWWGG 1 cut(s) 518
FaeI CATG 4 cut(s) 133, 382, 809, 863
FaqI GGGAC 3 cut(s) 286, 525, 591
FatI CATG 4 cut(s) 129, 378, 805, 859
FauI CCCGC 1 cut(s) 263
FbaI TGATCA 1 cut(s) 7
FblI GTMKAC 1 cut(s) 779
Fnu4HI GCNGC 7 cut(s) 58, 70, 455, 619, 622, 625, 741
FokI GGATG 3 cut(s) 17, 217, 319
FriOI GRGCYC 1 cut(s) 213
Fsp4HI GCNGC 7 cut(s) 58, 70, 455, 619, 622, 625, 741
FspBI CTAG 8 cut(s) 66, 473, 519, 563, 576, 603, 723, 744
GlaI GCGC 2 cut(s) 329, 371
GluI GCNGC 7 cut(s) 58, 70, 455, 619, 622, 625, 741
HaeIII GGCC 1 cut(s) 479
HapII CCGG 4 cut(s) 81, 206, 267, 334
HhaI GCGC 2 cut(s) 330, 372
Hin1I GRCGYC 1 cut(s) 686
Hin1II CATG 4 cut(s) 133, 382, 809, 863
Hin6I GCGC 2 cut(s) 328, 370
HinP1I GCGC 2 cut(s) 328, 370
HincII GTYRAC 1 cut(s) 436
HindII GTYRAC 1 cut(s) 436
HindIII AAGCTT 2 cut(s) 245, 927
HinfI GANTC 2 cut(s) 612, 970
HpaII CCGG 4 cut(s) 81, 206, 267, 334
HphI GGTGA 6 cut(s) 95, 195, 213, 549, 1012, 1061
Hpy166II GTNNAC 3 cut(s) 436, 715, 780
Hpy188I TCNGA 2 cut(s) 289, 915
Hpy188III TCNNGA 3 cut(s) 950, 967, 1027
Hpy8I GTNNAC 3 cut(s) 436, 715, 780
Hpy99I CGWCG 3 cut(s) 688, 691, 983
HpyAV CCTTC 3 cut(s) 561, 777, 1027
HpyCH4III ACNGT 7 cut(s) 53, 156, 322, 364, 503, 699, 904
HpyCH4IV ACGT 2 cut(s) 686, 978
HpyCH4V TGCA 7 cut(s) 119, 159, 454, 621, 703, 740, 884
HpyF10VI GCNNNNNNNGC 3 cut(s) 54, 66, 624
HpyF3I CTNAG 5 cut(s) 112, 569, 843, 1049, 1056
HpySE526I ACGT 2 cut(s) 686, 978
Hsp92I GRCGYC 1 cut(s) 686
Hsp92II CATG 4 cut(s) 133, 382, 809, 863
HspAI GCGC 2 cut(s) 328, 370
Ksp22I TGATCA 1 cut(s) 7
Kzo9I GATC 5 cut(s) 7, 40, 88, 406, 955
LmnI GCTCC 4 cut(s) 82, 122, 208, 325
Lsp1109I GCAGC 5 cut(s) 466, 605, 633, 636, 752
LweI GCATC 3 cut(s) 52, 106, 422
MaeI CTAG 8 cut(s) 66, 473, 519, 563, 576, 603, 723, 744
MaeII ACGT 2 cut(s) 686, 978
MaeIII GTNAC 2 cut(s) 201, 690
MalI GATC 5 cut(s) 9, 42, 90, 408, 957
MboI GATC 5 cut(s) 7, 40, 88, 406, 955
MboII GAAGA 4 cut(s) 44, 455, 965, 1007
MflI RGATCY 1 cut(s) 955
MhlI GDGCHC 3 cut(s) 127, 213, 357
MmeI TCCRAC 1 cut(s) 752
MseI TTAA 4 cut(s) 512, 801, 896, 1011
MspA1I CMGCKG 1 cut(s) 618
MspI CCGG 4 cut(s) 81, 206, 267, 334
MspR9I CCNGG 4 cut(s) 81, 267, 679, 921
Mva1269I GAATGC 1 cut(s) 1046
MvaI CCWGG 2 cut(s) 679, 921
MwoI GCNNNNNNNGC 3 cut(s) 54, 66, 624
NciI CCSGG 2 cut(s) 81, 267
NdeII GATC 5 cut(s) 7, 40, 88, 406, 955
NheI GCTAGC 2 cut(s) 65, 743
NlaIII CATG 4 cut(s) 133, 382, 809, 863
NlaIV GGNNCC 1 cut(s) 78
NmuCI GTSAC 1 cut(s) 201
NspV TTCGAA 1 cut(s) 30
PaeR7I CTCGAG 1 cut(s) 965
PcsI WCGNNNNNNNCGW 2 cut(s) 36, 57
PctI GAATGC 1 cut(s) 1046
PfeI GAWTC 2 cut(s) 612, 970
PflFI GACNNNGTC 1 cut(s) 685
PkrI GCNGC 7 cut(s) 59, 71, 456, 620, 623, 626, 742
Psp124BI GAGCTC 1 cut(s) 213
Psp6I CCWGG 2 cut(s) 677, 919
PspGI CCWGG 2 cut(s) 677, 919
PspN4I GGNNCC 1 cut(s) 78
PstI CTGCAG 2 cut(s) 623, 742
PsuI RGATCY 1 cut(s) 955
PsyI GACNNNGTC 1 cut(s) 685
PvuII CAGCTG 1 cut(s) 618
RsaI GTAC 1 cut(s) 567
RsaNI GTAC 1 cut(s) 566
SacI GAGCTC 1 cut(s) 213
SaqAI TTAA 4 cut(s) 512, 801, 896, 1011
SatI GCNGC 7 cut(s) 58, 70, 455, 619, 622, 625, 741
Sau3AI GATC 5 cut(s) 7, 40, 88, 406, 955
ScaI AGTACT 1 cut(s) 567
ScrFI CCNGG 4 cut(s) 81, 267, 679, 921
SduI GDGCHC 3 cut(s) 127, 213, 357
SfaNI GCATC 3 cut(s) 52, 106, 422
SfcI CTRYAG 2 cut(s) 619, 738
Sfr274I CTCGAG 1 cut(s) 965
SfuI TTCGAA 1 cut(s) 30
SlaI CTCGAG 1 cut(s) 965
SmlI CTYRAG 1 cut(s) 965
SmoI CTYRAG 1 cut(s) 965
SpeI ACTAGT 1 cut(s) 562
SsiI CCGC 6 cut(s) 57, 69, 146, 270, 849, 1090
SspMI CTAG 8 cut(s) 66, 473, 519, 563, 576, 603, 723, 744
SstI GAGCTC 1 cut(s) 213
StyD4I CCNGG 4 cut(s) 79, 265, 677, 919
StyI CCWWGG 1 cut(s) 518
TaaI ACNGT 7 cut(s) 53, 156, 322, 364, 503, 699, 904
TaiI ACGT 2 cut(s) 689, 981
TaqI TCGA 5 cut(s) 30, 213, 951, 966, 981
TatI WGTACW 1 cut(s) 565
TauI GCSGC 2 cut(s) 60, 72
TfiI GAWTC 2 cut(s) 612, 970
Tru1I TTAA 4 cut(s) 512, 801, 896, 1011
Tru9I TTAA 4 cut(s) 512, 801, 896, 1011
TscAI CASTG 2 cut(s) 50, 508
TseFI GTSAC 1 cut(s) 201
TseI GCWGC 5 cut(s) 454, 618, 621, 624, 740
Tsp45I GTSAC 1 cut(s) 201
TspDTI ATGAA 4 cut(s) 177, 362, 462, 543
TspGWI ACGGA 2 cut(s) 787, 1007
TspRI CASTG 2 cut(s) 50, 508
Tth111I GACNNNGTC 1 cut(s) 685
XapI RAATTY 3 cut(s) 23, 772, 1074
XcmI CCANNNNNNNNNTGG 1 cut(s) 859
XhoI CTCGAG 1 cut(s) 965
XmaJI CCTAGG 1 cut(s) 518
XmiI GTMKAC 1 cut(s) 779
XspI CTAG 8 cut(s) 66, 473, 519, 563, 576, 603, 723, 744
ZraI GACGTC 1 cut(s) 687
ZrmI AGTACT 1 cut(s) 567
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.