Rroxscaffold_5G00377070

transcription factor

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000005
OG0012088
Physical Location & Seq
Reverse (-)
57623643 .. 57626539
2897 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_5G00377070.1

Sequence Viewer

Length: 1059 bp
ATGATGTGTGGAAAGAAAGAAGATCAAGGCGAGTGTTCACAGAGTCATCATCATCAACAAGTCCAAAACTTTCAAGAGCAGTTGCTTCTCCAACAACAACAACAGATGATGCAACAACAAAACCACAACGATTTGTACGGTCGAGGATTGATTTTCCCTCATGATCAAGCTCCACCTCCAATCCTGCAGCCATGGACTCTCCCTCCGATCCACGCTTTCAACCCGGCCCACTTTCCTGTCCGAGGGGACAACAGCATCGACCCATTTCTAGTCCCTCCTCCAGCTCCCTCGTCATCCTATGCCAGTTTCTTCAACAGAAGAGGAGCTCCATCACTACAGTTCACGTATGACGGTTCAGCATCCGATCATCACCACCTCAGAATTTTATCGGAGGCGCTAGGACCGATGGTCCAGCCCGGTTCGGCTCCTTTCGGTCTTCAAGCCGAGCTGGGGAAGCTGACCGCCCAAGAAATCATGGACGCCAAGGCACTCGCAGCTTCCAAAAGTCACAGCGAGGCCGAAAGAAGAAGAAGAGAGAGAATAAATAACCACCTTGCTAAGCTGCGCAGCCTATTACCCAGCACCACCAAAACGGACAAAGCCTCATTGCTAGCCGAAGTGATACAACATGTGAAGGAGCTGAAACGGCAGACGTCTGTAATAGCAGAGACCAGTCCGGTGCCGACCGAAACAGACGAGCTGATCGTGGACGACGCGTCGGACGAGGAGGGCAAGTTCGTAATCAAAGCTTCGCTGTGTTGCGAGGACCGGTCGGATCTGTTGCCTGATCTCATCAAGACACTCAAGGCATTACGTTTGAGAACATTGAAAGCTGAGATCACAACGTTAGGTGGACGCGTGAAGAATGTTTTGTTCATCACCGGAGAAGAAGATTCAAGTAGTAGCGAAGAGCAGCAGCAACAGCAGTACTGTATAAGCTCGATACAAGAAGCGCTCAAGGCGGTAATGGAGAAGAGCGGCGGAGGAGACGACTCTAATTCTTCAGGCAGTGTTAAACGGCAAAGGACTACTAATAATACCAACATCAATATCCTCTAA
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

352

Amino Acids

39.01

Weight (kDa)

6.12

Isoelectric Point (pI)

65.83

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
HLH PF00010 168 - 215 8.5e-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
Loading...
Style Settings
Image
Tree File
Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

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) 656
Acc16I TGCGCA 1 cut(s) 566
AccB1I GGYRCC 1 cut(s) 679
AccBSI CCGCTC 1 cut(s) 978
AccII CGCG 2 cut(s) 716, 858
AciI CCGC 4 cut(s) 462, 962, 978, 981
AclI AACGTT 1 cut(s) 845
AclWI GGATC 2 cut(s) 202, 783
AcsI RAATTY 1 cut(s) 381
AcuI CTGAAG 1 cut(s) 987
AcyI GRCGYC 2 cut(s) 480, 653
AfaI GTAC 2 cut(s) 137, 929
AfeI AGCGCT 1 cut(s) 954
AfiI CCNNNNNNNGG 2 cut(s) 242, 450
AflIII ACRYGT 3 cut(s) 628, 714, 856
AgeI ACCGGT 1 cut(s) 768
AgsI TTSAA 6 cut(s) 74, 220, 313, 440, 829, 897
AhdI GACNNNNNGTC 2 cut(s) 407, 715
AloI GAACNNNNNNTCC 2 cut(s) 719, 751
Alw21I GWGCWC 1 cut(s) 328
Alw26I GTCTC 2 cut(s) 662, 981
AlwI GGATC 2 cut(s) 202, 783
Aor51HI AGCGCT 1 cut(s) 954
AoxI GGCC 2 cut(s) 225, 516
ApeKI GCWGC 6 cut(s) 187, 494, 562, 567, 913, 916
ApoI RAATTY 1 cut(s) 381
AsiGI ACCGGT 1 cut(s) 768
AspLEI GCGC 3 cut(s) 397, 567, 955
AspS9I GGNCC 4 cut(s) 226, 401, 409, 766
AsuC2I CCSGG 2 cut(s) 224, 417
AsuHPI GGTGA 2 cut(s) 362, 871
AsuNHI GCTAGC 1 cut(s) 610
AvaII GGWCC 3 cut(s) 401, 409, 766
BanI GGYRCC 1 cut(s) 679
BanII GRGCYC 1 cut(s) 328
BbsI GAAGAC 1 cut(s) 428
Bbv12I GWGCWC 1 cut(s) 328
BbvI GCAGC 6 cut(s) 199, 506, 549, 579, 925, 928
BccI CCATC 2 cut(s) 337, 400
BceAI ACGGC 2 cut(s) 662, 1034
BclI TGATCA 1 cut(s) 163
BcnI CCSGG 2 cut(s) 224, 417
BcoDI GTCTC 2 cut(s) 662, 981
BfaI CTAG 3 cut(s) 269, 398, 611
BfmI CTRYAG 2 cut(s) 185, 335
BfoI RGCGCY 2 cut(s) 398, 956
BisI GCNGC 7 cut(s) 188, 495, 563, 568, 914, 917, 979
BlpI GCTNAGC 1 cut(s) 558
BlsI GCNGC 7 cut(s) 189, 496, 564, 569, 915, 918, 980
BmcAI AGTACT 1 cut(s) 929
Bme1390I CCNGG 2 cut(s) 224, 417
Bme18I GGWCC 3 cut(s) 401, 409, 766
BmeRI GACNNNNNGTC 2 cut(s) 407, 715
BmgT120I GGNCC 4 cut(s) 226, 401, 409, 766
BmiI GGNNCC 2 cut(s) 426, 681
BmrFI CCNGG 2 cut(s) 224, 417
BmsI GCATC 3 cut(s) 99, 264, 368
BmtI GCTAGC 1 cut(s) 614
BpiI GAAGAC 1 cut(s) 428
BpmI CTGGAG 1 cut(s) 264
Bpu1102I GCTNAGC 1 cut(s) 558
BpuEI CTTGAG 2 cut(s) 788, 941
BpuMI CCSGG 2 cut(s) 224, 417
BsaAI YACGTR 1 cut(s) 345
BsaHI GRCGYC 2 cut(s) 480, 653
BsaI GGTCTC 1 cut(s) 662
BsaJI CCNNGG 3 cut(s) 191, 241, 483
BsaWI WCCGGW 3 cut(s) 676, 768, 881
BsaXI ACNNNNNCTCC 4 cut(s) 187, 217, 719, 749
Bsc4I CCNNNNNNNGG 2 cut(s) 242, 450
Bse118I RCCGGY 1 cut(s) 768
Bse1I ACTGG 2 cut(s) 303, 672
Bse3DI GCAATG 1 cut(s) 605
BseDI CCNNGG 3 cut(s) 191, 241, 483
BseGI GGATG 2 cut(s) 293, 359
BseLI CCNNNNNNNGG 2 cut(s) 242, 450
BseMI GCAATG 1 cut(s) 605
BseMII CTCAG 2 cut(s) 391, 825
BseNI ACTGG 2 cut(s) 303, 672
BseRI GAGGAG 4 cut(s) 267, 336, 740, 999
BseXI GCAGC 6 cut(s) 199, 506, 549, 579, 925, 928
BseYI CCCAGC 2 cut(s) 448, 578
Bsh1236I CGCG 2 cut(s) 716, 858
Bsh1285I CGRYCG 3 cut(s) 142, 687, 773
BshFI GGCC 2 cut(s) 227, 518
BshNI GGYRCC 1 cut(s) 679
BshTI ACCGGT 1 cut(s) 768
BsiEI CGRYCG 3 cut(s) 142, 687, 773
BsiHKAI GWGCWC 1 cut(s) 328
BsiSI CCGG 5 cut(s) 224, 417, 677, 769, 882
BslFI GGGAC 2 cut(s) 257, 260
BslI CCNNNNNNNGG 2 cut(s) 242, 450
BsmAI GTCTC 2 cut(s) 662, 981
BsmBI CGTCTC 1 cut(s) 981
BsmFI GGGAC 2 cut(s) 257, 260
BsnI GGCC 2 cut(s) 227, 518
Bso31I GGTCTC 1 cut(s) 662
Bsp1286I GDGCHC 1 cut(s) 328
Bsp143I GATC 8 cut(s) 22, 163, 207, 364, 702, 775, 787, 837
Bsp1720I GCTNAGC 1 cut(s) 558
Bsp19I CCATGG 1 cut(s) 191
BspACI CCGC 4 cut(s) 462, 962, 978, 981
BspANI GGCC 2 cut(s) 227, 518
BspCNI CTCAG 2 cut(s) 390, 826
BspFNI CGCG 2 cut(s) 716, 858
BspHI TCATGA 1 cut(s) 160
BspLI GGNNCC 2 cut(s) 426, 681
BspMAI CTGCAG 1 cut(s) 189
BspOI GCTAGC 1 cut(s) 614
BspPI GGATC 2 cut(s) 202, 783
BspQI GCTCTTC 2 cut(s) 903, 968
BspT107I GGYRCC 1 cut(s) 679
BspTNI GGTCTC 1 cut(s) 662
BsrBI CCGCTC 1 cut(s) 978
BsrDI GCAATG 1 cut(s) 605
BsrFI RCCGGY 1 cut(s) 768
BsrI ACTGG 2 cut(s) 303, 672
BssAI RCCGGY 1 cut(s) 768
BssECI CCNNGG 3 cut(s) 191, 241, 483
BssMI GATC 8 cut(s) 22, 163, 207, 364, 702, 775, 787, 837
BssNI GRCGYC 2 cut(s) 480, 653
BssT1I CCWWGG 2 cut(s) 191, 483
Bst4CI ACNGT 4 cut(s) 140, 339, 353, 932
Bst6I CTCTTC 4 cut(s) 313, 526, 903, 968
BstACI GRCGYC 2 cut(s) 480, 653
BstBAI YACGTR 1 cut(s) 345
BstC8I GCNNGC 1 cut(s) 612
BstDEI CTNAG 3 cut(s) 377, 558, 834
BstDSI CCRYGG 1 cut(s) 191
BstENI CCTNNNNNAGG 1 cut(s) 240
BstF5I GGATG 2 cut(s) 293, 359
BstFNI CGCG 2 cut(s) 716, 858
BstH2I RGCGCY 2 cut(s) 398, 956
BstHHI GCGC 3 cut(s) 397, 567, 955
BstKTI GATC 8 cut(s) 25, 166, 210, 367, 705, 778, 790, 840
BstMAI GTCTC 2 cut(s) 662, 981
BstMBI GATC 8 cut(s) 22, 163, 207, 364, 702, 775, 787, 837
BstMCI CGRYCG 3 cut(s) 142, 687, 773
BstMWI GCNNNNNNNGC 5 cut(s) 454, 494, 646, 922, 959
BstNSI RCATGY 1 cut(s) 632
BstSCI CCNGG 2 cut(s) 222, 415
BstSFI CTRYAG 2 cut(s) 185, 335
BstUI CGCG 2 cut(s) 716, 858
BstV1I GCAGC 6 cut(s) 199, 506, 549, 579, 925, 928
BstV2I GAAGAC 1 cut(s) 428
BstX2I RGATCY 1 cut(s) 775
BstYI RGATCY 1 cut(s) 775
BsuRI GGCC 2 cut(s) 227, 518
BtgI CCRYGG 1 cut(s) 191
BtsCI GGATG 2 cut(s) 293, 359
BtsI GCAGTG 1 cut(s) 1015
BtsIMutI CAGTG 1 cut(s) 1015
Cac8I GCNNGC 1 cut(s) 612
CciI TCATGA 1 cut(s) 160
CfoI GCGC 3 cut(s) 397, 567, 955
Cfr10I RCCGGY 1 cut(s) 768
Cfr13I GGNCC 4 cut(s) 226, 401, 409, 766
CseI GACGC 4 cut(s) 488, 705, 722, 864
Csp6I GTAC 2 cut(s) 136, 928
CspAI ACCGGT 1 cut(s) 768
CviAII CATG 4 cut(s) 161, 192, 475, 629
CviQI GTAC 2 cut(s) 136, 928
DdeI CTNAG 3 cut(s) 377, 558, 834
DpnI GATC 8 cut(s) 24, 165, 209, 366, 704, 777, 789, 839
DpnII GATC 8 cut(s) 22, 163, 207, 364, 702, 775, 787, 837
DriI GACNNNNNGTC 2 cut(s) 407, 715
Eam1104I CTCTTC 4 cut(s) 313, 526, 903, 968
Eam1105I GACNNNNNGTC 2 cut(s) 407, 715
EarI CTCTTC 4 cut(s) 313, 526, 903, 968
EciI GGCGGA 1 cut(s) 996
Ecl136II GAGCTC 1 cut(s) 326
Eco130I CCWWGG 2 cut(s) 191, 483
Eco24I GRGCYC 1 cut(s) 328
Eco31I GGTCTC 1 cut(s) 662
Eco47I GGWCC 3 cut(s) 401, 409, 766
Eco47III AGCGCT 1 cut(s) 954
Eco53kI GAGCTC 1 cut(s) 326
Eco57I CTGAAG 1 cut(s) 987
EcoICRI GAGCTC 1 cut(s) 326
EcoNI CCTNNNNNAGG 1 cut(s) 240
EcoT14I CCWWGG 2 cut(s) 191, 483
EcoT38I GRGCYC 1 cut(s) 328
ErhI CCWWGG 2 cut(s) 191, 483
Esp3I CGTCTC 1 cut(s) 981
FaeI CATG 4 cut(s) 164, 195, 478, 632
FaiI YATR 7 cut(s) 162, 193, 300, 348, 476, 630, 935
FaqI GGGAC 2 cut(s) 257, 260
FatI CATG 4 cut(s) 160, 191, 474, 628
FbaI TGATCA 1 cut(s) 163
Fnu4HI GCNGC 7 cut(s) 188, 495, 563, 568, 914, 917, 979
FokI GGATG 2 cut(s) 280, 346
FriOI GRGCYC 1 cut(s) 328
Fsp4HI GCNGC 7 cut(s) 188, 495, 563, 568, 914, 917, 979
FspBI CTAG 3 cut(s) 269, 398, 611
FspI TGCGCA 1 cut(s) 566
GlaI GCGC 3 cut(s) 396, 566, 954
GluI GCNGC 7 cut(s) 188, 495, 563, 568, 914, 917, 979
GsaI CCCAGC 2 cut(s) 452, 582
GsuI CTGGAG 1 cut(s) 264
HaeII RGCGCY 2 cut(s) 398, 956
HaeIII GGCC 2 cut(s) 227, 518
HapII CCGG 5 cut(s) 224, 417, 677, 769, 882
HgaI GACGC 4 cut(s) 488, 705, 722, 864
HhaI GCGC 3 cut(s) 397, 567, 955
Hin1I GRCGYC 2 cut(s) 480, 653
Hin1II CATG 4 cut(s) 164, 195, 478, 632
Hin6I GCGC 3 cut(s) 395, 565, 953
HinP1I GCGC 3 cut(s) 395, 565, 953
HindIII AAGCTT 1 cut(s) 747
HinfI GANTC 4 cut(s) 43, 196, 893, 992
HpaII CCGG 5 cut(s) 224, 417, 677, 769, 882
HphI GGTGA 2 cut(s) 362, 871
Hpy166II GTNNAC 4 cut(s) 38, 342, 709, 854
Hpy188I TCNGA 7 cut(s) 207, 242, 364, 380, 391, 721, 775
Hpy188III TCNNGA 3 cut(s) 74, 161, 796
Hpy8I GTNNAC 4 cut(s) 38, 342, 709, 854
Hpy99I CGWCG 2 cut(s) 716, 721
HpyAV CCTTC 1 cut(s) 628
HpyCH4III ACNGT 4 cut(s) 140, 339, 353, 932
HpyCH4IV ACGT 4 cut(s) 344, 653, 814, 845
HpyCH4V TGCA 2 cut(s) 112, 187
HpyF10VI GCNNNNNNNGC 5 cut(s) 454, 494, 646, 922, 959
HpyF3I CTNAG 3 cut(s) 377, 558, 834
HpySE526I ACGT 4 cut(s) 344, 653, 814, 845
Hsp92I GRCGYC 2 cut(s) 480, 653
Hsp92II CATG 4 cut(s) 164, 195, 478, 632
HspAI GCGC 3 cut(s) 395, 565, 953
Ksp22I TGATCA 1 cut(s) 163
Kzo9I GATC 8 cut(s) 22, 163, 207, 364, 702, 775, 787, 837
LguI GCTCTTC 2 cut(s) 903, 968
LmnI GCTCC 6 cut(s) 175, 289, 323, 331, 430, 637
Lsp1109I GCAGC 6 cut(s) 199, 506, 549, 579, 925, 928
LweI GCATC 3 cut(s) 99, 264, 368
MaeI CTAG 3 cut(s) 269, 398, 611
MaeII ACGT 4 cut(s) 344, 653, 814, 845
MaeIII GTNAC 1 cut(s) 506
MalI GATC 8 cut(s) 24, 165, 209, 366, 704, 777, 789, 839
MbiI CCGCTC 1 cut(s) 978
MboI GATC 8 cut(s) 22, 163, 207, 364, 702, 775, 787, 837
MflI RGATCY 1 cut(s) 775
MhlI GDGCHC 1 cut(s) 328
MluCI AATT 2 cut(s) 381, 997
MluI ACGCGT 2 cut(s) 714, 856
MlyI GAGTC 3 cut(s) 52, 190, 986
MmeI TCCRAC 3 cut(s) 115, 699, 753
MseI TTAA 1 cut(s) 1014
MspI CCGG 5 cut(s) 224, 417, 677, 769, 882
MspR9I CCNGG 2 cut(s) 224, 417
MvnI CGCG 2 cut(s) 716, 858
MwoI GCNNNNNNNGC 5 cut(s) 454, 494, 646, 922, 959
NciI CCSGG 2 cut(s) 224, 417
NcoI CCATGG 1 cut(s) 191
NdeII GATC 8 cut(s) 22, 163, 207, 364, 702, 775, 787, 837
NheI GCTAGC 1 cut(s) 610
NlaIII CATG 4 cut(s) 164, 195, 478, 632
NlaIV GGNNCC 2 cut(s) 426, 681
NmeAIII GCCGAG 1 cut(s) 469
NmuCI GTSAC 1 cut(s) 506
NsbI TGCGCA 1 cut(s) 566
NspI RCATGY 1 cut(s) 632
PagI TCATGA 1 cut(s) 160
PciI ACATGT 1 cut(s) 628
PciSI GCTCTTC 2 cut(s) 903, 968
PcsI WCGNNNNNNNCGW 2 cut(s) 702, 720
PfeI GAWTC 1 cut(s) 893
PinAI ACCGGT 1 cut(s) 768
PkrI GCNGC 7 cut(s) 189, 496, 564, 569, 915, 918, 980
PleI GAGTC 3 cut(s) 51, 190, 986
PpsI GAGTC 3 cut(s) 51, 190, 986
Ppu21I YACGTR 1 cut(s) 345
PscI ACATGT 1 cut(s) 628
Psp124BI GAGCTC 1 cut(s) 328
Psp1406I AACGTT 1 cut(s) 845
PspFI CCCAGC 2 cut(s) 448, 578
PspN4I GGNNCC 2 cut(s) 426, 681
PspPI GGNCC 4 cut(s) 226, 401, 409, 766
PstI CTGCAG 1 cut(s) 189
PsuI RGATCY 1 cut(s) 775
RsaI GTAC 2 cut(s) 137, 929
RsaNI GTAC 2 cut(s) 136, 928
SacI GAGCTC 1 cut(s) 328
SapI GCTCTTC 2 cut(s) 903, 968
SaqAI TTAA 1 cut(s) 1014
SatI GCNGC 7 cut(s) 188, 495, 563, 568, 914, 917, 979
Sau3AI GATC 8 cut(s) 22, 163, 207, 364, 702, 775, 787, 837
Sau96I GGNCC 4 cut(s) 226, 401, 409, 766
ScaI AGTACT 1 cut(s) 929
SchI GAGTC 3 cut(s) 52, 190, 986
ScrFI CCNGG 2 cut(s) 224, 417
SduI GDGCHC 1 cut(s) 328
SfaNI GCATC 3 cut(s) 99, 264, 368
SfcI CTRYAG 2 cut(s) 185, 335
SinI GGWCC 3 cut(s) 401, 409, 766
SmlI CTYRAG 2 cut(s) 803, 956
SmoI CTYRAG 2 cut(s) 803, 956
Sse9I AATT 2 cut(s) 381, 997
SsiI CCGC 4 cut(s) 462, 962, 978, 981
SspMI CTAG 3 cut(s) 269, 398, 611
SstI GAGCTC 1 cut(s) 328
StyD4I CCNGG 2 cut(s) 222, 415
StyI CCWWGG 2 cut(s) 191, 483
TaaI ACNGT 4 cut(s) 140, 339, 353, 932
TaiI ACGT 4 cut(s) 347, 656, 817, 848
TaqI TCGA 3 cut(s) 142, 258, 941
TaqII GACCGA 3 cut(s) 418, 422, 701
TasI AATT 2 cut(s) 381, 997
TatI WGTACW 1 cut(s) 927
TauI GCSGC 1 cut(s) 981
TfiI GAWTC 1 cut(s) 893
Tru1I TTAA 1 cut(s) 1014
Tru9I TTAA 1 cut(s) 1014
TscAI CASTG 1 cut(s) 1015
TseFI GTSAC 1 cut(s) 506
TseI GCWGC 6 cut(s) 187, 494, 562, 567, 913, 916
Tsp45I GTSAC 1 cut(s) 506
TspDTI ATGAA 1 cut(s) 865
TspGWI ACGGA 1 cut(s) 608
TspRI CASTG 1 cut(s) 1015
VpaK11BI GGWCC 3 cut(s) 401, 409, 766
XagI CCTNNNNNAGG 1 cut(s) 240
XapI RAATTY 1 cut(s) 381
XceI RCATGY 1 cut(s) 632
XspI CTAG 3 cut(s) 269, 398, 611
ZraI GACGTC 1 cut(s) 654
ZrmI AGTACT 1 cut(s) 929
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.