Rroxscaffold_7G00163310

Transcriptional regulator of RNA polII, SAGA, subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000007
OG0010904
Physical Location & Seq
Reverse (-)
5598151 .. 5600877
2727 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_7G00163310.1

Sequence Viewer

Length: 1260 bp
ATGCAACCTCAGCAGTTGTCGAGGATTGATTTGGGTGATTTGAGAGCTCAGTTAGTGAAGAGGATCGGGCCTGAGAAGTCGAAACGATACTTTTATTACTTGAACAAGTTGTTGAGTCAGAAGCTGAGCAAGAAAGAGTTTGATAAGTTGTGCCACCGGGTGTTAGGAAGTGAGAACTTGCCGCTGCACAATCATTTTATACTGTCAATCTTGAAGAATGCCTGCCAAGGCAAGATCCCGCCACCAGTTCATTCATCAGGTCCTGCAAAACCTGGGGTGCAAACTGCAAACAGTTCTCCAAGTAGAGAAGATGGGCACGAACAAAGTGGGAACCTTTTCCCAAATCAGAATCAAAGTGTGTCTGTTTGGTCTAATGGGGTTTTGCCTGTGTCCCCAAGGAAGGGGAGGTCCGCTATACGTGAGCGGAAGCTAAGGGATAGACCTAGCCCACTTGGACCAAATGGGAAGGTAGATAGTGTGTCACATCCATCCACAGGTTCAGAGGATAGTGGCAGTAAGATTATCATGGAGAATGGGGATGCAAATCCATTTGATTATCAGAGACCAATGCAGCATCTTCAACCAGTTGCCGAGCTACCTGAACGTGAAAGAGATGGTGCAGTTAGGCGACCCACAGGAAAACCACAGATACTCAGCAATCAGGCTAACTTTGCAGTTATGGAAGATGGGGAAGAGGCGGAACAATCAAACCGTTTGAGTTTCTCCAGAAGTCCTCTTCTTGCTCCACTTGGGATCCCATTATACTCAGCCAGTGTAGGTGGGGCCCGCAAAGCTATTCCGGTGGGTAGCAGCTGTGATTTTGTTAGCTATTATGACAGTGGGGTTTTGTCTGATACGGAGACCCTGAGAAACCGTATGGAGCAGATTGCTGCAGCACAAGGTGTTGGAGGTGTTTCTATGGAATGTGCCAATATGTTAAATAATGTGTTGGACGTGCACTTAAAGCGATTGATCAAATCCTGTGTTGAGCTGGTGGGATCAAGGTCTGGTTTAGAGCCAAGAAAGAATGCTGCACCAAAGCAGCAGATTCAAGGAAAGGTTATTAATGGCATGTGGCCAAGCAATCACCCGCATATGCAGGGCAGCAATGGGCGCTTGGAAGTTTCACAGGAGGAAAGACTGCCGCGCTCAATATCTTTGCTTGATTTTAAGGTTGCAATGGAGCTAAATCCACAGCAACTTGGAGAAGACTGGCCATTGCTGCTGGAGAAGATCTGTATGCAGTCATTTGAGGAATGA
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
SAGA-Tad1

Protein Analysis

419

Amino Acids

46.24

Weight (kDa)

9.02

Isoelectric Point (pI)

54.87

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
SAGA-Tad1 PF12767 4 - 332 1.9e-64 Transcriptional regulator of RNA polII, SAGA, subunit
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: OG0010904)

Species Orthologous Gene IDs
arabidopsis_thaliana AT2G24530 AT2G24530 AT4G31440
fragaria_vesca FvH4_2g36780
malus_domestica MD08G1128500.v1.1 MD15G1108000.v1.1
prunus_persica Prupe.1G460300_v2.0.a1
pyrus_communis pycom08g10740 pycom15g09870
rosa_chinensis RchiOBHm_Chr6g0304961
rosa_laevigata RLG00000010932
rosa_multiflora Rmu_co8321821.1_g000001 Rmu_co8368149.1_g000001
rosa_roxburghii Rroxscaffold_7G00163310
rosa_rugosa Rorug06G0336400
rosa_samantha Rh6AG447800 Rh6BG453200 Rh6CG461400 Rh6DG448400
rosa_wichuraiana Rw6G039000

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccBSI CCGCTC 1 cut(s) 424
AccII CGCG 1 cut(s) 1147
AciI CCGC 8 cut(s) 182, 239, 411, 424, 698, 787, 1091, 1145
AclWI GGATC 5 cut(s) 71, 229, 748, 761, 1006
AcoI YGGCCR 2 cut(s) 1076, 1214
AdeI CACNNNGTG 2 cut(s) 160, 902
AfiI CCNNNNNNNGG 3 cut(s) 400, 401, 494
AgsI TTSAA 4 cut(s) 103, 214, 581, 1052
AjiI CACGTC 1 cut(s) 955
AjnI CCWGG 1 cut(s) 271
AluBI AGCT 9 cut(s) 47, 124, 430, 595, 794, 813, 828, 991, 1186
AluI AGCT 9 cut(s) 47, 124, 430, 595, 794, 813, 828, 991, 1186
Alw21I GWGCWC 2 cut(s) 49, 960
Alw26I GTCTC 2 cut(s) 556, 854
Alw44I GTGCAC 1 cut(s) 956
AlwI GGATC 5 cut(s) 71, 229, 748, 761, 1006
AlwNI CAGNNNCTG 2 cut(s) 124, 263
AoxI GGCC 4 cut(s) 68, 783, 1076, 1214
ApaI GGGCCC 1 cut(s) 787
ApaLI GTGCAC 1 cut(s) 956
ApeKI GCWGC 9 cut(s) 184, 571, 810, 890, 893, 1031, 1042, 1104, 1222
AseI ATTAAT 1 cut(s) 1065
Asp700I GAANNNNTTC 1 cut(s) 335
AspLEI GCGC 2 cut(s) 1116, 1149
AspS9I GGNCC 6 cut(s) 68, 260, 408, 455, 783, 784
AsuC2I CCSGG 1 cut(s) 158
AsuHPI GGTGA 2 cut(s) 47, 1079
AvaII GGWCC 3 cut(s) 260, 408, 455
BaeGI GKGCMC 3 cut(s) 318, 787, 960
BalI TGGCCA 2 cut(s) 1078, 1216
BamHI GGATCC 1 cut(s) 753
BanII GRGCYC 2 cut(s) 49, 787
BbsI GAAGAC 1 cut(s) 1215
Bbv12I GWGCWC 2 cut(s) 49, 960
BbvCI CCTCAGC 1 cut(s) 9
BbvI GCAGC 9 cut(s) 171, 583, 822, 877, 905, 1018, 1054, 1116, 1209
BccI CCATC 4 cut(s) 305, 496, 608, 680
BciT130I CCWGG 1 cut(s) 273
BclI TGATCA 1 cut(s) 972
BcnI CCSGG 1 cut(s) 158
BcoDI GTCTC 2 cut(s) 556, 854
BfaI CTAG 1 cut(s) 444
BfmI CTRYAG 1 cut(s) 891
BfoI RGCGCY 1 cut(s) 1117
BglII AGATCT 1 cut(s) 1233
BlpI GCTNAGC 1 cut(s) 125
Bme1390I CCNGG 2 cut(s) 158, 273
Bme18I GGWCC 3 cut(s) 260, 408, 455
BmgBI CACGTC 1 cut(s) 955
BmgT120I GGNCC 6 cut(s) 68, 260, 408, 455, 783, 784
BmiI GGNNCC 4 cut(s) 332, 755, 784, 785
BmrFI CCNGG 2 cut(s) 158, 273
BmsI GCATC 2 cut(s) 529, 583
BpiI GAAGAC 1 cut(s) 1215
BpmI CTGGAG 2 cut(s) 709, 1247
Bpu10I CCTNAGC 2 cut(s) 9, 431
Bpu1102I GCTNAGC 1 cut(s) 125
BpuMI CCSGG 1 cut(s) 158
BsaAI YACGTR 1 cut(s) 419
BsaBI GATNNNNATC 1 cut(s) 543
BsaI GGTCTC 2 cut(s) 556, 854
BsaJI CCNNGG 3 cut(s) 226, 272, 395
BsaWI WCCGGW 1 cut(s) 799
Bsc4I CCNNNNNNNGG 3 cut(s) 400, 401, 494
Bse1I ACTGG 4 cut(s) 245, 584, 771, 1217
Bse3DI GCAATG 3 cut(s) 1114, 1185, 1217
Bse8I GATNNNNATC 1 cut(s) 543
BseBI CCWGG 1 cut(s) 273
BseDI CCNNGG 3 cut(s) 226, 272, 395
BseGI GGATG 3 cut(s) 484, 488, 544
BseJI GATNNNNATC 1 cut(s) 543
BseLI CCNNNNNNNGG 3 cut(s) 400, 401, 494
BseMI GCAATG 3 cut(s) 1114, 1185, 1217
BseMII CTCAG 7 cut(s) 23, 62, 63, 116, 667, 780, 857
BseNI ACTGG 4 cut(s) 245, 584, 771, 1217
BseSI GKGCMC 3 cut(s) 318, 787, 960
BseXI GCAGC 9 cut(s) 171, 583, 822, 877, 905, 1018, 1054, 1116, 1209
BsgI GTGCAG 3 cut(s) 170, 639, 1017
Bsh1236I CGCG 1 cut(s) 1147
BshFI GGCC 4 cut(s) 70, 785, 1078, 1216
BsiHKAI GWGCWC 2 cut(s) 49, 960
BsiSI CCGG 2 cut(s) 157, 800
BslFI GGGAC 1 cut(s) 376
BslI CCNNNNNNNGG 3 cut(s) 400, 401, 494
BsmAI GTCTC 2 cut(s) 556, 854
BsmFI GGGAC 1 cut(s) 376
BsmI GAATGC 2 cut(s) 223, 1033
BsnI GGCC 4 cut(s) 70, 785, 1078, 1216
Bso31I GGTCTC 2 cut(s) 556, 854
Bsp120I GGGCCC 1 cut(s) 783
Bsp1286I GDGCHC 4 cut(s) 49, 318, 787, 960
Bsp143I GATC 6 cut(s) 63, 234, 753, 972, 998, 1233
Bsp1720I GCTNAGC 1 cut(s) 125
BspACI CCGC 8 cut(s) 182, 239, 411, 424, 698, 787, 1091, 1145
BspANI GGCC 4 cut(s) 70, 785, 1078, 1216
BspCNI CTCAG 7 cut(s) 22, 61, 64, 117, 666, 779, 858
BspFNI CGCG 1 cut(s) 1147
BspLI GGNNCC 4 cut(s) 332, 755, 784, 785
BspMAI CTGCAG 1 cut(s) 895
BspPI GGATC 5 cut(s) 71, 229, 748, 761, 1006
BspTNI GGTCTC 2 cut(s) 556, 854
BsrBI CCGCTC 1 cut(s) 424
BsrDI GCAATG 3 cut(s) 1114, 1185, 1217
BsrI ACTGG 4 cut(s) 245, 584, 771, 1217
BssECI CCNNGG 3 cut(s) 226, 272, 395
BssMI GATC 6 cut(s) 63, 234, 753, 972, 998, 1233
BssT1I CCWWGG 2 cut(s) 226, 395
Bst2UI CCWGG 1 cut(s) 273
Bst4CI ACNGT 5 cut(s) 204, 293, 713, 839, 875
Bst6I CTCTTC 3 cut(s) 53, 687, 741
BstBAI YACGTR 1 cut(s) 419
BstC8I GCNNGC 2 cut(s) 223, 787
BstDEI CTNAG 8 cut(s) 9, 48, 72, 125, 431, 653, 766, 866
BstF5I GGATG 3 cut(s) 484, 488, 544
BstFNI CGCG 1 cut(s) 1147
BstH2I RGCGCY 1 cut(s) 1117
BstHHI GCGC 2 cut(s) 1116, 1149
BstKTI GATC 6 cut(s) 66, 237, 756, 975, 1001, 1236
BstMAI GTCTC 2 cut(s) 556, 854
BstMBI GATC 6 cut(s) 63, 234, 753, 972, 998, 1233
BstMWI GCNNNNNNNGC 6 cut(s) 10, 671, 791, 964, 1113, 1222
BstNI CCWGG 1 cut(s) 273
BstNSI RCATGY 1 cut(s) 1075
BstSCI CCNGG 2 cut(s) 156, 271
BstSFI CTRYAG 1 cut(s) 891
BstSLI GKGCMC 3 cut(s) 318, 787, 960
BstUI CGCG 1 cut(s) 1147
BstV1I GCAGC 9 cut(s) 171, 583, 822, 877, 905, 1018, 1054, 1116, 1209
BstV2I GAAGAC 1 cut(s) 1215
BstX2I RGATCY 3 cut(s) 234, 753, 1233
BstYI RGATCY 3 cut(s) 234, 753, 1233
BsuRI GGCC 4 cut(s) 70, 785, 1078, 1216
BtrI CACGTC 1 cut(s) 955
BtsCI GGATG 3 cut(s) 484, 488, 544
BtsIMutI CAGTG 2 cut(s) 778, 844
Cac8I GCNNGC 2 cut(s) 223, 787
CaiI CAGNNNCTG 2 cut(s) 124, 263
CfoI GCGC 2 cut(s) 1116, 1149
Cfr13I GGNCC 6 cut(s) 68, 260, 408, 455, 783, 784
CviAII CATG 2 cut(s) 526, 1072
DdeI CTNAG 8 cut(s) 9, 48, 72, 125, 431, 653, 766, 866
DpnI GATC 6 cut(s) 65, 236, 755, 974, 1000, 1235
DpnII GATC 6 cut(s) 63, 234, 753, 972, 998, 1233
DraIII CACNNNGTG 2 cut(s) 160, 902
EaeI YGGCCR 2 cut(s) 1076, 1214
Eam1104I CTCTTC 3 cut(s) 53, 687, 741
EarI CTCTTC 3 cut(s) 53, 687, 741
EciI GGCGGA 1 cut(s) 713
Ecl136II GAGCTC 1 cut(s) 47
Eco130I CCWWGG 2 cut(s) 226, 395
Eco24I GRGCYC 2 cut(s) 49, 787
Eco31I GGTCTC 2 cut(s) 556, 854
Eco47I GGWCC 3 cut(s) 260, 408, 455
Eco53kI GAGCTC 1 cut(s) 47
EcoICRI GAGCTC 1 cut(s) 47
EcoO109I RGGNCCY 2 cut(s) 260, 783
EcoRII CCWGG 1 cut(s) 271
EcoT14I CCWWGG 2 cut(s) 226, 395
EcoT38I GRGCYC 2 cut(s) 49, 787
ErhI CCWWGG 2 cut(s) 226, 395
FaeI CATG 2 cut(s) 529, 1075
FaqI GGGAC 1 cut(s) 376
FatI CATG 2 cut(s) 525, 1071
FauI CCCGC 3 cut(s) 246, 794, 1098
FauNDI CATATG 1 cut(s) 1095
FbaI TGATCA 1 cut(s) 972
FokI GGATG 3 cut(s) 471, 475, 551
FriOI GRGCYC 2 cut(s) 49, 787
FspBI CTAG 1 cut(s) 444
GlaI GCGC 2 cut(s) 1115, 1148
GsuI CTGGAG 2 cut(s) 709, 1247
HaeII RGCGCY 1 cut(s) 1117
HaeIII GGCC 4 cut(s) 70, 785, 1078, 1216
HapII CCGG 2 cut(s) 157, 800
HhaI GCGC 2 cut(s) 1116, 1149
Hin1II CATG 2 cut(s) 529, 1075
Hin6I GCGC 2 cut(s) 1114, 1147
HinP1I GCGC 2 cut(s) 1114, 1147
HinfI GANTC 3 cut(s) 115, 349, 1048
HpaII CCGG 2 cut(s) 157, 800
HphI GGTGA 2 cut(s) 47, 1079
Hpy166II GTNNAC 1 cut(s) 958
Hpy188I TCNGA 5 cut(s) 120, 348, 502, 561, 853
Hpy188III TCNNGA 2 cut(s) 211, 726
Hpy8I GTNNAC 1 cut(s) 958
HpyAV CCTTC 2 cut(s) 394, 460
HpyCH4III ACNGT 5 cut(s) 204, 293, 713, 839, 875
HpyCH4IV ACGT 3 cut(s) 418, 604, 954
HpyF10VI GCNNNNNNNGC 6 cut(s) 10, 671, 791, 964, 1113, 1222
HpyF3I CTNAG 8 cut(s) 9, 48, 72, 125, 431, 653, 766, 866
HpySE526I ACGT 3 cut(s) 418, 604, 954
Hsp92II CATG 2 cut(s) 529, 1075
HspAI GCGC 2 cut(s) 1114, 1147
Ksp22I TGATCA 1 cut(s) 972
Kzo9I GATC 6 cut(s) 63, 234, 753, 972, 998, 1233
LmnI GCTCC 3 cut(s) 748, 880, 1183
Lsp1109I GCAGC 9 cut(s) 171, 583, 822, 877, 905, 1018, 1054, 1116, 1209
LweI GCATC 2 cut(s) 529, 583
MaeI CTAG 1 cut(s) 444
MaeII ACGT 3 cut(s) 418, 604, 954
MaeIII GTNAC 1 cut(s) 480
MalI GATC 6 cut(s) 65, 236, 755, 974, 1000, 1235
MbiI CCGCTC 1 cut(s) 424
MboI GATC 6 cut(s) 63, 234, 753, 972, 998, 1233
MboII GAAGA 9 cut(s) 70, 226, 320, 569, 695, 704, 728, 1220, 1243
MflI RGATCY 3 cut(s) 234, 753, 1233
MhlI GDGCHC 4 cut(s) 49, 318, 787, 960
MlsI TGGCCA 2 cut(s) 1078, 1216
MluNI TGGCCA 2 cut(s) 1078, 1216
MlyI GAGTC 1 cut(s) 124
MmeI TCCRAC 2 cut(s) 886, 930
Mox20I TGGCCA 2 cut(s) 1078, 1216
MroXI GAANNNNTTC 1 cut(s) 335
MscI TGGCCA 2 cut(s) 1078, 1216
MseI TTAA 4 cut(s) 938, 962, 1065, 1170
Msp20I TGGCCA 2 cut(s) 1078, 1216
MspA1I CMGCKG 2 cut(s) 184, 813
MspI CCGG 2 cut(s) 157, 800
MspR9I CCNGG 2 cut(s) 158, 273
Mva1269I GAATGC 2 cut(s) 223, 1033
MvaI CCWGG 1 cut(s) 273
MvnI CGCG 1 cut(s) 1147
MwoI GCNNNNNNNGC 6 cut(s) 10, 671, 791, 964, 1113, 1222
NciI CCSGG 1 cut(s) 158
NdeI CATATG 1 cut(s) 1095
NdeII GATC 6 cut(s) 63, 234, 753, 972, 998, 1233
NlaIII CATG 2 cut(s) 529, 1075
NlaIV GGNNCC 4 cut(s) 332, 755, 784, 785
NmeAIII GCCGAG 1 cut(s) 616
NmuCI GTSAC 1 cut(s) 480
NspI RCATGY 1 cut(s) 1075
PctI GAATGC 2 cut(s) 223, 1033
PdmI GAANNNNTTC 1 cut(s) 335
PfeI GAWTC 2 cut(s) 349, 1048
PleI GAGTC 1 cut(s) 123
PpsI GAGTC 1 cut(s) 123
Ppu21I YACGTR 1 cut(s) 419
PpuMI RGGWCCY 1 cut(s) 260
PshBI ATTAAT 1 cut(s) 1065
Psp124BI GAGCTC 1 cut(s) 49
Psp5II RGGWCCY 1 cut(s) 260
Psp6I CCWGG 1 cut(s) 271
PspGI CCWGG 1 cut(s) 271
PspN4I GGNNCC 4 cut(s) 332, 755, 784, 785
PspOMI GGGCCC 1 cut(s) 783
PspPI GGNCC 6 cut(s) 68, 260, 408, 455, 783, 784
PspPPI RGGWCCY 1 cut(s) 260
PstI CTGCAG 1 cut(s) 895
PstNI CAGNNNCTG 2 cut(s) 124, 263
PsuI RGATCY 3 cut(s) 234, 753, 1233
PvuII CAGCTG 1 cut(s) 813
SacI GAGCTC 1 cut(s) 49
SaqAI TTAA 4 cut(s) 938, 962, 1065, 1170
Sau3AI GATC 6 cut(s) 63, 234, 753, 972, 998, 1233
Sau96I GGNCC 6 cut(s) 68, 260, 408, 455, 783, 784
SchI GAGTC 1 cut(s) 124
ScrFI CCNGG 2 cut(s) 158, 273
SduI GDGCHC 4 cut(s) 49, 318, 787, 960
SfaNI GCATC 2 cut(s) 529, 583
SfcI CTRYAG 1 cut(s) 891
SinI GGWCC 3 cut(s) 260, 408, 455
SsiI CCGC 8 cut(s) 182, 239, 411, 424, 698, 787, 1091, 1145
SspMI CTAG 1 cut(s) 444
SstI GAGCTC 1 cut(s) 49
StyD4I CCNGG 2 cut(s) 156, 271
StyI CCWWGG 2 cut(s) 226, 395
TaaI ACNGT 5 cut(s) 204, 293, 713, 839, 875
TaiI ACGT 3 cut(s) 421, 607, 957
TaqI TCGA 2 cut(s) 20, 80
TauI GCSGC 2 cut(s) 184, 1147
TfiI GAWTC 2 cut(s) 349, 1048
Tru1I TTAA 4 cut(s) 938, 962, 1065, 1170
Tru9I TTAA 4 cut(s) 938, 962, 1065, 1170
TscAI CASTG 2 cut(s) 778, 844
TseFI GTSAC 1 cut(s) 480
TseI GCWGC 9 cut(s) 184, 571, 810, 890, 893, 1031, 1042, 1104, 1222
Tsp45I GTSAC 1 cut(s) 480
TspDTI ATGAA 2 cut(s) 239, 243
TspGWI ACGGA 1 cut(s) 872
TspRI CASTG 2 cut(s) 778, 844
VneI GTGCAC 1 cut(s) 956
VpaK11BI GGWCC 3 cut(s) 260, 408, 455
VspI ATTAAT 1 cut(s) 1065
XceI RCATGY 1 cut(s) 1075
XmnI GAANNNNTTC 1 cut(s) 335
XspI CTAG 1 cut(s) 444
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.