FvH4_2g36780

Transcriptional regulator of RNA polII, SAGA, subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb2
OG0010904
Physical Location & Seq
Reverse (-)
26869865 .. 26871127
1263 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_2g36780.t1

Sequence Viewer

Length: 1263 bp
ATGCAACCTCAGCAGTTGTCGAGGATCGATTTGGGTGATCTGAGAGCTCAGTTAGTGAAGAGGATCGGTCCTGAGAAGTCGAAGAAGTACTTTTTGTACTTGAATAAGTTGTTGAGTCAGAAGCTGAGCAAGAAAGAGTTTGATAAGTTGTGCCACCGGGTGTTAGGGAGTGAGAACTTGGCGCTGCATAATCATTTTATTCTGTCAATCTTGAAGAATGCATGCCAAGCCAAGATCCCGCCACCAGTTCACTCATCAGGTCCTGCAAAACCTGGGGTGCAAGCTGCAAACAGTTCTCCAAGTAGAGAGGATGGGCACGAACAAAGTGGGAGCCTTTTCCCGAATCAGAATCAAAATGTGCCTGTTTGGTCTAATGGGGTTGTGCCTCTGTCCCCAAGGAAGGGGAGGTCCACTATACGTGAGCGGAAGCTAAGGGATAGGCCTAGCCCACTTGGACCAAATGGGAAGGTAGACAGTGTGTCGCACCTATCCACAGGTTCAGAGGATAATGGCAGTAAGATTATCATGGAGAATGGGGATGCAAATCCATTTGATTATCAGAGACCAATGCAGCATCTTCAACCAGTTGCCGAGCTACCTGAACGAGAAAGAGATGGTGCAGTCAGGCGACCCACAGGAAAACCACAGATGCTCAGCAAAGATCCGGCCAACTTAGCAGTTATGGAAGATGGGGAAGAGGCGGAACAATCAAACCGTTCGAGTTTCTCCAGAAGTCCTCTTCTTGCTCCATTAGGGATCCCATTCTGCTCAGCCAGTGTAGGTGGGGCCCGCAAAGCTATTCCGGTGGGTAGCAGCTGTGATTTTGTTAGCTATAATGACAGTGGGGTCTTGTCTGATACAGAGACCCTGAGAAACCGTATGGAGCAGATTGCTGCAGCACAAGGTGTTGGAGGTGTTTCTACAGAATGTGCCAATATGTTGAATAATGTTTTGGATGTGTACTTAAAGCGATTGATCAAATCTTGTGTTGAGTTGGTGGGATCAAGGTCTGCTTTAGAGCCAAGAAAGAATGCTGCACCAAAGCAGCAGATTCAAGGGAAGGTTATCAATGGCATGTGGCCAAGCAACCACCCGCATATGCAGGGCAGCAATGGGCCCTTGGAAGTTTCACAGGAGCAAAGACCGCAGCGCTCAATATCTTTGCTTGATTTTAAGGTTGCTATGGAGCTAAATCCACAGCAACTTGGAGAAGACTGGCCACTGCTGCTGGAGAAGATCTGTATGCAGTCATTTGAGGAATGA
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

421

Amino Acids

46.15

Weight (kDa)

8.97

Isoelectric Point (pI)

53.49

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
SAGA-Tad1 PF12767 4 - 333 6.3e-63 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)
AasI GACNNNNNNGTC 1 cut(s) 845
AccBSI CCGCTC 1 cut(s) 424
AccI GTMKAC 1 cut(s) 471
AciI CCGC 6 cut(s) 239, 424, 701, 790, 1094, 1145
AclWI GGATC 7 cut(s) 32, 71, 229, 656, 751, 764, 1009
AcoI YGGCCR 3 cut(s) 666, 1079, 1217
AdeI CACNNNGTG 2 cut(s) 160, 905
AfaI GTAC 3 cut(s) 89, 98, 962
AfeI AGCGCT 1 cut(s) 1151
AfiI CCNNNNNNNGG 2 cut(s) 400, 401
AgsI TTSAA 5 cut(s) 103, 214, 581, 943, 1055
AhdI GACNNNNNGTC 1 cut(s) 478
AjnI CCWGG 1 cut(s) 271
AjuI GAANNNNNNNTTGG 2 cut(s) 935, 967
AluBI AGCT 9 cut(s) 47, 124, 284, 430, 595, 797, 816, 831, 1189
AluI AGCT 9 cut(s) 47, 124, 284, 430, 595, 797, 816, 831, 1189
Alw21I GWGCWC 1 cut(s) 49
Alw26I GTCTC 2 cut(s) 556, 857
AlwI GGATC 7 cut(s) 32, 71, 229, 656, 751, 764, 1009
AlwNI CAGNNNCTG 2 cut(s) 124, 263
Aor51HI AGCGCT 1 cut(s) 1151
AoxI GGCC 6 cut(s) 440, 666, 786, 1079, 1115, 1217
ApaI GGGCCC 2 cut(s) 790, 1119
AspLEI GCGC 2 cut(s) 184, 1152
AspS9I GGNCC 8 cut(s) 68, 260, 408, 455, 786, 787, 1115, 1116
AsuC2I CCSGG 1 cut(s) 158
AsuHPI GGTGA 1 cut(s) 47
AvaII GGWCC 4 cut(s) 68, 260, 408, 455
BaeGI GKGCMC 3 cut(s) 318, 790, 1119
BalI TGGCCA 2 cut(s) 1081, 1219
BamHI GGATCC 1 cut(s) 756
BanII GRGCYC 3 cut(s) 49, 790, 1119
BbsI GAAGAC 1 cut(s) 1218
Bbv12I GWGCWC 1 cut(s) 49
BbvCI CCTCAGC 1 cut(s) 9
BccI CCATC 3 cut(s) 305, 608, 683
BciT130I CCWGG 1 cut(s) 273
BclI TGATCA 1 cut(s) 975
BcnI CCSGG 1 cut(s) 158
BcoDI GTCTC 2 cut(s) 556, 857
BfaI CTAG 1 cut(s) 444
BfmI CTRYAG 2 cut(s) 894, 921
BfoI RGCGCY 2 cut(s) 185, 1153
BglII AGATCT 1 cut(s) 1236
BlpI GCTNAGC 3 cut(s) 125, 653, 769
BmcAI AGTACT 1 cut(s) 89
Bme1390I CCNGG 2 cut(s) 158, 273
Bme18I GGWCC 4 cut(s) 68, 260, 408, 455
BmeRI GACNNNNNGTC 1 cut(s) 478
BmgT120I GGNCC 8 cut(s) 68, 260, 408, 455, 786, 787, 1115, 1116
BmiI GGNNCC 5 cut(s) 332, 758, 787, 788, 1117
BmrFI CCNGG 2 cut(s) 158, 273
BmsI GCATC 3 cut(s) 529, 583, 639
BpiI GAAGAC 1 cut(s) 1218
BpmI CTGGAG 2 cut(s) 712, 1250
Bpu10I CCTNAGC 2 cut(s) 9, 431
Bpu1102I GCTNAGC 3 cut(s) 125, 653, 769
BpuMI CCSGG 1 cut(s) 158
Bsa29I ATCGAT 1 cut(s) 27
BsaAI YACGTR 1 cut(s) 419
BsaBI GATNNNNATC 1 cut(s) 543
BsaI GGTCTC 2 cut(s) 556, 857
BsaJI CCNNGG 3 cut(s) 272, 395, 1119
BsaWI WCCGGW 1 cut(s) 802
Bsc4I CCNNNNNNNGG 2 cut(s) 400, 401
Bse1I ACTGG 4 cut(s) 245, 584, 774, 1220
Bse3DI GCAATG 1 cut(s) 1117
Bse8I GATNNNNATC 1 cut(s) 543
BseBI CCWGG 1 cut(s) 273
BseCI ATCGAT 1 cut(s) 27
BseDI CCNNGG 3 cut(s) 272, 395, 1119
BseGI GGATG 3 cut(s) 316, 544, 961
BseJI GATNNNNATC 1 cut(s) 543
BseLI CCNNNNNNNGG 2 cut(s) 400, 401
BseMI GCAATG 1 cut(s) 1117
BseMII CTCAG 8 cut(s) 23, 32, 62, 63, 116, 667, 783, 860
BseNI ACTGG 4 cut(s) 245, 584, 774, 1220
BseSI GKGCMC 3 cut(s) 318, 790, 1119
BsgI GTGCAG 2 cut(s) 639, 1020
BshFI GGCC 6 cut(s) 442, 668, 788, 1081, 1117, 1219
BshVI ATCGAT 1 cut(s) 27
BsiHKAI GWGCWC 1 cut(s) 49
BsiSI CCGG 3 cut(s) 157, 665, 803
BslFI GGGAC 1 cut(s) 376
BslI CCNNNNNNNGG 2 cut(s) 400, 401
BsmAI GTCTC 2 cut(s) 556, 857
BsmFI GGGAC 1 cut(s) 376
BsmI GAATGC 2 cut(s) 223, 1036
BsnI GGCC 6 cut(s) 442, 668, 788, 1081, 1117, 1219
Bso31I GGTCTC 2 cut(s) 556, 857
Bsp120I GGGCCC 2 cut(s) 786, 1115
Bsp1286I GDGCHC 4 cut(s) 49, 318, 790, 1119
Bsp143I GATC 9 cut(s) 24, 37, 63, 234, 661, 756, 975, 1001, 1236
Bsp1720I GCTNAGC 3 cut(s) 125, 653, 769
BspACI CCGC 6 cut(s) 239, 424, 701, 790, 1094, 1145
BspANI GGCC 6 cut(s) 442, 668, 788, 1081, 1117, 1219
BspCNI CTCAG 8 cut(s) 22, 33, 61, 64, 117, 666, 782, 861
BspDI ATCGAT 1 cut(s) 27
BspLI GGNNCC 5 cut(s) 332, 758, 787, 788, 1117
BspMAI CTGCAG 1 cut(s) 898
BspPI GGATC 7 cut(s) 32, 71, 229, 656, 751, 764, 1009
BspTNI GGTCTC 2 cut(s) 556, 857
BsrBI CCGCTC 1 cut(s) 424
BsrDI GCAATG 1 cut(s) 1117
BsrI ACTGG 4 cut(s) 245, 584, 774, 1220
BssECI CCNNGG 3 cut(s) 272, 395, 1119
BssMI GATC 9 cut(s) 24, 37, 63, 234, 661, 756, 975, 1001, 1236
BssT1I CCWWGG 2 cut(s) 395, 1119
Bst2UI CCWGG 1 cut(s) 273
Bst4CI ACNGT 5 cut(s) 293, 476, 716, 842, 878
Bst6I CTCTTC 3 cut(s) 53, 690, 744
BstBAI YACGTR 1 cut(s) 419
BstC8I GCNNGC 3 cut(s) 223, 282, 790
BstF5I GGATG 3 cut(s) 316, 544, 961
BstH2I RGCGCY 2 cut(s) 185, 1153
BstHHI GCGC 2 cut(s) 184, 1152
BstKTI GATC 9 cut(s) 27, 40, 66, 237, 664, 759, 978, 1004, 1239
BstMAI GTCTC 2 cut(s) 556, 857
BstMBI GATC 9 cut(s) 24, 37, 63, 234, 661, 756, 975, 1001, 1236
BstMWI GCNNNNNNNGC 6 cut(s) 10, 227, 674, 794, 1144, 1225
BstNI CCWGG 1 cut(s) 273
BstNSI RCATGY 2 cut(s) 225, 1078
BstSCI CCNGG 2 cut(s) 156, 271
BstSFI CTRYAG 2 cut(s) 894, 921
BstSLI GKGCMC 3 cut(s) 318, 790, 1119
BstV2I GAAGAC 1 cut(s) 1218
BstX2I RGATCY 4 cut(s) 234, 661, 756, 1236
BstYI RGATCY 4 cut(s) 234, 661, 756, 1236
Bsu15I ATCGAT 1 cut(s) 27
BsuRI GGCC 6 cut(s) 442, 668, 788, 1081, 1117, 1219
BsuTUI ATCGAT 1 cut(s) 27
BtsCI GGATG 3 cut(s) 316, 544, 961
BtsI GCAGTG 1 cut(s) 1220
BtsIMutI CAGTG 4 cut(s) 481, 781, 847, 1220
Cac8I GCNNGC 3 cut(s) 223, 282, 790
CaiI CAGNNNCTG 2 cut(s) 124, 263
CfoI GCGC 2 cut(s) 184, 1152
Cfr13I GGNCC 8 cut(s) 68, 260, 408, 455, 786, 787, 1115, 1116
ClaI ATCGAT 1 cut(s) 27
Csp6I GTAC 3 cut(s) 88, 97, 961
CviAII CATG 3 cut(s) 222, 526, 1075
CviQI GTAC 3 cut(s) 88, 97, 961
DpnI GATC 9 cut(s) 26, 39, 65, 236, 663, 758, 977, 1003, 1238
DpnII GATC 9 cut(s) 24, 37, 63, 234, 661, 756, 975, 1001, 1236
DraIII CACNNNGTG 2 cut(s) 160, 905
DrdI GACNNNNNNGTC 1 cut(s) 845
DriI GACNNNNNGTC 1 cut(s) 478
DseDI GACNNNNNNGTC 1 cut(s) 845
EaeI YGGCCR 3 cut(s) 666, 1079, 1217
Eam1104I CTCTTC 3 cut(s) 53, 690, 744
Eam1105I GACNNNNNGTC 1 cut(s) 478
EarI CTCTTC 3 cut(s) 53, 690, 744
EciI GGCGGA 1 cut(s) 716
Ecl136II GAGCTC 1 cut(s) 47
Eco130I CCWWGG 2 cut(s) 395, 1119
Eco147I AGGCCT 1 cut(s) 442
Eco24I GRGCYC 3 cut(s) 49, 790, 1119
Eco31I GGTCTC 2 cut(s) 556, 857
Eco47I GGWCC 4 cut(s) 68, 260, 408, 455
Eco47III AGCGCT 1 cut(s) 1151
Eco53kI GAGCTC 1 cut(s) 47
EcoICRI GAGCTC 1 cut(s) 47
EcoO109I RGGNCCY 3 cut(s) 260, 786, 1116
EcoRII CCWGG 1 cut(s) 271
EcoT14I CCWWGG 2 cut(s) 395, 1119
EcoT22I ATGCAT 1 cut(s) 223
EcoT38I GRGCYC 3 cut(s) 49, 790, 1119
ErhI CCWWGG 2 cut(s) 395, 1119
FaeI CATG 3 cut(s) 225, 529, 1078
FalI AAGNNNNNCTT 4 cut(s) 74, 106, 997, 1029
FaqI GGGAC 1 cut(s) 376
FatI CATG 3 cut(s) 221, 525, 1074
FauI CCCGC 3 cut(s) 246, 797, 1101
FauNDI CATATG 1 cut(s) 1098
FbaI TGATCA 1 cut(s) 975
FblI GTMKAC 1 cut(s) 471
FokI GGATG 3 cut(s) 323, 551, 968
FriOI GRGCYC 3 cut(s) 49, 790, 1119
FspBI CTAG 1 cut(s) 444
GlaI GCGC 2 cut(s) 183, 1151
GsuI CTGGAG 2 cut(s) 712, 1250
HaeII RGCGCY 2 cut(s) 185, 1153
HaeIII GGCC 6 cut(s) 442, 668, 788, 1081, 1117, 1219
HapII CCGG 3 cut(s) 157, 665, 803
HhaI GCGC 2 cut(s) 184, 1152
Hin1II CATG 3 cut(s) 225, 529, 1078
Hin6I GCGC 2 cut(s) 182, 1150
HinP1I GCGC 2 cut(s) 182, 1150
HinfI GANTC 4 cut(s) 115, 343, 349, 1051
HpaII CCGG 3 cut(s) 157, 665, 803
HphI GGTGA 1 cut(s) 47
Hpy166II GTNNAC 4 cut(s) 250, 411, 472, 961
Hpy188I TCNGA 6 cut(s) 42, 120, 348, 502, 561, 856
Hpy188III TCNNGA 4 cut(s) 71, 211, 340, 729
Hpy8I GTNNAC 4 cut(s) 250, 411, 472, 961
HpyAV CCTTC 3 cut(s) 394, 460, 1054
HpyCH4III ACNGT 5 cut(s) 293, 476, 716, 842, 878
HpyCH4IV ACGT 1 cut(s) 418
HpyF10VI GCNNNNNNNGC 6 cut(s) 10, 227, 674, 794, 1144, 1225
HpySE526I ACGT 1 cut(s) 418
Hsp92II CATG 3 cut(s) 225, 529, 1078
HspAI GCGC 2 cut(s) 182, 1150
Ksp22I TGATCA 1 cut(s) 975
Kzo9I GATC 9 cut(s) 24, 37, 63, 234, 661, 756, 975, 1001, 1236
LmnI GCTCC 5 cut(s) 330, 751, 883, 1135, 1186
LweI GCATC 3 cut(s) 529, 583, 639
MaeI CTAG 1 cut(s) 444
MaeII ACGT 1 cut(s) 418
MalI GATC 9 cut(s) 26, 39, 65, 236, 663, 758, 977, 1003, 1238
MbiI CCGCTC 1 cut(s) 424
MboI GATC 9 cut(s) 24, 37, 63, 234, 661, 756, 975, 1001, 1236
MboII GAAGA 9 cut(s) 70, 94, 226, 569, 698, 707, 731, 1223, 1246
MflI RGATCY 4 cut(s) 234, 661, 756, 1236
MhlI GDGCHC 4 cut(s) 49, 318, 790, 1119
MlsI TGGCCA 2 cut(s) 1081, 1219
MluNI TGGCCA 2 cut(s) 1081, 1219
MlyI GAGTC 1 cut(s) 124
MmeI TCCRAC 1 cut(s) 889
Mox20I TGGCCA 2 cut(s) 1081, 1219
Mph1103I ATGCAT 1 cut(s) 223
MscI TGGCCA 2 cut(s) 1081, 1219
MseI TTAA 2 cut(s) 965, 1173
Msp20I TGGCCA 2 cut(s) 1081, 1219
MspA1I CMGCKG 1 cut(s) 816
MspI CCGG 3 cut(s) 157, 665, 803
MspR9I CCNGG 2 cut(s) 158, 273
Mva1269I GAATGC 2 cut(s) 223, 1036
MvaI CCWGG 1 cut(s) 273
MwoI GCNNNNNNNGC 6 cut(s) 10, 227, 674, 794, 1144, 1225
NciI CCSGG 1 cut(s) 158
NdeI CATATG 1 cut(s) 1098
NdeII GATC 9 cut(s) 24, 37, 63, 234, 661, 756, 975, 1001, 1236
NlaIII CATG 3 cut(s) 225, 529, 1078
NlaIV GGNNCC 5 cut(s) 332, 758, 787, 788, 1117
NmeAIII GCCGAG 1 cut(s) 616
NsiI ATGCAT 1 cut(s) 223
NspI RCATGY 2 cut(s) 225, 1078
PaeI GCATGC 1 cut(s) 225
PceI AGGCCT 1 cut(s) 442
PctI GAATGC 2 cut(s) 223, 1036
PfeI GAWTC 3 cut(s) 343, 349, 1051
PleI GAGTC 1 cut(s) 123
PpsI GAGTC 1 cut(s) 123
Ppu21I YACGTR 1 cut(s) 419
PpuMI RGGWCCY 1 cut(s) 260
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 5 cut(s) 332, 758, 787, 788, 1117
PspOMI GGGCCC 2 cut(s) 786, 1115
PspPI GGNCC 8 cut(s) 68, 260, 408, 455, 786, 787, 1115, 1116
PspPPI RGGWCCY 1 cut(s) 260
PstI CTGCAG 1 cut(s) 898
PstNI CAGNNNCTG 2 cut(s) 124, 263
PsuI RGATCY 4 cut(s) 234, 661, 756, 1236
PvuII CAGCTG 1 cut(s) 816
RsaI GTAC 3 cut(s) 89, 98, 962
RsaNI GTAC 3 cut(s) 88, 97, 961
SacI GAGCTC 1 cut(s) 49
SaqAI TTAA 2 cut(s) 965, 1173
Sau3AI GATC 9 cut(s) 24, 37, 63, 234, 661, 756, 975, 1001, 1236
Sau96I GGNCC 8 cut(s) 68, 260, 408, 455, 786, 787, 1115, 1116
ScaI AGTACT 1 cut(s) 89
SchI GAGTC 1 cut(s) 124
ScrFI CCNGG 2 cut(s) 158, 273
SduI GDGCHC 4 cut(s) 49, 318, 790, 1119
SfaNI GCATC 3 cut(s) 529, 583, 639
SfcI CTRYAG 2 cut(s) 894, 921
SinI GGWCC 4 cut(s) 68, 260, 408, 455
SphI GCATGC 1 cut(s) 225
SseBI AGGCCT 1 cut(s) 442
SsiI CCGC 6 cut(s) 239, 424, 701, 790, 1094, 1145
SspMI CTAG 1 cut(s) 444
SstI GAGCTC 1 cut(s) 49
StuI AGGCCT 1 cut(s) 442
StyD4I CCNGG 2 cut(s) 156, 271
StyI CCWWGG 2 cut(s) 395, 1119
TaaI ACNGT 5 cut(s) 293, 476, 716, 842, 878
TaiI ACGT 1 cut(s) 421
TaqI TCGA 4 cut(s) 20, 27, 80, 719
TaqII GACCGA 1 cut(s) 56
TatI WGTACW 3 cut(s) 87, 96, 960
TfiI GAWTC 3 cut(s) 343, 349, 1051
Tru1I TTAA 2 cut(s) 965, 1173
Tru9I TTAA 2 cut(s) 965, 1173
TscAI CASTG 4 cut(s) 481, 781, 847, 1227
TspRI CASTG 4 cut(s) 481, 781, 847, 1227
VpaK11BI GGWCC 4 cut(s) 68, 260, 408, 455
XceI RCATGY 2 cut(s) 225, 1078
XmiI GTMKAC 1 cut(s) 471
XspI CTAG 1 cut(s) 444
ZrmI AGTACT 1 cut(s) 89
Zsp2I ATGCAT 1 cut(s) 223
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.