FvH4_3g19060

TAF RNA Polymerase I subunit A

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb3
OG0002593
Physical Location & Seq
Forward (+)
12271705 .. 12277659
5955 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_3g19060.t6

Sequence Viewer

Length: 1416 bp
ATGAGACATGCTGTTGAACTTGAGCGCATTACCCTCTCGCTTGCTCAACAGAATCTTAAGGAGGCTGAAGCTGGTGCTTTCAGTCTCATGCAATTAAAGGGTTTCCGAGATGACCCTCTTCGAAATATGATCGTTGGATTGACATTCCTACAGTTGTGGTATTCCAAGCTCCCAAAAGAGATGCAATGGAGGGAGTCTGACCAGTTTTATAGTAGGGAATCAAATGAACTAGTTGCAGGCTCAGTGGGGCATGGCTCTGTTAACACTAACGAGGCTGGTAGGGCCATTCATTGTGACTCAGACACCTCTGTCATGAATGATACAGTAGAGAATGTACTACCTATTGTTGCTCATGATGCTGACAGTGGCTTACATAGAGAGATCTCTGTGGAGGTTGATGACATGAAAGTAGAAATTTCTCCAGTGATATTTGAGACCCAAAATTTCTATGCGGACTCTGCTCAAAACTCAGAAGATGAAGCTGCTTTCTCTGATCATGGTGGTCAAATGCAGTATGCTTCCATTTTTTCTGAACTTGTGGGATTGGAGTCACTGTTACTGCCCATACGATTGCCAGAGTCTCTTGATAATGATGAAGATAAGAATATTTTTAATGACTATTACAAGGATGCAGTGAAGTACTTACGACATGCTCTTCACTCCTCCCCCCTGGTATTGGTAGCCTTGTATCCTTTGATACAGCTGTTGCTGATTGGAGGTCAAGTTAAAGAGGCCCTAGATGAGATTGAATATTGTTGTAGTTTATCAAACGCACCACTGCCTACTCGATTGAGGGCTAGCCTTCTGCAGCAATTTGATTGTAATAACAAGCCTGTGCTTTCCACTTGTCTGGAGGACTTCTTAAAGAAGGATCCTACATGTTGTGATTCATTGGGAAAGCTTATTCTGTTGCATCAAAATGATGATTATAGTTATGAGTCCCTACTTGAAATGATAGCTTTGCATTTGGATGCCACCACTGCTGAATACAACATATGGAGAGAGTATGCCATGTGTTTCCTGAAGCTTTCTCAGTCTGAAGAGGACAGATTGTCGGTGTGTCTGAATGGAGATGAAGATGAACCGAAACCACGGTACTCTGTTTCTTTCAATAAGACCCCAGAAATATTTTTAAAGGGACAATCCAGAAAGAATTGGAAATTGCGTTGCAGATGGTGGTCTACACGTCACTTCAGCCATGAATTACTTGCATCAGAGATTGCAGCAGGTGATTTGGAGCTCCTAACTTACAAAGCAGCAAGCGCAGTGCATATGTATGATTCTGAGTTCCATTACGTTGTGGATGCTAGGTGCTGCTTAGAGAAAGAAAACGAGTGGGACTTGCTCATCTTTTTGCAGATGCACATTCGAAATTCTGTTAGAATATATTCAAACTTTCAACACGGAACTAACTGA
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
TAF1_subA

Protein Analysis

472

Amino Acids

53.85

Weight (kDa)

4.88

Isoelectric Point (pI)

42.27

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
TAF1_subA PF14929 73 - 390 3.7e-21 TAF RNA Polymerase I subunit A
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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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AarI CACCTGC 1 cut(s) 1217
AasI GACNNNNNNGTC 1 cut(s) 308
Acc36I ACCTGC 1 cut(s) 1217
AccI GTMKAC 1 cut(s) 1181
AciI CCGC 1 cut(s) 452
AclWI GGATC 2 cut(s) 866, 879
AcsI RAATTY 3 cut(s) 414, 442, 1372
AcuI CTGAAG 4 cut(s) 87, 1043, 1059, 1177
AfaI GTAC 3 cut(s) 336, 641, 1097
AfiI CCNNNNNNNGG 1 cut(s) 676
AflII CTTAAG 1 cut(s) 56
AflIII ACRYGT 2 cut(s) 878, 1184
AgsI TTSAA 6 cut(s) 17, 749, 950, 1111, 1392, 1400
AhdI GACNNNNNGTC 1 cut(s) 1051
AhlI ACTAGT 1 cut(s) 229
AjiI CACGTC 1 cut(s) 1187
AjnI CCWGG 1 cut(s) 669
AluBI AGCT 8 cut(s) 71, 169, 482, 703, 901, 959, 1027, 1240
AluI AGCT 8 cut(s) 71, 169, 482, 703, 901, 959, 1027, 1240
Alw21I GWGCWC 1 cut(s) 1242
Alw26I GTCTC 3 cut(s) 89, 428, 585
AlwI GGATC 2 cut(s) 866, 879
AoxI GGCC 2 cut(s) 282, 732
ApeKI GCWGC 5 cut(s) 482, 808, 1223, 1256, 1314
ApoI RAATTY 3 cut(s) 414, 442, 1372
Asp700I GAANNNNTTC 1 cut(s) 1387
AspLEI GCGC 2 cut(s) 27, 1265
AspS9I GGNCC 2 cut(s) 282, 733
AsuHPI GGTGA 1 cut(s) 1241
AsuII TTCGAA 2 cut(s) 121, 1369
AsuNHI GCTAGC 1 cut(s) 797
BaeI ACNNNNGTAYC 2 cut(s) 689, 722
BamHI GGATCC 1 cut(s) 871
BanII GRGCYC 1 cut(s) 1242
Bbv12I GWGCWC 1 cut(s) 1242
BbvI GCAGC 5 cut(s) 469, 820, 1235, 1268, 1301
BccI CCATC 1 cut(s) 1167
BciT130I CCWGG 1 cut(s) 671
BciVI GTATCC 1 cut(s) 699
BclI TGATCA 1 cut(s) 493
BcoDI GTCTC 3 cut(s) 89, 428, 585
BcuI ACTAGT 1 cut(s) 229
BfaI CTAG 4 cut(s) 230, 737, 798, 1308
BfmI CTRYAG 2 cut(s) 149, 806
BfrI CTTAAG 1 cut(s) 56
BfuAI ACCTGC 1 cut(s) 1217
BfuI GTATCC 1 cut(s) 699
BglII AGATCT 1 cut(s) 381
BisI GCNGC 5 cut(s) 483, 809, 1224, 1257, 1315
BlsI GCNGC 5 cut(s) 484, 810, 1225, 1258, 1316
BmcAI AGTACT 1 cut(s) 641
Bme1390I CCNGG 1 cut(s) 671
BmeRI GACNNNNNGTC 1 cut(s) 1051
BmgBI CACGTC 1 cut(s) 1187
BmgT120I GGNCC 2 cut(s) 282, 733
BmiI GGNNCC 1 cut(s) 873
BmrFI CCNGG 1 cut(s) 671
BmsI GCATC 8 cut(s) 171, 346, 619, 922, 961, 1220, 1294, 1350
BmtI GCTAGC 1 cut(s) 801
BpmI CTGGAG 2 cut(s) 405, 872
Bpu14I TTCGAA 2 cut(s) 121, 1369
BpuEI CTTGAG 1 cut(s) 41
BsaI GGTCTC 1 cut(s) 428
BsaJI CCNNGG 2 cut(s) 669, 1091
BsaXI ACNNNNNCTCC 4 cut(s) 539, 569, 708, 738
Bsc4I CCNNNNNNNGG 1 cut(s) 676
Bse1I ACTGG 2 cut(s) 202, 422
Bse3DI GCAATG 1 cut(s) 191
BseBI CCWGG 1 cut(s) 671
BseDI CCNNGG 2 cut(s) 669, 1091
BseGI GGATG 3 cut(s) 634, 976, 1309
BseLI CCNNNNNNNGG 1 cut(s) 676
BseMI GCAATG 1 cut(s) 191
BseMII CTCAG 5 cut(s) 255, 312, 483, 1046, 1275
BseNI ACTGG 2 cut(s) 202, 422
BseRI GAGGAG 1 cut(s) 652
BseXI GCAGC 5 cut(s) 469, 820, 1235, 1268, 1301
BshFI GGCC 2 cut(s) 284, 734
BsiHKAI GWGCWC 1 cut(s) 1242
BslFI GGGAC 3 cut(s) 925, 1152, 1352
BslI CCNNNNNNNGG 1 cut(s) 676
BsmAI GTCTC 3 cut(s) 89, 428, 585
BsmFI GGGAC 3 cut(s) 925, 1152, 1352
BsnI GGCC 2 cut(s) 284, 734
Bso31I GGTCTC 1 cut(s) 428
Bsp119I TTCGAA 2 cut(s) 121, 1369
Bsp1286I GDGCHC 1 cut(s) 1242
Bsp143I GATC 4 cut(s) 129, 381, 493, 871
BspACI CCGC 1 cut(s) 452
BspANI GGCC 2 cut(s) 284, 734
BspCNI CTCAG 5 cut(s) 254, 311, 482, 1045, 1276
BspHI TCATGA 2 cut(s) 312, 352
BspLI GGNNCC 1 cut(s) 873
BspMAI CTGCAG 1 cut(s) 810
BspMI ACCTGC 1 cut(s) 1217
BspOI GCTAGC 1 cut(s) 801
BspPI GGATC 2 cut(s) 866, 879
BspQI GCTCTTC 1 cut(s) 660
BspT104I TTCGAA 2 cut(s) 121, 1369
BspTI CTTAAG 1 cut(s) 56
BspTNI GGTCTC 1 cut(s) 428
BsrDI GCAATG 1 cut(s) 191
BsrI ACTGG 2 cut(s) 202, 422
BssECI CCNNGG 2 cut(s) 669, 1091
BssMI GATC 4 cut(s) 129, 381, 493, 871
Bst2UI CCWGG 1 cut(s) 671
Bst4CI ACNGT 5 cut(s) 153, 325, 365, 555, 1095
Bst6I CTCTTC 3 cut(s) 123, 660, 1035
BstAFI CTTAAG 1 cut(s) 56
BstBI TTCGAA 2 cut(s) 121, 1369
BstC8I GCNNGC 4 cut(s) 42, 238, 799, 1261
BstDEI CTNAG 6 cut(s) 241, 298, 469, 1032, 1284, 1318
BstDSI CCRYGG 1 cut(s) 1091
BstF5I GGATG 3 cut(s) 634, 976, 1309
BstHHI GCGC 2 cut(s) 27, 1265
BstKTI GATC 4 cut(s) 132, 384, 496, 874
BstMAI GTCTC 3 cut(s) 89, 428, 585
BstMBI GATC 4 cut(s) 129, 381, 493, 871
BstMWI GCNNNNNNNGC 5 cut(s) 281, 356, 458, 980, 1262
BstNI CCWGG 1 cut(s) 671
BstNSI RCATGY 3 cut(s) 11, 653, 882
BstSCI CCNGG 1 cut(s) 669
BstSFI CTRYAG 2 cut(s) 149, 806
BstV1I GCAGC 5 cut(s) 469, 820, 1235, 1268, 1301
BstX2I RGATCY 2 cut(s) 381, 871
BstXI CCANNNNNNTGG 1 cut(s) 850
BstYI RGATCY 2 cut(s) 381, 871
BsuI GTATCC 1 cut(s) 699
BsuRI GGCC 2 cut(s) 284, 734
BtgI CCRYGG 1 cut(s) 1091
BtrI CACGTC 1 cut(s) 1187
BtsCI GGATG 3 cut(s) 634, 976, 1309
BtsI GCAGTG 4 cut(s) 639, 776, 978, 1272
BtsIMutI CAGTG 8 cut(s) 249, 370, 429, 551, 639, 776, 978, 1272
BveI ACCTGC 1 cut(s) 1217
Cac8I GCNNGC 4 cut(s) 42, 238, 799, 1261
CciI TCATGA 2 cut(s) 312, 352
CfoI GCGC 2 cut(s) 27, 1265
Cfr13I GGNCC 2 cut(s) 282, 733
Csp6I GTAC 3 cut(s) 335, 640, 1096
CviQI GTAC 3 cut(s) 335, 640, 1096
DdeI CTNAG 6 cut(s) 241, 298, 469, 1032, 1284, 1318
DpnI GATC 4 cut(s) 131, 383, 495, 873
DpnII GATC 4 cut(s) 129, 381, 493, 871
DraI TTTAAA 1 cut(s) 1134
DrdI GACNNNNNNGTC 1 cut(s) 308
DriI GACNNNNNGTC 1 cut(s) 1051
DseDI GACNNNNNNGTC 1 cut(s) 308
Eam1104I CTCTTC 3 cut(s) 123, 660, 1035
Eam1105I GACNNNNNGTC 1 cut(s) 1051
EarI CTCTTC 3 cut(s) 123, 660, 1035
Ecl136II GAGCTC 1 cut(s) 1240
Eco24I GRGCYC 1 cut(s) 1242
Eco31I GGTCTC 1 cut(s) 428
Eco53kI GAGCTC 1 cut(s) 1240
Eco57I CTGAAG 4 cut(s) 87, 1043, 1059, 1177
EcoICRI GAGCTC 1 cut(s) 1240
EcoO109I RGGNCCY 1 cut(s) 733
EcoRII CCWGG 1 cut(s) 669
EcoT38I GRGCYC 1 cut(s) 1242
FaqI GGGAC 3 cut(s) 925, 1152, 1352
FauNDI CATATG 2 cut(s) 995, 1272
FbaI TGATCA 1 cut(s) 493
FblI GTMKAC 1 cut(s) 1181
Fnu4HI GCNGC 5 cut(s) 483, 809, 1224, 1257, 1315
FokI GGATG 3 cut(s) 641, 983, 1316
FriOI GRGCYC 1 cut(s) 1242
Fsp4HI GCNGC 5 cut(s) 483, 809, 1224, 1257, 1315
FspBI CTAG 4 cut(s) 230, 737, 798, 1308
GlaI GCGC 2 cut(s) 26, 1264
GluI GCNGC 5 cut(s) 483, 809, 1224, 1257, 1315
GsuI CTGGAG 2 cut(s) 405, 872
HaeIII GGCC 2 cut(s) 284, 734
HhaI GCGC 2 cut(s) 27, 1265
Hin6I GCGC 2 cut(s) 25, 1263
HinP1I GCGC 2 cut(s) 25, 1263
HincII GTYRAC 1 cut(s) 262
HindII GTYRAC 1 cut(s) 262
HindIII AAGCTT 2 cut(s) 899, 1025
HpaI GTTAAC 1 cut(s) 262
HphI GGTGA 1 cut(s) 1241
Hpy166II GTNNAC 2 cut(s) 262, 1182
Hpy188III TCNNGA 6 cut(s) 313, 353, 584, 851, 1021, 1146
Hpy8I GTNNAC 2 cut(s) 262, 1182
HpyAV CCTTC 2 cut(s) 812, 862
HpyCH4III ACNGT 5 cut(s) 153, 325, 365, 555, 1095
HpyCH4IV ACGT 2 cut(s) 1186, 1296
HpyF10VI GCNNNNNNNGC 5 cut(s) 281, 356, 458, 980, 1262
HpyF3I CTNAG 6 cut(s) 241, 298, 469, 1032, 1284, 1318
HpySE526I ACGT 2 cut(s) 1186, 1296
HspAI GCGC 2 cut(s) 25, 1263
Ksp22I TGATCA 1 cut(s) 493
KspAI GTTAAC 1 cut(s) 262
Kzo9I GATC 4 cut(s) 129, 381, 493, 871
LguI GCTCTTC 1 cut(s) 660
LmnI GCTCC 3 cut(s) 174, 1237, 1245
Lsp1109I GCAGC 5 cut(s) 469, 820, 1235, 1268, 1301
LweI GCATC 8 cut(s) 171, 346, 619, 922, 961, 1220, 1294, 1350
MaeI CTAG 4 cut(s) 230, 737, 798, 1308
MaeII ACGT 2 cut(s) 1186, 1296
MaeIII GTNAC 4 cut(s) 293, 549, 555, 1187
MalI GATC 4 cut(s) 131, 383, 495, 873
MboI GATC 4 cut(s) 129, 381, 493, 871
MboII GAAGA 6 cut(s) 110, 485, 608, 647, 1052, 1088
MflI RGATCY 2 cut(s) 381, 871
MhlI GDGCHC 1 cut(s) 1242
MluCI AATT 8 cut(s) 92, 414, 442, 812, 1153, 1160, 1202, 1372
MlyI GAGTC 6 cut(s) 203, 290, 449, 557, 587, 947
MmeI TCCRAC 1 cut(s) 115
MroXI GAANNNNTTC 1 cut(s) 1387
MseI TTAA 7 cut(s) 57, 95, 261, 612, 726, 863, 1133
MslI CAYNNNNRTG 3 cut(s) 918, 969, 1275
MspA1I CMGCKG 1 cut(s) 703
MspCI CTTAAG 1 cut(s) 56
MspR9I CCNGG 1 cut(s) 671
MvaI CCWGG 1 cut(s) 671
MwoI GCNNNNNNNGC 5 cut(s) 281, 356, 458, 980, 1262
NdeI CATATG 2 cut(s) 995, 1272
NdeII GATC 4 cut(s) 129, 381, 493, 871
NheI GCTAGC 1 cut(s) 797
NlaIV GGNNCC 1 cut(s) 873
NmuCI GTSAC 3 cut(s) 293, 549, 1187
NspI RCATGY 3 cut(s) 11, 653, 882
NspV TTCGAA 2 cut(s) 121, 1369
PagI TCATGA 2 cut(s) 312, 352
PaqCI CACCTGC 1 cut(s) 1217
PciI ACATGT 1 cut(s) 878
PciSI GCTCTTC 1 cut(s) 660
PdmI GAANNNNTTC 1 cut(s) 1387
PfeI GAWTC 4 cut(s) 52, 218, 887, 1280
PkrI GCNGC 5 cut(s) 484, 810, 1225, 1258, 1316
PleI GAGTC 6 cut(s) 202, 290, 449, 556, 586, 946
PpsI GAGTC 6 cut(s) 202, 290, 449, 556, 586, 946
PscI ACATGT 1 cut(s) 878
Psp124BI GAGCTC 1 cut(s) 1242
Psp6I CCWGG 1 cut(s) 669
PspGI CCWGG 1 cut(s) 669
PspN4I GGNNCC 1 cut(s) 873
PspPI GGNCC 2 cut(s) 282, 733
PstI CTGCAG 1 cut(s) 810
PsuI RGATCY 2 cut(s) 381, 871
PvuII CAGCTG 1 cut(s) 703
RsaI GTAC 3 cut(s) 336, 641, 1097
RsaNI GTAC 3 cut(s) 335, 640, 1096
RseI CAYNNNNRTG 3 cut(s) 918, 969, 1275
SacI GAGCTC 1 cut(s) 1242
SapI GCTCTTC 1 cut(s) 660
SaqAI TTAA 7 cut(s) 57, 95, 261, 612, 726, 863, 1133
SatI GCNGC 5 cut(s) 483, 809, 1224, 1257, 1315
Sau3AI GATC 4 cut(s) 129, 381, 493, 871
Sau96I GGNCC 2 cut(s) 282, 733
ScaI AGTACT 1 cut(s) 641
SchI GAGTC 6 cut(s) 203, 290, 449, 557, 587, 947
ScrFI CCNGG 1 cut(s) 671
SduI GDGCHC 1 cut(s) 1242
SfaNI GCATC 8 cut(s) 171, 346, 619, 922, 961, 1220, 1294, 1350
SfcI CTRYAG 2 cut(s) 149, 806
SfuI TTCGAA 2 cut(s) 121, 1369
SmiMI CAYNNNNRTG 3 cut(s) 918, 969, 1275
SmlI CTYRAG 2 cut(s) 20, 56
SmoI CTYRAG 2 cut(s) 20, 56
SpeI ACTAGT 1 cut(s) 229
Sse9I AATT 8 cut(s) 92, 414, 442, 812, 1153, 1160, 1202, 1372
SsiI CCGC 1 cut(s) 452
SspI AATATT 3 cut(s) 607, 752, 1128
SspMI CTAG 4 cut(s) 230, 737, 798, 1308
SstI GAGCTC 1 cut(s) 1242
StyD4I CCNGG 1 cut(s) 669
TaaI ACNGT 5 cut(s) 153, 325, 365, 555, 1095
TaiI ACGT 2 cut(s) 1189, 1299
TaqI TCGA 3 cut(s) 121, 787, 1369
TasI AATT 8 cut(s) 92, 414, 442, 812, 1153, 1160, 1202, 1372
TatI WGTACW 2 cut(s) 334, 639
TfiI GAWTC 4 cut(s) 52, 218, 887, 1280
Tru1I TTAA 7 cut(s) 57, 95, 261, 612, 726, 863, 1133
Tru9I TTAA 7 cut(s) 57, 95, 261, 612, 726, 863, 1133
TscAI CASTG 8 cut(s) 249, 370, 429, 558, 639, 783, 985, 1272
TseFI GTSAC 3 cut(s) 293, 549, 1187
TseI GCWGC 5 cut(s) 482, 808, 1223, 1256, 1314
Tsp45I GTSAC 3 cut(s) 293, 549, 1187
TspRI CASTG 8 cut(s) 249, 370, 429, 558, 639, 783, 985, 1272
Vha464I CTTAAG 1 cut(s) 56
XapI RAATTY 3 cut(s) 414, 442, 1372
XceI RCATGY 3 cut(s) 11, 653, 882
XmiI GTMKAC 1 cut(s) 1181
XmnI GAANNNNTTC 1 cut(s) 1387
XspI CTAG 4 cut(s) 230, 737, 798, 1308
ZrmI AGTACT 1 cut(s) 641
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.