FvH4_6g23073

TdcA1-ORF2 protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb6
OG0001541
Physical Location & Seq
Reverse (-)
16899369 .. 16902871
3503 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_6g23073.t1

Sequence Viewer

Length: 1416 bp
ATGCATTTAGCTGCTGTTGGTATGTTAGAGACTTATGAAATATGGCATAGACATGGTGAAAAAGTTGGAGCTCCACCTCCTCCTATTGTTCAAGATGAACCTGAACCCGATGATTTCGTTCATAATATGTTGAATGATATATTCCCAATTTTTGAACAGGCTGAGGATGATGATATGAGCATGGGGGATGATACCAGTGAGATGGGAGATGCTATGGAAAATCAGGGTGCGAATGTACATAGGCTACAAGCTGATACATATGAGGGTTTGCTTGCTGAAGCAAATCGGGAAGCCCATCCCGAAGGTTCCATTGCAGAGGGATACATTGCAGAAGAGTCTTTGATGTTTTGTTCCTTATATCTTCATGATATTGAAACTGTGCATTCTCGACCTGAGAGGAACTATGATGCAGAAGAACCAGATGCACAACTCTCTGTTTTTGCACAAAACGTACGTGCTTGTGGTGGACGCAAAATGAGGAAGTGGTCTGAAGCTGAATTGGAGCCGGCTAAATGGTATATCTTGGACAATTGTGTGGAGGTCGAACCCTATAAAATCAAGCATCGTGAAATTTTAGAAAGGGAAAGCCCTCTTAATTTAGATGAGAGACAAAGGAAATCATTCCCACAGTGGTTTAAGAATCATATTAAGGAATTATATTTTGAAGGATCAGATGACGTGACTAAAGAGTTATATGTACTATCACATGGTCCAGATGCAAGAGTTGCTACCTATACCATATGTACGTTGAACGGCGTTAAATGGCATGTTAAGCAGATTGAGAACAATAGAACTGTGCAAAATAGTGGGATTATGGTGCCGGGGTCGCACGGTCAACGCAAATCTGATTTTTATGGTCAGTTGGTGAGCGTTGTTGAAATCCGCTATGCACAAGGCTATTCTGTTTTCCTTTTTAAAGGTGACTGGTTTGATACAGACTCTAAGAAGAGAAACAGGATTGTTCGAGACTACCATCTCAAGTCAGTGAACACAAACACTTTGTGGTACAAAAATGATCCTTATGTCTTAGCTACGCAAGCGCAACAAGTTTTTTATTTTGATGATCCGAAGCTTGGTTCTGGATGGAAAGTTATTCAGAAAATTCGACATAGACATGTTTGGGATGTTCCTGAAAATGAAGATGATCATGACATGGAAACAAAGTATGTTGATGAGGAAGACCAAGTTGACGACTTTGTTGAGCTTATTGAAGATGAGAATGTGAATCCAGGTAGAGCACTACGTCGAGACAATGTAGAACCTGAAATCCATGTGCTTACTGACAAGGATTTAGAACAGAGTAGTTCTCATAATGTCGATTTCATCGATGATGATCCCGAAGATGAAGAAATGTTGTCCGCAGATGAGGAAAACGCTGAGAATAACGAGGATGATTATGATAGTGATCTAGATTAG
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
DUF4216 DUF4218 Transpos_assoc Transposase_21 Transposase_24

Protein Analysis

472

Amino Acids

54.65

Weight (kDa)

4.53

Isoelectric Point (pI)

43.8

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
DUF4218 PF13960 96 - 134 2.7e-11 Domain of unknown function (DUF4218)
DUF4216 PF13952 293 - 365 1.6e-21 Domain of unknown function (DUF4216)
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)
AccB1I GGYRCC 1 cut(s) 817
AciI CCGC 2 cut(s) 883, 1359
AclWI GGATC 4 cut(s) 676, 1010, 1058, 1328
AcsI RAATTY 2 cut(s) 570, 1101
AcuI CTGAAG 2 cut(s) 297, 510
AdeI CACNNNGTG 1 cut(s) 1002
AfaI GTAC 5 cut(s) 237, 453, 699, 745, 1007
AfiI CCNNNNNNNGG 1 cut(s) 1073
AflIII ACRYGT 1 cut(s) 1114
AgsI TTSAA 8 cut(s) 92, 133, 155, 374, 665, 751, 878, 1211
AjiI CACGTC 1 cut(s) 679
AjnI CCWGG 1 cut(s) 1228
AloI GAACNNNNNNTCC 2 cut(s) 1251, 1283
AluBI AGCT 7 cut(s) 11, 71, 251, 494, 1031, 1072, 1204
AluI AGCT 7 cut(s) 11, 71, 251, 494, 1031, 1072, 1204
Alw21I GWGCWC 2 cut(s) 73, 1240
Alw26I GTCTC 4 cut(s) 23, 601, 960, 1242
AlwI GGATC 4 cut(s) 676, 1010, 1058, 1328
ApeKI GCWGC 1 cut(s) 11
ApoI RAATTY 2 cut(s) 570, 1101
Asp700I GAANNNNTTC 1 cut(s) 620
AspLEI GCGC 1 cut(s) 1042
AspS9I GGNCC 1 cut(s) 710
AsuC2I CCSGG 1 cut(s) 822
AsuHPI GGTGA 3 cut(s) 68, 877, 932
AvaII GGWCC 1 cut(s) 710
BanI GGYRCC 1 cut(s) 817
BanII GRGCYC 1 cut(s) 73
BbsI GAAGAC 1 cut(s) 1185
Bbv12I GWGCWC 2 cut(s) 73, 1240
BbvCI CCTCAGC 1 cut(s) 162
BccI CCATC 4 cut(s) 196, 303, 981, 1077
BceAI ACGGC 1 cut(s) 769
BciT130I CCWGG 1 cut(s) 1230
BciVI GTATCC 1 cut(s) 314
BclI TGATCA 1 cut(s) 1144
BcnI CCSGG 1 cut(s) 822
BcoDI GTCTC 4 cut(s) 23, 601, 960, 1242
BfaI CTAG 1 cut(s) 1409
BfuI GTATCC 1 cut(s) 314
BisI GCNGC 1 cut(s) 12
BlsI GCNGC 1 cut(s) 13
Bme1390I CCNGG 2 cut(s) 822, 1230
Bme18I GGWCC 1 cut(s) 710
BmgBI CACGTC 1 cut(s) 679
BmgT120I GGNCC 1 cut(s) 710
BmiI GGNNCC 3 cut(s) 307, 504, 819
BmrFI CCNGG 2 cut(s) 822, 1230
BmsI GCATC 5 cut(s) 199, 397, 412, 571, 706
BpiI GAAGAC 1 cut(s) 1185
BplI GAGNNNNNCTC 2 cut(s) 1291, 1323
Bpu10I CCTNAGC 1 cut(s) 162
BpuEI CTTGAG 1 cut(s) 962
BpuMI CCSGG 1 cut(s) 822
Bsa29I ATCGAT 1 cut(s) 1326
BsaAI YACGTR 1 cut(s) 455
BsaBI GATNNNNATC 2 cut(s) 1332, 1404
BsaJI CCNNGG 1 cut(s) 821
Bsc4I CCNNNNNNNGG 1 cut(s) 1073
Bse118I RCCGGY 1 cut(s) 505
Bse1I ACTGG 2 cut(s) 195, 929
Bse3DI GCAATG 2 cut(s) 309, 324
Bse8I GATNNNNATC 2 cut(s) 1332, 1404
BseBI CCWGG 1 cut(s) 1230
BseCI ATCGAT 1 cut(s) 1326
BseDI CCNNGG 1 cut(s) 821
BseGI GGATG 6 cut(s) 172, 193, 295, 1088, 1129, 1396
BseJI GATNNNNATC 2 cut(s) 1332, 1404
BseLI CCNNNNNNNGG 1 cut(s) 1073
BseMI GCAATG 2 cut(s) 309, 324
BseMII CTCAG 3 cut(s) 153, 384, 1368
BseNI ACTGG 2 cut(s) 195, 929
BseRI GAGGAG 1 cut(s) 69
BshNI GGYRCC 1 cut(s) 817
BshVI ATCGAT 1 cut(s) 1326
BsiHKAI GWGCWC 2 cut(s) 73, 1240
BsiSI CCGG 2 cut(s) 506, 821
BsiWI CGTACG 1 cut(s) 451
BslI CCNNNNNNNGG 1 cut(s) 1073
BsmAI GTCTC 4 cut(s) 23, 601, 960, 1242
BsmI GAATGC 1 cut(s) 382
Bsp1286I GDGCHC 2 cut(s) 73, 1240
Bsp1407I TGTACA 1 cut(s) 235
Bsp143I GATC 6 cut(s) 668, 1015, 1063, 1144, 1333, 1405
BspACI CCGC 2 cut(s) 883, 1359
BspCNI CTCAG 3 cut(s) 154, 385, 1369
BspDI ATCGAT 1 cut(s) 1326
BspHI TCATGA 2 cut(s) 364, 1147
BspLI GGNNCC 3 cut(s) 307, 504, 819
BspPI GGATC 4 cut(s) 676, 1010, 1058, 1328
BspT107I GGYRCC 1 cut(s) 817
BsrDI GCAATG 2 cut(s) 309, 324
BsrFI RCCGGY 1 cut(s) 505
BsrGI TGTACA 1 cut(s) 235
BsrI ACTGG 2 cut(s) 195, 929
BssAI RCCGGY 1 cut(s) 505
BssECI CCNNGG 1 cut(s) 821
BssMI GATC 6 cut(s) 668, 1015, 1063, 1144, 1333, 1405
Bst2UI CCWGG 1 cut(s) 1230
Bst4CI ACNGT 4 cut(s) 379, 630, 796, 833
Bst6I CTCTTC 2 cut(s) 327, 941
BstAPI GCANNNNNTGC 1 cut(s) 725
BstAUI TGTACA 1 cut(s) 235
BstBAI YACGTR 1 cut(s) 455
BstC8I GCNNGC 3 cut(s) 273, 507, 1038
BstDEI CTNAG 5 cut(s) 162, 393, 942, 1027, 1377
BstF5I GGATG 6 cut(s) 172, 193, 295, 1088, 1129, 1396
BstHHI GCGC 1 cut(s) 1042
BstKTI GATC 6 cut(s) 671, 1018, 1066, 1147, 1336, 1408
BstMAI GTCTC 4 cut(s) 23, 601, 960, 1242
BstMBI GATC 6 cut(s) 668, 1015, 1063, 1144, 1333, 1405
BstMWI GCNNNNNNNGC 4 cut(s) 725, 772, 826, 1037
BstNI CCWGG 1 cut(s) 1230
BstNSI RCATGY 2 cut(s) 770, 1118
BstSCI CCNGG 2 cut(s) 820, 1228
BstV2I GAAGAC 1 cut(s) 1185
BstXI CCANNNNNNTGG 1 cut(s) 202
Bsu15I ATCGAT 1 cut(s) 1326
BsuI GTATCC 1 cut(s) 314
BsuTUI ATCGAT 1 cut(s) 1326
BtrI CACGTC 1 cut(s) 679
BtsCI GGATG 6 cut(s) 172, 193, 295, 1088, 1129, 1396
BtsIMutI CAGTG 3 cut(s) 202, 635, 990
Cac8I GCNNGC 3 cut(s) 273, 507, 1038
CciI TCATGA 2 cut(s) 364, 1147
CfoI GCGC 1 cut(s) 1042
Cfr10I RCCGGY 1 cut(s) 505
Cfr13I GGNCC 1 cut(s) 710
ClaI ATCGAT 1 cut(s) 1326
CseI GACGC 1 cut(s) 477
Csp6I GTAC 5 cut(s) 236, 452, 698, 744, 1006
CviAII CATG 9 cut(s) 53, 181, 365, 707, 767, 1115, 1148, 1153, 1271
CviQI GTAC 5 cut(s) 236, 452, 698, 744, 1006
DdeI CTNAG 5 cut(s) 162, 393, 942, 1027, 1377
DpnI GATC 6 cut(s) 670, 1017, 1065, 1146, 1335, 1407
DpnII GATC 6 cut(s) 668, 1015, 1063, 1144, 1333, 1405
DraI TTTAAA 1 cut(s) 916
DraIII CACNNNGTG 1 cut(s) 1002
Eam1104I CTCTTC 2 cut(s) 327, 941
EarI CTCTTC 2 cut(s) 327, 941
Ecl136II GAGCTC 1 cut(s) 71
Eco24I GRGCYC 1 cut(s) 73
Eco47I GGWCC 1 cut(s) 710
Eco53kI GAGCTC 1 cut(s) 71
Eco57I CTGAAG 2 cut(s) 297, 510
EcoICRI GAGCTC 1 cut(s) 71
EcoRII CCWGG 1 cut(s) 1228
EcoT22I ATGCAT 1 cut(s) 6
EcoT38I GRGCYC 1 cut(s) 73
FaeI CATG 9 cut(s) 56, 184, 368, 710, 770, 1118, 1151, 1156, 1274
FatI CATG 9 cut(s) 52, 180, 364, 706, 766, 1114, 1147, 1152, 1270
FauNDI CATATG 2 cut(s) 259, 740
FbaI TGATCA 1 cut(s) 1144
Fnu4HI GCNGC 1 cut(s) 12
FokI GGATG 6 cut(s) 179, 200, 282, 1095, 1136, 1403
FriOI GRGCYC 1 cut(s) 73
Fsp4HI GCNGC 1 cut(s) 12
FspBI CTAG 1 cut(s) 1409
GlaI GCGC 1 cut(s) 1041
GluI GCNGC 1 cut(s) 12
HapII CCGG 2 cut(s) 506, 821
HgaI GACGC 1 cut(s) 477
HhaI GCGC 1 cut(s) 1042
Hin1II CATG 9 cut(s) 56, 184, 368, 710, 770, 1118, 1151, 1156, 1274
Hin6I GCGC 1 cut(s) 1040
HinP1I GCGC 1 cut(s) 1040
HincII GTYRAC 2 cut(s) 836, 1189
HindII GTYRAC 2 cut(s) 836, 1189
HindIII AAGCTT 1 cut(s) 1070
HinfI GANTC 4 cut(s) 335, 640, 938, 1225
HpaII CCGG 2 cut(s) 506, 821
HphI GGTGA 3 cut(s) 68, 877, 932
Hpy166II GTNNAC 4 cut(s) 467, 836, 988, 1189
Hpy188I TCNGA 5 cut(s) 490, 673, 847, 1068, 1098
Hpy8I GTNNAC 4 cut(s) 467, 836, 988, 1189
Hpy99I CGWCG 1 cut(s) 1248
HpyAV CCTTC 2 cut(s) 296, 659
HpyCH4III ACNGT 4 cut(s) 379, 630, 796, 833
HpyCH4IV ACGT 5 cut(s) 450, 454, 678, 746, 1243
HpyF10VI GCNNNNNNNGC 4 cut(s) 725, 772, 826, 1037
HpyF3I CTNAG 5 cut(s) 162, 393, 942, 1027, 1377
HpySE526I ACGT 5 cut(s) 450, 454, 678, 746, 1243
Hsp92II CATG 9 cut(s) 56, 184, 368, 710, 770, 1118, 1151, 1156, 1274
HspAI GCGC 1 cut(s) 1040
KroI GCCGGC 1 cut(s) 505
KroNI GCCGGC 1 cut(s) 507
Ksp22I TGATCA 1 cut(s) 1144
Kzo9I GATC 6 cut(s) 668, 1015, 1063, 1144, 1333, 1405
LmnI GCTCC 3 cut(s) 68, 76, 502
LweI GCATC 5 cut(s) 199, 397, 412, 571, 706
MaeI CTAG 1 cut(s) 1409
MaeII ACGT 5 cut(s) 450, 454, 678, 746, 1243
MaeIII GTNAC 2 cut(s) 679, 920
MalI GATC 6 cut(s) 670, 1017, 1065, 1146, 1335, 1407
MboI GATC 6 cut(s) 668, 1015, 1063, 1144, 1333, 1405
MboII GAAGA 9 cut(s) 344, 353, 425, 958, 1151, 1190, 1223, 1352, 1358
MfeI CAATTG 1 cut(s) 529
MhlI GDGCHC 2 cut(s) 73, 1240
MluCI AATT 7 cut(s) 147, 497, 529, 570, 595, 653, 1101
MlyI GAGTC 2 cut(s) 344, 932
MmeI TCCRAC 1 cut(s) 46
Mph1103I ATGCAT 1 cut(s) 6
MroNI GCCGGC 1 cut(s) 505
MroXI GAANNNNTTC 1 cut(s) 620
MseI TTAA 6 cut(s) 594, 636, 648, 759, 771, 915
MslI CAYNNNNRTG 2 cut(s) 51, 1113
MspI CCGG 2 cut(s) 506, 821
MspR9I CCNGG 2 cut(s) 822, 1230
MunI CAATTG 1 cut(s) 529
Mva1269I GAATGC 1 cut(s) 382
MvaI CCWGG 1 cut(s) 1230
MwoI GCNNNNNNNGC 4 cut(s) 725, 772, 826, 1037
NaeI GCCGGC 1 cut(s) 507
NciI CCSGG 1 cut(s) 822
NdeI CATATG 2 cut(s) 259, 740
NdeII GATC 6 cut(s) 668, 1015, 1063, 1144, 1333, 1405
NgoMIV GCCGGC 1 cut(s) 505
NlaIII CATG 9 cut(s) 56, 184, 368, 710, 770, 1118, 1151, 1156, 1274
NlaIV GGNNCC 3 cut(s) 307, 504, 819
NmuCI GTSAC 2 cut(s) 679, 920
NsiI ATGCAT 1 cut(s) 6
NspI RCATGY 2 cut(s) 770, 1118
PagI TCATGA 2 cut(s) 364, 1147
PciI ACATGT 1 cut(s) 1114
PcsI WCGNNNNNNNCGW 1 cut(s) 1323
PctI GAATGC 1 cut(s) 382
PdiI GCCGGC 1 cut(s) 507
PdmI GAANNNNTTC 1 cut(s) 620
PfeI GAWTC 2 cut(s) 640, 1225
Pfl23II CGTACG 1 cut(s) 451
PkrI GCNGC 1 cut(s) 13
PleI GAGTC 2 cut(s) 343, 932
PpsI GAGTC 2 cut(s) 343, 932
Ppu21I YACGTR 1 cut(s) 455
PscI ACATGT 1 cut(s) 1114
Psp124BI GAGCTC 1 cut(s) 73
Psp6I CCWGG 1 cut(s) 1228
PspGI CCWGG 1 cut(s) 1228
PspLI CGTACG 1 cut(s) 451
PspN4I GGNNCC 3 cut(s) 307, 504, 819
PspPI GGNCC 1 cut(s) 710
RsaI GTAC 5 cut(s) 237, 453, 699, 745, 1007
RsaNI GTAC 5 cut(s) 236, 452, 698, 744, 1006
RseI CAYNNNNRTG 2 cut(s) 51, 1113
SacI GAGCTC 1 cut(s) 73
SaqAI TTAA 6 cut(s) 594, 636, 648, 759, 771, 915
SatI GCNGC 1 cut(s) 12
Sau3AI GATC 6 cut(s) 668, 1015, 1063, 1144, 1333, 1405
Sau96I GGNCC 1 cut(s) 710
SchI GAGTC 2 cut(s) 344, 932
ScrFI CCNGG 2 cut(s) 822, 1230
SduI GDGCHC 2 cut(s) 73, 1240
SfaNI GCATC 5 cut(s) 199, 397, 412, 571, 706
SinI GGWCC 1 cut(s) 710
SmiMI CAYNNNNRTG 2 cut(s) 51, 1113
SmlI CTYRAG 1 cut(s) 977
SmoI CTYRAG 1 cut(s) 977
Sse9I AATT 7 cut(s) 147, 497, 529, 570, 595, 653, 1101
SsiI CCGC 2 cut(s) 883, 1359
SspMI CTAG 1 cut(s) 1409
SstI GAGCTC 1 cut(s) 73
StyD4I CCNGG 2 cut(s) 820, 1228
TaaI ACNGT 4 cut(s) 379, 630, 796, 833
TaiI ACGT 5 cut(s) 453, 457, 681, 749, 1246
TaqI TCGA 7 cut(s) 388, 543, 964, 1105, 1246, 1317, 1326
TasI AATT 7 cut(s) 147, 497, 529, 570, 595, 653, 1101
TatI WGTACW 2 cut(s) 235, 697
TfiI GAWTC 2 cut(s) 640, 1225
Tru1I TTAA 6 cut(s) 594, 636, 648, 759, 771, 915
Tru9I TTAA 6 cut(s) 594, 636, 648, 759, 771, 915
TscAI CASTG 3 cut(s) 202, 635, 990
TseFI GTSAC 2 cut(s) 679, 920
TseI GCWGC 1 cut(s) 11
Tsp45I GTSAC 2 cut(s) 679, 920
TspDTI ATGAA 7 cut(s) 51, 110, 111, 353, 1152, 1312, 1359
TspRI CASTG 3 cut(s) 202, 635, 990
VpaK11BI GGWCC 1 cut(s) 710
XapI RAATTY 2 cut(s) 570, 1101
XbaI TCTAGA 1 cut(s) 1408
XceI RCATGY 2 cut(s) 770, 1118
XmnI GAANNNNTTC 1 cut(s) 620
XspI CTAG 1 cut(s) 1409
Zsp2I ATGCAT 1 cut(s) 6
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.