FvH4_6g07870

RNA polymerase-associated protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb6
OG0003596
Physical Location & Seq
Forward (+)
4695651 .. 4697600
1950 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_6g07870.t1

Sequence Viewer

Length: 1950 bp
ATGGCAGACTTGGAGAATTTGCTTCTTGAGGCAGCAGGACGAACCGGTGCAGCTGTGAAAAACCGCCAGCAACTTCCAACTTCTAGAAAGCGACATGGAGGTTCCTTCTCTGATGATGAAAGTGACTCTGGGGATGAAGACTCAGATGGTGGTCGTAATCATGCAAGCAGGAAGCCCTCTCAAGTACCTCTGAAGAAGAGGTTTGACCCTGCTGAAAGAGGCAGTGACGAAGAGCATGATGATGCTTCTGATCATGAGAGCGAAAACAGTGATGAATCTGATCTTGGTACTGATCTCTACAAGGATGATGCTGATCGAAGACGGCTTTCAGAGATGACTGAACTTGAAAGAGAGATGATTCTGACAAATAGAGCAGAAAAGAAAGATGGTAAGAAGTTTATGGAAAAATTAAGATCAAAGAGAGACAAAGAAAGATCAATCCAATCAAAGAAAGAATCTTCTTCTGTCCCATTCTCCCGTGGTGTACGCTCATCAGCTAGGACTGCTGAAAAATCAGCTGCTTTAGGTGATGCATTGAGTCAGTTACGAGAGAAGCGTCTGAAGCAACAAGACTCGAAGGCTCGCAGTAGTCTGAGAGATTCATCAAAAGAAAATGTAGGTAGCCAGGATTTTTCACCAATCAAGCGTAAATCCCTTGTTGCAGAAAGTCTGATTGACTCGGATCAAAATGAGAATGAAGGGGGTTTACAAACTGAAGATGTAGGATCAGCTTCGGATAATGAATTTTCAGATAGTGATGAGGAAAAGGTAGAGCCACCAACATATCAGGACATAAAGGACATTACCATTCCAAGGTCGAAACTTGCAAAATGGTGTATGGAGCCATTTTTTGAGGAGCTAATTGTGGGTTGCTTTGTTAGGCTTGGATTTGGGAAATCATCAAGTGGTCCAATCTACAAGCTTTGCATGGTTCAGAATGTGGATGCCACAGATTTGAACCGGCAGTACCAGCTAGAGGGAAAAATGACACATAAATATTTGAACTGTGTTTGGGGAAGTGAAAGTTCTGCTTCTAAGTGGCAGATGGCTATGGTCTCAAATTCTGCTCCAGAGGAGGAGGAGTATAACGATTGGATTAGGGAAGTGAAGCGTAGTGCTGGCTACATGCCAAGCAAACATGATGTATTAGAAAAGAGGGAGACCCTACAGAAATCCAACACATTTGTTTACTCAGCAACAACTGTGAAGCAAATGTTGCAGGAGAAACGAGCCTCAGCAAGACCAGTGAACATTGCAGTTGAGAAGGATAGGTTGAGGAGGCAGTTGGAGGTTGCAGAAAGCAAGCATGACATGGAGGAAGTTGGGAGGATTAAGACAAGGCTCCAGGAATTGGAAGCATCCAGGCAATCTCAGGAGAAAGATTCCAAGGCCATTAGGTTAGCTGAGATGAACAGGAAGAACAGGTTTGAGAACTTTAAGAATGCTTCTGGATTGAAACCGATAAATACGAATCTGAAAGCTGGGGAGGCTGGTTATGATCCTTTCTCAAGAAGATGGACTAGATCGAGGAATTACTATGTTGGGAAGCCTGGAGGAGGAGATGAAGCCGCTGAAGATGAGACTGCTGAGGCAGCAAATGGATTTCTAGGTGCCAGCAACGACAAGGCTGAAGCAAAAGTAATGGGAGAGTTTGGCGTGAAAGCAACAGCGGCAGCGTTGGAAGCTGCAGCAGGTGCAGGGAAGTTGGTTGATACAAGGGCTCCTGTGGACCAAGCGACAGAGGCGTATACACTCCACAATTTCGAGCTGCCAATCTCACTGGCTGGACTTCAGAAGTTTGGTGGACCTCATGGGGCTCCGGCTGCGTACTCGGCCAGGAAGCAAAAGATAGAAGCTACATTAGGATACAAGGTCCCGGAGGATGATGGCAAGAGACATGCTCTGACTTTGTCAGTTAGTGATTATAAGAGAAGAAGAGGACTTCTCTGA
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
Plus-3

Protein Analysis

650

Amino Acids

72.38

Weight (kDa)

6.33

Isoelectric Point (pI)

56.7

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Plus-3 PF03126 264 - 369 1.5e-29 Plus-3 domain
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)
AanI TTATAA 1 cut(s) 1926
AarI CACCTGC 1 cut(s) 1682
Acc36I ACCTGC 1 cut(s) 1682
AccB1I GGYRCC 1 cut(s) 1610
AccB7I CCANNNNNTGG 1 cut(s) 1351
AccI GTMKAC 1 cut(s) 1748
AciI CCGC 3 cut(s) 64, 1569, 1670
AclWI GGATC 3 cut(s) 690, 733, 1493
AcoI YGGCCR 1 cut(s) 1833
AcsI RAATTY 3 cut(s) 16, 743, 1060
AcuI CTGAAG 6 cut(s) 212, 581, 735, 1593, 1650, 1775
AfaI GTAC 5 cut(s) 186, 289, 486, 968, 1829
AfiI CCNNNNNNNGG 4 cut(s) 813, 976, 1351, 1556
AgeI ACCGGT 1 cut(s) 44
AgsI TTSAA 4 cut(s) 347, 958, 1003, 1456
AjnI CCWGG 5 cut(s) 624, 1344, 1361, 1549, 1835
AjuI GAANNNNNNNTTGG 2 cut(s) 267, 299
Alw26I GTCTC 5 cut(s) 417, 1060, 1154, 1574, 1888
AlwI GGATC 3 cut(s) 690, 733, 1493
AoxI GGCC 2 cut(s) 1389, 1833
ApeKI GCWGC 9 cut(s) 32, 50, 518, 1592, 1673, 1685, 1688, 1768, 1823
ApoI RAATTY 3 cut(s) 16, 743, 1060
AsiGI ACCGGT 1 cut(s) 44
AspS9I GGNCC 4 cut(s) 908, 1729, 1805, 1873
AsuC2I CCSGG 1 cut(s) 1877
AsuHPI GGTGA 2 cut(s) 539, 627
AvaII GGWCC 4 cut(s) 908, 1729, 1805, 1873
BanI GGYRCC 1 cut(s) 1610
BanII GRGCYC 2 cut(s) 1723, 1819
BarI GAAGNNNNNNTAC 2 cut(s) 690, 722
BbsI GAAGAC 2 cut(s) 144, 325
BbvCI CCTCAGC 2 cut(s) 1234, 1587
BbvI GCAGC 9 cut(s) 44, 62, 505, 1604, 1672, 1685, 1700, 1755, 1810
BccI CCATC 5 cut(s) 140, 380, 1039, 1509, 1880
BceAI ACGGC 1 cut(s) 338
BciT130I CCWGG 5 cut(s) 626, 1346, 1363, 1551, 1837
BciVI GTATCC 1 cut(s) 1859
BclI TGATCA 1 cut(s) 250
BcnI CCSGG 1 cut(s) 1877
BcoDI GTCTC 5 cut(s) 417, 1060, 1154, 1574, 1888
BfaI CTAG 5 cut(s) 84, 498, 974, 1521, 1607
BfmI CTRYAG 2 cut(s) 1166, 1686
BfuAI ACCTGC 1 cut(s) 1682
BfuI GTATCC 1 cut(s) 1859
Bme1390I CCNGG 6 cut(s) 626, 1346, 1363, 1551, 1837, 1877
Bme18I GGWCC 4 cut(s) 908, 1729, 1805, 1873
BmgT120I GGNCC 4 cut(s) 908, 1729, 1805, 1873
BmiI GGNNCC 7 cut(s) 103, 843, 1343, 1612, 1722, 1818, 1875
BmrFI CCNGG 6 cut(s) 626, 1346, 1363, 1551, 1837, 1877
BmsI GCATC 5 cut(s) 232, 298, 520, 934, 1367
BpiI GAAGAC 2 cut(s) 144, 325
BplI GAGNNNNNCTC 3 cut(s) 1885, 1917, 1929
BpmI CTGGAG 3 cut(s) 1053, 1328, 1572
Bpu10I CCTNAGC 2 cut(s) 1234, 1587
BpuEI CTTGAG 3 cut(s) 47, 165, 1492
BpuMI CCSGG 1 cut(s) 1877
BsaBI GATNNNNATC 1 cut(s) 312
BsaI GGTCTC 2 cut(s) 1060, 1154
BsaJI CCNNGG 3 cut(s) 478, 812, 1386
BsaWI WCCGGW 1 cut(s) 44
BsaXI ACNNNNNCTCC 4 cut(s) 1067, 1097, 1705, 1735
Bsc4I CCNNNNNNNGG 4 cut(s) 813, 976, 1351, 1556
Bse118I RCCGGY 2 cut(s) 44, 960
Bse1I ACTGG 2 cut(s) 1244, 1785
Bse3DI GCAATG 1 cut(s) 1251
Bse8I GATNNNNATC 1 cut(s) 312
BseBI CCWGG 5 cut(s) 626, 1346, 1363, 1551, 1837
BseDI CCNNGG 3 cut(s) 478, 812, 1386
BseGI GGATG 5 cut(s) 139, 310, 949, 1358, 1888
BseJI GATNNNNATC 1 cut(s) 312
BseLI CCNNNNNNNGG 4 cut(s) 813, 976, 1351, 1556
BseMI GCAATG 1 cut(s) 1251
BseMII CTCAG 7 cut(s) 156, 584, 1206, 1248, 1385, 1395, 1578
BseNI ACTGG 2 cut(s) 1244, 1785
BseRI GAGGAG 7 cut(s) 869, 1088, 1091, 1094, 1291, 1569, 1572
BseXI GCAGC 9 cut(s) 44, 62, 505, 1604, 1672, 1685, 1700, 1755, 1810
BseYI CCCAGC 1 cut(s) 1481
BsgI GTGCAG 2 cut(s) 69, 1716
BshFI GGCC 2 cut(s) 1391, 1835
BshNI GGYRCC 1 cut(s) 1610
BshTI ACCGGT 1 cut(s) 44
BsiSI CCGG 4 cut(s) 45, 961, 1820, 1877
BslFI GGGAC 2 cut(s) 452, 1859
BslI CCNNNNNNNGG 4 cut(s) 813, 976, 1351, 1556
BsmAI GTCTC 5 cut(s) 417, 1060, 1154, 1574, 1888
BsmFI GGGAC 2 cut(s) 452, 1859
BsmI GAATGC 1 cut(s) 1447
BsnI GGCC 2 cut(s) 1391, 1835
Bso31I GGTCTC 2 cut(s) 1060, 1154
Bsp1286I GDGCHC 2 cut(s) 1723, 1819
BspACI CCGC 3 cut(s) 64, 1569, 1670
BspANI GGCC 2 cut(s) 1391, 1835
BspCNI CTCAG 7 cut(s) 155, 585, 1205, 1247, 1384, 1396, 1579
BspHI TCATGA 1 cut(s) 253
BspLI GGNNCC 7 cut(s) 103, 843, 1343, 1612, 1722, 1818, 1875
BspMAI CTGCAG 1 cut(s) 1690
BspMI ACCTGC 1 cut(s) 1682
BspPI GGATC 3 cut(s) 690, 733, 1493
BspQI GCTCTTC 1 cut(s) 225
BspT107I GGYRCC 1 cut(s) 1610
BspTNI GGTCTC 2 cut(s) 1060, 1154
BsrDI GCAATG 1 cut(s) 1251
BsrFI RCCGGY 2 cut(s) 44, 960
BsrI ACTGG 2 cut(s) 1244, 1785
BssAI RCCGGY 2 cut(s) 44, 960
BssECI CCNNGG 3 cut(s) 478, 812, 1386
BssNAI GTATAC 1 cut(s) 1749
BssT1I CCWWGG 2 cut(s) 812, 1386
Bst1107I GTATAC 1 cut(s) 1749
Bst2UI CCWGG 5 cut(s) 626, 1346, 1363, 1551, 1837
Bst4CI ACNGT 3 cut(s) 269, 1007, 1204
Bst6I CTCTTC 3 cut(s) 191, 225, 1930
BstAPI GCANNNNNTGC 2 cut(s) 1216, 1694
BstC8I GCNNGC 6 cut(s) 68, 166, 583, 1120, 1304, 1615
BstDEI CTNAG 8 cut(s) 142, 593, 1035, 1192, 1234, 1371, 1404, 1587
BstDSI CCRYGG 1 cut(s) 478
BstENI CCTNNNNNAGG 1 cut(s) 1554
BstF5I GGATG 5 cut(s) 139, 310, 949, 1358, 1888
BstMAI GTCTC 5 cut(s) 417, 1060, 1154, 1574, 1888
BstNI CCWGG 5 cut(s) 626, 1346, 1363, 1551, 1837
BstNSI RCATGY 2 cut(s) 1129, 1901
BstSCI CCNGG 6 cut(s) 624, 1344, 1361, 1549, 1835, 1875
BstSFI CTRYAG 2 cut(s) 1166, 1686
BstV1I GCAGC 9 cut(s) 44, 62, 505, 1604, 1672, 1685, 1700, 1755, 1810
BstV2I GAAGAC 2 cut(s) 144, 325
BstZ17I GTATAC 1 cut(s) 1749
BsuI GTATCC 1 cut(s) 1859
BsuRI GGCC 2 cut(s) 1391, 1835
BtgI CCRYGG 1 cut(s) 478
BtsCI GGATG 5 cut(s) 139, 310, 949, 1358, 1888
BtsI GCAGTG 1 cut(s) 229
BtsIMutI CAGTG 4 cut(s) 229, 274, 1251, 1778
BveI ACCTGC 1 cut(s) 1682
Cac8I GCNNGC 6 cut(s) 68, 166, 583, 1120, 1304, 1615
CciI TCATGA 1 cut(s) 253
Cfr10I RCCGGY 2 cut(s) 44, 960
Cfr13I GGNCC 4 cut(s) 908, 1729, 1805, 1873
CseI GACGC 1 cut(s) 545
Csp6I GTAC 5 cut(s) 185, 288, 485, 967, 1828
CspAI ACCGGT 1 cut(s) 44
CviQI GTAC 5 cut(s) 185, 288, 485, 967, 1828
DdeI CTNAG 8 cut(s) 142, 593, 1035, 1192, 1234, 1371, 1404, 1587
EaeI YGGCCR 1 cut(s) 1833
Eam1104I CTCTTC 3 cut(s) 191, 225, 1930
EarI CTCTTC 3 cut(s) 191, 225, 1930
Eco130I CCWWGG 2 cut(s) 812, 1386
Eco24I GRGCYC 2 cut(s) 1723, 1819
Eco31I GGTCTC 2 cut(s) 1060, 1154
Eco47I GGWCC 4 cut(s) 908, 1729, 1805, 1873
Eco57I CTGAAG 6 cut(s) 212, 581, 735, 1593, 1650, 1775
EcoNI CCTNNNNNAGG 1 cut(s) 1554
EcoO109I RGGNCCY 1 cut(s) 1873
EcoRII CCWGG 5 cut(s) 624, 1344, 1361, 1549, 1835
EcoT14I CCWWGG 2 cut(s) 812, 1386
EcoT22I ATGCAT 1 cut(s) 535
EcoT38I GRGCYC 2 cut(s) 1723, 1819
ErhI CCWWGG 2 cut(s) 812, 1386
FalI AAGNNNNNCTT 2 cut(s) 1015, 1047
FaqI GGGAC 2 cut(s) 452, 1859
FbaI TGATCA 1 cut(s) 250
FblI GTMKAC 1 cut(s) 1748
FokI GGATG 5 cut(s) 146, 317, 956, 1345, 1895
FriOI GRGCYC 2 cut(s) 1723, 1819
FspBI CTAG 5 cut(s) 84, 498, 974, 1521, 1607
GsaI CCCAGC 1 cut(s) 1485
GsuI CTGGAG 3 cut(s) 1053, 1328, 1572
HaeIII GGCC 2 cut(s) 1391, 1835
HapII CCGG 4 cut(s) 45, 961, 1820, 1877
HgaI GACGC 1 cut(s) 545
HindIII AAGCTT 1 cut(s) 920
HpaII CCGG 4 cut(s) 45, 961, 1820, 1877
HphI GGTGA 2 cut(s) 539, 627
Hpy166II GTNNAC 7 cut(s) 485, 707, 1189, 1249, 1729, 1749, 1805
Hpy188III TCNNGA 8 cut(s) 26, 84, 254, 788, 1070, 1373, 1449, 1509
Hpy8I GTNNAC 7 cut(s) 485, 707, 1189, 1249, 1729, 1749, 1805
HpyAV CCTTC 4 cut(s) 115, 571, 692, 1258
HpyCH4III ACNGT 3 cut(s) 269, 1007, 1204
HpyF3I CTNAG 8 cut(s) 142, 593, 1035, 1192, 1234, 1371, 1404, 1587
Ksp22I TGATCA 1 cut(s) 250
LguI GCTCTTC 1 cut(s) 225
LmnI GCTCC 6 cut(s) 841, 856, 1072, 1347, 1726, 1822
Lsp1109I GCAGC 9 cut(s) 44, 62, 505, 1604, 1672, 1685, 1700, 1755, 1810
LweI GCATC 5 cut(s) 232, 298, 520, 934, 1367
MaeI CTAG 5 cut(s) 84, 498, 974, 1521, 1607
MaeIII GTNAC 3 cut(s) 122, 224, 543
MhlI GDGCHC 2 cut(s) 1723, 1819
MluCI AATT 8 cut(s) 16, 407, 743, 861, 1060, 1349, 1531, 1759
MlyI GAGTC 5 cut(s) 119, 134, 547, 566, 671
MmeI TCCRAC 4 cut(s) 101, 1200, 1266, 1659
Mph1103I ATGCAT 1 cut(s) 535
MseI TTAA 3 cut(s) 410, 1332, 1437
MslI CAYNNNNRTG 1 cut(s) 240
MspA1I CMGCKG 4 cut(s) 53, 518, 1571, 1670
MspI CCGG 4 cut(s) 45, 961, 1820, 1877
MspR9I CCNGG 6 cut(s) 626, 1346, 1363, 1551, 1837, 1877
Mva1269I GAATGC 1 cut(s) 1447
MvaI CCWGG 5 cut(s) 626, 1346, 1363, 1551, 1837
NciI CCSGG 1 cut(s) 1877
NlaIV GGNNCC 7 cut(s) 103, 843, 1343, 1612, 1722, 1818, 1875
NmeAIII GCCGAG 1 cut(s) 1811
NmuCI GTSAC 2 cut(s) 122, 224
NsiI ATGCAT 1 cut(s) 535
NspI RCATGY 2 cut(s) 1129, 1901
PagI TCATGA 1 cut(s) 253
PaqCI CACCTGC 1 cut(s) 1682
PciSI GCTCTTC 1 cut(s) 225
PcsI WCGNNNNNNNCGW 1 cut(s) 553
PctI GAATGC 1 cut(s) 1447
PfeI GAWTC 6 cut(s) 275, 358, 455, 599, 1382, 1471
PflFI GACNNNGTC 1 cut(s) 1909
PflMI CCANNNNNTGG 1 cut(s) 1351
PfoI TCCNGGA 2 cut(s) 1344, 1875
PinAI ACCGGT 1 cut(s) 44
PleI GAGTC 5 cut(s) 119, 134, 546, 566, 671
PpsI GAGTC 5 cut(s) 119, 134, 546, 566, 671
PpuMI RGGWCCY 1 cut(s) 1873
PsiI TTATAA 1 cut(s) 1926
Psp5II RGGWCCY 1 cut(s) 1873
Psp6I CCWGG 5 cut(s) 624, 1344, 1361, 1549, 1835
PspFI CCCAGC 1 cut(s) 1481
PspGI CCWGG 5 cut(s) 624, 1344, 1361, 1549, 1835
PspN4I GGNNCC 7 cut(s) 103, 843, 1343, 1612, 1722, 1818, 1875
PspPI GGNCC 4 cut(s) 908, 1729, 1805, 1873
PspPPI RGGWCCY 1 cut(s) 1873
PsrI GAACNNNNNNTAC 2 cut(s) 950, 982
PstI CTGCAG 1 cut(s) 1690
PsyI GACNNNGTC 1 cut(s) 1909
PvuII CAGCTG 2 cut(s) 53, 518
RsaI GTAC 5 cut(s) 186, 289, 486, 968, 1829
RsaNI GTAC 5 cut(s) 185, 288, 485, 967, 1828
RseI CAYNNNNRTG 1 cut(s) 240
SapI GCTCTTC 1 cut(s) 225
SaqAI TTAA 3 cut(s) 410, 1332, 1437
Sau96I GGNCC 4 cut(s) 908, 1729, 1805, 1873
SchI GAGTC 5 cut(s) 119, 134, 547, 566, 671
ScrFI CCNGG 6 cut(s) 626, 1346, 1363, 1551, 1837, 1877
SduI GDGCHC 2 cut(s) 1723, 1819
SfaNI GCATC 5 cut(s) 232, 298, 520, 934, 1367
SfcI CTRYAG 2 cut(s) 1166, 1686
SinI GGWCC 4 cut(s) 908, 1729, 1805, 1873
SmiMI CAYNNNNRTG 1 cut(s) 240
SmlI CTYRAG 3 cut(s) 26, 180, 1507
SmoI CTYRAG 3 cut(s) 26, 180, 1507
Sse9I AATT 8 cut(s) 16, 407, 743, 861, 1060, 1349, 1531, 1759
SsiI CCGC 3 cut(s) 64, 1569, 1670
SspI AATATT 1 cut(s) 998
SspMI CTAG 5 cut(s) 84, 498, 974, 1521, 1607
StyD4I CCNGG 6 cut(s) 624, 1344, 1361, 1549, 1835, 1875
StyI CCWWGG 2 cut(s) 812, 1386
TaaI ACNGT 3 cut(s) 269, 1007, 1204
TaqI TCGA 5 cut(s) 316, 575, 818, 1526, 1764
TasI AATT 8 cut(s) 16, 407, 743, 861, 1060, 1349, 1531, 1759
TauI GCSGC 2 cut(s) 1571, 1673
TfiI GAWTC 6 cut(s) 275, 358, 455, 599, 1382, 1471
Tru1I TTAA 3 cut(s) 410, 1332, 1437
Tru9I TTAA 3 cut(s) 410, 1332, 1437
TscAI CASTG 4 cut(s) 229, 274, 1251, 1785
TseFI GTSAC 2 cut(s) 122, 224
TseI GCWGC 9 cut(s) 32, 50, 518, 1592, 1673, 1685, 1688, 1768, 1823
Tsp45I GTSAC 2 cut(s) 122, 224
TspDTI ATGAA 8 cut(s) 132, 150, 288, 591, 711, 756, 1424, 1578
TspRI CASTG 4 cut(s) 229, 274, 1251, 1785
Tth111I GACNNNGTC 1 cut(s) 1909
Van91I CCANNNNNTGG 1 cut(s) 1351
VpaK11BI GGWCC 4 cut(s) 908, 1729, 1805, 1873
XagI CCTNNNNNAGG 1 cut(s) 1554
XapI RAATTY 3 cut(s) 16, 743, 1060
XbaI TCTAGA 1 cut(s) 83
XceI RCATGY 2 cut(s) 1129, 1901
XmiI GTMKAC 1 cut(s) 1748
XspI CTAG 5 cut(s) 84, 498, 974, 1521, 1607
Zsp2I ATGCAT 1 cut(s) 535
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.