FvH4_5g05460

mediator of RNA polymerase II transcription subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb5
OG0006902
Physical Location & Seq
Reverse (-)
3206528 .. 3213001
6474 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_5g05460.t3

Sequence Viewer

Length: 1566 bp
ATGGCGGAGAAGCAGTTGATCGTGGTCGTTGAAGGCACGATGGCCATGCAGCCTTACTGGCCCACCGTCTTCTGCGATTACGTCGAGAAGATCATCAGGTCCTTACCCGGAAACGAGTTATCTGGATGTGGTCAGAAGCCCTCCTCCACCTCTACCGTTGAGATGTCTCTGATCACATTCAACACTCATGGATCTGGTTGCTTGGTACAACGGAGTGGTTGGACAAGAGACATTGAACTTTTCTTACAATGGTTATCAGCTCTTCCCTTAAATGGTGGTGGTTTTAGTGATGCTGCAATTGCAGAAGGGCTGTCTGAAGCCCTAATGATGTTCTTGACCATTCAAAATGGAAGCCAAAATCAACAAAATGTGGATTTTCAAAAGCATTGCATTCTTGTTGCTGCTAGTGACCCTTGTCCCCTTCCCACACCAGGCTATAGACCACAAATGCAAAACATGGAGCAGAGTGAAATTTCTGATGCGCAAACCGAAAGCTGTCTGTATGATGCTGAGGCTGTTGCTAAATCATTTGCACAGTGCTTTGTTTCTCTGTCAATCATCTGTCCAAAACAGCTTCCTAAACTCAGAGCTATTTACAATGCGGGAAAGCGCAACCCCCGGGCAGCAGATCCACCTATTGATAATGTGAAAACCCCCCACTTTCTCGTTCTAATCTCAGAGAATTTTATTGAGGCACAGGCTACTTTAAGTCGTCCTGGAAGTACGACTTTACCCTCATATCTGAAAGCTTCTGTTGGATCAGTAACAAAGCCGCATGAACGTTATCCCGGTTGGAAAATGTCAAATAAGAAGAAGGGCCTTACCAGCCTTCCACCTCCAACTTCTAATCCATCTGGTTCCTCCTCTGGAACCAGTACAATGAATCCTACTCTTGGAATCTCTCAACAAGCCCAATCTGGGATACAGTCGCTTGGTGCAGACAATAGTTCGGTATCTAATCCGTTGTCACAACAAACGTCAAGTGCTCTGCATCCTGCACAATTCGAATTTGTAAAAGTCTGGGAGGGAAATTTATATTTTTCTGGGCGGAGACAAGGACCACCTGTGTTTATTACTAGATTGGAAGGATACATATGTTTTTCAGCATCTGTGGCGCTTGCAGTAAACTTGCCACCGACATTGCAAATAGTCAGGGTCACACCTCAGGAACTCATGTATAGCAGGCATTTTGTGAGACGGGTAAAATATCAAATATTTAAGGCAATGGATCAGAATGACTTTTTTGGGATGTTGCAAGAAAAAAAGCTTTGTGCTATCATCAAATTGCCGTCTGAGATACTACTGCTATCTGTTTCGGATAAACTTAACTGCATGGTTGGAATGGTGTGCCCATTGGATTTGTTTCTGTCAGCGCCACAACCAACAGGTGGTGAGCAAGGACAGGTAACAACAGAAGCCTCAGCTTCAACAGATGCAGCAACAGCAGCCGCAGGGATTCAGGGTTTGGTTCTGTCAGAGCCACAAACAGGTGGTGAGCAAGGACAGGTAACAACAGAAGCCTCAGCTTCAACAGATGCAGCCGCAGCGACCACAACAAGGGCCTAA
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
Med25_VWA

Protein Analysis

522

Amino Acids

56.08

Weight (kDa)

6.13

Isoelectric Point (pI)

43.51

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Med25_VWA PF11265 3 - 227 1.5e-37 Mediator complex subunit 25 von Willebrand factor type 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)
Acc16I TGCGCA 1 cut(s) 483
AccB7I CCANNNNNTGG 1 cut(s) 1388
AciI CCGC 6 cut(s) 5, 602, 773, 1048, 1449, 1542
AclI AACGTT 1 cut(s) 781
AclWI GGATC 4 cut(s) 199, 623, 766, 1236
AcoI YGGCCR 1 cut(s) 42
AcsI RAATTY 4 cut(s) 471, 682, 1007, 1030
AcuI CTGAAG 1 cut(s) 336
AfaI GTAC 3 cut(s) 207, 724, 877
AfiI CCNNNNNNNGG 7 cut(s) 272, 431, 893, 918, 1388, 1487, 1557
AgsI TTSAA 7 cut(s) 32, 181, 236, 344, 380, 1428, 1530
AjnI CCWGG 2 cut(s) 430, 715
AluBI AGCT 8 cut(s) 260, 495, 574, 590, 749, 1267, 1424, 1526
AluI AGCT 8 cut(s) 260, 495, 574, 590, 749, 1267, 1424, 1526
Alw21I GWGCWC 1 cut(s) 988
Alw26I GTCTC 4 cut(s) 171, 222, 1045, 1189
AlwI GGATC 4 cut(s) 199, 623, 766, 1236
AlwNI CAGNNNCTG 1 cut(s) 1109
Ama87I CYCGRG 1 cut(s) 618
AoxI GGCC 4 cut(s) 42, 59, 817, 1560
ApeKI GCWGC 8 cut(s) 49, 293, 401, 623, 1436, 1445, 1538, 1544
ApoI RAATTY 4 cut(s) 471, 682, 1007, 1030
AspLEI GCGC 4 cut(s) 484, 612, 1117, 1375
AspS9I GGNCC 5 cut(s) 60, 99, 817, 1058, 1560
AsuC2I CCSGG 4 cut(s) 108, 619, 620, 789
AsuHPI GGTGA 2 cut(s) 1403, 1505
AsuII TTCGAA 1 cut(s) 1005
AvaI CYCGRG 1 cut(s) 618
AvaII GGWCC 2 cut(s) 99, 1058
AxyI CCTNAGG 1 cut(s) 1164
BaeGI GKGCMC 1 cut(s) 1352
BaeI ACNNNNGTAYC 2 cut(s) 1081, 1114
BalI TGGCCA 1 cut(s) 44
BbsI GAAGAC 1 cut(s) 61
Bbv12I GWGCWC 1 cut(s) 988
BbvCI CCTCAGC 3 cut(s) 510, 1420, 1522
BbvI GCAGC 8 cut(s) 61, 280, 388, 635, 1448, 1457, 1550, 1556
BccI CCATC 2 cut(s) 34, 859
BceAI ACGGC 1 cut(s) 1273
BcgI CGANNNNNNTGC 2 cut(s) 28, 62
BciT130I CCWGG 2 cut(s) 432, 717
BciVI GTATCC 2 cut(s) 915, 1082
BclI TGATCA 1 cut(s) 171
BcnI CCSGG 4 cut(s) 108, 619, 620, 789
BcoDI GTCTC 4 cut(s) 171, 222, 1045, 1189
BfaI CTAG 2 cut(s) 405, 1077
BfmI CTRYAG 1 cut(s) 436
BfoI RGCGCY 2 cut(s) 1118, 1376
BfuI GTATCC 2 cut(s) 915, 1082
BglI GCCNNNNNGGC 1 cut(s) 58
Bme1390I CCNGG 6 cut(s) 108, 432, 619, 620, 717, 789
Bme18I GGWCC 2 cut(s) 99, 1058
BmeT110I CYCGRG 1 cut(s) 618
BmgT120I GGNCC 5 cut(s) 60, 99, 817, 1058, 1560
BmiI GGNNCC 2 cut(s) 859, 871
BmrFI CCNGG 6 cut(s) 108, 432, 619, 620, 717, 789
BmsI GCATC 7 cut(s) 280, 469, 496, 1000, 1115, 1423, 1525
BoxI GACNNNNGTC 1 cut(s) 414
BpiI GAAGAC 1 cut(s) 61
Bpu10I CCTNAGC 3 cut(s) 510, 1420, 1522
Bpu14I TTCGAA 1 cut(s) 1005
BpuMI CCSGG 4 cut(s) 108, 619, 620, 789
BsaJI CCNNGG 2 cut(s) 617, 618
BsaXI ACNNNNNCTCC 1 cut(s) 29
Bsc4I CCNNNNNNNGG 7 cut(s) 272, 431, 893, 918, 1388, 1487, 1557
Bse1I ACTGG 2 cut(s) 62, 873
Bse21I CCTNAGG 1 cut(s) 1164
Bse3DI GCAATG 3 cut(s) 385, 1139, 1230
BseBI CCWGG 2 cut(s) 432, 717
BseDI CCNNGG 2 cut(s) 617, 618
BseGI GGATG 3 cut(s) 131, 991, 1254
BseLI CCNNNNNNNGG 7 cut(s) 272, 431, 893, 918, 1388, 1487, 1557
BseMI GCAATG 3 cut(s) 385, 1139, 1230
BseMII CTCAG 7 cut(s) 501, 598, 690, 1178, 1284, 1434, 1536
BseNI ACTGG 2 cut(s) 62, 873
BseRI GAGGAG 2 cut(s) 133, 853
BseSI GKGCMC 1 cut(s) 1352
BseXI GCAGC 8 cut(s) 61, 280, 388, 635, 1448, 1457, 1550, 1556
BsgI GTGCAG 2 cut(s) 957, 981
BshFI GGCC 4 cut(s) 44, 61, 819, 1562
BsiHKAI GWGCWC 1 cut(s) 988
BsiHKCI CYCGRG 1 cut(s) 618
BsiSI CCGG 3 cut(s) 108, 619, 789
BslFI GGGAC 1 cut(s) 402
BslI CCNNNNNNNGG 7 cut(s) 272, 431, 893, 918, 1388, 1487, 1557
BsmAI GTCTC 4 cut(s) 171, 222, 1045, 1189
BsmBI CGTCTC 1 cut(s) 1189
BsmFI GGGAC 1 cut(s) 402
BsmI GAATGC 1 cut(s) 390
BsnI GGCC 4 cut(s) 44, 61, 819, 1562
BsoBI CYCGRG 1 cut(s) 618
Bsp119I TTCGAA 1 cut(s) 1005
Bsp1286I GDGCHC 2 cut(s) 988, 1352
Bsp143I GATC 7 cut(s) 18, 90, 171, 191, 628, 758, 1228
BspACI CCGC 6 cut(s) 5, 602, 773, 1048, 1449, 1542
BspANI GGCC 4 cut(s) 44, 61, 819, 1562
BspCNI CTCAG 7 cut(s) 502, 597, 689, 1177, 1285, 1433, 1535
BspLI GGNNCC 2 cut(s) 859, 871
BspPI GGATC 4 cut(s) 199, 623, 766, 1236
BspQI GCTCTTC 1 cut(s) 267
BspT104I TTCGAA 1 cut(s) 1005
BsrDI GCAATG 3 cut(s) 385, 1139, 1230
BsrI ACTGG 2 cut(s) 62, 873
BssECI CCNNGG 2 cut(s) 617, 618
BssMI GATC 7 cut(s) 18, 90, 171, 191, 628, 758, 1228
Bst2UI CCWGG 2 cut(s) 432, 717
Bst4CI ACNGT 4 cut(s) 67, 157, 537, 927
Bst6I CTCTTC 1 cut(s) 267
BstBI TTCGAA 1 cut(s) 1005
BstC8I GCNNGC 2 cut(s) 1119, 1184
BstDEI CTNAG 7 cut(s) 510, 584, 676, 1164, 1293, 1420, 1522
BstF5I GGATG 3 cut(s) 131, 991, 1254
BstH2I RGCGCY 2 cut(s) 1118, 1376
BstHHI GCGC 4 cut(s) 484, 612, 1117, 1375
BstKTI GATC 7 cut(s) 21, 93, 174, 194, 631, 761, 1231
BstMAI GTCTC 4 cut(s) 171, 222, 1045, 1189
BstMBI GATC 7 cut(s) 18, 90, 171, 191, 628, 758, 1228
BstMWI GCNNNNNNNGC 7 cut(s) 58, 299, 825, 1112, 1442, 1445, 1544
BstNI CCWGG 2 cut(s) 432, 717
BstPAI GACNNNNGTC 1 cut(s) 414
BstSCI CCNGG 6 cut(s) 106, 430, 617, 618, 715, 787
BstSFI CTRYAG 1 cut(s) 436
BstSLI GKGCMC 1 cut(s) 1352
BstV1I GCAGC 8 cut(s) 61, 280, 388, 635, 1448, 1457, 1550, 1556
BstV2I GAAGAC 1 cut(s) 61
BstX2I RGATCY 2 cut(s) 191, 628
BstYI RGATCY 2 cut(s) 191, 628
Bsu36I CCTNAGG 1 cut(s) 1164
BsuI GTATCC 2 cut(s) 915, 1082
BsuRI GGCC 4 cut(s) 44, 61, 819, 1562
BtsCI GGATG 3 cut(s) 131, 991, 1254
BtsIMutI CAGTG 1 cut(s) 542
Cac8I GCNNGC 2 cut(s) 1119, 1184
CaiI CAGNNNCTG 1 cut(s) 1109
CfoI GCGC 4 cut(s) 484, 612, 1117, 1375
Cfr13I GGNCC 5 cut(s) 60, 99, 817, 1058, 1560
Cfr9I CCCGGG 1 cut(s) 618
Csp6I GTAC 3 cut(s) 206, 723, 876
CspCI CAANNNNNGTGG 2 cut(s) 1122, 1157
CviAII CATG 6 cut(s) 46, 188, 457, 776, 1174, 1333
CviQI GTAC 3 cut(s) 206, 723, 876
DdeI CTNAG 7 cut(s) 510, 584, 676, 1164, 1293, 1420, 1522
DpnI GATC 7 cut(s) 20, 92, 173, 193, 630, 760, 1230
DpnII GATC 7 cut(s) 18, 90, 171, 191, 628, 758, 1228
EaeI YGGCCR 1 cut(s) 42
Eam1104I CTCTTC 1 cut(s) 267
EarI CTCTTC 1 cut(s) 267
EciI GGCGGA 2 cut(s) 20, 1063
Eco47I GGWCC 2 cut(s) 99, 1058
Eco57I CTGAAG 1 cut(s) 336
Eco81I CCTNAGG 1 cut(s) 1164
Eco88I CYCGRG 1 cut(s) 618
EcoO109I RGGNCCY 3 cut(s) 99, 817, 1560
EcoRII CCWGG 2 cut(s) 430, 715
Esp3I CGTCTC 1 cut(s) 1189
FaeI CATG 6 cut(s) 49, 191, 460, 779, 1177, 1336
FalI AAGNNNNNCTT 2 cut(s) 712, 744
FaqI GGGAC 1 cut(s) 402
FatI CATG 6 cut(s) 45, 187, 456, 775, 1173, 1332
FauI CCCGC 1 cut(s) 595
FauNDI CATATG 1 cut(s) 1094
FbaI TGATCA 1 cut(s) 171
FokI GGATG 3 cut(s) 138, 978, 1261
FspBI CTAG 2 cut(s) 405, 1077
FspI TGCGCA 1 cut(s) 483
GlaI GCGC 4 cut(s) 483, 611, 1116, 1374
HaeII RGCGCY 2 cut(s) 1118, 1376
HaeIII GGCC 4 cut(s) 44, 61, 819, 1562
HapII CCGG 3 cut(s) 108, 619, 789
HhaI GCGC 4 cut(s) 484, 612, 1117, 1375
Hin1II CATG 6 cut(s) 49, 191, 460, 779, 1177, 1336
Hin6I GCGC 4 cut(s) 482, 610, 1115, 1373
HinP1I GCGC 4 cut(s) 482, 610, 1115, 1373
HindIII AAGCTT 2 cut(s) 747, 1265
HinfI GANTC 3 cut(s) 883, 897, 1456
HpaII CCGG 3 cut(s) 108, 619, 789
HphI GGTGA 2 cut(s) 1403, 1505
Hpy166II GTNNAC 1 cut(s) 1126
Hpy188III TCNNGA 5 cut(s) 85, 123, 334, 867, 1166
Hpy8I GTNNAC 1 cut(s) 1126
Hpy99I CGWCG 1 cut(s) 86
HpyAV CCTTC 6 cut(s) 26, 299, 431, 808, 839, 1079
HpyCH4III ACNGT 4 cut(s) 67, 157, 537, 927
HpyCH4IV ACGT 3 cut(s) 81, 781, 977
HpyF10VI GCNNNNNNNGC 7 cut(s) 58, 299, 825, 1112, 1442, 1445, 1544
HpyF3I CTNAG 7 cut(s) 510, 584, 676, 1164, 1293, 1420, 1522
HpySE526I ACGT 3 cut(s) 81, 781, 977
Hsp92II CATG 6 cut(s) 49, 191, 460, 779, 1177, 1336
HspAI GCGC 4 cut(s) 482, 610, 1115, 1373
Ksp22I TGATCA 1 cut(s) 171
Kzo9I GATC 7 cut(s) 18, 90, 171, 191, 628, 758, 1228
LguI GCTCTTC 1 cut(s) 267
LmnI GCTCC 1 cut(s) 460
Lsp1109I GCAGC 8 cut(s) 61, 280, 388, 635, 1448, 1457, 1550, 1556
LweI GCATC 7 cut(s) 280, 469, 496, 1000, 1115, 1423, 1525
MaeI CTAG 2 cut(s) 405, 1077
MaeII ACGT 3 cut(s) 81, 781, 977
MaeIII GTNAC 6 cut(s) 407, 763, 966, 1156, 1405, 1507
MalI GATC 7 cut(s) 20, 92, 173, 193, 630, 760, 1230
MboI GATC 7 cut(s) 18, 90, 171, 191, 628, 758, 1228
MboII GAAGA 4 cut(s) 61, 100, 254, 823
MfeI CAATTG 1 cut(s) 297
MflI RGATCY 2 cut(s) 191, 628
MhlI GDGCHC 2 cut(s) 988, 1352
MlsI TGGCCA 1 cut(s) 44
MluCI AATT 7 cut(s) 297, 471, 682, 1001, 1007, 1030, 1283
MluNI TGGCCA 1 cut(s) 44
MmeI TCCRAC 5 cut(s) 200, 736, 773, 863, 1318
Mox20I TGGCCA 1 cut(s) 44
MscI TGGCCA 1 cut(s) 44
MseI TTAA 4 cut(s) 269, 707, 1218, 1326
Msp20I TGGCCA 1 cut(s) 44
MspI CCGG 3 cut(s) 108, 619, 789
MspR9I CCNGG 6 cut(s) 108, 432, 619, 620, 717, 789
MunI CAATTG 1 cut(s) 297
Mva1269I GAATGC 1 cut(s) 390
MvaI CCWGG 2 cut(s) 432, 717
MwoI GCNNNNNNNGC 7 cut(s) 58, 299, 825, 1112, 1442, 1445, 1544
NciI CCSGG 4 cut(s) 108, 619, 620, 789
NdeI CATATG 1 cut(s) 1094
NdeII GATC 7 cut(s) 18, 90, 171, 191, 628, 758, 1228
NlaIII CATG 6 cut(s) 49, 191, 460, 779, 1177, 1336
NlaIV GGNNCC 2 cut(s) 859, 871
NmuCI GTSAC 3 cut(s) 407, 966, 1156
NsbI TGCGCA 1 cut(s) 483
NspV TTCGAA 1 cut(s) 1005
PciSI GCTCTTC 1 cut(s) 267
PctI GAATGC 1 cut(s) 390
PfeI GAWTC 3 cut(s) 883, 897, 1456
PflMI CCANNNNNTGG 1 cut(s) 1388
PfoI TCCNGGA 1 cut(s) 715
PpuMI RGGWCCY 1 cut(s) 99
PshAI GACNNNNGTC 1 cut(s) 414
Psp1406I AACGTT 1 cut(s) 781
Psp5II RGGWCCY 1 cut(s) 99
Psp6I CCWGG 2 cut(s) 430, 715
PspGI CCWGG 2 cut(s) 430, 715
PspN4I GGNNCC 2 cut(s) 859, 871
PspPI GGNCC 5 cut(s) 60, 99, 817, 1058, 1560
PspPPI RGGWCCY 1 cut(s) 99
PsrI GAACNNNNNNTAC 2 cut(s) 228, 260
PstNI CAGNNNCTG 1 cut(s) 1109
PsuI RGATCY 2 cut(s) 191, 628
RsaI GTAC 3 cut(s) 207, 724, 877
RsaNI GTAC 3 cut(s) 206, 723, 876
SapI GCTCTTC 1 cut(s) 267
SaqAI TTAA 4 cut(s) 269, 707, 1218, 1326
Sau3AI GATC 7 cut(s) 18, 90, 171, 191, 628, 758, 1228
Sau96I GGNCC 5 cut(s) 60, 99, 817, 1058, 1560
ScrFI CCNGG 6 cut(s) 108, 432, 619, 620, 717, 789
SduI GDGCHC 2 cut(s) 988, 1352
SfaNI GCATC 7 cut(s) 280, 469, 496, 1000, 1115, 1423, 1525
SfcI CTRYAG 1 cut(s) 436
SfuI TTCGAA 1 cut(s) 1005
SinI GGWCC 2 cut(s) 99, 1058
SmaI CCCGGG 1 cut(s) 620
Sse9I AATT 7 cut(s) 297, 471, 682, 1001, 1007, 1030, 1283
SsiI CCGC 6 cut(s) 5, 602, 773, 1048, 1449, 1542
SspI AATATT 1 cut(s) 1215
SspMI CTAG 2 cut(s) 405, 1077
StyD4I CCNGG 6 cut(s) 106, 430, 617, 618, 715, 787
TaaI ACNGT 4 cut(s) 67, 157, 537, 927
TaiI ACGT 3 cut(s) 84, 784, 980
TaqI TCGA 2 cut(s) 84, 1005
TasI AATT 7 cut(s) 297, 471, 682, 1001, 1007, 1030, 1283
TatI WGTACW 1 cut(s) 875
TauI GCSGC 3 cut(s) 775, 1451, 1544
TfiI GAWTC 3 cut(s) 883, 897, 1456
Tru1I TTAA 4 cut(s) 269, 707, 1218, 1326
Tru9I TTAA 4 cut(s) 269, 707, 1218, 1326
TscAI CASTG 1 cut(s) 542
TseFI GTSAC 3 cut(s) 407, 966, 1156
TseI GCWGC 8 cut(s) 49, 293, 401, 623, 1436, 1445, 1538, 1544
Tsp45I GTSAC 3 cut(s) 407, 966, 1156
TspDTI ATGAA 2 cut(s) 792, 896
TspGWI ACGGA 2 cut(s) 226, 951
TspMI CCCGGG 1 cut(s) 618
TspRI CASTG 1 cut(s) 542
Van91I CCANNNNNTGG 1 cut(s) 1388
VpaK11BI GGWCC 2 cut(s) 99, 1058
XapI RAATTY 4 cut(s) 471, 682, 1007, 1030
XmaI CCCGGG 1 cut(s) 618
XspI CTAG 2 cut(s) 405, 1077
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.