FvH4_3g09480

mediator of RNA polymerase II transcription subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb3
OG0010538
Physical Location & Seq
Reverse (-)
5520642 .. 5525002
4361 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_3g09480.t2

Sequence Viewer

Length: 615 bp
ATGTCGTTTCAGATGGATCTTGACGCGAAGGGGTTCGGAAGAGGGCCTCGGGAACTTGGTGGCGCTACAGATCTCGTAAAACAATATAAGCTTTGGCCTTACCATGAATTCTTTTGCAAAAGGTCACTTCCTTTGTCAGAGACTCATTATCTTCATAATGTGGTGGGAGACACGCAAATCAGGAAAGGGGAGGGGATGGAATTGGATCAGCTATTGGAGAAGACCCCTTATATGAGAGAACGGAATGCAAACATACATCCTATTGATTTTGGCATGCTTAGTGAAGCTTTCCGAATAAAGGAGACAACTCCTGTTCATTTACCTTCTGCTGAGAAAGGGATCCTTACCTCAGTGGTAAAGTCAAAGGGTGAGTTAGAAGACAGGGAAAGGAAGCATAAAAAGAACAAAAACAAGGATAAGGATCGTAAGAAGCACAAAAAGCATCGCCTAGACAACAGCGGCGATGCTGATAAAACCTATGAGAATGTTACTAATGGCTCAAAAACTGTGCAGTTGAAGGAACAGCCAGATATGTTCATTCAGAAGAGGAGGCTCAATGGTCCTGAAGATCTTTCTGACCGTGACAATAAAAGAGTGAGAATCCAAAGATACTGA
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
No domains found.

Protein Analysis

205

Amino Acids

23.84

Weight (kDa)

9.55

Isoelectric Point (pI)

36.85

Instability Index
Protein Domains (Pfam)
No Pfam domains detected for this protein.
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccII CGCG 1 cut(s) 26
AciI CCGC 1 cut(s) 459
AclWI GGATC 5 cut(s) 24, 213, 334, 347, 429
AcsI RAATTY 1 cut(s) 107
AcuI CTGAAG 1 cut(s) 585
AfiI CCNNNNNNNGG 1 cut(s) 298
AgsI TTSAA 1 cut(s) 517
AluBI AGCT 3 cut(s) 91, 211, 287
AluI AGCT 3 cut(s) 91, 211, 287
Alw26I GTCTC 3 cut(s) 134, 162, 296
AlwI GGATC 5 cut(s) 24, 213, 334, 347, 429
Ama87I CYCGRG 1 cut(s) 48
AoxI GGCC 2 cut(s) 44, 95
ApoI RAATTY 1 cut(s) 107
Asp700I GAANNNNTTC 1 cut(s) 32
AspLEI GCGC 1 cut(s) 65
AspS9I GGNCC 2 cut(s) 44, 560
AsuHPI GGTGA 1 cut(s) 380
AvaI CYCGRG 1 cut(s) 48
AvaII GGWCC 1 cut(s) 560
BamHI GGATCC 1 cut(s) 339
BbsI GAAGAC 2 cut(s) 227, 384
BccI CCATC 2 cut(s) 7, 190
BcoDI GTCTC 3 cut(s) 134, 162, 296
BfaI CTAG 1 cut(s) 449
BfmI CTRYAG 1 cut(s) 66
BfoI RGCGCY 1 cut(s) 66
BglII AGATCT 2 cut(s) 70, 568
BisI GCNGC 1 cut(s) 460
BlsI GCNGC 1 cut(s) 461
Bme18I GGWCC 1 cut(s) 560
BmeT110I CYCGRG 1 cut(s) 48
BmgT120I GGNCC 2 cut(s) 44, 560
BmiI GGNNCC 1 cut(s) 341
BmsI GCATC 2 cut(s) 451, 454
BpiI GAAGAC 2 cut(s) 227, 384
BsaBI GATNNNNATC 1 cut(s) 420
BsaJI CCNNGG 1 cut(s) 47
Bsc4I CCNNNNNNNGG 1 cut(s) 298
Bse8I GATNNNNATC 1 cut(s) 420
BseDI CCNNGG 1 cut(s) 47
BseGI GGATG 2 cut(s) 201, 256
BseJI GATNNNNATC 1 cut(s) 420
BseLI CCNNNNNNNGG 1 cut(s) 298
BseMII CTCAG 2 cut(s) 321, 363
BseRI GAGGAG 1 cut(s) 562
BsgI GTGCAG 1 cut(s) 530
Bsh1236I CGCG 1 cut(s) 26
BshFI GGCC 2 cut(s) 46, 97
BsiHKCI CYCGRG 1 cut(s) 48
BslI CCNNNNNNNGG 1 cut(s) 298
BsmAI GTCTC 3 cut(s) 134, 162, 296
BsmI GAATGC 1 cut(s) 250
BsnI GGCC 2 cut(s) 46, 97
BsoBI CYCGRG 1 cut(s) 48
Bsp143I GATC 6 cut(s) 16, 70, 205, 339, 421, 568
BspACI CCGC 1 cut(s) 459
BspANI GGCC 2 cut(s) 46, 97
BspCNI CTCAG 2 cut(s) 322, 362
BspFNI CGCG 1 cut(s) 26
BspLI GGNNCC 1 cut(s) 341
BspPI GGATC 5 cut(s) 24, 213, 334, 347, 429
BssECI CCNNGG 1 cut(s) 47
BssMI GATC 6 cut(s) 16, 70, 205, 339, 421, 568
Bst4CI ACNGT 2 cut(s) 508, 581
Bst6I CTCTTC 2 cut(s) 34, 539
BstC8I GCNNGC 1 cut(s) 275
BstDEI CTNAG 3 cut(s) 278, 330, 349
BstF5I GGATG 2 cut(s) 201, 256
BstFNI CGCG 1 cut(s) 26
BstH2I RGCGCY 1 cut(s) 66
BstHHI GCGC 1 cut(s) 65
BstKTI GATC 6 cut(s) 19, 73, 208, 342, 424, 571
BstMAI GTCTC 3 cut(s) 134, 162, 296
BstMBI GATC 6 cut(s) 16, 70, 205, 339, 421, 568
BstMWI GCNNNNNNNGC 1 cut(s) 439
BstNSI RCATGY 1 cut(s) 277
BstSFI CTRYAG 1 cut(s) 66
BstUI CGCG 1 cut(s) 26
BstV2I GAAGAC 2 cut(s) 227, 384
BstX2I RGATCY 4 cut(s) 16, 70, 339, 568
BstYI RGATCY 4 cut(s) 16, 70, 339, 568
BsuRI GGCC 2 cut(s) 46, 97
BtgZI GCGATG 2 cut(s) 428, 477
BtsCI GGATG 2 cut(s) 201, 256
BtsIMutI CAGTG 1 cut(s) 357
Cac8I GCNNGC 1 cut(s) 275
CfoI GCGC 1 cut(s) 65
Cfr13I GGNCC 2 cut(s) 44, 560
CseI GACGC 1 cut(s) 32
CviAII CATG 2 cut(s) 104, 274
CviJI RGCY 8 cut(s) 46, 91, 97, 211, 287, 498, 526, 553
CviKI_1 RGCY 8 cut(s) 46, 91, 97, 211, 287, 498, 526, 553
DdeI CTNAG 3 cut(s) 278, 330, 349
DpnI GATC 6 cut(s) 18, 72, 207, 341, 423, 570
DpnII GATC 6 cut(s) 16, 70, 205, 339, 421, 568
Eam1104I CTCTTC 2 cut(s) 34, 539
EarI CTCTTC 2 cut(s) 34, 539
Eco47I GGWCC 1 cut(s) 560
Eco57I CTGAAG 1 cut(s) 585
Eco88I CYCGRG 1 cut(s) 48
EcoO109I RGGNCCY 1 cut(s) 44
EcoRI GAATTC 1 cut(s) 107
FaeI CATG 2 cut(s) 107, 277
FalI AAGNNNNNCTT 2 cut(s) 327, 359
FatI CATG 2 cut(s) 103, 273
Fnu4HI GCNGC 1 cut(s) 460
FokI GGATG 2 cut(s) 208, 243
Fsp4HI GCNGC 1 cut(s) 460
FspBI CTAG 1 cut(s) 449
GlaI GCGC 1 cut(s) 64
GluI GCNGC 1 cut(s) 460
HaeII RGCGCY 1 cut(s) 66
HaeIII GGCC 2 cut(s) 46, 97
HgaI GACGC 1 cut(s) 32
HhaI GCGC 1 cut(s) 65
Hin1II CATG 2 cut(s) 107, 277
Hin6I GCGC 1 cut(s) 63
HinP1I GCGC 1 cut(s) 63
HindIII AAGCTT 2 cut(s) 89, 285
HinfI GANTC 2 cut(s) 142, 600
HphI GGTGA 1 cut(s) 380
Hpy188I TCNGA 6 cut(s) 12, 38, 139, 293, 543, 577
Hpy188III TCNNGA 4 cut(s) 20, 50, 181, 563
HpyAV CCTTC 3 cut(s) 22, 333, 511
HpyCH4III ACNGT 2 cut(s) 508, 581
HpyCH4V TGCA 3 cut(s) 117, 248, 511
HpyF10VI GCNNNNNNNGC 1 cut(s) 439
HpyF3I CTNAG 3 cut(s) 278, 330, 349
Hsp92II CATG 2 cut(s) 107, 277
HspAI GCGC 1 cut(s) 63
Kzo9I GATC 6 cut(s) 16, 70, 205, 339, 421, 568
LpnPI CCDG 5 cut(s) 166, 324, 367, 540, 576
LweI GCATC 2 cut(s) 451, 454
MaeI CTAG 1 cut(s) 449
MaeIII GTNAC 3 cut(s) 123, 487, 581
MalI GATC 6 cut(s) 18, 72, 207, 341, 423, 570
MboI GATC 6 cut(s) 16, 70, 205, 339, 421, 568
MboII GAAGA 6 cut(s) 51, 143, 232, 389, 556, 578
MflI RGATCY 4 cut(s) 16, 70, 339, 568
MluCI AATT 2 cut(s) 107, 200
MlyI GAGTC 1 cut(s) 136
MnlI CCTC 6 cut(s) 35, 57, 184, 358, 540, 543
MroXI GAANNNNTTC 1 cut(s) 32
MspA1I CMGCKG 1 cut(s) 459
Mva1269I GAATGC 1 cut(s) 250
MvnI CGCG 1 cut(s) 26
MwoI GCNNNNNNNGC 1 cut(s) 439
NdeII GATC 6 cut(s) 16, 70, 205, 339, 421, 568
NlaIII CATG 2 cut(s) 107, 277
NlaIV GGNNCC 1 cut(s) 341
NmuCI GTSAC 2 cut(s) 123, 581
NspI RCATGY 1 cut(s) 277
PaeI GCATGC 1 cut(s) 277
PctI GAATGC 1 cut(s) 250
PdmI GAANNNNTTC 1 cut(s) 32
PfeI GAWTC 1 cut(s) 600
PkrI GCNGC 1 cut(s) 461
PleI GAGTC 1 cut(s) 136
PpsI GAGTC 1 cut(s) 136
PspN4I GGNNCC 1 cut(s) 341
PspPI GGNCC 2 cut(s) 44, 560
PsuI RGATCY 4 cut(s) 16, 70, 339, 568
SatI GCNGC 1 cut(s) 460
Sau3AI GATC 6 cut(s) 16, 70, 205, 339, 421, 568
Sau96I GGNCC 2 cut(s) 44, 560
SchI GAGTC 1 cut(s) 136
SetI ASST 7 cut(s) 93, 125, 213, 289, 325, 350, 479
SfaNI GCATC 2 cut(s) 451, 454
SfcI CTRYAG 1 cut(s) 66
SinI GGWCC 1 cut(s) 560
SphI GCATGC 1 cut(s) 277
Sse9I AATT 2 cut(s) 107, 200
SsiI CCGC 1 cut(s) 459
SspMI CTAG 1 cut(s) 449
TaaI ACNGT 2 cut(s) 508, 581
TasI AATT 2 cut(s) 107, 200
TauI GCSGC 1 cut(s) 462
TfiI GAWTC 1 cut(s) 600
TscAI CASTG 1 cut(s) 357
TseFI GTSAC 2 cut(s) 123, 581
Tsp45I GTSAC 2 cut(s) 123, 581
TspDTI ATGAA 4 cut(s) 120, 143, 305, 526
TspGWI ACGGA 1 cut(s) 256
TspRI CASTG 1 cut(s) 357
VpaK11BI GGWCC 1 cut(s) 560
XapI RAATTY 1 cut(s) 107
XceI RCATGY 1 cut(s) 277
XmnI GAANNNNTTC 1 cut(s) 32
XspI CTAG 1 cut(s) 449
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.