Prupe.1G517500_v2.0.a1

mediator of RNA polymerase II transcription subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
prunus_persica
Pp01
OG0002479
Physical Location & Seq
Reverse (-)
42533074 .. 42537007
3934 bp
Loading structure...
UTR
Exon/CDS
Intron
Prupe.1G517500.1

Sequence Viewer

Length: 660 bp
ATGGAGTGCGTGGTTCAGGGAATTATAGAAACACAGCATGTTGAGGCCCTTGAGATTCTTCTTCAGGGTCTTTGTGGTGTTCGCAGAGAACGTTTGAGGGTCCATGAGATATGTCTTAAAAGTGGCCCGAACCTTGGGGCTGTAGCTTCAGAGGTTCGACTTATATGCAATCTTGAGCAAACTGAACCAACATGGACCGTAAGGCATATAGGAGGTGCAATGAGAGGTGCAGGTGCCGAGCAAATTTCAGTTCTAGTAAGAACCATGGTCGAAAGCAAAGCAAGCAAGAATGTGCTTCGCTTATTTTATGCACTTGGCTACAAGTTGGACCATGAGCTTCTGAGGGTGGGATTTGCCTTCCATTTCCAGAGGGGGACACAGATCACTGTGACTGTGTCATCAGTTAATAAGATGCTACAACTGCATGCCACAGATGAGGCTGTCCCTGTAACTCCCGGGATACAGTTGGTAGAAGTGACAGCCCCTGCTACATCTGAAAACTACACTGAAGTTGTAGCTGCAATATCATCTTTTTGTGAATATCTTGCACCGCTCCTGCATTTGTCAAAACCGGGCATTTCAACTGGGGTTGTTCCTACTGCTGCTGCGGCTGCTGCATCTCTTATGTCAGATGGTGGGGGTGAAGAGTTGAGTTCCTAG
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0000003 GO:0000414 GO:0000428 GO:0001101 GO:0002831 GO:0003002 GO:0003006 GO:0003674 GO:0003712 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005667 GO:0006139 GO:0006351 GO:0006353 GO:0006355 GO:0006366 GO:0006369 GO:0006396 GO:0006725 GO:0006807 GO:0007275 GO:0007389 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009719 GO:0009723 GO:0009725 GO:0009737 GO:0009791 GO:0009889 GO:0009890 GO:0009892 GO:0009908 GO:0009966 GO:0009987 GO:0010033 GO:0010219 GO:0010467 GO:0010468 GO:0010556 GO:0010558 GO:0010605 GO:0010608 GO:0010629 GO:0010646 GO:0014070 GO:0016070 GO:0016441 GO:0016458 GO:0016591 GO:0016592 GO:0018130 GO:0019219 GO:0019222 GO:0019438 GO:0022414 GO:0023051 GO:0030880 GO:0031047 GO:0031050 GO:0031056 GO:0031060 GO:0031323 GO:0031324 GO:0031326 GO:0031327 GO:0031347 GO:0031399 GO:0031554 GO:0031974 GO:0031981 GO:0032101 GO:0032268 GO:0032501 GO:0032502 GO:0032774 GO:0032784 GO:0032991 GO:0033043 GO:0033044 GO:0033993 GO:0034641 GO:0034645 GO:0034654 GO:0035194 GO:0035195 GO:0035196 GO:0040029 GO:0040034 GO:0042221 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0043244 GO:0043254 GO:0043331 GO:0043900 GO:0044087 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044271 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044451 GO:0044464 GO:0044798 GO:0045892 GO:0045934 GO:0046483 GO:0048367 GO:0048437 GO:0048438 GO:0048440 GO:0048441 GO:0048442 GO:0048443 GO:0048464 GO:0048465 GO:0048466 GO:0048467 GO:0048506 GO:0048509 GO:0048510 GO:0048519 GO:0048523 GO:0048580 GO:0048583 GO:0048608 GO:0048731 GO:0048827 GO:0048832 GO:0048833 GO:0048856 GO:0050789 GO:0050793 GO:0050794 GO:0050896 GO:0051128 GO:0051171 GO:0051172 GO:0051239 GO:0051246 GO:0051252 GO:0051253 GO:0051716 GO:0055029 GO:0060255 GO:0061458 GO:0061695 GO:0065007 GO:0070013 GO:0070847 GO:0070887 GO:0070918 GO:0071310 GO:0071359 GO:0071407 GO:0071704 GO:0080090 GO:0080134 GO:0090304 GO:0090567 GO:0090575 GO:0097305 GO:0097659 GO:0099402 GO:0140110 GO:1900150 GO:1901360 GO:1901362 GO:1901576 GO:1901698 GO:1901699 GO:1901700 GO:1902275 GO:1902494 GO:1902679 GO:1903506 GO:1903507 GO:1990234 GO:2000026 GO:2000028 GO:2000031 GO:2000112 GO:2000113 GO:2000142 GO:2000241 GO:2001023 GO:2001038 GO:2001141 GO:2001253
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
No domains found.

Protein Analysis

220

Amino Acids

23.46

Weight (kDa)

5.8

Isoelectric Point (pI)

42.6

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

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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) 221
Acc36I ACCTGC 1 cut(s) 221
AccB1I GGYRCC 1 cut(s) 233
AccBSI CCGCTC 1 cut(s) 553
AciI CCGC 2 cut(s) 551, 608
AclI AACGTT 1 cut(s) 91
AcsI RAATTY 1 cut(s) 243
AcuI CTGAAG 3 cut(s) 47, 132, 528
AfiI CCNNNNNNNGG 1 cut(s) 134
AgsI TTSAA 1 cut(s) 582
AluBI AGCT 3 cut(s) 146, 337, 518
AluI AGCT 3 cut(s) 146, 337, 518
AlwNI CAGNNNCTG 1 cut(s) 485
Ama87I CYCGRG 1 cut(s) 455
AoxI GGCC 2 cut(s) 45, 124
ApeKI GCWGC 5 cut(s) 518, 602, 605, 611, 614
ApoI RAATTY 1 cut(s) 243
AspS9I GGNCC 5 cut(s) 46, 100, 125, 195, 328
AsuC2I CCSGG 3 cut(s) 456, 457, 573
AsuHPI GGTGA 1 cut(s) 653
AvaI CYCGRG 1 cut(s) 455
AvaII GGWCC 3 cut(s) 100, 195, 328
BanI GGYRCC 1 cut(s) 233
BbvI GCAGC 5 cut(s) 505, 589, 592, 598, 601
BccI CCATC 1 cut(s) 626
BcgI CGANNNNNNTGC 2 cut(s) 147, 181
BciVI GTATCC 1 cut(s) 453
BcnI CCSGG 3 cut(s) 456, 457, 573
BfaI CTAG 2 cut(s) 254, 658
BfmI CTRYAG 1 cut(s) 141
BfuAI ACCTGC 1 cut(s) 221
BfuI GTATCC 1 cut(s) 453
BisI GCNGC 6 cut(s) 519, 603, 606, 609, 612, 615
BlsI GCNGC 6 cut(s) 520, 604, 607, 610, 613, 616
Bme1390I CCNGG 3 cut(s) 456, 457, 573
Bme18I GGWCC 3 cut(s) 100, 195, 328
BmeT110I CYCGRG 1 cut(s) 455
BmgT120I GGNCC 5 cut(s) 46, 100, 125, 195, 328
BmiI GGNNCC 2 cut(s) 101, 235
BmrFI CCNGG 3 cut(s) 456, 457, 573
BmrI ACTGGG 1 cut(s) 594
BmsI GCATC 2 cut(s) 402, 626
BmuI ACTGGG 1 cut(s) 594
BpuEI CTTGAG 2 cut(s) 71, 194
BpuMI CCSGG 3 cut(s) 456, 457, 573
BsaJI CCNNGG 3 cut(s) 133, 264, 455
Bsc4I CCNNNNNNNGG 1 cut(s) 134
Bse1I ACTGG 1 cut(s) 589
Bse3DI GCAATG 1 cut(s) 225
BseDI CCNNGG 3 cut(s) 133, 264, 455
BseLI CCNNNNNNNGG 1 cut(s) 134
BseMI GCAATG 1 cut(s) 225
BseMII CTCAG 1 cut(s) 332
BseNI ACTGG 1 cut(s) 589
BseXI GCAGC 5 cut(s) 505, 589, 592, 598, 601
BsgI GTGCAG 1 cut(s) 249
BshFI GGCC 2 cut(s) 47, 126
BshNI GGYRCC 1 cut(s) 233
BsiHKCI CYCGRG 1 cut(s) 455
BsiSI CCGG 2 cut(s) 456, 572
BslFI GGGAC 2 cut(s) 388, 428
BslI CCNNNNNNNGG 1 cut(s) 134
BsmFI GGGAC 2 cut(s) 388, 428
BsnI GGCC 2 cut(s) 47, 126
BsoBI CYCGRG 1 cut(s) 455
Bsp143I GATC 1 cut(s) 381
Bsp19I CCATGG 1 cut(s) 264
BspACI CCGC 2 cut(s) 551, 608
BspANI GGCC 2 cut(s) 47, 126
BspCNI CTCAG 1 cut(s) 333
BspLI GGNNCC 2 cut(s) 101, 235
BspMI ACCTGC 1 cut(s) 221
BspT107I GGYRCC 1 cut(s) 233
BsrBI CCGCTC 1 cut(s) 553
BsrDI GCAATG 1 cut(s) 225
BsrI ACTGG 1 cut(s) 589
BssECI CCNNGG 3 cut(s) 133, 264, 455
BssMI GATC 1 cut(s) 381
BssT1I CCWWGG 2 cut(s) 133, 264
Bst4CI ACNGT 4 cut(s) 199, 388, 394, 465
Bst6I CTCTTC 1 cut(s) 639
BstC8I GCNNGC 2 cut(s) 283, 426
BstDEI CTNAG 1 cut(s) 341
BstDSI CCRYGG 1 cut(s) 264
BstKTI GATC 1 cut(s) 384
BstMBI GATC 1 cut(s) 381
BstMWI GCNNNNNNNGC 5 cut(s) 282, 421, 608, 611, 614
BstNSI RCATGY 2 cut(s) 41, 428
BstSCI CCNGG 3 cut(s) 454, 455, 571
BstSFI CTRYAG 1 cut(s) 141
BstV1I GCAGC 5 cut(s) 505, 589, 592, 598, 601
BsuI GTATCC 1 cut(s) 453
BsuRI GGCC 2 cut(s) 47, 126
BtgI CCRYGG 1 cut(s) 264
BtsIMutI CAGTG 2 cut(s) 384, 504
BveI ACCTGC 1 cut(s) 221
Cac8I GCNNGC 2 cut(s) 283, 426
CaiI CAGNNNCTG 1 cut(s) 485
Cfr13I GGNCC 5 cut(s) 46, 100, 125, 195, 328
Cfr9I CCCGGG 1 cut(s) 455
CviAII CATG 6 cut(s) 38, 104, 192, 265, 332, 425
DdeI CTNAG 1 cut(s) 341
DpnI GATC 1 cut(s) 383
DpnII GATC 1 cut(s) 381
Eam1104I CTCTTC 1 cut(s) 639
EarI CTCTTC 1 cut(s) 639
Eco130I CCWWGG 2 cut(s) 133, 264
Eco47I GGWCC 3 cut(s) 100, 195, 328
Eco57I CTGAAG 3 cut(s) 47, 132, 528
Eco88I CYCGRG 1 cut(s) 455
EcoO109I RGGNCCY 1 cut(s) 46
EcoT14I CCWWGG 2 cut(s) 133, 264
ErhI CCWWGG 2 cut(s) 133, 264
FaeI CATG 6 cut(s) 41, 107, 195, 268, 335, 428
FaqI GGGAC 2 cut(s) 388, 428
FatI CATG 6 cut(s) 37, 103, 191, 264, 331, 424
Fnu4HI GCNGC 6 cut(s) 519, 603, 606, 609, 612, 615
Fsp4HI GCNGC 6 cut(s) 519, 603, 606, 609, 612, 615
FspBI CTAG 2 cut(s) 254, 658
GluI GCNGC 6 cut(s) 519, 603, 606, 609, 612, 615
HaeIII GGCC 2 cut(s) 47, 126
HapII CCGG 2 cut(s) 456, 572
Hin1II CATG 6 cut(s) 41, 107, 195, 268, 335, 428
HinfI GANTC 1 cut(s) 55
HpaII CCGG 2 cut(s) 456, 572
HphI GGTGA 1 cut(s) 653
Hpy188I TCNGA 4 cut(s) 151, 342, 496, 631
Hpy188III TCNNGA 2 cut(s) 173, 367
HpyAV CCTTC 1 cut(s) 367
HpyCH4III ACNGT 4 cut(s) 199, 388, 394, 465
HpyCH4IV ACGT 1 cut(s) 91
HpyCH4V TGCA 9 cut(s) 168, 218, 230, 311, 424, 521, 548, 559, 617
HpyF10VI GCNNNNNNNGC 5 cut(s) 282, 421, 608, 611, 614
HpyF3I CTNAG 1 cut(s) 341
HpySE526I ACGT 1 cut(s) 91
Hsp92II CATG 6 cut(s) 41, 107, 195, 268, 335, 428
Kzo9I GATC 1 cut(s) 381
LmnI GCTCC 1 cut(s) 558
Lsp1109I GCAGC 5 cut(s) 505, 589, 592, 598, 601
LweI GCATC 2 cut(s) 402, 626
MaeI CTAG 2 cut(s) 254, 658
MaeII ACGT 1 cut(s) 91
MaeIII GTNAC 3 cut(s) 388, 448, 475
MalI GATC 1 cut(s) 383
MbiI CCGCTC 1 cut(s) 553
MboI GATC 1 cut(s) 381
MboII GAAGA 3 cut(s) 50, 53, 656
MluCI AATT 2 cut(s) 21, 243
MmeI TCCRAC 1 cut(s) 306
MnlI CCTC 8 cut(s) 37, 90, 145, 206, 218, 336, 363, 430
MseI TTAA 2 cut(s) 117, 405
MspI CCGG 2 cut(s) 456, 572
MspR9I CCNGG 3 cut(s) 456, 457, 573
MwoI GCNNNNNNNGC 5 cut(s) 282, 421, 608, 611, 614
NciI CCSGG 3 cut(s) 456, 457, 573
NcoI CCATGG 1 cut(s) 264
NdeII GATC 1 cut(s) 381
NlaIII CATG 6 cut(s) 41, 107, 195, 268, 335, 428
NlaIV GGNNCC 2 cut(s) 101, 235
NmeAIII GCCGAG 1 cut(s) 262
NmuCI GTSAC 2 cut(s) 388, 475
NspI RCATGY 2 cut(s) 41, 428
PaeI GCATGC 1 cut(s) 428
PaqCI CACCTGC 1 cut(s) 221
PcsI WCGNNNNNNNCGW 1 cut(s) 88
PfeI GAWTC 1 cut(s) 55
PflFI GACNNNGTC 1 cut(s) 394
PkrI GCNGC 6 cut(s) 520, 604, 607, 610, 613, 616
Psp1406I AACGTT 1 cut(s) 91
PspN4I GGNNCC 2 cut(s) 101, 235
PspPI GGNCC 5 cut(s) 46, 100, 125, 195, 328
PstNI CAGNNNCTG 1 cut(s) 485
PsyI GACNNNGTC 1 cut(s) 394
SaqAI TTAA 2 cut(s) 117, 405
SatI GCNGC 6 cut(s) 519, 603, 606, 609, 612, 615
Sau3AI GATC 1 cut(s) 381
Sau96I GGNCC 5 cut(s) 46, 100, 125, 195, 328
ScrFI CCNGG 3 cut(s) 456, 457, 573
SetI ASST 9 cut(s) 94, 135, 148, 156, 217, 229, 235, 339, 520
SfaNI GCATC 2 cut(s) 402, 626
SfcI CTRYAG 1 cut(s) 141
SinI GGWCC 3 cut(s) 100, 195, 328
SmaI CCCGGG 1 cut(s) 457
SmlI CTYRAG 2 cut(s) 50, 173
SmoI CTYRAG 2 cut(s) 50, 173
SphI GCATGC 1 cut(s) 428
Sse9I AATT 2 cut(s) 21, 243
SsiI CCGC 2 cut(s) 551, 608
SspMI CTAG 2 cut(s) 254, 658
StyD4I CCNGG 3 cut(s) 454, 455, 571
StyI CCWWGG 2 cut(s) 133, 264
TaaI ACNGT 4 cut(s) 199, 388, 394, 465
TaiI ACGT 1 cut(s) 94
TaqI TCGA 2 cut(s) 157, 270
TasI AATT 2 cut(s) 21, 243
TauI GCSGC 1 cut(s) 611
TfiI GAWTC 1 cut(s) 55
Tru1I TTAA 2 cut(s) 117, 405
Tru9I TTAA 2 cut(s) 117, 405
TscAI CASTG 2 cut(s) 391, 511
TseFI GTSAC 2 cut(s) 388, 475
TseI GCWGC 5 cut(s) 518, 602, 605, 611, 614
Tsp45I GTSAC 2 cut(s) 388, 475
TspMI CCCGGG 1 cut(s) 455
TspRI CASTG 2 cut(s) 391, 511
Tth111I GACNNNGTC 1 cut(s) 394
VpaK11BI GGWCC 3 cut(s) 100, 195, 328
XapI RAATTY 1 cut(s) 243
XceI RCATGY 2 cut(s) 41, 428
XmaI CCCGGG 1 cut(s) 455
XspI CTAG 2 cut(s) 254, 658
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.