Rw5G014640

mediator of RNA polymerase II transcription subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr5
OG0012927
Physical Location & Seq
Reverse (-)
17544688 .. 17546135
1448 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw5G014640.1

Sequence Viewer

Length: 492 bp
ATGAACAGAGGGGGAGGAGGAGGCGGAGCAGGAGCCGGAGGTGGGTCCGGCGCCGGGAGTGGGCCCACATCGGCGGCGGCGTTGGCGGCAGCTAAGAAGCAGAAGAAGTGGCTGGAGAGTGTGGAAACAGACATCGCCAACATCGTCGACCATTTCAGCTACCTCGTCAACGTATCCAGGGTGAATGAGCCACCTGTTAGGAACTCTCAAGAAGCTTTCATGATGGAGATGCGTGCTGCTAGAATGGTTCAGGCATCTGATTCTCTACTTAAGTTGGTGTCAGACCTGAAGCAGACTGCACTCTTTTCTGGATTTGCATCCCTTAATGACCATGTAGAGGAAAGAATGGCAGAGTTTGACAAGCAGGCCGAGAAGACTGACCGCATGTTAGCTAGAATTGGGGAGGAGGCAGCTGCCAGCCTCAAGGAGCTTGAAGCCCATTATTATTCTTCTTCAGTACCACATACACATGAAAACTACTTGCAGCAATGA

Protein Analysis

163

Amino Acids

17.49

Weight (kDa)

5.73

Isoelectric Point (pI)

39.63

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Med22 PF06179 40 - 138 4e-28 Surfeit locus protein 5 subunit 22 of Mediator complex
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Orthologous Genes (Group: OG0012927)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G07950 AT1G07950 AT1G16430
fragaria_vesca FvH4_3g13800
malus_domestica MD02G1009700.v1.1
prunus_persica Prupe.7G260300_v2.0.a1 Prupe.7G260300_v2.0.a1
pyrus_communis pycom15g13880
rosa_chinensis RchiOBHm_Chr5g0022991
rosa_laevigata RLG00000032687
rosa_multiflora Rmu_sc0002675.1_g000006
rosa_roxburghii Rroxscaffold_1G00056350
rosa_rugosa Rorug05G0076300
rosa_samantha Rh5AG162500 Rh5BG161700 Rh5CG176400 Rh5DG163100
rosa_wichuraiana Rw5G014640

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 1 cut(s) 50
AccI GTMKAC 1 cut(s) 147
AciI CCGC 5 cut(s) 24, 74, 77, 86, 382
AcuI CTGAAG 2 cut(s) 308, 438
AcyI GRCGYC 1 cut(s) 51
AfaI GTAC 1 cut(s) 459
AfiI CCNNNNNNNGG 4 cut(s) 42, 54, 60, 337
AflII CTTAAG 1 cut(s) 269
AgsI TTSAA 1 cut(s) 434
AjnI CCWGG 1 cut(s) 176
AluBI AGCT 6 cut(s) 92, 159, 215, 392, 413, 430
AluI AGCT 6 cut(s) 92, 159, 215, 392, 413, 430
AoxI GGCC 2 cut(s) 62, 366
ApaI GGGCCC 1 cut(s) 66
ApeKI GCWGC 5 cut(s) 89, 236, 410, 413, 484
AspLEI GCGC 1 cut(s) 53
AspS9I GGNCC 3 cut(s) 45, 62, 63
AsuC2I CCSGG 1 cut(s) 55
AsuHPI GGTGA 1 cut(s) 193
AvaII GGWCC 1 cut(s) 45
BaeGI GKGCMC 1 cut(s) 66
BanI GGYRCC 1 cut(s) 50
BanII GRGCYC 1 cut(s) 66
BbsI GAAGAC 1 cut(s) 380
BbvI GCAGC 4 cut(s) 101, 223, 400, 422
BccI CCATC 1 cut(s) 217
BciT130I CCWGG 1 cut(s) 178
BciVI GTATCC 1 cut(s) 184
BcnI CCSGG 1 cut(s) 55
BfaI CTAG 2 cut(s) 240, 393
BfoI RGCGCY 1 cut(s) 54
BfrI CTTAAG 1 cut(s) 269
BfuI GTATCC 1 cut(s) 184
BisI GCNGC 8 cut(s) 75, 78, 87, 90, 237, 411, 414, 485
BlsI GCNGC 8 cut(s) 76, 79, 88, 91, 238, 412, 415, 486
Bme1390I CCNGG 2 cut(s) 55, 178
Bme18I GGWCC 1 cut(s) 45
BmgT120I GGNCC 3 cut(s) 45, 62, 63
BmiI GGNNCC 4 cut(s) 34, 46, 52, 64
BmrFI CCNGG 2 cut(s) 55, 178
BmsI GCATC 3 cut(s) 219, 263, 326
BpiI GAAGAC 1 cut(s) 380
BpmI CTGGAG 1 cut(s) 134
BpuEI CTTGAG 2 cut(s) 192, 407
BpuMI CCSGG 1 cut(s) 55
BsaBI GATNNNNATC 1 cut(s) 316
BsaHI GRCGYC 1 cut(s) 51
BsaJI CCNNGG 1 cut(s) 177
Bsc4I CCNNNNNNNGG 4 cut(s) 42, 54, 60, 337
Bse8I GATNNNNATC 1 cut(s) 316
BseBI CCWGG 1 cut(s) 178
BseDI CCNNGG 1 cut(s) 177
BseGI GGATG 1 cut(s) 317
BseJI GATNNNNATC 1 cut(s) 316
BseLI CCNNNNNNNGG 4 cut(s) 42, 54, 60, 337
BseRI GAGGAG 3 cut(s) 30, 33, 419
BseSI GKGCMC 1 cut(s) 66
BseXI GCAGC 4 cut(s) 101, 223, 400, 422
BsgI GTGCAG 1 cut(s) 282
BshFI GGCC 2 cut(s) 64, 368
BshNI GGYRCC 1 cut(s) 50
BsiSI CCGG 3 cut(s) 36, 48, 54
BslI CCNNNNNNNGG 4 cut(s) 42, 54, 60, 337
BsnI GGCC 2 cut(s) 64, 368
Bsp120I GGGCCC 1 cut(s) 62
Bsp1286I GDGCHC 1 cut(s) 66
BspACI CCGC 5 cut(s) 24, 74, 77, 86, 382
BspANI GGCC 2 cut(s) 64, 368
BspHI TCATGA 1 cut(s) 219
BspLI GGNNCC 4 cut(s) 34, 46, 52, 64
BspT107I GGYRCC 1 cut(s) 50
BspTI CTTAAG 1 cut(s) 269
BssECI CCNNGG 1 cut(s) 177
BssNI GRCGYC 1 cut(s) 51
Bst2UI CCWGG 1 cut(s) 178
BstACI GRCGYC 1 cut(s) 51
BstAFI CTTAAG 1 cut(s) 269
BstC8I GCNNGC 3 cut(s) 234, 366, 418
BstDEI CTNAG 1 cut(s) 93
BstF5I GGATG 1 cut(s) 317
BstH2I RGCGCY 1 cut(s) 54
BstHHI GCGC 1 cut(s) 53
BstMWI GCNNNNNNNGC 2 cut(s) 83, 86
BstNI CCWGG 1 cut(s) 178
BstNSI RCATGY 1 cut(s) 388
BstSCI CCNGG 2 cut(s) 53, 176
BstSLI GKGCMC 1 cut(s) 66
BstV1I GCAGC 4 cut(s) 101, 223, 400, 422
BstV2I GAAGAC 1 cut(s) 380
BsuI GTATCC 1 cut(s) 184
BsuRI GGCC 2 cut(s) 64, 368
BtgZI GCGATG 1 cut(s) 118
BtsCI GGATG 1 cut(s) 317
Cac8I GCNNGC 3 cut(s) 234, 366, 418
CciI TCATGA 1 cut(s) 219
CfoI GCGC 1 cut(s) 53
Cfr13I GGNCC 3 cut(s) 45, 62, 63
Csp6I GTAC 1 cut(s) 458
CviAII CATG 4 cut(s) 220, 332, 385, 470
CviQI GTAC 1 cut(s) 458
DdeI CTNAG 1 cut(s) 93
DinI GGCGCC 1 cut(s) 52
EciI GGCGGA 1 cut(s) 39
Eco24I GRGCYC 1 cut(s) 66
Eco47I GGWCC 1 cut(s) 45
Eco57I CTGAAG 2 cut(s) 308, 438
EcoRII CCWGG 1 cut(s) 176
EcoT38I GRGCYC 1 cut(s) 66
EgeI GGCGCC 1 cut(s) 52
EheI GGCGCC 1 cut(s) 52
FaeI CATG 4 cut(s) 223, 335, 388, 473
FaiI YATR 5 cut(s) 221, 333, 386, 465, 471
FatI CATG 4 cut(s) 219, 331, 384, 469
FblI GTMKAC 1 cut(s) 147
Fnu4HI GCNGC 8 cut(s) 75, 78, 87, 90, 237, 411, 414, 485
FokI GGATG 1 cut(s) 304
FriOI GRGCYC 1 cut(s) 66
Fsp4HI GCNGC 8 cut(s) 75, 78, 87, 90, 237, 411, 414, 485
FspBI CTAG 2 cut(s) 240, 393
GlaI GCGC 1 cut(s) 52
GluI GCNGC 8 cut(s) 75, 78, 87, 90, 237, 411, 414, 485
GsuI CTGGAG 1 cut(s) 134
HaeII RGCGCY 1 cut(s) 54
HaeIII GGCC 2 cut(s) 64, 368
HapII CCGG 3 cut(s) 36, 48, 54
HhaI GCGC 1 cut(s) 53
Hin1I GRCGYC 1 cut(s) 51
Hin1II CATG 4 cut(s) 223, 335, 388, 473
Hin6I GCGC 1 cut(s) 51
HinP1I GCGC 1 cut(s) 51
HincII GTYRAC 2 cut(s) 148, 169
HindII GTYRAC 2 cut(s) 148, 169
HindIII AAGCTT 1 cut(s) 213
HinfI GANTC 1 cut(s) 260
HpaII CCGG 3 cut(s) 36, 48, 54
HphI GGTGA 1 cut(s) 193
Hpy166II GTNNAC 2 cut(s) 148, 169
Hpy188I TCNGA 2 cut(s) 259, 283
Hpy188III TCNNGA 3 cut(s) 209, 220, 309
Hpy8I GTNNAC 2 cut(s) 148, 169
Hpy99I CGWCG 1 cut(s) 149
HpyCH4IV ACGT 1 cut(s) 171
HpyCH4V TGCA 3 cut(s) 299, 317, 484
HpyF10VI GCNNNNNNNGC 2 cut(s) 83, 86
HpyF3I CTNAG 1 cut(s) 93
HpySE526I ACGT 1 cut(s) 171
Hsp92I GRCGYC 1 cut(s) 51
Hsp92II CATG 4 cut(s) 223, 335, 388, 473
HspAI GCGC 1 cut(s) 51
KasI GGCGCC 1 cut(s) 50
LmnI GCTCC 3 cut(s) 26, 32, 427
Lsp1109I GCAGC 4 cut(s) 101, 223, 400, 422
LweI GCATC 3 cut(s) 219, 263, 326
MaeI CTAG 2 cut(s) 240, 393
MaeII ACGT 1 cut(s) 171
MboII GAAGA 4 cut(s) 115, 385, 441, 444
MhlI GDGCHC 1 cut(s) 66
MluCI AATT 1 cut(s) 396
Mly113I GGCGCC 1 cut(s) 51
MnlI CCTC 9 cut(s) 8, 11, 14, 32, 173, 331, 397, 400, 431
MseI TTAA 2 cut(s) 270, 324
MslI CAYNNNNRTG 1 cut(s) 468
MspA1I CMGCKG 1 cut(s) 413
MspCI CTTAAG 1 cut(s) 269
MspI CCGG 3 cut(s) 36, 48, 54
MspR9I CCNGG 2 cut(s) 55, 178
MvaI CCWGG 1 cut(s) 178
MwoI GCNNNNNNNGC 2 cut(s) 83, 86
NarI GGCGCC 1 cut(s) 51
NciI CCSGG 1 cut(s) 55
NlaIII CATG 4 cut(s) 223, 335, 388, 473
NlaIV GGNNCC 4 cut(s) 34, 46, 52, 64
NmeAIII GCCGAG 1 cut(s) 394
NspI RCATGY 1 cut(s) 388
PagI TCATGA 1 cut(s) 219
PcsI WCGNNNNNNNCGW 2 cut(s) 77, 141
PfeI GAWTC 1 cut(s) 260
PkrI GCNGC 8 cut(s) 76, 79, 88, 91, 238, 412, 415, 486
PluTI GGCGCC 1 cut(s) 54
Psp6I CCWGG 1 cut(s) 176
PspGI CCWGG 1 cut(s) 176
PspN4I GGNNCC 4 cut(s) 34, 46, 52, 64
PspOMI GGGCCC 1 cut(s) 62
PspPI GGNCC 3 cut(s) 45, 62, 63
PvuII CAGCTG 1 cut(s) 413
RsaI GTAC 1 cut(s) 459
RsaNI GTAC 1 cut(s) 458
RseI CAYNNNNRTG 1 cut(s) 468
SalI GTCGAC 1 cut(s) 146
SaqAI TTAA 2 cut(s) 270, 324
SatI GCNGC 8 cut(s) 75, 78, 87, 90, 237, 411, 414, 485
Sau96I GGNCC 3 cut(s) 45, 62, 63
ScrFI CCNGG 2 cut(s) 55, 178
SduI GDGCHC 1 cut(s) 66
SfaNI GCATC 3 cut(s) 219, 263, 326
SfoI GGCGCC 1 cut(s) 52
SinI GGWCC 1 cut(s) 45
SmiMI CAYNNNNRTG 1 cut(s) 468
SmlI CTYRAG 3 cut(s) 207, 269, 422
SmoI CTYRAG 3 cut(s) 207, 269, 422
Sse9I AATT 1 cut(s) 396
SsiI CCGC 5 cut(s) 24, 74, 77, 86, 382
SspDI GGCGCC 1 cut(s) 50
SspMI CTAG 2 cut(s) 240, 393
StyD4I CCNGG 2 cut(s) 53, 176
TaiI ACGT 1 cut(s) 174
TaqI TCGA 1 cut(s) 147
TasI AATT 1 cut(s) 396
TauI GCSGC 3 cut(s) 77, 80, 89
TfiI GAWTC 1 cut(s) 260
Tru1I TTAA 2 cut(s) 270, 324
Tru9I TTAA 2 cut(s) 270, 324
TseI GCWGC 5 cut(s) 89, 236, 410, 413, 484
TspDTI ATGAA 3 cut(s) 17, 208, 486
Vha464I CTTAAG 1 cut(s) 269
VpaK11BI GGWCC 1 cut(s) 45
XceI RCATGY 1 cut(s) 388
XmiI GTMKAC 1 cut(s) 147
XspI CTAG 2 cut(s) 240, 393
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.