Rroxscaffold_1G00056350

mediator of RNA polymerase II transcription subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000001
OG0012927
Physical Location & Seq
Forward (+)
78130704 .. 78133659
2956 bp
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UTR
Exon/CDS
Intron
Rroxscaffold_1G00056350.1

Sequence Viewer

Length: 501 bp
ATGAACAGAGGGGGAGGAGGAGGAGGAGGAGGCGGAGCAGGAGCCGGAGGTGGGTCCGGCGCCGGGAGTGGGCCCACATCGGCGGCGGCGTTGGCGGCAGCTAAGAAGCAGAAGAAGTGGCTGGAGAGTGTGGAAACAGACATCGCCAACATCGTCGACCATTTCAGCTACCTCGTCAACGTATCCAGGGTGAATGAGCCACCTGTTAGGAACTCTCAAGAAGCTTTCATGATGGAGATGCGTGCTGCTAGAATGGTTCAGGCATCTGATTCTCTACTTAAGTTGGTGTCTGACCTGAAGCAGACTGCGCTCTTTTCTGGATTTGCATCCCTTAATGACCATGTAGAGGAAAGAATGGCAGAGTTTGACAAGCAGGCCGAGAAGACTGACCGCATGTTAGCTAGAATTGGGGAGGAGGCAGCTGCCAGCCTCAAGGAGCTTGAAGCCCATTATTATTCTTCTTCAGTACCACATACACATGAAAACTACTTGCAGCAATGA

Protein Analysis

166

Amino Acids

17.66

Weight (kDa)

5.73

Isoelectric Point (pI)

41.32

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Med22 PF06179 43 - 141 4.2e-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

Species Filter
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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) 59
AccI GTMKAC 1 cut(s) 156
AciI CCGC 5 cut(s) 33, 83, 86, 95, 391
AcuI CTGAAG 2 cut(s) 317, 447
AcyI GRCGYC 1 cut(s) 60
AfaI GTAC 1 cut(s) 468
AfiI CCNNNNNNNGG 4 cut(s) 51, 63, 69, 346
AflII CTTAAG 1 cut(s) 278
AgsI TTSAA 1 cut(s) 443
AjnI CCWGG 1 cut(s) 185
AluBI AGCT 6 cut(s) 101, 168, 224, 401, 422, 439
AluI AGCT 6 cut(s) 101, 168, 224, 401, 422, 439
AoxI GGCC 2 cut(s) 71, 375
ApaI GGGCCC 1 cut(s) 75
ApeKI GCWGC 5 cut(s) 98, 245, 419, 422, 493
AspLEI GCGC 2 cut(s) 62, 310
AspS9I GGNCC 3 cut(s) 54, 71, 72
AsuC2I CCSGG 1 cut(s) 64
AsuHPI GGTGA 1 cut(s) 202
AvaII GGWCC 1 cut(s) 54
BaeGI GKGCMC 1 cut(s) 75
BanI GGYRCC 1 cut(s) 59
BanII GRGCYC 1 cut(s) 75
BbsI GAAGAC 1 cut(s) 389
BbvI GCAGC 4 cut(s) 110, 232, 409, 431
BccI CCATC 1 cut(s) 226
BciT130I CCWGG 1 cut(s) 187
BciVI GTATCC 1 cut(s) 193
BcnI CCSGG 1 cut(s) 64
BfaI CTAG 2 cut(s) 249, 402
BfoI RGCGCY 1 cut(s) 63
BfrI CTTAAG 1 cut(s) 278
BfuI GTATCC 1 cut(s) 193
BisI GCNGC 8 cut(s) 84, 87, 96, 99, 246, 420, 423, 494
BlsI GCNGC 8 cut(s) 85, 88, 97, 100, 247, 421, 424, 495
Bme1390I CCNGG 2 cut(s) 64, 187
Bme18I GGWCC 1 cut(s) 54
BmgT120I GGNCC 3 cut(s) 54, 71, 72
BmiI GGNNCC 4 cut(s) 43, 55, 61, 73
BmrFI CCNGG 2 cut(s) 64, 187
BmsI GCATC 3 cut(s) 228, 272, 335
BpiI GAAGAC 1 cut(s) 389
BpmI CTGGAG 1 cut(s) 143
BpuEI CTTGAG 2 cut(s) 201, 416
BpuMI CCSGG 1 cut(s) 64
BsaBI GATNNNNATC 1 cut(s) 325
BsaHI GRCGYC 1 cut(s) 60
BsaJI CCNNGG 1 cut(s) 186
Bsc4I CCNNNNNNNGG 4 cut(s) 51, 63, 69, 346
Bse8I GATNNNNATC 1 cut(s) 325
BseBI CCWGG 1 cut(s) 187
BseDI CCNNGG 1 cut(s) 186
BseGI GGATG 1 cut(s) 326
BseJI GATNNNNATC 1 cut(s) 325
BseLI CCNNNNNNNGG 4 cut(s) 51, 63, 69, 346
BseRI GAGGAG 6 cut(s) 30, 33, 36, 39, 42, 428
BseSI GKGCMC 1 cut(s) 75
BseXI GCAGC 4 cut(s) 110, 232, 409, 431
BshFI GGCC 2 cut(s) 73, 377
BshNI GGYRCC 1 cut(s) 59
BsiSI CCGG 3 cut(s) 45, 57, 63
BslI CCNNNNNNNGG 4 cut(s) 51, 63, 69, 346
BsnI GGCC 2 cut(s) 73, 377
Bsp120I GGGCCC 1 cut(s) 71
Bsp1286I GDGCHC 1 cut(s) 75
BspACI CCGC 5 cut(s) 33, 83, 86, 95, 391
BspANI GGCC 2 cut(s) 73, 377
BspHI TCATGA 1 cut(s) 228
BspLI GGNNCC 4 cut(s) 43, 55, 61, 73
BspT107I GGYRCC 1 cut(s) 59
BspTI CTTAAG 1 cut(s) 278
BssECI CCNNGG 1 cut(s) 186
BssNI GRCGYC 1 cut(s) 60
Bst2UI CCWGG 1 cut(s) 187
BstACI GRCGYC 1 cut(s) 60
BstAFI CTTAAG 1 cut(s) 278
BstC8I GCNNGC 3 cut(s) 243, 375, 427
BstDEI CTNAG 1 cut(s) 102
BstF5I GGATG 1 cut(s) 326
BstH2I RGCGCY 1 cut(s) 63
BstHHI GCGC 2 cut(s) 62, 310
BstMWI GCNNNNNNNGC 3 cut(s) 92, 95, 307
BstNI CCWGG 1 cut(s) 187
BstNSI RCATGY 1 cut(s) 397
BstSCI CCNGG 2 cut(s) 62, 185
BstSLI GKGCMC 1 cut(s) 75
BstV1I GCAGC 4 cut(s) 110, 232, 409, 431
BstV2I GAAGAC 1 cut(s) 389
BsuI GTATCC 1 cut(s) 193
BsuRI GGCC 2 cut(s) 73, 377
BtgZI GCGATG 1 cut(s) 127
BtsCI GGATG 1 cut(s) 326
Cac8I GCNNGC 3 cut(s) 243, 375, 427
CciI TCATGA 1 cut(s) 228
CfoI GCGC 2 cut(s) 62, 310
Cfr13I GGNCC 3 cut(s) 54, 71, 72
Csp6I GTAC 1 cut(s) 467
CviAII CATG 4 cut(s) 229, 341, 394, 479
CviQI GTAC 1 cut(s) 467
DdeI CTNAG 1 cut(s) 102
DinI GGCGCC 1 cut(s) 61
EciI GGCGGA 1 cut(s) 48
Eco24I GRGCYC 1 cut(s) 75
Eco47I GGWCC 1 cut(s) 54
Eco57I CTGAAG 2 cut(s) 317, 447
EcoRII CCWGG 1 cut(s) 185
EcoT38I GRGCYC 1 cut(s) 75
EgeI GGCGCC 1 cut(s) 61
EheI GGCGCC 1 cut(s) 61
FaeI CATG 4 cut(s) 232, 344, 397, 482
FaiI YATR 5 cut(s) 230, 342, 395, 474, 480
FatI CATG 4 cut(s) 228, 340, 393, 478
FblI GTMKAC 1 cut(s) 156
Fnu4HI GCNGC 8 cut(s) 84, 87, 96, 99, 246, 420, 423, 494
FokI GGATG 1 cut(s) 313
FriOI GRGCYC 1 cut(s) 75
Fsp4HI GCNGC 8 cut(s) 84, 87, 96, 99, 246, 420, 423, 494
FspBI CTAG 2 cut(s) 249, 402
GlaI GCGC 2 cut(s) 61, 309
GluI GCNGC 8 cut(s) 84, 87, 96, 99, 246, 420, 423, 494
GsuI CTGGAG 1 cut(s) 143
HaeII RGCGCY 1 cut(s) 63
HaeIII GGCC 2 cut(s) 73, 377
HapII CCGG 3 cut(s) 45, 57, 63
HhaI GCGC 2 cut(s) 62, 310
Hin1I GRCGYC 1 cut(s) 60
Hin1II CATG 4 cut(s) 232, 344, 397, 482
Hin6I GCGC 2 cut(s) 60, 308
HinP1I GCGC 2 cut(s) 60, 308
HincII GTYRAC 2 cut(s) 157, 178
HindII GTYRAC 2 cut(s) 157, 178
HindIII AAGCTT 1 cut(s) 222
HinfI GANTC 1 cut(s) 269
HpaII CCGG 3 cut(s) 45, 57, 63
HphI GGTGA 1 cut(s) 202
Hpy166II GTNNAC 2 cut(s) 157, 178
Hpy188I TCNGA 2 cut(s) 268, 292
Hpy188III TCNNGA 3 cut(s) 218, 229, 318
Hpy8I GTNNAC 2 cut(s) 157, 178
Hpy99I CGWCG 1 cut(s) 158
HpyCH4IV ACGT 1 cut(s) 180
HpyCH4V TGCA 2 cut(s) 326, 493
HpyF10VI GCNNNNNNNGC 3 cut(s) 92, 95, 307
HpyF3I CTNAG 1 cut(s) 102
HpySE526I ACGT 1 cut(s) 180
Hsp92I GRCGYC 1 cut(s) 60
Hsp92II CATG 4 cut(s) 232, 344, 397, 482
HspAI GCGC 2 cut(s) 60, 308
KasI GGCGCC 1 cut(s) 59
LmnI GCTCC 3 cut(s) 35, 41, 436
Lsp1109I GCAGC 4 cut(s) 110, 232, 409, 431
LweI GCATC 3 cut(s) 228, 272, 335
MaeI CTAG 2 cut(s) 249, 402
MaeII ACGT 1 cut(s) 180
MboII GAAGA 4 cut(s) 124, 394, 450, 453
MhlI GDGCHC 1 cut(s) 75
MluCI AATT 1 cut(s) 405
Mly113I GGCGCC 1 cut(s) 60
MseI TTAA 2 cut(s) 279, 333
MslI CAYNNNNRTG 1 cut(s) 477
MspA1I CMGCKG 1 cut(s) 422
MspCI CTTAAG 1 cut(s) 278
MspI CCGG 3 cut(s) 45, 57, 63
MspR9I CCNGG 2 cut(s) 64, 187
MvaI CCWGG 1 cut(s) 187
MwoI GCNNNNNNNGC 3 cut(s) 92, 95, 307
NarI GGCGCC 1 cut(s) 60
NciI CCSGG 1 cut(s) 64
NlaIII CATG 4 cut(s) 232, 344, 397, 482
NlaIV GGNNCC 4 cut(s) 43, 55, 61, 73
NmeAIII GCCGAG 1 cut(s) 403
NspI RCATGY 1 cut(s) 397
PagI TCATGA 1 cut(s) 228
PcsI WCGNNNNNNNCGW 2 cut(s) 86, 150
PfeI GAWTC 1 cut(s) 269
PkrI GCNGC 8 cut(s) 85, 88, 97, 100, 247, 421, 424, 495
PluTI GGCGCC 1 cut(s) 63
Psp6I CCWGG 1 cut(s) 185
PspGI CCWGG 1 cut(s) 185
PspN4I GGNNCC 4 cut(s) 43, 55, 61, 73
PspOMI GGGCCC 1 cut(s) 71
PspPI GGNCC 3 cut(s) 54, 71, 72
PvuII CAGCTG 1 cut(s) 422
RsaI GTAC 1 cut(s) 468
RsaNI GTAC 1 cut(s) 467
RseI CAYNNNNRTG 1 cut(s) 477
SalI GTCGAC 1 cut(s) 155
SaqAI TTAA 2 cut(s) 279, 333
SatI GCNGC 8 cut(s) 84, 87, 96, 99, 246, 420, 423, 494
Sau96I GGNCC 3 cut(s) 54, 71, 72
ScrFI CCNGG 2 cut(s) 64, 187
SduI GDGCHC 1 cut(s) 75
SfaNI GCATC 3 cut(s) 228, 272, 335
SfoI GGCGCC 1 cut(s) 61
SinI GGWCC 1 cut(s) 54
SmiMI CAYNNNNRTG 1 cut(s) 477
SmlI CTYRAG 3 cut(s) 216, 278, 431
SmoI CTYRAG 3 cut(s) 216, 278, 431
Sse9I AATT 1 cut(s) 405
SsiI CCGC 5 cut(s) 33, 83, 86, 95, 391
SspDI GGCGCC 1 cut(s) 59
SspMI CTAG 2 cut(s) 249, 402
StyD4I CCNGG 2 cut(s) 62, 185
TaiI ACGT 1 cut(s) 183
TaqI TCGA 1 cut(s) 156
TasI AATT 1 cut(s) 405
TauI GCSGC 3 cut(s) 86, 89, 98
TfiI GAWTC 1 cut(s) 269
Tru1I TTAA 2 cut(s) 279, 333
Tru9I TTAA 2 cut(s) 279, 333
TseI GCWGC 5 cut(s) 98, 245, 419, 422, 493
TspDTI ATGAA 3 cut(s) 17, 217, 495
Vha464I CTTAAG 1 cut(s) 278
VpaK11BI GGWCC 1 cut(s) 54
XceI RCATGY 1 cut(s) 397
XmiI GTMKAC 1 cut(s) 156
XspI CTAG 2 cut(s) 249, 402
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.