Rh5CG176400

mediator of RNA polymerase II transcription subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5C
OG0012927
Physical Location & Seq
Reverse (-)
17138405 .. 17139653
1249 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5CG176400.1

Sequence Viewer

Length: 495 bp
ATGAACAGAGGGGGAGGAGGAGGAAGCGGAGCAGGAGCCGGAGGTGGGTCCGGCGCCGGGAGTGGGCCCACATCGGCGGCGGCGTTGGCGGCAGCTAAGAAGCAGAAGAAGTGGCTGGAGAGTGTGGAAACAGACATCGCCAACATCGTCGACCATTTCAGCTACCTCGTCAACGTATCCAGGGTGAATGAGCCACCTGTTAGGAACTCTCAAGAAGCTTTCATGATGGAGATGCGTGCTGCTAGAATGGTTCAGGCATCTGATTCTCTACTTAAGTTGGTGTCAGACTTGAAGCAGACTGCACTCTTTTCTGGATTTGCATCCCTTAATGACCATGTAGAGGAAAGAATGGCAGAGTTTGACAAGCAGGCCGAGAAGACTGACCGCATGTTAGCTAGAATTGGAGAGGAGGCAGCTGCCAGCCTCAAGGAGCTTGAAGCCCATTATTATTCTTCTTCAGTACCACATGCACATGAAAACTACTTGCAGCAGTGA

Protein Analysis

164

Amino Acids

17.55

Weight (kDa)

5.73

Isoelectric Point (pI)

38.64

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Med22 PF06179 41 - 139 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) 53
AccI GTMKAC 1 cut(s) 150
AciI CCGC 5 cut(s) 27, 77, 80, 89, 385
AcuI CTGAAG 1 cut(s) 441
AcyI GRCGYC 1 cut(s) 54
AfaI GTAC 1 cut(s) 462
AfiI CCNNNNNNNGG 4 cut(s) 45, 57, 63, 340
AflII CTTAAG 1 cut(s) 272
AgsI TTSAA 2 cut(s) 292, 437
AjnI CCWGG 1 cut(s) 179
AluBI AGCT 6 cut(s) 95, 162, 218, 395, 416, 433
AluI AGCT 6 cut(s) 95, 162, 218, 395, 416, 433
AoxI GGCC 2 cut(s) 65, 369
ApaI GGGCCC 1 cut(s) 69
ApeKI GCWGC 5 cut(s) 92, 239, 413, 416, 487
AspLEI GCGC 1 cut(s) 56
AspS9I GGNCC 3 cut(s) 48, 65, 66
AsuC2I CCSGG 1 cut(s) 58
AsuHPI GGTGA 1 cut(s) 196
AvaII GGWCC 1 cut(s) 48
BaeGI GKGCMC 1 cut(s) 69
BanI GGYRCC 1 cut(s) 53
BanII GRGCYC 1 cut(s) 69
BbsI GAAGAC 1 cut(s) 383
BbvI GCAGC 4 cut(s) 104, 226, 403, 425
BccI CCATC 1 cut(s) 220
BciT130I CCWGG 1 cut(s) 181
BciVI GTATCC 1 cut(s) 187
BcnI CCSGG 1 cut(s) 58
BfaI CTAG 2 cut(s) 243, 396
BfoI RGCGCY 1 cut(s) 57
BfrI CTTAAG 1 cut(s) 272
BfuI GTATCC 1 cut(s) 187
BisI GCNGC 8 cut(s) 78, 81, 90, 93, 240, 414, 417, 488
BlsI GCNGC 8 cut(s) 79, 82, 91, 94, 241, 415, 418, 489
Bme1390I CCNGG 2 cut(s) 58, 181
Bme18I GGWCC 1 cut(s) 48
BmgT120I GGNCC 3 cut(s) 48, 65, 66
BmiI GGNNCC 4 cut(s) 37, 49, 55, 67
BmrFI CCNGG 2 cut(s) 58, 181
BmsI GCATC 3 cut(s) 222, 266, 329
BpiI GAAGAC 1 cut(s) 383
BpmI CTGGAG 1 cut(s) 137
BpuEI CTTGAG 2 cut(s) 195, 410
BpuMI CCSGG 1 cut(s) 58
BsaBI GATNNNNATC 1 cut(s) 319
BsaHI GRCGYC 1 cut(s) 54
BsaJI CCNNGG 1 cut(s) 180
Bsc4I CCNNNNNNNGG 4 cut(s) 45, 57, 63, 340
Bse8I GATNNNNATC 1 cut(s) 319
BseBI CCWGG 1 cut(s) 181
BseDI CCNNGG 1 cut(s) 180
BseGI GGATG 1 cut(s) 320
BseJI GATNNNNATC 1 cut(s) 319
BseLI CCNNNNNNNGG 4 cut(s) 45, 57, 63, 340
BseRI GAGGAG 3 cut(s) 30, 33, 422
BseSI GKGCMC 1 cut(s) 69
BseXI GCAGC 4 cut(s) 104, 226, 403, 425
BsgI GTGCAG 1 cut(s) 285
BshFI GGCC 2 cut(s) 67, 371
BshNI GGYRCC 1 cut(s) 53
BsiSI CCGG 3 cut(s) 39, 51, 57
BslI CCNNNNNNNGG 4 cut(s) 45, 57, 63, 340
BsnI GGCC 2 cut(s) 67, 371
Bsp120I GGGCCC 1 cut(s) 65
Bsp1286I GDGCHC 1 cut(s) 69
BspACI CCGC 5 cut(s) 27, 77, 80, 89, 385
BspANI GGCC 2 cut(s) 67, 371
BspHI TCATGA 1 cut(s) 222
BspLI GGNNCC 4 cut(s) 37, 49, 55, 67
BspT107I GGYRCC 1 cut(s) 53
BspTI CTTAAG 1 cut(s) 272
BssECI CCNNGG 1 cut(s) 180
BssNI GRCGYC 1 cut(s) 54
Bst2UI CCWGG 1 cut(s) 181
BstACI GRCGYC 1 cut(s) 54
BstAFI CTTAAG 1 cut(s) 272
BstC8I GCNNGC 3 cut(s) 237, 369, 421
BstDEI CTNAG 1 cut(s) 96
BstF5I GGATG 1 cut(s) 320
BstH2I RGCGCY 1 cut(s) 57
BstHHI GCGC 1 cut(s) 56
BstMWI GCNNNNNNNGC 2 cut(s) 86, 89
BstNI CCWGG 1 cut(s) 181
BstNSI RCATGY 2 cut(s) 391, 470
BstSCI CCNGG 2 cut(s) 56, 179
BstSLI GKGCMC 1 cut(s) 69
BstV1I GCAGC 4 cut(s) 104, 226, 403, 425
BstV2I GAAGAC 1 cut(s) 383
BsuI GTATCC 1 cut(s) 187
BsuRI GGCC 2 cut(s) 67, 371
BtgZI GCGATG 1 cut(s) 121
BtsCI GGATG 1 cut(s) 320
Cac8I GCNNGC 3 cut(s) 237, 369, 421
CciI TCATGA 1 cut(s) 222
CfoI GCGC 1 cut(s) 56
Cfr13I GGNCC 3 cut(s) 48, 65, 66
Csp6I GTAC 1 cut(s) 461
CviAII CATG 5 cut(s) 223, 335, 388, 467, 473
CviQI GTAC 1 cut(s) 461
DdeI CTNAG 1 cut(s) 96
DinI GGCGCC 1 cut(s) 55
Eco24I GRGCYC 1 cut(s) 69
Eco47I GGWCC 1 cut(s) 48
Eco57I CTGAAG 1 cut(s) 441
EcoRII CCWGG 1 cut(s) 179
EcoT38I GRGCYC 1 cut(s) 69
EgeI GGCGCC 1 cut(s) 55
EheI GGCGCC 1 cut(s) 55
FaeI CATG 5 cut(s) 226, 338, 391, 470, 476
FaiI YATR 5 cut(s) 224, 336, 389, 468, 474
FatI CATG 5 cut(s) 222, 334, 387, 466, 472
FblI GTMKAC 1 cut(s) 150
Fnu4HI GCNGC 8 cut(s) 78, 81, 90, 93, 240, 414, 417, 488
FokI GGATG 1 cut(s) 307
FriOI GRGCYC 1 cut(s) 69
Fsp4HI GCNGC 8 cut(s) 78, 81, 90, 93, 240, 414, 417, 488
FspBI CTAG 2 cut(s) 243, 396
GlaI GCGC 1 cut(s) 55
GluI GCNGC 8 cut(s) 78, 81, 90, 93, 240, 414, 417, 488
GsuI CTGGAG 1 cut(s) 137
HaeII RGCGCY 1 cut(s) 57
HaeIII GGCC 2 cut(s) 67, 371
HapII CCGG 3 cut(s) 39, 51, 57
HhaI GCGC 1 cut(s) 56
Hin1I GRCGYC 1 cut(s) 54
Hin1II CATG 5 cut(s) 226, 338, 391, 470, 476
Hin6I GCGC 1 cut(s) 54
HinP1I GCGC 1 cut(s) 54
HincII GTYRAC 2 cut(s) 151, 172
HindII GTYRAC 2 cut(s) 151, 172
HindIII AAGCTT 1 cut(s) 216
HinfI GANTC 1 cut(s) 263
HpaII CCGG 3 cut(s) 39, 51, 57
HphI GGTGA 1 cut(s) 196
Hpy166II GTNNAC 2 cut(s) 151, 172
Hpy188I TCNGA 2 cut(s) 262, 286
Hpy188III TCNNGA 3 cut(s) 212, 223, 312
Hpy8I GTNNAC 2 cut(s) 151, 172
Hpy99I CGWCG 1 cut(s) 152
HpyCH4IV ACGT 1 cut(s) 174
HpyCH4V TGCA 4 cut(s) 302, 320, 470, 487
HpyF10VI GCNNNNNNNGC 2 cut(s) 86, 89
HpyF3I CTNAG 1 cut(s) 96
HpySE526I ACGT 1 cut(s) 174
Hsp92I GRCGYC 1 cut(s) 54
Hsp92II CATG 5 cut(s) 226, 338, 391, 470, 476
HspAI GCGC 1 cut(s) 54
KasI GGCGCC 1 cut(s) 53
LmnI GCTCC 3 cut(s) 29, 35, 430
Lsp1109I GCAGC 4 cut(s) 104, 226, 403, 425
LweI GCATC 3 cut(s) 222, 266, 329
MaeI CTAG 2 cut(s) 243, 396
MaeII ACGT 1 cut(s) 174
MboII GAAGA 4 cut(s) 118, 388, 444, 447
MhlI GDGCHC 1 cut(s) 69
MluCI AATT 1 cut(s) 399
Mly113I GGCGCC 1 cut(s) 54
MnlI CCTC 9 cut(s) 8, 11, 14, 35, 176, 334, 400, 403, 434
MseI TTAA 2 cut(s) 273, 327
MslI CAYNNNNRTG 1 cut(s) 471
MspA1I CMGCKG 1 cut(s) 416
MspCI CTTAAG 1 cut(s) 272
MspI CCGG 3 cut(s) 39, 51, 57
MspR9I CCNGG 2 cut(s) 58, 181
MvaI CCWGG 1 cut(s) 181
MwoI GCNNNNNNNGC 2 cut(s) 86, 89
NarI GGCGCC 1 cut(s) 54
NciI CCSGG 1 cut(s) 58
NlaIII CATG 5 cut(s) 226, 338, 391, 470, 476
NlaIV GGNNCC 4 cut(s) 37, 49, 55, 67
NmeAIII GCCGAG 1 cut(s) 397
NspI RCATGY 2 cut(s) 391, 470
PagI TCATGA 1 cut(s) 222
PcsI WCGNNNNNNNCGW 2 cut(s) 80, 144
PfeI GAWTC 1 cut(s) 263
PkrI GCNGC 8 cut(s) 79, 82, 91, 94, 241, 415, 418, 489
PluTI GGCGCC 1 cut(s) 57
Psp6I CCWGG 1 cut(s) 179
PspGI CCWGG 1 cut(s) 179
PspN4I GGNNCC 4 cut(s) 37, 49, 55, 67
PspOMI GGGCCC 1 cut(s) 65
PspPI GGNCC 3 cut(s) 48, 65, 66
PvuII CAGCTG 1 cut(s) 416
RsaI GTAC 1 cut(s) 462
RsaNI GTAC 1 cut(s) 461
RseI CAYNNNNRTG 1 cut(s) 471
SalI GTCGAC 1 cut(s) 149
SaqAI TTAA 2 cut(s) 273, 327
SatI GCNGC 8 cut(s) 78, 81, 90, 93, 240, 414, 417, 488
Sau96I GGNCC 3 cut(s) 48, 65, 66
ScrFI CCNGG 2 cut(s) 58, 181
SduI GDGCHC 1 cut(s) 69
SfaNI GCATC 3 cut(s) 222, 266, 329
SfoI GGCGCC 1 cut(s) 55
SinI GGWCC 1 cut(s) 48
SmiMI CAYNNNNRTG 1 cut(s) 471
SmlI CTYRAG 3 cut(s) 210, 272, 425
SmoI CTYRAG 3 cut(s) 210, 272, 425
Sse9I AATT 1 cut(s) 399
SsiI CCGC 5 cut(s) 27, 77, 80, 89, 385
SspDI GGCGCC 1 cut(s) 53
SspMI CTAG 2 cut(s) 243, 396
StyD4I CCNGG 2 cut(s) 56, 179
TaiI ACGT 1 cut(s) 177
TaqI TCGA 1 cut(s) 150
TasI AATT 1 cut(s) 399
TauI GCSGC 3 cut(s) 80, 83, 92
TfiI GAWTC 1 cut(s) 263
Tru1I TTAA 2 cut(s) 273, 327
Tru9I TTAA 2 cut(s) 273, 327
TseI GCWGC 5 cut(s) 92, 239, 413, 416, 487
TspDTI ATGAA 3 cut(s) 17, 211, 489
Vha464I CTTAAG 1 cut(s) 272
VpaK11BI GGWCC 1 cut(s) 48
XceI RCATGY 2 cut(s) 391, 470
XmiI GTMKAC 1 cut(s) 150
XspI CTAG 2 cut(s) 243, 396
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.