RchiOBHm_Chr1g0360161

mediator of RNA polymerase II transcription subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
1
OG0003446
Physical Location & Seq
Forward (+)
51941433 .. 51943881
2449 bp
Loading structure...
UTR
Exon/CDS
Intron
N/A

Sequence Viewer

Length: 1200 bp
ATGAACTCCAACATGCCTCAGCACCAAATTGTGCAATCCCCAGCTAGGCTAGGCCTGGCAAATCCCACTTCACCATCTCTTCAAAACCCTAATCCTCCAAAACCCCCTTCACAGCAATCCAATGCATCTTCGACTCTTATCTCTCTTCTCCCACCCCTCCCTAGAGCACAGTCCCTTCTTGTCCAAATGGCCTCTCTAGCCTCCAAGCTCTTTGAAGTCTCGCCTAATCGGTCCCTCTGGCTCAATGCATTCCGTGGCTCGCTCCCAACCTTTCTGCCTTCCCAAAACCAATCAGTGCCCATAACCCCACTTGACTCCAATCCTTCCTCCACCAAAGACATTCTGTCCCAGTTCACAGTGCTTCAAACCCAACTCTTTCAGGCTGTTGCCGAGCTGCAGGAAATTCTTGATCTTCAGGACTCTAAGCTGAAAATTGCACAGGAAATCCGGTCCAAGGATGCTGCACTTCTTGCCTTTTCCAAGAAACTCAAGGATGCCGAGCAGATTCTTGATAACCTCGTTGATGACTACTCTGACTATCGCCGCCCCAAACGGCCAAAACTGGAGGAGGATGATGCAGAAGATGAGGAATCTTCATGCGCTACTACTGTTACATCTAAGTTGAAGTTATCAGATATTTTGTCATATGCCCACCGGATAAGCTACACAACCTTTGCACCGCCAGATTTTGGTGCCGGGCAAGCTCCTCTTCGTGGGGCACTACCACCTGCACCACAGGATGAGCAAATGCGTGCTTCTCAGCTATACCATTTTGCAAACCTTGATGTGGGATTACCTAAGACAGTTGAGAGCGAGGAGAAAACAATTGAAACAATTATTGAGCCCCCACCTCCACAACCAACAGAATACAATCAACATGCTGGCATGGTTCCATTTCAGGGTATACTTCCTCCAAATTTCACAATTCCGTCAGGTTGGAAGCCAGGAATGCCTGTGGAATTGCCAACTGATTTACCTGTTCCCCCACCTGGATGGAAGCCTGGGGACCCAGTGCCTTTGCCCCCATTGGACAATCTCCCCATACCTTTACCCCCACAAACACGGACTAATGCTCCTCAAGGAATACATAAACCACCAGAGACAATACAGGTTCAGCACGTTCAGCTCGATATTCTGGATCAAGACGATGATAGTAGTGATTATAGTAGCGACGAGGGAAGCTCTGAAGATGATGATTGA

Protein Analysis

399

Amino Acids

43.73

Weight (kDa)

4.62

Isoelectric Point (pI)

73.01

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Med4 PF10018 114 - 276 4.9e-12 Vitamin-D-receptor interacting Mediator subunit 4
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AarI CACCTGC 1 cut(s) 736
Acc36I ACCTGC 1 cut(s) 736
AccB1I GGYRCC 1 cut(s) 692
AccB7I CCANNNNNTGG 1 cut(s) 689
AccI GTMKAC 1 cut(s) 904
AciI CCGC 2 cut(s) 544, 680
AclWI GGATC 1 cut(s) 1146
AcoI YGGCCR 1 cut(s) 554
AcsI RAATTY 2 cut(s) 402, 916
AcuI CTGAAG 1 cut(s) 398
AfiI CCNNNNNNNGG 7 cut(s) 45, 454, 689, 713, 787, 899, 989
AgsI TTSAA 5 cut(s) 83, 215, 365, 625, 830
AhdI GACNNNNNGTC 1 cut(s) 343
AjnI CCWGG 4 cut(s) 54, 943, 988, 1000
AjuI GAANNNNNNNTTGG 2 cut(s) 91, 123
AluBI AGCT 9 cut(s) 44, 208, 394, 427, 663, 704, 763, 1126, 1182
AluI AGCT 9 cut(s) 44, 208, 394, 427, 663, 704, 763, 1126, 1182
Alw21I GWGCWC 1 cut(s) 169
Alw26I GTCTC 2 cut(s) 223, 1094
AlwI GGATC 1 cut(s) 1146
AoxI GGCC 3 cut(s) 52, 189, 554
ApeKI GCWGC 2 cut(s) 394, 461
ApoI RAATTY 2 cut(s) 402, 916
AspLEI GCGC 1 cut(s) 602
AspS9I GGNCC 3 cut(s) 231, 450, 1006
AsuC2I CCSGG 1 cut(s) 697
AsuHPI GGTGA 1 cut(s) 63
AvaII GGWCC 3 cut(s) 231, 450, 1006
BaeGI GKGCMC 2 cut(s) 300, 721
BanI GGYRCC 1 cut(s) 692
BanII GRGCYC 1 cut(s) 846
Bbv12I GWGCWC 1 cut(s) 169
BbvCI CCTCAGC 1 cut(s) 18
BbvI GCAGC 2 cut(s) 381, 448
BccI CCATC 2 cut(s) 82, 987
BceAI ACGGC 1 cut(s) 569
BciT130I CCWGG 4 cut(s) 56, 945, 990, 1002
BcnI CCSGG 1 cut(s) 697
BcoDI GTCTC 2 cut(s) 223, 1094
BfaI CTAG 4 cut(s) 45, 50, 162, 197
BfmI CTRYAG 1 cut(s) 395
BfuAI ACCTGC 1 cut(s) 736
BisI GCNGC 3 cut(s) 395, 462, 544
BlsI GCNGC 3 cut(s) 396, 463, 545
Bme1390I CCNGG 5 cut(s) 56, 697, 945, 990, 1002
Bme18I GGWCC 3 cut(s) 231, 450, 1006
BmeRI GACNNNNNGTC 1 cut(s) 343
BmgT120I GGNCC 3 cut(s) 231, 450, 1006
BmiI GGNNCC 5 cut(s) 233, 694, 891, 1007, 1008
BmrFI CCNGG 5 cut(s) 56, 697, 945, 990, 1002
BmrI ACTGGG 2 cut(s) 343, 1004
BmsI GCATC 4 cut(s) 134, 448, 484, 565
BmuI ACTGGG 2 cut(s) 343, 1004
BplI GAGNNNNNCTC 2 cut(s) 1166, 1198
BpmI CTGGAG 1 cut(s) 584
Bpu10I CCTNAGC 1 cut(s) 18
BpuEI CTTGAG 2 cut(s) 473, 1062
BpuMI CCSGG 1 cut(s) 697
BsaJI CCNNGG 3 cut(s) 253, 453, 1001
BsaWI WCCGGW 2 cut(s) 447, 654
BsaXI ACNNNNNCTCC 2 cut(s) 1057, 1087
Bsc4I CCNNNNNNNGG 7 cut(s) 45, 454, 689, 713, 787, 899, 989
Bse1I ACTGG 3 cut(s) 349, 567, 1010
BseBI CCWGG 4 cut(s) 56, 945, 990, 1002
BseDI CCNNGG 3 cut(s) 253, 453, 1001
BseGI GGATG 5 cut(s) 463, 499, 577, 745, 998
BseLI CCNNNNNNNGG 7 cut(s) 45, 454, 689, 713, 787, 899, 989
BseMII CTCAG 2 cut(s) 32, 773
BseNI ACTGG 3 cut(s) 349, 567, 1010
BseRI GAGGAG 4 cut(s) 581, 696, 830, 1065
BseSI GKGCMC 2 cut(s) 300, 721
BseXI GCAGC 2 cut(s) 381, 448
BseYI CCCAGC 1 cut(s) 40
BsgI GTGCAG 2 cut(s) 447, 714
BshFI GGCC 3 cut(s) 54, 191, 556
BshNI GGYRCC 1 cut(s) 692
BsiHKAI GWGCWC 1 cut(s) 169
BsiSI CCGG 3 cut(s) 448, 655, 696
BslFI GGGAC 4 cut(s) 157, 217, 331, 1019
BslI CCNNNNNNNGG 7 cut(s) 45, 454, 689, 713, 787, 899, 989
BsmAI GTCTC 2 cut(s) 223, 1094
BsmFI GGGAC 4 cut(s) 157, 217, 331, 1019
BsmI GAATGC 2 cut(s) 248, 954
BsnI GGCC 3 cut(s) 54, 191, 556
Bsp1286I GDGCHC 4 cut(s) 169, 300, 721, 846
Bsp143I GATC 2 cut(s) 409, 1138
BspACI CCGC 2 cut(s) 544, 680
BspANI GGCC 3 cut(s) 54, 191, 556
BspCNI CTCAG 2 cut(s) 31, 772
BspLI GGNNCC 5 cut(s) 233, 694, 891, 1007, 1008
BspMAI CTGCAG 1 cut(s) 399
BspMI ACCTGC 1 cut(s) 736
BspPI GGATC 1 cut(s) 1146
BspT107I GGYRCC 1 cut(s) 692
BsrI ACTGG 3 cut(s) 349, 567, 1010
BssECI CCNNGG 3 cut(s) 253, 453, 1001
BssMI GATC 2 cut(s) 409, 1138
BssNAI GTATAC 1 cut(s) 905
BssT1I CCWWGG 1 cut(s) 453
Bst1107I GTATAC 1 cut(s) 905
Bst2UI CCWGG 4 cut(s) 56, 945, 990, 1002
Bst4CI ACNGT 4 cut(s) 171, 358, 610, 805
Bst6I CTCTTC 3 cut(s) 84, 150, 714
BstAPI GCANNNNNTGC 1 cut(s) 470
BstC8I GCNNGC 4 cut(s) 260, 702, 753, 883
BstDEI CTNAG 5 cut(s) 18, 423, 618, 759, 798
BstDSI CCRYGG 1 cut(s) 253
BstF5I GGATG 5 cut(s) 463, 499, 577, 745, 998
BstHHI GCGC 1 cut(s) 602
BstKTI GATC 2 cut(s) 412, 1141
BstMAI GTCTC 2 cut(s) 223, 1094
BstMBI GATC 2 cut(s) 409, 1138
BstMWI GCNNNNNNNGC 5 cut(s) 197, 470, 701, 949, 1123
BstNI CCWGG 4 cut(s) 56, 945, 990, 1002
BstNSI RCATGY 2 cut(s) 16, 881
BstSCI CCNGG 5 cut(s) 54, 695, 943, 988, 1000
BstSFI CTRYAG 1 cut(s) 395
BstSLI GKGCMC 2 cut(s) 300, 721
BstV1I GCAGC 2 cut(s) 381, 448
BstXI CCANNNNNNTGG 1 cut(s) 993
BstZ17I GTATAC 1 cut(s) 905
BsuRI GGCC 3 cut(s) 54, 191, 556
BtgI CCRYGG 1 cut(s) 253
BtsCI GGATG 5 cut(s) 463, 499, 577, 745, 998
BtsIMutI CAGTG 3 cut(s) 300, 363, 1017
BveI ACCTGC 1 cut(s) 736
Cac8I GCNNGC 4 cut(s) 260, 702, 753, 883
CfoI GCGC 1 cut(s) 602
Cfr13I GGNCC 3 cut(s) 231, 450, 1006
CviAII CATG 4 cut(s) 13, 597, 878, 886
DdeI CTNAG 5 cut(s) 18, 423, 618, 759, 798
DpnI GATC 2 cut(s) 411, 1140
DpnII GATC 2 cut(s) 409, 1138
DriI GACNNNNNGTC 1 cut(s) 343
EaeI YGGCCR 1 cut(s) 554
Eam1104I CTCTTC 3 cut(s) 84, 150, 714
Eam1105I GACNNNNNGTC 1 cut(s) 343
EarI CTCTTC 3 cut(s) 84, 150, 714
Eco130I CCWWGG 1 cut(s) 453
Eco147I AGGCCT 1 cut(s) 54
Eco24I GRGCYC 1 cut(s) 846
Eco47I GGWCC 3 cut(s) 231, 450, 1006
Eco57I CTGAAG 1 cut(s) 398
EcoO109I RGGNCCY 1 cut(s) 1006
EcoRII CCWGG 4 cut(s) 54, 943, 988, 1000
EcoT14I CCWWGG 1 cut(s) 453
EcoT22I ATGCAT 2 cut(s) 127, 250
EcoT38I GRGCYC 1 cut(s) 846
ErhI CCWWGG 1 cut(s) 453
FaeI CATG 4 cut(s) 16, 600, 881, 889
FalI AAGNNNNNCTT 2 cut(s) 693, 725
FaqI GGGAC 4 cut(s) 157, 217, 331, 1019
FatI CATG 4 cut(s) 12, 596, 877, 885
FauNDI CATATG 1 cut(s) 646
FblI GTMKAC 1 cut(s) 904
Fnu4HI GCNGC 3 cut(s) 395, 462, 544
FokI GGATG 5 cut(s) 470, 506, 584, 752, 1005
FriOI GRGCYC 1 cut(s) 846
Fsp4HI GCNGC 3 cut(s) 395, 462, 544
FspBI CTAG 4 cut(s) 45, 50, 162, 197
GlaI GCGC 1 cut(s) 601
GluI GCNGC 3 cut(s) 395, 462, 544
GsaI CCCAGC 1 cut(s) 44
GsuI CTGGAG 1 cut(s) 584
HaeIII GGCC 3 cut(s) 54, 191, 556
HapII CCGG 3 cut(s) 448, 655, 696
HhaI GCGC 1 cut(s) 602
Hin1II CATG 4 cut(s) 16, 600, 881, 889
Hin6I GCGC 1 cut(s) 600
HinP1I GCGC 1 cut(s) 600
HinfI GANTC 5 cut(s) 133, 314, 419, 505, 590
HpaII CCGG 3 cut(s) 448, 655, 696
HphI GGTGA 1 cut(s) 63
Hpy166II GTNNAC 2 cut(s) 354, 905
Hpy188I TCNGA 3 cut(s) 535, 634, 1186
Hpy188III TCNNGA 5 cut(s) 407, 416, 509, 1136, 1142
Hpy8I GTNNAC 2 cut(s) 354, 905
Hpy99I CGWCG 1 cut(s) 1175
HpyAV CCTTC 4 cut(s) 117, 185, 288, 333
HpyCH4III ACNGT 4 cut(s) 171, 358, 610, 805
HpyCH4IV ACGT 1 cut(s) 1119
HpyF10VI GCNNNNNNNGC 5 cut(s) 197, 470, 701, 949, 1123
HpyF3I CTNAG 5 cut(s) 18, 423, 618, 759, 798
HpySE526I ACGT 1 cut(s) 1119
Hsp92II CATG 4 cut(s) 16, 600, 881, 889
HspAI GCGC 1 cut(s) 600
KflI GGGWCCC 1 cut(s) 1006
Kzo9I GATC 2 cut(s) 409, 1138
LmnI GCTCC 3 cut(s) 267, 709, 1078
Lsp1109I GCAGC 2 cut(s) 381, 448
LweI GCATC 4 cut(s) 134, 448, 484, 565
MaeI CTAG 4 cut(s) 45, 50, 162, 197
MaeII ACGT 1 cut(s) 1119
MaeIII GTNAC 1 cut(s) 610
MalI GATC 2 cut(s) 411, 1140
MboI GATC 2 cut(s) 409, 1138
MboII GAAGA 8 cut(s) 71, 120, 137, 404, 585, 593, 701, 1199
MfeI CAATTG 1 cut(s) 825
MhlI GDGCHC 4 cut(s) 169, 300, 721, 846
MluCI AATT 8 cut(s) 27, 402, 432, 825, 834, 916, 924, 959
MlyI GAGTC 3 cut(s) 127, 308, 413
MmeI TCCRAC 2 cut(s) 33, 917
Mph1103I ATGCAT 2 cut(s) 127, 250
MslI CAYNNNNRTG 1 cut(s) 991
MspI CCGG 3 cut(s) 448, 655, 696
MspR9I CCNGG 5 cut(s) 56, 697, 945, 990, 1002
MunI CAATTG 1 cut(s) 825
Mva1269I GAATGC 2 cut(s) 248, 954
MvaI CCWGG 4 cut(s) 56, 945, 990, 1002
MwoI GCNNNNNNNGC 5 cut(s) 197, 470, 701, 949, 1123
NciI CCSGG 1 cut(s) 697
NdeI CATATG 1 cut(s) 646
NdeII GATC 2 cut(s) 409, 1138
NlaIII CATG 4 cut(s) 16, 600, 881, 889
NlaIV GGNNCC 5 cut(s) 233, 694, 891, 1007, 1008
NmeAIII GCCGAG 2 cut(s) 415, 523
NsiI ATGCAT 2 cut(s) 127, 250
NspI RCATGY 2 cut(s) 16, 881
PaqCI CACCTGC 1 cut(s) 736
PceI AGGCCT 1 cut(s) 54
PcsI WCGNNNNNNNCGW 1 cut(s) 1125
PctI GAATGC 2 cut(s) 248, 954
PfeI GAWTC 2 cut(s) 505, 590
PflMI CCANNNNNTGG 1 cut(s) 689
PkrI GCNGC 3 cut(s) 396, 463, 545
PleI GAGTC 3 cut(s) 127, 308, 413
PpsI GAGTC 3 cut(s) 127, 308, 413
PpuMI RGGWCCY 1 cut(s) 1006
Psp5II RGGWCCY 1 cut(s) 1006
Psp6I CCWGG 4 cut(s) 54, 943, 988, 1000
PspFI CCCAGC 1 cut(s) 40
PspGI CCWGG 4 cut(s) 54, 943, 988, 1000
PspN4I GGNNCC 5 cut(s) 233, 694, 891, 1007, 1008
PspPI GGNCC 3 cut(s) 231, 450, 1006
PspPPI RGGWCCY 1 cut(s) 1006
PstI CTGCAG 1 cut(s) 399
RseI CAYNNNNRTG 1 cut(s) 991
SatI GCNGC 3 cut(s) 395, 462, 544
Sau3AI GATC 2 cut(s) 409, 1138
Sau96I GGNCC 3 cut(s) 231, 450, 1006
SchI GAGTC 3 cut(s) 127, 308, 413
ScrFI CCNGG 5 cut(s) 56, 697, 945, 990, 1002
SduI GDGCHC 4 cut(s) 169, 300, 721, 846
SfaNI GCATC 4 cut(s) 134, 448, 484, 565
SfcI CTRYAG 1 cut(s) 395
SinI GGWCC 3 cut(s) 231, 450, 1006
SmiMI CAYNNNNRTG 1 cut(s) 991
SmlI CTYRAG 2 cut(s) 488, 1077
SmoI CTYRAG 2 cut(s) 488, 1077
Sse9I AATT 8 cut(s) 27, 402, 432, 825, 834, 916, 924, 959
SseBI AGGCCT 1 cut(s) 54
SsiI CCGC 2 cut(s) 544, 680
SspMI CTAG 4 cut(s) 45, 50, 162, 197
StuI AGGCCT 1 cut(s) 54
StyD4I CCNGG 5 cut(s) 54, 695, 943, 988, 1000
StyI CCWWGG 1 cut(s) 453
TaaI ACNGT 4 cut(s) 171, 358, 610, 805
TaiI ACGT 1 cut(s) 1122
TaqI TCGA 2 cut(s) 131, 1128
TaqII GACCGA 1 cut(s) 219
TasI AATT 8 cut(s) 27, 402, 432, 825, 834, 916, 924, 959
TauI GCSGC 1 cut(s) 546
TfiI GAWTC 2 cut(s) 505, 590
TscAI CASTG 3 cut(s) 300, 363, 1017
TseI GCWGC 2 cut(s) 394, 461
TspDTI ATGAA 2 cut(s) 17, 585
TspGWI ACGGA 3 cut(s) 242, 918, 1078
TspRI CASTG 3 cut(s) 300, 363, 1017
Van91I CCANNNNNTGG 1 cut(s) 689
VpaK11BI GGWCC 3 cut(s) 231, 450, 1006
XapI RAATTY 2 cut(s) 402, 916
XceI RCATGY 2 cut(s) 16, 881
XmiI GTMKAC 1 cut(s) 904
XspI CTAG 4 cut(s) 45, 50, 162, 197
Zsp2I ATGCAT 2 cut(s) 127, 250
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.