Rw0G002900

mediator of RNA polymerase II transcription subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Contig00092
OG0003446
Physical Location & Seq
Forward (+)
19765 .. 20967
1203 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw0G002900.1

Sequence Viewer

Length: 1086 bp
ATGCTTCAACCGCAAATTGTTCAATCCGCCAGCCAGGCTAGGCCTATCGAACCCAATTCACCTGCTTTTCAAAACCCTACCCCTCCAAAACTCCCTTTACAGCAGCAGCCTCTTCTTCTGCTTCTGCTCTTCTTCTTCTTCTTCACAGCATTCCAATCTATCCCCATCGCTGGTCTCTCTCTCGCCCCTCCCAAGAGCCCAATCCCTTCTATTTTCAATCCGCTTGAGAACTGTCCTTCCTCCACCAAAGATGTCCTCTCCCAGTTCACAGCTCTTCAAACCCAACTCTTTGAGGCTGTTGCTGAACTCCAAGAAATCCTTGATCTTCAGGACGCTAAGCTGAAAATTGCACATGAAGTACGGTCCAAGGATGTCTCACTTCTTGCCTTTTCCAAGAAACTCGAGGATGTTGAGCAGGTGCTTGATAATCTTGTTGATGATTACTCTGATAAATTGGATGATGGTTCAGAAGATGATTCTTCATGCACTACTACTGTTTCATCTCAGTTGAATTTATCAGATATTTTGTCATATGCGCATCGGATAAGCTACACAACATTTGCACCACCAGAATATGGGGCTGGACAAGCTCCTCTTCGCGGATCACTCCCACCTGCCCCGCAGGAGGAGCACATGCGTGCTTCTCAGCTATACAATTTTGCAAACCTGGATGTTGGTTTGCCCAAGACTGTAGACAGCACGGAGAAAACAATTGAAGCAATCATGGAGCCCCCACCTCCTGCGCCAACAGAAGCCAATCAAGCTCCAAAGTTTGGTGCACTTCAAGGTCGGCTTCCTCCAAATATCACAATTCCGTCTGGTTGGAAGCCTGGGATGCCTGTGGAGTTGCCTACCGATTTTCCTATGCCCCCACCTGGATGGAAGCCTGGGGACCCAGTGCCTTTGCCCCCAGTGGGATCTCTTCCAGTTCCTAAGGTCGAGGATCAGCATTTACGGCCTAAACCTCAAGCAATGCATAAACTGCAAGAGCCAATACAAGTTATGCATGTTGAACTGGATATTCCTGATCAAGATGATAGTAGCGATTATAGTAGCGATGAAGGAAGCTTTGAAGATGATGATTAG

Protein Analysis

361

Amino Acids

39.55

Weight (kDa)

4.43

Isoelectric Point (pI)

70.86

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Med4 PF10018 85 - 244 2.6e-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 3 cut(s) 70, 406, 622
Acc16I TGCGCA 1 cut(s) 537
Acc36I ACCTGC 3 cut(s) 70, 406, 622
AccB7I CCANNNNNTGG 2 cut(s) 575, 773
AccI GTMKAC 1 cut(s) 693
AccII CGCG 1 cut(s) 600
AciI CCGC 5 cut(s) 11, 27, 221, 600, 620
AclWI GGATC 3 cut(s) 610, 925, 951
AcsI RAATTY 1 cut(s) 511
AcuI CTGAAG 1 cut(s) 311
AfaI GTAC 1 cut(s) 360
AfiI CCNNNNNNNGG 7 cut(s) 170, 575, 599, 625, 773, 875, 914
AjnI CCWGG 5 cut(s) 33, 666, 829, 874, 886
AleI CACNNNNGTG 1 cut(s) 636
AloI GAACNNNNNNTCC 2 cut(s) 221, 253
AluBI AGCT 7 cut(s) 272, 340, 549, 590, 649, 764, 1068
AluI AGCT 7 cut(s) 272, 340, 549, 590, 649, 764, 1068
Alw21I GWGCWC 2 cut(s) 633, 781
Alw26I GTCTC 2 cut(s) 179, 379
Alw44I GTGCAC 1 cut(s) 777
AlwI GGATC 3 cut(s) 610, 925, 951
Ama87I CYCGRG 1 cut(s) 401
AoxI GGCC 2 cut(s) 41, 956
ApaLI GTGCAC 1 cut(s) 777
ApeKI GCWGC 2 cut(s) 103, 106
ApoI RAATTY 1 cut(s) 511
AspLEI GCGC 2 cut(s) 538, 745
AspS9I GGNCC 2 cut(s) 363, 892
AsuHPI GGTGA 1 cut(s) 51
AvaI CYCGRG 1 cut(s) 401
AvaII GGWCC 2 cut(s) 363, 892
AxyI CCTNAGG 1 cut(s) 933
BaeGI GKGCMC 1 cut(s) 781
BanII GRGCYC 2 cut(s) 200, 732
Bbv12I GWGCWC 2 cut(s) 633, 781
BbvI GCAGC 2 cut(s) 115, 118
BccI CCATC 3 cut(s) 173, 455, 873
BceAI ACGGC 1 cut(s) 971
BciT130I CCWGG 5 cut(s) 35, 668, 831, 876, 888
BclI TGATCA 1 cut(s) 1027
BcoDI GTCTC 2 cut(s) 179, 379
BfaI CTAG 1 cut(s) 39
BfmI CTRYAG 1 cut(s) 690
BfuAI ACCTGC 3 cut(s) 70, 406, 622
BglI GCCNNNNNGGC 1 cut(s) 35
BisI GCNGC 2 cut(s) 104, 107
BlpI GCTNAGC 1 cut(s) 336
BlsI GCNGC 2 cut(s) 105, 108
Bme1390I CCNGG 5 cut(s) 35, 668, 831, 876, 888
Bme18I GGWCC 2 cut(s) 363, 892
BmeT110I CYCGRG 1 cut(s) 401
BmgT120I GGNCC 2 cut(s) 363, 892
BmiI GGNNCC 3 cut(s) 729, 893, 894
BmrFI CCNGG 5 cut(s) 35, 668, 831, 876, 888
BmrI ACTGGG 3 cut(s) 256, 890, 905
BmsI GCATC 2 cut(s) 547, 825
BmuI ACTGGG 3 cut(s) 256, 890, 905
Bpu1102I GCTNAGC 1 cut(s) 336
BpuEI CTTGAG 2 cut(s) 245, 951
BsaI GGTCTC 1 cut(s) 179
BsaJI CCNNGG 3 cut(s) 366, 830, 887
Bsc4I CCNNNNNNNGG 7 cut(s) 170, 575, 599, 625, 773, 875, 914
Bse1I ACTGG 5 cut(s) 262, 896, 911, 926, 1020
Bse21I CCTNAGG 1 cut(s) 933
Bse3DI GCAATG 1 cut(s) 978
BseBI CCWGG 5 cut(s) 35, 668, 831, 876, 888
BseDI CCNNGG 3 cut(s) 366, 830, 887
BseGI GGATG 6 cut(s) 376, 412, 463, 676, 840, 884
BseLI CCNNNNNNNGG 7 cut(s) 170, 575, 599, 625, 773, 875, 914
BseMI GCAATG 1 cut(s) 978
BseMII CTCAG 2 cut(s) 518, 659
BseNI ACTGG 5 cut(s) 262, 896, 911, 926, 1020
BseRI GAGGAG 2 cut(s) 582, 641
BseSI GKGCMC 1 cut(s) 781
BseXI GCAGC 2 cut(s) 115, 118
Bsh1236I CGCG 1 cut(s) 600
BshFI GGCC 2 cut(s) 43, 958
BsiHKAI GWGCWC 2 cut(s) 633, 781
BsiHKCI CYCGRG 1 cut(s) 401
BslFI GGGAC 1 cut(s) 905
BslI CCNNNNNNNGG 7 cut(s) 170, 575, 599, 625, 773, 875, 914
BsmAI GTCTC 2 cut(s) 179, 379
BsmFI GGGAC 1 cut(s) 905
BsmI GAATGC 1 cut(s) 149
BsnI GGCC 2 cut(s) 43, 958
Bso31I GGTCTC 1 cut(s) 179
BsoBI CYCGRG 1 cut(s) 401
Bsp1286I GDGCHC 4 cut(s) 200, 633, 732, 781
Bsp143I GATC 5 cut(s) 322, 602, 917, 943, 1027
Bsp1720I GCTNAGC 1 cut(s) 336
BspACI CCGC 5 cut(s) 11, 27, 221, 600, 620
BspANI GGCC 2 cut(s) 43, 958
BspCNI CTCAG 2 cut(s) 517, 658
BspFNI CGCG 1 cut(s) 600
BspLI GGNNCC 3 cut(s) 729, 893, 894
BspMI ACCTGC 3 cut(s) 70, 406, 622
BspPI GGATC 3 cut(s) 610, 925, 951
BspQI GCTCTTC 2 cut(s) 134, 279
BspTNI GGTCTC 1 cut(s) 179
BsrDI GCAATG 1 cut(s) 978
BsrI ACTGG 5 cut(s) 262, 896, 911, 926, 1020
BssECI CCNNGG 3 cut(s) 366, 830, 887
BssMI GATC 5 cut(s) 322, 602, 917, 943, 1027
BssT1I CCWWGG 1 cut(s) 366
Bst2UI CCWGG 5 cut(s) 35, 668, 831, 876, 888
Bst4CI ACNGT 4 cut(s) 233, 363, 496, 691
Bst6I CTCTTC 5 cut(s) 117, 134, 279, 600, 927
BstAPI GCANNNNNTGC 1 cut(s) 982
BstC8I GCNNGC 2 cut(s) 31, 639
BstDEI CTNAG 4 cut(s) 336, 504, 645, 933
BstF5I GGATG 6 cut(s) 376, 412, 463, 676, 840, 884
BstFNI CGCG 1 cut(s) 600
BstHHI GCGC 2 cut(s) 538, 745
BstKTI GATC 5 cut(s) 325, 605, 920, 946, 1030
BstMAI GTCTC 2 cut(s) 179, 379
BstMBI GATC 5 cut(s) 322, 602, 917, 943, 1027
BstMWI GCNNNNNNNGC 8 cut(s) 10, 35, 587, 628, 761, 835, 955, 982
BstNI CCWGG 5 cut(s) 35, 668, 831, 876, 888
BstNSI RCATGY 2 cut(s) 637, 1010
BstSCI CCNGG 5 cut(s) 33, 666, 829, 874, 886
BstSFI CTRYAG 1 cut(s) 690
BstSLI GKGCMC 1 cut(s) 781
BstUI CGCG 1 cut(s) 600
BstV1I GCAGC 2 cut(s) 115, 118
BstX2I RGATCY 1 cut(s) 917
BstXI CCANNNNNNTGG 1 cut(s) 879
BstYI RGATCY 1 cut(s) 917
Bsu36I CCTNAGG 1 cut(s) 933
BsuRI GGCC 2 cut(s) 43, 958
BtgZI GCGATG 2 cut(s) 151, 1071
BtsCI GGATG 6 cut(s) 376, 412, 463, 676, 840, 884
BtsIMutI CAGTG 2 cut(s) 903, 918
BveI ACCTGC 3 cut(s) 70, 406, 622
Cac8I GCNNGC 2 cut(s) 31, 639
CfoI GCGC 2 cut(s) 538, 745
Cfr13I GGNCC 2 cut(s) 363, 892
CseI GACGC 1 cut(s) 341
Csp6I GTAC 1 cut(s) 359
CviAII CATG 5 cut(s) 353, 483, 634, 724, 1007
CviQI GTAC 1 cut(s) 359
DdeI CTNAG 4 cut(s) 336, 504, 645, 933
DpnI GATC 5 cut(s) 324, 604, 919, 945, 1029
DpnII GATC 5 cut(s) 322, 602, 917, 943, 1027
Eam1104I CTCTTC 5 cut(s) 117, 134, 279, 600, 927
EarI CTCTTC 5 cut(s) 117, 134, 279, 600, 927
EciI GGCGGA 1 cut(s) 16
Eco130I CCWWGG 1 cut(s) 366
Eco147I AGGCCT 1 cut(s) 43
Eco24I GRGCYC 2 cut(s) 200, 732
Eco31I GGTCTC 1 cut(s) 179
Eco47I GGWCC 2 cut(s) 363, 892
Eco57I CTGAAG 1 cut(s) 311
Eco81I CCTNAGG 1 cut(s) 933
Eco88I CYCGRG 1 cut(s) 401
EcoO109I RGGNCCY 1 cut(s) 892
EcoRII CCWGG 5 cut(s) 33, 666, 829, 874, 886
EcoT14I CCWWGG 1 cut(s) 366
EcoT22I ATGCAT 2 cut(s) 978, 1008
EcoT38I GRGCYC 2 cut(s) 200, 732
ErhI CCWWGG 1 cut(s) 366
FaeI CATG 5 cut(s) 356, 486, 637, 727, 1010
FalI AAGNNNNNCTT 6 cut(s) 303, 335, 579, 611, 777, 809
FaqI GGGAC 1 cut(s) 905
FatI CATG 5 cut(s) 352, 482, 633, 723, 1006
FauI CCCGC 1 cut(s) 627
FauNDI CATATG 1 cut(s) 532
FbaI TGATCA 1 cut(s) 1027
FblI GTMKAC 1 cut(s) 693
Fnu4HI GCNGC 2 cut(s) 104, 107
FokI GGATG 6 cut(s) 383, 419, 470, 683, 847, 891
FriOI GRGCYC 2 cut(s) 200, 732
Fsp4HI GCNGC 2 cut(s) 104, 107
FspAI RTGCGCAY 1 cut(s) 537
FspBI CTAG 1 cut(s) 39
FspI TGCGCA 1 cut(s) 537
GlaI GCGC 2 cut(s) 537, 744
GluI GCNGC 2 cut(s) 104, 107
HaeIII GGCC 2 cut(s) 43, 958
HgaI GACGC 1 cut(s) 341
HhaI GCGC 2 cut(s) 538, 745
Hin1II CATG 5 cut(s) 356, 486, 637, 727, 1010
Hin6I GCGC 2 cut(s) 536, 743
HinP1I GCGC 2 cut(s) 536, 743
HindIII AAGCTT 1 cut(s) 1066
HinfI GANTC 1 cut(s) 476
HphI GGTGA 1 cut(s) 51
Hpy166II GTNNAC 3 cut(s) 267, 694, 779
Hpy188I TCNGA 4 cut(s) 448, 469, 520, 543
Hpy188III TCNNGA 3 cut(s) 329, 1025, 1031
Hpy8I GTNNAC 3 cut(s) 267, 694, 779
HpyAV CCTTC 3 cut(s) 216, 246, 1055
HpyCH4III ACNGT 4 cut(s) 233, 363, 496, 691
HpyCH4V TGCA 8 cut(s) 350, 486, 563, 662, 779, 976, 985, 1006
HpyF10VI GCNNNNNNNGC 8 cut(s) 10, 35, 587, 628, 761, 835, 955, 982
HpyF3I CTNAG 4 cut(s) 336, 504, 645, 933
Hsp92II CATG 5 cut(s) 356, 486, 637, 727, 1010
HspAI GCGC 2 cut(s) 536, 743
KflI GGGWCCC 1 cut(s) 892
Ksp22I TGATCA 1 cut(s) 1027
Kzo9I GATC 5 cut(s) 322, 602, 917, 943, 1027
LguI GCTCTTC 2 cut(s) 134, 279
LmnI GCTCC 4 cut(s) 595, 628, 727, 769
Lsp1109I GCAGC 2 cut(s) 115, 118
LweI GCATC 2 cut(s) 547, 825
MaeI CTAG 1 cut(s) 39
MalI GATC 5 cut(s) 324, 604, 919, 945, 1029
MboI GATC 5 cut(s) 322, 602, 917, 943, 1027
MfeI CAATTG 1 cut(s) 711
MflI RGATCY 1 cut(s) 917
MhlI GDGCHC 4 cut(s) 200, 633, 732, 781
MluCI AATT 8 cut(s) 15, 55, 345, 452, 511, 655, 711, 810
MmeI TCCRAC 1 cut(s) 803
Mph1103I ATGCAT 2 cut(s) 978, 1008
MslI CAYNNNNRTG 2 cut(s) 636, 877
MspR9I CCNGG 5 cut(s) 35, 668, 831, 876, 888
MunI CAATTG 1 cut(s) 711
Mva1269I GAATGC 1 cut(s) 149
MvaI CCWGG 5 cut(s) 35, 668, 831, 876, 888
MvnI CGCG 1 cut(s) 600
MwoI GCNNNNNNNGC 8 cut(s) 10, 35, 587, 628, 761, 835, 955, 982
NdeI CATATG 1 cut(s) 532
NdeII GATC 5 cut(s) 322, 602, 917, 943, 1027
NlaIII CATG 5 cut(s) 356, 486, 637, 727, 1010
NlaIV GGNNCC 3 cut(s) 729, 893, 894
NsbI TGCGCA 1 cut(s) 537
NsiI ATGCAT 2 cut(s) 978, 1008
NspI RCATGY 2 cut(s) 637, 1010
OliI CACNNNNGTG 1 cut(s) 636
PaeR7I CTCGAG 1 cut(s) 401
PaqCI CACCTGC 3 cut(s) 70, 406, 622
PceI AGGCCT 1 cut(s) 43
PciSI GCTCTTC 2 cut(s) 134, 279
PctI GAATGC 1 cut(s) 149
PfeI GAWTC 1 cut(s) 476
PflMI CCANNNNNTGG 2 cut(s) 575, 773
PkrI GCNGC 2 cut(s) 105, 108
PpuMI RGGWCCY 1 cut(s) 892
Psp5II RGGWCCY 1 cut(s) 892
Psp6I CCWGG 5 cut(s) 33, 666, 829, 874, 886
PspGI CCWGG 5 cut(s) 33, 666, 829, 874, 886
PspN4I GGNNCC 3 cut(s) 729, 893, 894
PspPI GGNCC 2 cut(s) 363, 892
PspPPI RGGWCCY 1 cut(s) 892
PspXI VCTCGAGB 1 cut(s) 401
PsuI RGATCY 1 cut(s) 917
RsaI GTAC 1 cut(s) 360
RsaNI GTAC 1 cut(s) 359
RseI CAYNNNNRTG 2 cut(s) 636, 877
SapI GCTCTTC 2 cut(s) 134, 279
SatI GCNGC 2 cut(s) 104, 107
Sau3AI GATC 5 cut(s) 322, 602, 917, 943, 1027
Sau96I GGNCC 2 cut(s) 363, 892
ScrFI CCNGG 5 cut(s) 35, 668, 831, 876, 888
SduI GDGCHC 4 cut(s) 200, 633, 732, 781
SfaNI GCATC 2 cut(s) 547, 825
SfcI CTRYAG 1 cut(s) 690
Sfr274I CTCGAG 1 cut(s) 401
SinI GGWCC 2 cut(s) 363, 892
SlaI CTCGAG 1 cut(s) 401
SmiMI CAYNNNNRTG 2 cut(s) 636, 877
SmlI CTYRAG 3 cut(s) 224, 401, 966
SmoI CTYRAG 3 cut(s) 224, 401, 966
Sse9I AATT 8 cut(s) 15, 55, 345, 452, 511, 655, 711, 810
SseBI AGGCCT 1 cut(s) 43
SsiI CCGC 5 cut(s) 11, 27, 221, 600, 620
SspMI CTAG 1 cut(s) 39
StuI AGGCCT 1 cut(s) 43
StyD4I CCNGG 5 cut(s) 33, 666, 829, 874, 886
StyI CCWWGG 1 cut(s) 366
TaaI ACNGT 4 cut(s) 233, 363, 496, 691
TaqI TCGA 3 cut(s) 48, 402, 939
TasI AATT 8 cut(s) 15, 55, 345, 452, 511, 655, 711, 810
TfiI GAWTC 1 cut(s) 476
TscAI CASTG 2 cut(s) 903, 918
TseI GCWGC 2 cut(s) 103, 106
TspDTI ATGAA 4 cut(s) 369, 471, 489, 1074
TspGWI ACGGA 2 cut(s) 716, 804
TspRI CASTG 2 cut(s) 903, 918
Van91I CCANNNNNTGG 2 cut(s) 575, 773
VneI GTGCAC 1 cut(s) 777
VpaK11BI GGWCC 2 cut(s) 363, 892
XapI RAATTY 1 cut(s) 511
XceI RCATGY 2 cut(s) 637, 1010
XhoI CTCGAG 1 cut(s) 401
XmiI GTMKAC 1 cut(s) 693
XspI CTAG 1 cut(s) 39
Zsp2I ATGCAT 2 cut(s) 978, 1008
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.