Rorug06G0324600

mediator of RNA polymerase II transcription subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000006
OG0009075
Physical Location & Seq
Reverse (-)
47579068 .. 47580306
1239 bp
Loading structure...
UTR
Exon/CDS
Intron
Rorug06G0324600.1

Sequence Viewer

Length: 1239 bp
ATGACACCCAACTGGTCGTACGATGTTCCTGAAGAGCTTATGATGTCTGTTGCCAGACTGCTGACAGATTCCTTGCAAGATTTTATTTTTTTCGGTGCAGTTTGCAAATCATGGAGATCAGCCGCCACTGAGGTAAAGGAGAAAAACCCTAATAATACTGCATTGAGATTATTAACACGTCAAGTTCCTCTCCTTTTGCTTCCACTTTCTTATTGGAACCGGCTTCCTAGCTTCCTCCAGAATCCGGTACCTAAAATTATCGGGCCGCCTCCCAAGGACAAGCTCGCTCTTGAAGATTTGAATGAGGCAGTCGAGTTTTACAGTCTGGAGGGAAAAGGTAATAAGATCAGTTATAAACTTAATCTACCAAAAATTTTACCAGAAACAAGAATGACCATGTGCTTTTCTTCTTTTGGATGGCTGGTGATTGTATCTGAAACAAAGGGGTGTGAATGGAGTCTCGTGCATCCTTTAAATCATGCCAAAATTGAGCTCCCAGATGTACAGTCTTTGCCACGCGATATTTTTTTGAGGTTAGGGAAGTTTGTCTTATCATCGAGCCCTTCTTGGACATCGGATTACATAGTCATGTTTCATTCAAGTAATAGATTAGGGTTTTGCAGACCGGGGCTGGGTGAAAATTGGAAAATAATAAATTTATGGCAACCGTTGAGGGAACTGCCTGTAATAAAGGATCTAATTTATTACAAGGACCAGTTCTATTTCTTGTACCATTCTGGTGGCGTTTCTGTTTTTGATATTAACAAAGAAGAAATGGGGCTTGTTGCTCCCAAATTTCCAGAGGAACAACTTTTAGGTCCTAATGTGCGTATTAAAGAACACTATTTAGTGGAATCAGCTGGGGTTCTATTGGTGGTTCTGTTTACTACTACCACCACCAAGTGTAAAGAGCAAGAATTATCATTTGGCTGCAGGGTCTTTGAGGTTCCATTTACAAACAGCAAATCGTGGTTGGACTCGGAGGTTAGCAGCTTGGGGAACAGAACCATTTTCCTAAGTAAATGTAGTTCTTCCTTCTCAATCGAGGCGTCAGACTATTCTGGATTATGCAAGCCCAATTGCATCTACTTCATGAATAATATGATAGTCTTTCCAAGAGAGTACAGAGATATGGGTGTTTTAAATATGGAGGATGGGAAAATCACCCGAGATTTTGACAAATTCTTTCATTATGAAGAATCAAGAGGATTCCATTTATGGATTCAACCGAGTTTGTAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0016592 GO:0031974 GO:0031981 GO:0032991 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044451 GO:0044464 GO:0070013
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
No domains found.

Protein Analysis

412

Amino Acids

47.4

Weight (kDa)

6.42

Isoelectric Point (pI)

45.53

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Beta-prop_KIB1-4 PF03478 106 - 380 2e-47 KIB1-4 beta-propeller
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 354
Acc65I GGTACC 1 cut(s) 247
AccB1I GGYRCC 1 cut(s) 247
AccII CGCG 1 cut(s) 519
AciI CCGC 2 cut(s) 123, 266
AclWI GGATC 1 cut(s) 702
AcsI RAATTY 4 cut(s) 372, 655, 794, 1181
AcuI CTGAAG 1 cut(s) 51
AcyI GRCGYC 1 cut(s) 1049
AdeI CACNNNGTG 1 cut(s) 903
AfaI GTAC 5 cut(s) 20, 249, 504, 731, 1124
AfiI CCNNNNNNNGG 2 cut(s) 244, 632
AflIII ACRYGT 1 cut(s) 176
AgsI TTSAA 4 cut(s) 293, 301, 600, 1226
AjiI CACGTC 1 cut(s) 179
AjuI GAANNNNNNNTTGG 2 cut(s) 909, 941
AluBI AGCT 6 cut(s) 37, 231, 283, 493, 860, 993
AluI AGCT 6 cut(s) 37, 231, 283, 493, 860, 993
Alw21I GWGCWC 1 cut(s) 495
Alw26I GTCTC 1 cut(s) 464
AlwI GGATC 1 cut(s) 702
Ama87I CYCGRG 1 cut(s) 1167
AoxI GGCC 1 cut(s) 263
ApeKI GCWGC 2 cut(s) 930, 990
ApoI RAATTY 4 cut(s) 372, 655, 794, 1181
Asp718I GGTACC 1 cut(s) 247
AspS9I GGNCC 3 cut(s) 263, 712, 818
AsuC2I CCSGG 1 cut(s) 627
AsuHPI GGTGA 3 cut(s) 436, 647, 1156
AvaI CYCGRG 1 cut(s) 1167
AvaII GGWCC 2 cut(s) 712, 818
BanI GGYRCC 1 cut(s) 247
BanII GRGCYC 2 cut(s) 495, 563
BauI CACGAG 1 cut(s) 461
Bbv12I GWGCWC 1 cut(s) 495
BbvI GCAGC 2 cut(s) 917, 1002
BccI CCATC 2 cut(s) 411, 1148
BcnI CCSGG 1 cut(s) 627
BcoDI GTCTC 1 cut(s) 464
BfaI CTAG 1 cut(s) 228
BfmI CTRYAG 1 cut(s) 931
BisI GCNGC 4 cut(s) 123, 266, 931, 991
BlsI GCNGC 4 cut(s) 124, 267, 932, 992
Bme1390I CCNGG 1 cut(s) 627
Bme18I GGWCC 2 cut(s) 712, 818
BmeT110I CYCGRG 1 cut(s) 1167
BmgBI CACGTC 1 cut(s) 179
BmgT120I GGNCC 3 cut(s) 263, 712, 818
BmiI GGNNCC 3 cut(s) 218, 249, 948
BmrFI CCNGG 1 cut(s) 627
BmsI GCATC 2 cut(s) 475, 1092
BpmI CTGGAG 2 cut(s) 221, 347
BpuMI CCSGG 1 cut(s) 627
BsaHI GRCGYC 1 cut(s) 1049
BsaJI CCNNGG 2 cut(s) 273, 626
BsaWI WCCGGW 1 cut(s) 244
Bsc4I CCNNNNNNNGG 2 cut(s) 244, 632
Bse118I RCCGGY 1 cut(s) 219
Bse1I ACTGG 2 cut(s) 17, 715
BseDI CCNNGG 2 cut(s) 273, 626
BseGI GGATG 3 cut(s) 422, 466, 1159
BseLI CCNNNNNNNGG 2 cut(s) 244, 632
BseMII CTCAG 1 cut(s) 120
BseNI ACTGG 2 cut(s) 17, 715
BseXI GCAGC 2 cut(s) 917, 1002
BseYI CCCAGC 2 cut(s) 631, 860
BsgI GTGCAG 1 cut(s) 117
Bsh1236I CGCG 1 cut(s) 519
BshFI GGCC 1 cut(s) 265
BshNI GGYRCC 1 cut(s) 247
BsiHKAI GWGCWC 1 cut(s) 495
BsiHKCI CYCGRG 1 cut(s) 1167
BsiSI CCGG 3 cut(s) 220, 245, 626
BsiWI CGTACG 1 cut(s) 18
BslI CCNNNNNNNGG 2 cut(s) 244, 632
BsmAI GTCTC 1 cut(s) 464
BsnI GGCC 1 cut(s) 265
BsoBI CYCGRG 1 cut(s) 1167
Bsp1286I GDGCHC 2 cut(s) 495, 563
Bsp1407I TGTACA 1 cut(s) 502
Bsp143I GATC 3 cut(s) 116, 345, 694
BspACI CCGC 2 cut(s) 123, 266
BspANI GGCC 1 cut(s) 265
BspCNI CTCAG 1 cut(s) 121
BspFNI CGCG 1 cut(s) 519
BspHI TCATGA 1 cut(s) 1092
BspLI GGNNCC 3 cut(s) 218, 249, 948
BspMAI CTGCAG 1 cut(s) 935
BspPI GGATC 1 cut(s) 702
BspQI GCTCTTC 1 cut(s) 27
BspT107I GGYRCC 1 cut(s) 247
BsrFI RCCGGY 1 cut(s) 219
BsrGI TGTACA 1 cut(s) 502
BsrI ACTGG 2 cut(s) 17, 715
BssAI RCCGGY 1 cut(s) 219
BssECI CCNNGG 2 cut(s) 273, 626
BssMI GATC 3 cut(s) 116, 345, 694
BssNI GRCGYC 1 cut(s) 1049
BssSI CACGAG 1 cut(s) 461
BssT1I CCWWGG 1 cut(s) 273
Bst2BI CACGAG 1 cut(s) 461
Bst4CI ACNGT 3 cut(s) 323, 507, 669
Bst6I CTCTTC 1 cut(s) 27
BstACI GRCGYC 1 cut(s) 1049
BstAUI TGTACA 1 cut(s) 502
BstC8I GCNNGC 2 cut(s) 285, 1073
BstDEI CTNAG 2 cut(s) 129, 1016
BstF5I GGATG 3 cut(s) 422, 466, 1159
BstFNI CGCG 1 cut(s) 519
BstKTI GATC 3 cut(s) 119, 348, 697
BstMAI GTCTC 1 cut(s) 464
BstMBI GATC 3 cut(s) 116, 345, 694
BstSCI CCNGG 1 cut(s) 625
BstSFI CTRYAG 1 cut(s) 931
BstUI CGCG 1 cut(s) 519
BstV1I GCAGC 2 cut(s) 917, 1002
BstX2I RGATCY 1 cut(s) 694
BstXI CCANNNNNNTGG 1 cut(s) 740
BstYI RGATCY 1 cut(s) 694
BsuRI GGCC 1 cut(s) 265
BtrI CACGTC 1 cut(s) 179
BtsCI GGATG 3 cut(s) 422, 466, 1159
BtsIMutI CAGTG 1 cut(s) 126
Cac8I GCNNGC 2 cut(s) 285, 1073
CciI TCATGA 1 cut(s) 1092
Cfr10I RCCGGY 1 cut(s) 219
Cfr13I GGNCC 3 cut(s) 263, 712, 818
CseI GACGC 1 cut(s) 1038
Csp6I GTAC 5 cut(s) 19, 248, 503, 730, 1123
CviAII CATG 5 cut(s) 111, 397, 479, 589, 1093
CviQI GTAC 5 cut(s) 19, 248, 503, 730, 1123
DdeI CTNAG 2 cut(s) 129, 1016
DpnI GATC 3 cut(s) 118, 347, 696
DpnII GATC 3 cut(s) 116, 345, 694
DraI TTTAAA 2 cut(s) 474, 1143
DraIII CACNNNGTG 1 cut(s) 903
Eam1104I CTCTTC 1 cut(s) 27
EarI CTCTTC 1 cut(s) 27
Ecl136II GAGCTC 1 cut(s) 493
Eco130I CCWWGG 1 cut(s) 273
Eco24I GRGCYC 2 cut(s) 495, 563
Eco47I GGWCC 2 cut(s) 712, 818
Eco53kI GAGCTC 1 cut(s) 493
Eco57I CTGAAG 1 cut(s) 51
Eco88I CYCGRG 1 cut(s) 1167
EcoICRI GAGCTC 1 cut(s) 493
EcoO109I RGGNCCY 1 cut(s) 818
EcoT14I CCWWGG 1 cut(s) 273
EcoT38I GRGCYC 2 cut(s) 495, 563
ErhI CCWWGG 1 cut(s) 273
FaeI CATG 5 cut(s) 114, 400, 482, 592, 1096
FalI AAGNNNNNCTT 2 cut(s) 533, 565
FatI CATG 5 cut(s) 110, 396, 478, 588, 1092
Fnu4HI GCNGC 4 cut(s) 123, 266, 931, 991
FokI GGATG 3 cut(s) 429, 453, 1166
FriOI GRGCYC 2 cut(s) 495, 563
Fsp4HI GCNGC 4 cut(s) 123, 266, 931, 991
FspBI CTAG 1 cut(s) 228
GluI GCNGC 4 cut(s) 123, 266, 931, 991
GsaI CCCAGC 2 cut(s) 635, 864
GsuI CTGGAG 2 cut(s) 221, 347
HaeIII GGCC 1 cut(s) 265
HapII CCGG 3 cut(s) 220, 245, 626
HgaI GACGC 1 cut(s) 1038
Hin1I GRCGYC 1 cut(s) 1049
Hin1II CATG 5 cut(s) 114, 400, 482, 592, 1096
HinfI GANTC 8 cut(s) 68, 241, 457, 854, 977, 1199, 1209, 1222
HpaII CCGG 3 cut(s) 220, 245, 626
HphI GGTGA 3 cut(s) 436, 647, 1156
Hpy166II GTNNAC 1 cut(s) 885
Hpy188I TCNGA 4 cut(s) 436, 577, 982, 1054
Hpy188III TCNNGA 8 cut(s) 29, 238, 290, 326, 800, 1062, 1093, 1203
Hpy8I GTNNAC 1 cut(s) 885
HpyAV CCTTC 2 cut(s) 573, 1045
HpyCH4III ACNGT 3 cut(s) 323, 507, 669
HpyCH4IV ACGT 1 cut(s) 178
HpyCH4V TGCA 9 cut(s) 76, 98, 105, 161, 466, 621, 933, 1071, 1083
HpyF3I CTNAG 2 cut(s) 129, 1016
HpySE526I ACGT 1 cut(s) 178
Hsp92I GRCGYC 1 cut(s) 1049
Hsp92II CATG 5 cut(s) 114, 400, 482, 592, 1096
KpnI GGTACC 1 cut(s) 251
Kzo9I GATC 3 cut(s) 116, 345, 694
LguI GCTCTTC 1 cut(s) 27
LmnI GCTCC 2 cut(s) 498, 793
Lsp1109I GCAGC 2 cut(s) 917, 1002
LweI GCATC 2 cut(s) 475, 1092
MaeI CTAG 1 cut(s) 228
MaeII ACGT 1 cut(s) 178
MalI GATC 3 cut(s) 118, 347, 696
MboI GATC 3 cut(s) 116, 345, 694
MboII GAAGA 6 cut(s) 44, 305, 399, 782, 1023, 1208
MfeI CAATTG 1 cut(s) 1078
MflI RGATCY 1 cut(s) 694
MhlI GDGCHC 2 cut(s) 495, 563
MlyI GAGTC 2 cut(s) 466, 971
MmeI TCCRAC 1 cut(s) 954
MseI TTAA 6 cut(s) 173, 360, 473, 762, 834, 1142
MslI CAYNNNNRTG 2 cut(s) 587, 738
MspA1I CMGCKG 1 cut(s) 860
MspI CCGG 3 cut(s) 220, 245, 626
MspR9I CCNGG 1 cut(s) 627
MunI CAATTG 1 cut(s) 1078
MvnI CGCG 1 cut(s) 519
NciI CCSGG 1 cut(s) 627
NdeII GATC 3 cut(s) 116, 345, 694
NlaIII CATG 5 cut(s) 114, 400, 482, 592, 1096
NlaIV GGNNCC 3 cut(s) 218, 249, 948
PagI TCATGA 1 cut(s) 1092
PciSI GCTCTTC 1 cut(s) 27
PfeI GAWTC 6 cut(s) 68, 241, 854, 1199, 1209, 1222
Pfl23II CGTACG 1 cut(s) 18
PkrI GCNGC 4 cut(s) 124, 267, 932, 992
PleI GAGTC 2 cut(s) 465, 971
PpsI GAGTC 2 cut(s) 465, 971
PpuMI RGGWCCY 1 cut(s) 818
PsiI TTATAA 1 cut(s) 354
Psp124BI GAGCTC 1 cut(s) 495
Psp5II RGGWCCY 1 cut(s) 818
PspFI CCCAGC 2 cut(s) 631, 860
PspLI CGTACG 1 cut(s) 18
PspN4I GGNNCC 3 cut(s) 218, 249, 948
PspPI GGNCC 3 cut(s) 263, 712, 818
PspPPI RGGWCCY 1 cut(s) 818
PsrI GAACNNNNNNTAC 2 cut(s) 1012, 1044
PstI CTGCAG 1 cut(s) 935
PsuI RGATCY 1 cut(s) 694
PvuII CAGCTG 1 cut(s) 860
RsaI GTAC 5 cut(s) 20, 249, 504, 731, 1124
RsaNI GTAC 5 cut(s) 19, 248, 503, 730, 1123
RseI CAYNNNNRTG 2 cut(s) 587, 738
SacI GAGCTC 1 cut(s) 495
SapI GCTCTTC 1 cut(s) 27
SaqAI TTAA 6 cut(s) 173, 360, 473, 762, 834, 1142
SatI GCNGC 4 cut(s) 123, 266, 931, 991
Sau3AI GATC 3 cut(s) 116, 345, 694
Sau96I GGNCC 3 cut(s) 263, 712, 818
SchI GAGTC 2 cut(s) 466, 971
ScrFI CCNGG 1 cut(s) 627
SduI GDGCHC 2 cut(s) 495, 563
SfaNI GCATC 2 cut(s) 475, 1092
SfcI CTRYAG 1 cut(s) 931
SinI GGWCC 2 cut(s) 712, 818
SmiMI CAYNNNNRTG 2 cut(s) 587, 738
SsiI CCGC 2 cut(s) 123, 266
SspMI CTAG 1 cut(s) 228
SstI GAGCTC 1 cut(s) 495
StyD4I CCNGG 1 cut(s) 625
StyI CCWWGG 1 cut(s) 273
TaaI ACNGT 3 cut(s) 323, 507, 669
TaiI ACGT 1 cut(s) 181
TaqI TCGA 3 cut(s) 312, 557, 1044
TatI WGTACW 2 cut(s) 502, 1122
TauI GCSGC 2 cut(s) 125, 268
TfiI GAWTC 6 cut(s) 68, 241, 854, 1199, 1209, 1222
Tru1I TTAA 6 cut(s) 173, 360, 473, 762, 834, 1142
Tru9I TTAA 6 cut(s) 173, 360, 473, 762, 834, 1142
TscAI CASTG 1 cut(s) 133
TseI GCWGC 2 cut(s) 930, 990
TspDTI ATGAA 5 cut(s) 584, 1081, 1109, 1178, 1209
TspRI CASTG 1 cut(s) 133
VpaK11BI GGWCC 2 cut(s) 712, 818
XapI RAATTY 4 cut(s) 372, 655, 794, 1181
XcmI CCANNNNNNNNNTGG 1 cut(s) 210
XspI CTAG 1 cut(s) 228
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.