Rorug03G0354700

mediator of RNA polymerase II transcription subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000003
OG0008407
Physical Location & Seq
Forward (+)
43862272 .. 43874311
12040 bp
Loading structure...
UTR
Exon/CDS
Intron
Rorug03G0354700.1

Sequence Viewer

Length: 1110 bp
ATGGAGATATTAAGTAACACAATTGCAAATAACCCCACTCAAGATGCATTAACAGAGTTTGTCAGGGCTAAAAACCCAGAGATTTTATGTATAGCGGAGCCTTTTGTCTCTTTGGAGTCTATTCCTCTGTCTTTCTGGAATACTCTAGGCTTGCGGGTGGTATGCACTAATGATCGAGGTTCATTAAGGCCGAATTTATGGGTTTTTTGTAGAGTCTCTCTTATACCTTGGGTTCGAGTGCTATCTGTCTCGGAACAACAGGTTTCTCTGCAAGTAATGTTTGATGGAGTTAATTGTTTTATTACTGCAGTGTATGCTCGTACTACAATGGTAGGTCGGCGCCAATTATGGGAGGATATCGCTATGGTGAAGGGAAGTTTTGTAACTGGTCCATGGTTGGTTTTTGGTGATTTCAATGTAGTTCTAGGTGCTCATGAAAAGAAAGGTGGGGCTCCTCTTTGTATGCGCTCATGTGAGGAGTTTCAGGCAATGTCAGATGTGTGTGAACTTGTTCATGTTGATACTAAAGGTGCTGAATTTACATGGGTGCGCAGAAGAGGTATTCGGGGAAATGTAGAGTTACGTTTGGATAGGAGTTTGGCTAATCTGGAGTGGTTGGCTGCTTGGGATCAATTTGATTGTCGCACTTTGCCACGAATCTGCTCTGATCATAATCCACTTCTTATGTCTTTCTCAAAATTTTCAGATTCTCATCACAGTCTTTTTCACTTCCGGAAGATGTGGTTGGAACATAATGATTTTATGAACTTTGTTAAGGGTTGTTGGTCATCAGCTCACTCTTTGGGCTGCCCTCTAACTATTCTTCAGCACAAGTTACGCATCTTACGGAAAGCTCTTAGAAAATGGAATTGGGAGGTTTTTGGGGATGTTCATTGCAGAGTTAAAAAGGATCTTGAGGCTTTAGCTGATATTCAAAGAGTCATTGCGTCTTCTGGTGGGAGTGATGATGAGTATGCAAAGGAGAACGAGATACAAGCTAATTTGAATGATTCACTTCGGGCACAAGAGATTTTTTTTCCGGGAAAAGTCAAGGTTGCGGTGGTTATCTGCGGGGGACCGAAATTCTTCTTTTTTCCATGCTATGTGTAG
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
No domains found.

Protein Analysis

369

Amino Acids

42.11

Weight (kDa)

7.92

Isoelectric Point (pI)

40.51

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Exo_endo_phos PF03372 9 - 224 7e-07 Endonuclease/Exonuclease/phosphatase family
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc16I TGCGCA 1 cut(s) 551
AccB1I GGYRCC 1 cut(s) 339
AccIII TCCGGA 1 cut(s) 732
AciI CCGC 4 cut(s) 95, 154, 1058, 1071
AclWI GGATC 2 cut(s) 636, 918
AcsI RAATTY 4 cut(s) 193, 536, 698, 1082
AcuI CTGAAG 1 cut(s) 809
AcyI GRCGYC 1 cut(s) 340
AfaI GTAC 1 cut(s) 322
AfiI CCNNNNNNNGG 1 cut(s) 349
AgsI TTSAA 3 cut(s) 415, 935, 1006
AjuI GAANNNNNNNTTGG 4 cut(s) 728, 760, 853, 885
AluBI AGCT 4 cut(s) 794, 854, 926, 998
AluI AGCT 4 cut(s) 794, 854, 926, 998
Alw21I GWGCWC 1 cut(s) 433
Alw26I GTCTC 3 cut(s) 112, 220, 253
AlwI GGATC 2 cut(s) 636, 918
Aor13HI TCCGGA 1 cut(s) 732
AoxI GGCC 1 cut(s) 188
ApeKI GCWGC 2 cut(s) 620, 807
ApoI RAATTY 4 cut(s) 193, 536, 698, 1082
Asp700I GAANNNNTTC 2 cut(s) 510, 1085
AspLEI GCGC 3 cut(s) 342, 468, 552
AspS9I GGNCC 2 cut(s) 389, 1076
AsuC2I CCSGG 1 cut(s) 1041
AsuHPI GGTGA 2 cut(s) 379, 419
AvaII GGWCC 2 cut(s) 389, 1076
BaeGI GKGCMC 1 cut(s) 1024
BanI GGYRCC 1 cut(s) 339
BanII GRGCYC 1 cut(s) 454
BbsI GAAGAC 1 cut(s) 942
Bbv12I GWGCWC 1 cut(s) 433
BbvI GCAGC 2 cut(s) 607, 794
BccI CCATC 1 cut(s) 278
BclI TGATCA 1 cut(s) 667
BcnI CCSGG 1 cut(s) 1041
BcoDI GTCTC 3 cut(s) 112, 220, 253
BfaI CTAG 2 cut(s) 146, 425
BfmI CTRYAG 1 cut(s) 306
BfoI RGCGCY 1 cut(s) 343
BisI GCNGC 2 cut(s) 621, 808
BlsI GCNGC 2 cut(s) 622, 809
Bme1390I CCNGG 1 cut(s) 1041
Bme18I GGWCC 2 cut(s) 389, 1076
BmgT120I GGNCC 2 cut(s) 389, 1076
BmiI GGNNCC 4 cut(s) 99, 341, 453, 1077
BmrFI CCNGG 1 cut(s) 1041
BmsI GCATC 2 cut(s) 34, 849
BpiI GAAGAC 1 cut(s) 942
BpmI CTGGAG 1 cut(s) 629
BpuEI CTTGAG 2 cut(s) 24, 935
BpuMI CCSGG 1 cut(s) 1041
BsaBI GATNNNNATC 2 cut(s) 672, 711
BsaHI GRCGYC 1 cut(s) 340
BsaJI CCNNGG 2 cut(s) 227, 392
BsaWI WCCGGW 1 cut(s) 732
Bsc4I CCNNNNNNNGG 1 cut(s) 349
Bse1I ACTGG 1 cut(s) 391
Bse3DI GCAATG 3 cut(s) 495, 892, 942
Bse8I GATNNNNATC 2 cut(s) 672, 711
BseAI TCCGGA 1 cut(s) 732
BseDI CCNNGG 2 cut(s) 227, 392
BseGI GGATG 1 cut(s) 892
BseJI GATNNNNATC 2 cut(s) 672, 711
BseLI CCNNNNNNNGG 1 cut(s) 349
BseMI GCAATG 3 cut(s) 495, 892, 942
BseNI ACTGG 1 cut(s) 391
BseRI GAGGAG 2 cut(s) 444, 491
BseSI GKGCMC 1 cut(s) 1024
BseXI GCAGC 2 cut(s) 607, 794
BshFI GGCC 1 cut(s) 190
BshNI GGYRCC 1 cut(s) 339
BsiHKAI GWGCWC 1 cut(s) 433
BsiSI CCGG 2 cut(s) 733, 1040
BslFI GGGAC 1 cut(s) 1089
BslI CCNNNNNNNGG 1 cut(s) 349
BsmAI GTCTC 3 cut(s) 112, 220, 253
BsmFI GGGAC 1 cut(s) 1089
BsnI GGCC 1 cut(s) 190
Bsp1286I GDGCHC 3 cut(s) 433, 454, 1024
Bsp13I TCCGGA 1 cut(s) 732
Bsp143I GATC 4 cut(s) 172, 628, 667, 910
Bsp19I CCATGG 1 cut(s) 392
BspACI CCGC 4 cut(s) 95, 154, 1058, 1071
BspANI GGCC 1 cut(s) 190
BspEI TCCGGA 1 cut(s) 732
BspHI TCATGA 1 cut(s) 433
BspLI GGNNCC 4 cut(s) 99, 341, 453, 1077
BspMAI CTGCAG 1 cut(s) 310
BspPI GGATC 2 cut(s) 636, 918
BspT107I GGYRCC 1 cut(s) 339
BsrDI GCAATG 3 cut(s) 495, 892, 942
BsrI ACTGG 1 cut(s) 391
BssECI CCNNGG 2 cut(s) 227, 392
BssMI GATC 4 cut(s) 172, 628, 667, 910
BssNI GRCGYC 1 cut(s) 340
BssT1I CCWWGG 2 cut(s) 227, 392
Bst4CI ACNGT 1 cut(s) 719
Bst6I CTCTTC 1 cut(s) 550
BstACI GRCGYC 1 cut(s) 340
BstAPI GCANNNNNTGC 1 cut(s) 314
BstC8I GCNNGC 1 cut(s) 152
BstDEI CTNAG 1 cut(s) 857
BstDSI CCRYGG 1 cut(s) 392
BstF5I GGATG 1 cut(s) 892
BstH2I RGCGCY 1 cut(s) 343
BstHHI GCGC 3 cut(s) 342, 468, 552
BstKTI GATC 4 cut(s) 175, 631, 670, 913
BstMAI GTCTC 3 cut(s) 112, 220, 253
BstMBI GATC 4 cut(s) 172, 628, 667, 910
BstMWI GCNNNNNNNGC 1 cut(s) 314
BstSCI CCNGG 1 cut(s) 1039
BstSFI CTRYAG 1 cut(s) 306
BstSLI GKGCMC 1 cut(s) 1024
BstV1I GCAGC 2 cut(s) 607, 794
BstV2I GAAGAC 1 cut(s) 942
BstX2I RGATCY 1 cut(s) 910
BstYI RGATCY 1 cut(s) 910
BsuRI GGCC 1 cut(s) 190
BtgI CCRYGG 1 cut(s) 392
BtsCI GGATG 1 cut(s) 892
BtsI GCAGTG 1 cut(s) 315
BtsIMutI CAGTG 1 cut(s) 315
Cac8I GCNNGC 1 cut(s) 152
CciI TCATGA 1 cut(s) 433
CfoI GCGC 3 cut(s) 342, 468, 552
Cfr13I GGNCC 2 cut(s) 389, 1076
CseI GACGC 1 cut(s) 936
Csp6I GTAC 1 cut(s) 321
CviAII CATG 6 cut(s) 393, 434, 471, 515, 543, 1098
CviQI GTAC 1 cut(s) 321
DdeI CTNAG 1 cut(s) 857
DinI GGCGCC 1 cut(s) 341
DpnI GATC 4 cut(s) 174, 630, 669, 912
DpnII GATC 4 cut(s) 172, 628, 667, 910
Eam1104I CTCTTC 1 cut(s) 550
EarI CTCTTC 1 cut(s) 550
Eco130I CCWWGG 2 cut(s) 227, 392
Eco24I GRGCYC 1 cut(s) 454
Eco32I GATATC 1 cut(s) 358
Eco47I GGWCC 2 cut(s) 389, 1076
Eco57I CTGAAG 1 cut(s) 809
EcoRV GATATC 1 cut(s) 358
EcoT14I CCWWGG 2 cut(s) 227, 392
EcoT22I ATGCAT 1 cut(s) 49
EcoT38I GRGCYC 1 cut(s) 454
EgeI GGCGCC 1 cut(s) 341
EheI GGCGCC 1 cut(s) 341
ErhI CCWWGG 2 cut(s) 227, 392
FaeI CATG 6 cut(s) 396, 437, 474, 518, 546, 1101
FaqI GGGAC 1 cut(s) 1089
FatI CATG 6 cut(s) 392, 433, 470, 514, 542, 1097
FauI CCCGC 2 cut(s) 147, 1064
FbaI TGATCA 1 cut(s) 667
Fnu4HI GCNGC 2 cut(s) 621, 808
FokI GGATG 1 cut(s) 899
FriOI GRGCYC 1 cut(s) 454
Fsp4HI GCNGC 2 cut(s) 621, 808
FspBI CTAG 2 cut(s) 146, 425
FspI TGCGCA 1 cut(s) 551
GlaI GCGC 3 cut(s) 341, 467, 551
GluI GCNGC 2 cut(s) 621, 808
GsuI CTGGAG 1 cut(s) 629
HaeII RGCGCY 1 cut(s) 343
HaeIII GGCC 1 cut(s) 190
HapII CCGG 2 cut(s) 733, 1040
HgaI GACGC 1 cut(s) 936
HhaI GCGC 3 cut(s) 342, 468, 552
Hin1I GRCGYC 1 cut(s) 340
Hin1II CATG 6 cut(s) 396, 437, 474, 518, 546, 1101
Hin6I GCGC 3 cut(s) 340, 466, 550
HinP1I GCGC 3 cut(s) 340, 466, 550
HinfI GANTC 6 cut(s) 116, 213, 657, 707, 939, 1010
HpaII CCGG 2 cut(s) 733, 1040
HphI GGTGA 2 cut(s) 379, 419
Hpy166II GTNNAC 1 cut(s) 506
Hpy188I TCNGA 4 cut(s) 253, 496, 667, 706
Hpy188III TCNNGA 6 cut(s) 41, 136, 434, 608, 733, 914
Hpy8I GTNNAC 1 cut(s) 506
HpyAV CCTTC 1 cut(s) 364
HpyCH4III ACNGT 1 cut(s) 719
HpyCH4IV ACGT 1 cut(s) 583
HpyCH4V TGCA 7 cut(s) 26, 47, 165, 271, 308, 897, 977
HpyF10VI GCNNNNNNNGC 1 cut(s) 314
HpyF3I CTNAG 1 cut(s) 857
HpySE526I ACGT 1 cut(s) 583
Hsp92I GRCGYC 1 cut(s) 340
Hsp92II CATG 6 cut(s) 396, 437, 474, 518, 546, 1101
HspAI GCGC 3 cut(s) 340, 466, 550
KasI GGCGCC 1 cut(s) 339
Kpn2I TCCGGA 1 cut(s) 732
Ksp22I TGATCA 1 cut(s) 667
Kzo9I GATC 4 cut(s) 172, 628, 667, 910
LmnI GCTCC 2 cut(s) 97, 457
Lsp1109I GCAGC 2 cut(s) 607, 794
LweI GCATC 2 cut(s) 34, 849
MaeI CTAG 2 cut(s) 146, 425
MaeII ACGT 1 cut(s) 583
MaeIII GTNAC 4 cut(s) 14, 382, 579, 834
MalI GATC 4 cut(s) 174, 630, 669, 912
MboI GATC 4 cut(s) 172, 628, 667, 910
MboII GAAGA 5 cut(s) 567, 748, 815, 942, 1078
MfeI CAATTG 1 cut(s) 21
MflI RGATCY 1 cut(s) 910
MhlI GDGCHC 3 cut(s) 433, 454, 1024
Mly113I GGCGCC 1 cut(s) 340
MlyI GAGTC 3 cut(s) 125, 222, 948
MmeI TCCRAC 1 cut(s) 726
MnlI CCTC 9 cut(s) 135, 170, 346, 465, 469, 551, 822, 868, 910
Mph1103I ATGCAT 1 cut(s) 49
MroI TCCGGA 1 cut(s) 732
MroXI GAANNNNTTC 2 cut(s) 510, 1085
MseI TTAA 6 cut(s) 11, 50, 185, 291, 774, 903
MspI CCGG 2 cut(s) 733, 1040
MspR9I CCNGG 1 cut(s) 1041
MunI CAATTG 1 cut(s) 21
MwoI GCNNNNNNNGC 1 cut(s) 314
NarI GGCGCC 1 cut(s) 340
NciI CCSGG 1 cut(s) 1041
NcoI CCATGG 1 cut(s) 392
NdeII GATC 4 cut(s) 172, 628, 667, 910
NlaIII CATG 6 cut(s) 396, 437, 474, 518, 546, 1101
NlaIV GGNNCC 4 cut(s) 99, 341, 453, 1077
NsbI TGCGCA 1 cut(s) 551
NsiI ATGCAT 1 cut(s) 49
PagI TCATGA 1 cut(s) 433
PdmI GAANNNNTTC 2 cut(s) 510, 1085
PfeI GAWTC 3 cut(s) 657, 707, 1010
PfoI TCCNGGA 1 cut(s) 1039
PkrI GCNGC 2 cut(s) 622, 809
PleI GAGTC 3 cut(s) 124, 221, 947
PluTI GGCGCC 1 cut(s) 343
PpsI GAGTC 3 cut(s) 124, 221, 947
PspN4I GGNNCC 4 cut(s) 99, 341, 453, 1077
PspPI GGNCC 2 cut(s) 389, 1076
PstI CTGCAG 1 cut(s) 310
PsuI RGATCY 1 cut(s) 910
RsaI GTAC 1 cut(s) 322
RsaNI GTAC 1 cut(s) 321
SaqAI TTAA 6 cut(s) 11, 50, 185, 291, 774, 903
SatI GCNGC 2 cut(s) 621, 808
Sau3AI GATC 4 cut(s) 172, 628, 667, 910
Sau96I GGNCC 2 cut(s) 389, 1076
SchI GAGTC 3 cut(s) 125, 222, 948
ScrFI CCNGG 1 cut(s) 1041
SduI GDGCHC 3 cut(s) 433, 454, 1024
SfaNI GCATC 2 cut(s) 34, 849
SfcI CTRYAG 1 cut(s) 306
SfoI GGCGCC 1 cut(s) 341
SinI GGWCC 2 cut(s) 389, 1076
SmlI CTYRAG 2 cut(s) 39, 914
SmoI CTYRAG 2 cut(s) 39, 914
SsiI CCGC 4 cut(s) 95, 154, 1058, 1071
SspDI GGCGCC 1 cut(s) 339
SspMI CTAG 2 cut(s) 146, 425
StyD4I CCNGG 1 cut(s) 1039
StyI CCWWGG 2 cut(s) 227, 392
TaaI ACNGT 1 cut(s) 719
TaiI ACGT 1 cut(s) 586
TaqI TCGA 2 cut(s) 175, 235
TaqII GACCGA 1 cut(s) 1093
TfiI GAWTC 3 cut(s) 657, 707, 1010
Tru1I TTAA 6 cut(s) 11, 50, 185, 291, 774, 903
Tru9I TTAA 6 cut(s) 11, 50, 185, 291, 774, 903
TscAI CASTG 1 cut(s) 315
TseI GCWGC 2 cut(s) 620, 807
TspDTI ATGAA 5 cut(s) 171, 450, 503, 779, 881
TspGWI ACGGA 1 cut(s) 862
TspRI CASTG 1 cut(s) 315
VpaK11BI GGWCC 2 cut(s) 389, 1076
XapI RAATTY 4 cut(s) 193, 536, 698, 1082
XmnI GAANNNNTTC 2 cut(s) 510, 1085
XspI CTAG 2 cut(s) 146, 425
Zsp2I ATGCAT 1 cut(s) 49
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.