Rorug03G0036600

mediator of RNA polymerase II transcription subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000003
OG0000661
Physical Location & Seq
Forward (+)
2933517 .. 2937330
3814 bp
Loading structure...
UTR
Exon/CDS
Intron
Rorug03G0036600.1

Sequence Viewer

Length: 1152 bp
ATGGCAATAACTGCTTCTTTGCTCCAACCCAATCCCCTCAAATGGAACCAAACCCACCCTCTTCTCTTCTCCCCTTCCCGCCCCAACATACTCAAACTCAACACCCCGCAATCTTTCAAGCTCAAATGCTCCTTCTCCGAATCCAAACCACAGCTCGTGTCAGTGAAACCGAACCCAATAGAGGTTTTGGCAGATAAGCTCTTGAAGGCTCTGAAAGCGCTGAGGAAGCCCGCAATGGCGGCGGTGCTGTTGGGCCTGGTGTTGATGTCCGACCCGAACTCCGCTTTAGCCGCCTCGGGCGGTCGGGTCGGGGGTCAGGCCTTCTCGTCGCGCTCGGGTTCTTCGTCGTCGTCGTCGAGGAGTTACTCGGTGCCGAGGACGTCGAGGCCGGATTACTCGTACTCTGCGCCGTACTACGCGCCGTCGCCGTTCGGGTTTAGTGGCGGTGGAGGCGGGTTTTATATGGGCCCGGCCGTCGGGGTCGGAGTCGGGGCCGGGTCGAGTTTCCTTCTGATTCTGACGGGTTTTGCGGCGTTTGTTTTGGTTTCGGGTTTTCTTTCGGATCGGTCTGAGGGGAGTGTGCTTACTGCTACTGAGAAAACTACTGTTTTGAAGTTGCAGGTTGGGTTGTTAGGATTGGGGCGAACACTACAAAGGGATCTTGATCGGATTGCTGATACTGCAGATACTTCCACCCCCGAGGGATTGAGCTATGTTCTGACAGAAACAACACTAGCATTGCTTAGGCATCCTGATTATTGCATCTCGGGTTATTCATCGGTGTCTCTGAAGCGAAGCATAGAGGATGCAGAGAAAGGCTTCAATCAACTTTCTATTGAAGAAAGGGGTAAATTTGATGAAGAGACACTTGTCAATGTGAACAGCATAAGAAGGCGGAGCTCAACAAGCCAGAGATCTAATGGATTCCGCAATGAATACATAGTGATAACAATATTGGTGGCTGCTGAAGGTGTGCATAAGTTACCCGCCATCAATGGTAGTGGTGACTTGAGGGAAGCATTGCAGAAGCTTGCATCCATTCCCTCGAACAAAATATTAGCAGTAGAGGTGTTGTGGACTCCTCAGAATGAAAATGACACTCTGTCGGAGCGTGAGCTACTTGAAGATTACCCGCTTCTGAGGCCTTTGTGA
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

383

Amino Acids

41.16

Weight (kDa)

9.18

Isoelectric Point (pI)

56.5

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
DUF1517 PF07466 201 - 383 7.3e-70 Protein of unknown function (DUF1517)
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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Orthologous Genes (Group: OG0000661)

Species Orthologous Gene IDs
arabidopsis_thaliana AT5G10010
fragaria_vesca FvH4_6g03222 FvH4_6g03560 FvH4_6g03561 FvH4_6g03563 FvH4_6g03590 FvH4_6g03590 FvH4_6g09260
malus_domestica MD04G1220200.v1.1 MD12G1240700.v1.1 MD15G1083500.v1.1
prunus_persica Prupe.1G436000_v2.0.a1 Prupe.6G174800_v2.0.a1 Prupe.6G339200_v2.0.a1
pyrus_communis pycom08g08260 pycom15g07800 pycom15g07810
rosa_chinensis RchiOBHm_Chr3g0451551 RchiOBHm_Chr3g0451591 RchiOBHm_Chr3g0451621 RchiOBHm_Chr3g0452131 RchiOBHm_Chr3g0459621
rosa_laevigata RLG00000025074 RLG00000025077 RLG00000025626 RLG00000029505 RLG00000035382 RLG00000035384
rosa_multiflora Rmu_co8173672.1_g000001 Rmu_sc0000240.1_g000011 Rmu_sc0000240.1_g000014 Rmu_sc0004924.1_g000012 Rmu_sc0004924.1_g000020 Rmu_sc0004924.1_g000023 Rmu_sc0004924.1_g000025 Rmu_sc0004924.1_g000034 Rmu_sc0004924.1_g000035 Rmu_sc0009360.1_g000006 Rmu_sc0009360.1_g000008 Rmu_sc0009360.1_g000014 Rmu_sc0009360.1_g000047 Rmu_sc0011887.1_g000001 Rmu_sc0015119.1_g000001 Rmu_sc0023706.1_g000002
rosa_roxburghii Rroxscaffold_164G00436050 Rroxscaffold_164G00436390 Rroxscaffold_164G00436450 Rroxscaffold_164G00436460 Rroxscaffold_4G00317080 Rroxscaffold_4G00317090 Rroxscaffold_6G00420140 Rroxscaffold_6G00428920
rosa_rugosa Rorug02G0634200 Rorug02G0634500 Rorug02G0634700 Rorug02G0635400 Rorug02G0638500 Rorug03G0036600 Rorug03G0036700
rosa_samantha Rh1BG103700 Rh1BG103800 Rh3AG040400 Rh3BG037900 Rh3BG038200 Rh3BG041900 Rh3BG097900 Rh3CG036600 Rh3CG040300 Rh3DG037300 Rh3DG037500 Rh3DG041200 Rh3DG099300
rosa_wichuraiana Rw0G013830 Rw0G017580 Rw0G017600 Rw3G003070

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AatII GACGTC 1 cut(s) 383
Acc36I ACCTGC 1 cut(s) 610
AccB1I GGYRCC 1 cut(s) 370
AccII CGCG 2 cut(s) 331, 419
AclWI GGATC 2 cut(s) 570, 666
AcoI YGGCCR 1 cut(s) 471
AcsI RAATTY 1 cut(s) 851
AcuI CTGAAG 2 cut(s) 809, 987
AcyI GRCGYC 1 cut(s) 380
AfaI GTAC 2 cut(s) 401, 413
AfeI AGCGCT 1 cut(s) 219
AfiI CCNNNNNNNGG 3 cut(s) 42, 181, 476
AgsI TTSAA 6 cut(s) 118, 205, 613, 823, 839, 1124
AhdI GACNNNNNGTC 1 cut(s) 1102
AjnI CCWGG 1 cut(s) 255
AluBI AGCT 7 cut(s) 121, 154, 199, 711, 900, 1030, 1117
AluI AGCT 7 cut(s) 121, 154, 199, 711, 900, 1030, 1117
Alw21I GWGCWC 1 cut(s) 902
Alw26I GTCTC 2 cut(s) 789, 857
AlwI GGATC 2 cut(s) 570, 666
Ama87I CYCGRG 4 cut(s) 295, 334, 698, 766
Aor51HI AGCGCT 1 cut(s) 219
AoxI GGCC 7 cut(s) 253, 318, 386, 466, 471, 492, 1142
ApaI GGGCCC 1 cut(s) 470
ApeKI GCWGC 1 cut(s) 962
ApoI RAATTY 1 cut(s) 851
Asp700I GAANNNNTTC 1 cut(s) 818
AspLEI GCGC 4 cut(s) 220, 333, 409, 421
AspS9I GGNCC 4 cut(s) 253, 466, 467, 492
AsuC2I CCSGG 2 cut(s) 470, 496
AsuHPI GGTGA 1 cut(s) 1016
AvaI CYCGRG 4 cut(s) 295, 334, 698, 766
BaeGI GKGCMC 1 cut(s) 470
BanI GGYRCC 1 cut(s) 370
BanII GRGCYC 2 cut(s) 470, 902
BauI CACGAG 1 cut(s) 155
Bbv12I GWGCWC 1 cut(s) 902
BbvCI CCTCAGC 1 cut(s) 221
BbvI GCAGC 1 cut(s) 949
BccI CCATC 1 cut(s) 998
BceAI ACGGC 4 cut(s) 394, 406, 412, 458
BciT130I CCWGG 1 cut(s) 257
BcnI CCSGG 2 cut(s) 470, 496
BcoDI GTCTC 2 cut(s) 789, 857
BfaI CTAG 1 cut(s) 734
BfmI CTRYAG 1 cut(s) 681
BfoI RGCGCY 1 cut(s) 221
BfuAI ACCTGC 1 cut(s) 610
BglII AGATCT 1 cut(s) 914
BisI GCNGC 4 cut(s) 240, 291, 531, 963
BlsI GCNGC 4 cut(s) 241, 292, 532, 964
Bme1390I CCNGG 3 cut(s) 257, 470, 496
BmeRI GACNNNNNGTC 1 cut(s) 1102
BmeT110I CYCGRG 4 cut(s) 295, 334, 698, 766
BmgT120I GGNCC 4 cut(s) 253, 466, 467, 492
BmiI GGNNCC 4 cut(s) 47, 372, 468, 493
BmrFI CCNGG 3 cut(s) 257, 470, 496
BmsI GCATC 4 cut(s) 757, 771, 796, 1043
BoxI GACNNNNGTC 1 cut(s) 869
Bpu10I CCTNAGC 2 cut(s) 221, 743
BpuEI CTTGAG 1 cut(s) 1030
BpuMI CCSGG 2 cut(s) 470, 496
BsaBI GATNNNNATC 1 cut(s) 663
BsaHI GRCGYC 1 cut(s) 380
BsaJI CCNNGG 3 cut(s) 294, 374, 699
BsaXI ACNNNNNCTCC 2 cut(s) 263, 293
Bsc4I CCNNNNNNNGG 3 cut(s) 42, 181, 476
Bse3DI GCAATG 4 cut(s) 240, 737, 937, 1019
Bse8I GATNNNNATC 1 cut(s) 663
BseBI CCWGG 1 cut(s) 257
BseDI CCNNGG 3 cut(s) 294, 374, 699
BseGI GGATG 3 cut(s) 748, 811, 1034
BseJI GATNNNNATC 1 cut(s) 663
BseLI CCNNNNNNNGG 3 cut(s) 42, 181, 476
BseMI GCAATG 4 cut(s) 240, 737, 937, 1019
BseMII CTCAG 5 cut(s) 212, 561, 585, 1097, 1130
BseRI GAGGAG 2 cut(s) 373, 1071
BseSI GKGCMC 1 cut(s) 470
BseX3I CGGCCG 1 cut(s) 471
BseXI GCAGC 1 cut(s) 949
Bsh1236I CGCG 2 cut(s) 331, 419
Bsh1285I CGRYCG 2 cut(s) 304, 474
BshFI GGCC 7 cut(s) 255, 320, 388, 468, 473, 494, 1144
BshNI GGYRCC 1 cut(s) 370
BsiEI CGRYCG 2 cut(s) 304, 474
BsiHKAI GWGCWC 1 cut(s) 902
BsiHKCI CYCGRG 4 cut(s) 295, 334, 698, 766
BsiSI CCGG 3 cut(s) 389, 470, 495
BslI CCNNNNNNNGG 3 cut(s) 42, 181, 476
BsmAI GTCTC 2 cut(s) 789, 857
BsnI GGCC 7 cut(s) 255, 320, 388, 468, 473, 494, 1144
BsoBI CYCGRG 4 cut(s) 295, 334, 698, 766
Bsp120I GGGCCC 1 cut(s) 466
Bsp1286I GDGCHC 2 cut(s) 470, 902
Bsp143I GATC 4 cut(s) 562, 658, 664, 914
BspANI GGCC 7 cut(s) 255, 320, 388, 468, 473, 494, 1144
BspCNI CTCAG 5 cut(s) 213, 562, 586, 1096, 1131
BspFNI CGCG 2 cut(s) 331, 419
BspLI GGNNCC 4 cut(s) 47, 372, 468, 493
BspMAI CTGCAG 1 cut(s) 685
BspMI ACCTGC 1 cut(s) 610
BspPI GGATC 2 cut(s) 570, 666
BspT107I GGYRCC 1 cut(s) 370
BsrDI GCAATG 4 cut(s) 240, 737, 937, 1019
BssECI CCNNGG 3 cut(s) 294, 374, 699
BssMI GATC 4 cut(s) 562, 658, 664, 914
BssNI GRCGYC 1 cut(s) 380
BssSI CACGAG 1 cut(s) 155
Bst2BI CACGAG 1 cut(s) 155
Bst2UI CCWGG 1 cut(s) 257
Bst4CI ACNGT 1 cut(s) 607
Bst6I CTCTTC 3 cut(s) 66, 71, 855
BstACI GRCGYC 1 cut(s) 380
BstAPI GCANNNNNTGC 1 cut(s) 11
BstC8I GCNNGC 2 cut(s) 231, 1032
BstDEI CTNAG 6 cut(s) 221, 570, 594, 743, 1083, 1139
BstF5I GGATG 3 cut(s) 748, 811, 1034
BstFNI CGCG 2 cut(s) 331, 419
BstH2I RGCGCY 1 cut(s) 221
BstHHI GCGC 4 cut(s) 220, 333, 409, 421
BstKTI GATC 4 cut(s) 565, 661, 667, 917
BstMAI GTCTC 2 cut(s) 789, 857
BstMBI GATC 4 cut(s) 562, 658, 664, 914
BstMCI CGRYCG 2 cut(s) 304, 474
BstMWI GCNNNNNNNGC 9 cut(s) 11, 215, 226, 239, 290, 450, 680, 906, 1141
BstNI CCWGG 1 cut(s) 257
BstPAI GACNNNNGTC 1 cut(s) 869
BstSCI CCNGG 3 cut(s) 255, 468, 494
BstSFI CTRYAG 1 cut(s) 681
BstSLI GKGCMC 1 cut(s) 470
BstUI CGCG 2 cut(s) 331, 419
BstV1I GCAGC 1 cut(s) 949
BstX2I RGATCY 2 cut(s) 658, 914
BstYI RGATCY 2 cut(s) 658, 914
BstZI CGGCCG 1 cut(s) 471
BsuRI GGCC 7 cut(s) 255, 320, 388, 468, 473, 494, 1144
BtsCI GGATG 3 cut(s) 748, 811, 1034
BtsIMutI CAGTG 1 cut(s) 168
BveI ACCTGC 1 cut(s) 610
Cac8I GCNNGC 2 cut(s) 231, 1032
CfoI GCGC 4 cut(s) 220, 333, 409, 421
Cfr13I GGNCC 4 cut(s) 253, 466, 467, 492
Csp6I GTAC 2 cut(s) 400, 412
CspCI CAANNNNNGTGG 4 cut(s) 939, 974, 982, 1017
CviQI GTAC 2 cut(s) 400, 412
DdeI CTNAG 6 cut(s) 221, 570, 594, 743, 1083, 1139
DpnI GATC 4 cut(s) 564, 660, 666, 916
DpnII GATC 4 cut(s) 562, 658, 664, 914
DriI GACNNNNNGTC 1 cut(s) 1102
EaeI YGGCCR 1 cut(s) 471
EagI CGGCCG 1 cut(s) 471
Eam1104I CTCTTC 3 cut(s) 66, 71, 855
Eam1105I GACNNNNNGTC 1 cut(s) 1102
EarI CTCTTC 3 cut(s) 66, 71, 855
EciI GGCGGA 1 cut(s) 910
Ecl136II GAGCTC 1 cut(s) 900
EclXI CGGCCG 1 cut(s) 471
Eco147I AGGCCT 2 cut(s) 320, 1144
Eco24I GRGCYC 2 cut(s) 470, 902
Eco47III AGCGCT 1 cut(s) 219
Eco52I CGGCCG 1 cut(s) 471
Eco53kI GAGCTC 1 cut(s) 900
Eco57I CTGAAG 2 cut(s) 809, 987
Eco88I CYCGRG 4 cut(s) 295, 334, 698, 766
EcoICRI GAGCTC 1 cut(s) 900
EcoRII CCWGG 1 cut(s) 255
EcoT38I GRGCYC 2 cut(s) 470, 902
FaiI YATR 8 cut(s) 89, 462, 464, 714, 800, 887, 941, 978
FalI AAGNNNNNCTT 2 cut(s) 852, 884
FauI CCCGC 6 cut(s) 86, 114, 238, 446, 994, 1140
Fnu4HI GCNGC 4 cut(s) 240, 291, 531, 963
FokI GGATG 3 cut(s) 735, 818, 1021
FriOI GRGCYC 2 cut(s) 470, 902
Fsp4HI GCNGC 4 cut(s) 240, 291, 531, 963
FspBI CTAG 1 cut(s) 734
GlaI GCGC 4 cut(s) 219, 332, 408, 420
GluI GCNGC 4 cut(s) 240, 291, 531, 963
HaeII RGCGCY 1 cut(s) 221
HaeIII GGCC 7 cut(s) 255, 320, 388, 468, 473, 494, 1144
HapII CCGG 3 cut(s) 389, 470, 495
HhaI GCGC 4 cut(s) 220, 333, 409, 421
Hin1I GRCGYC 1 cut(s) 380
Hin6I GCGC 4 cut(s) 218, 331, 407, 419
HinP1I GCGC 4 cut(s) 218, 331, 407, 419
HindIII AAGCTT 1 cut(s) 1028
HinfI GANTC 5 cut(s) 140, 486, 514, 924, 1078
HpaII CCGG 3 cut(s) 389, 470, 495
HphI GGTGA 1 cut(s) 1016
Hpy166II GTNNAC 2 cut(s) 880, 1077
Hpy188III TCNNGA 3 cut(s) 202, 662, 752
Hpy8I GTNNAC 2 cut(s) 880, 1077
Hpy99I CGWCG 8 cut(s) 331, 349, 352, 355, 358, 385, 427, 479
HpyAV CCTTC 7 cut(s) 84, 142, 199, 331, 518, 885, 962
HpyCH4III ACNGT 1 cut(s) 607
HpyCH4IV ACGT 1 cut(s) 380
HpyCH4V TGCA 7 cut(s) 619, 683, 762, 809, 976, 1024, 1034
HpyF10VI GCNNNNNNNGC 9 cut(s) 11, 215, 226, 239, 290, 450, 680, 906, 1141
HpyF3I CTNAG 6 cut(s) 221, 570, 594, 743, 1083, 1139
HpySE526I ACGT 1 cut(s) 380
Hsp92I GRCGYC 1 cut(s) 380
HspAI GCGC 4 cut(s) 218, 331, 407, 419
Kzo9I GATC 4 cut(s) 562, 658, 664, 914
LmnI GCTCC 4 cut(s) 27, 134, 897, 1108
LpnPI CCDG 9 cut(s) 242, 269, 302, 402, 483, 508, 605, 765, 923
Lsp1109I GCAGC 1 cut(s) 949
LweI GCATC 4 cut(s) 757, 771, 796, 1043
MaeI CTAG 1 cut(s) 734
MaeII ACGT 1 cut(s) 380
MaeIII GTNAC 3 cut(s) 362, 981, 1004
MalI GATC 4 cut(s) 564, 660, 666, 916
MboI GATC 4 cut(s) 562, 658, 664, 914
MboII GAAGA 6 cut(s) 53, 58, 333, 851, 872, 1136
MflI RGATCY 2 cut(s) 658, 914
MhlI GDGCHC 2 cut(s) 470, 902
MluCI AATT 1 cut(s) 851
MlyI GAGTC 2 cut(s) 495, 1072
MmeI TCCRAC 4 cut(s) 49, 294, 463, 1086
MroXI GAANNNNTTC 1 cut(s) 818
MspI CCGG 3 cut(s) 389, 470, 495
MspR9I CCNGG 3 cut(s) 257, 470, 496
MvaI CCWGG 1 cut(s) 257
MvnI CGCG 2 cut(s) 331, 419
MwoI GCNNNNNNNGC 9 cut(s) 11, 215, 226, 239, 290, 450, 680, 906, 1141
NciI CCSGG 2 cut(s) 470, 496
NdeII GATC 4 cut(s) 562, 658, 664, 914
NlaIV GGNNCC 4 cut(s) 47, 372, 468, 493
NmeAIII GCCGAG 1 cut(s) 399
NmuCI GTSAC 1 cut(s) 1004
PceI AGGCCT 2 cut(s) 320, 1144
PcsI WCGNNNNNNNCGW 3 cut(s) 341, 350, 353
PdmI GAANNNNTTC 1 cut(s) 818
PfeI GAWTC 3 cut(s) 140, 514, 924
PkrI GCNGC 4 cut(s) 241, 292, 532, 964
PleI GAGTC 2 cut(s) 494, 1072
PpsI GAGTC 2 cut(s) 494, 1072
PshAI GACNNNNGTC 1 cut(s) 869
Psp124BI GAGCTC 1 cut(s) 902
Psp6I CCWGG 1 cut(s) 255
PspGI CCWGG 1 cut(s) 255
PspN4I GGNNCC 4 cut(s) 47, 372, 468, 493
PspOMI GGGCCC 1 cut(s) 466
PspPI GGNCC 4 cut(s) 253, 466, 467, 492
PstI CTGCAG 1 cut(s) 685
PsuI RGATCY 2 cut(s) 658, 914
RsaI GTAC 2 cut(s) 401, 413
RsaNI GTAC 2 cut(s) 400, 412
SacI GAGCTC 1 cut(s) 902
SatI GCNGC 4 cut(s) 240, 291, 531, 963
Sau3AI GATC 4 cut(s) 562, 658, 664, 914
Sau96I GGNCC 4 cut(s) 253, 466, 467, 492
SchI GAGTC 2 cut(s) 495, 1072
ScrFI CCNGG 3 cut(s) 257, 470, 496
SduI GDGCHC 2 cut(s) 470, 902
SfaNI GCATC 4 cut(s) 757, 771, 796, 1043
SfcI CTRYAG 1 cut(s) 681
SmlI CTYRAG 1 cut(s) 1009
SmoI CTYRAG 1 cut(s) 1009
Sse9I AATT 1 cut(s) 851
SseBI AGGCCT 2 cut(s) 320, 1144
SspI AATATT 2 cut(s) 954, 1056
SspMI CTAG 1 cut(s) 734
SstI GAGCTC 1 cut(s) 902
StuI AGGCCT 2 cut(s) 320, 1144
StyD4I CCNGG 3 cut(s) 255, 468, 494
TaaI ACNGT 1 cut(s) 607
TaiI ACGT 1 cut(s) 383
TaqI TCGA 4 cut(s) 356, 383, 500, 1046
TaqII GACCGA 1 cut(s) 555
TasI AATT 1 cut(s) 851
TauI GCSGC 3 cut(s) 242, 293, 533
TfiI GAWTC 3 cut(s) 140, 514, 924
TscAI CASTG 1 cut(s) 168
TseFI GTSAC 1 cut(s) 1004
TseI GCWGC 1 cut(s) 962
Tsp45I GTSAC 1 cut(s) 1004
TspDTI ATGAA 4 cut(s) 765, 873, 948, 1104
TspRI CASTG 1 cut(s) 168
XapI RAATTY 1 cut(s) 851
XcmI CCANNNNNNNNNTGG 1 cut(s) 917
XmnI GAANNNNTTC 1 cut(s) 818
XspI CTAG 1 cut(s) 734
ZraI GACGTC 1 cut(s) 381
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.