Rorug04G0014400

mediator of RNA polymerase II transcription subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000004
OG0009075
Physical Location & Seq
Reverse (-)
2312360 .. 2315041
2682 bp
Loading structure...
UTR
Exon/CDS
Intron
Rorug04G0014400.1

Sequence Viewer

Length: 1032 bp
ATGGATTTCGGAAGCGAGAAAACGTCGTCGTTCATGAGCGATTTTCTGGAAAAGTGCGGTGGCTGTGCCGTTCTGGACGGCGGGTTTGCGACGGAGCTGGAACGACATGGAGCTGATCTTAACGACCCTCTCTGGAGCGCCAAATGCCTCGTCAGTTCTCCTCACCTCGTCCGAAGGGTACATTTGGACTACCTTGATGCTGGAGCAAACATCATAATAACCGCATCTTATCAGGCCACAATTCAGGGTTTTGAGGCCAAAGGTTTCTCTAAAGAAGAAGCCAAAGCCCTGCTCAGGAAAAGTGTAGAAATTGCAATCGAGGCACGAGAAATTTACTATGACAAATGTACCAAAGGTTCTTGGGAGTTTGTGGACACAGGAAAGCCATCAAGACATCCAGTTCTAGTTGCAGCATCTGTAGGAAGCTATGGAGCCTATTTGGCTGATGGTTCCGAGTATAGTGGCAACTACGGCGATGCAGTGACTCTAGAAACGTTGAAAGATTTCCACAGGGAAAGGGTTCAGATTCTGGCCAACTCTGGTGCTGATCTAATTGCATTTGAGACGACACCGAATAAGCTAGAGGCTAAGGCATATGCTGAACTTCTTGAGGAAGAAGCAATAGATATTCCAGCATGGTTTACTTTTGCTTCTAAAGATGGAATCAATGTGGTGAGTGGTGATTCCATCTTTGAGTGTGCCTCTATTGCTAATGCATGCAAGCAAGTTGTTGCTGTTGGAATCAACTGCACACCACCTAGATTTATCCAGGGGTTGATTTCATCTATTCGGAAGGTAACAAGCAAACCAATAGTGATATACCCCAACAGTGGTGAGACCTATGATGGTCAGAGCAAGCAATGGATTCCATCGAGTGGGCGGGTTGATGAAGAGTTTGCAGAAATAGTCATAGAGAAGTGGCGTGAGGCAGGGGCTTCCCTGTTTGGAGGCTGCTGCAGAACAACTCCAAATACCGTAAGGGCAATATCTAAGGCTCTTTCCAACAAGTCTTCTGCGGTTAACGATGCTTAG
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

343

Amino Acids

37.14

Weight (kDa)

5.09

Isoelectric Point (pI)

37.54

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
S-methyl_trans PF02574 24 - 333 8.6e-81 Homocysteine S-methyltransferase
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)
AccB7I CCANNNNNTGG 1 cut(s) 875
AciI CCGC 5 cut(s) 57, 81, 222, 880, 1016
AclI AACGTT 1 cut(s) 494
AcoI YGGCCR 1 cut(s) 531
AcsI RAATTY 1 cut(s) 330
AfaI GTAC 2 cut(s) 180, 349
AfiI CCNNNNNNNGG 3 cut(s) 294, 830, 875
AgsI TTSAA 1 cut(s) 499
AjnI CCWGG 1 cut(s) 768
AluBI AGCT 4 cut(s) 97, 113, 426, 580
AluI AGCT 4 cut(s) 97, 113, 426, 580
Alw26I GTCTC 2 cut(s) 557, 830
AlwNI CAGNNNCTG 2 cut(s) 416, 529
AoxI GGCC 3 cut(s) 234, 255, 531
ApeKI GCWGC 3 cut(s) 410, 951, 954
ApoI RAATTY 1 cut(s) 330
ArsI GACNNNNNNTTYG 4 cut(s) 68, 100, 135, 167
Asp700I GAANNNNTTC 2 cut(s) 503, 519
AspLEI GCGC 1 cut(s) 140
AsuHPI GGTGA 4 cut(s) 155, 685, 692, 845
BaeI ACNNNNGTAYC 2 cut(s) 331, 364
BalI TGGCCA 1 cut(s) 533
BauI CACGAG 1 cut(s) 324
BbsI GAAGAC 1 cut(s) 1002
BbvI GCAGC 3 cut(s) 422, 938, 941
BccI CCATC 6 cut(s) 394, 440, 653, 695, 839, 877
BceAI ACGGC 3 cut(s) 53, 94, 487
BciT130I CCWGG 1 cut(s) 770
BcoDI GTCTC 2 cut(s) 557, 830
BfaI CTAG 4 cut(s) 404, 488, 581, 759
BfmI CTRYAG 2 cut(s) 417, 955
BfoI RGCGCY 1 cut(s) 141
BglI GCCNNNNNGGC 1 cut(s) 440
BisI GCNGC 3 cut(s) 411, 952, 955
BlsI GCNGC 3 cut(s) 412, 953, 956
Bme1390I CCNGG 1 cut(s) 770
BmiI GGNNCC 2 cut(s) 433, 451
BmrFI CCNGG 1 cut(s) 770
BmsI GCATC 5 cut(s) 187, 233, 422, 466, 1015
BpiI GAAGAC 1 cut(s) 1002
BplI GAGNNNNNCTC 2 cut(s) 686, 718
BpmI CTGGAG 2 cut(s) 154, 222
Bpu10I CCTNAGC 2 cut(s) 293, 588
BpuEI CTTGAG 1 cut(s) 629
BsaI GGTCTC 1 cut(s) 830
BsaJI CCNNGG 1 cut(s) 769
Bsc4I CCNNNNNNNGG 3 cut(s) 294, 830, 875
Bse1I ACTGG 1 cut(s) 398
Bse3DI GCAATG 1 cut(s) 866
BseBI CCWGG 1 cut(s) 770
BseDI CCNNGG 1 cut(s) 769
BseGI GGATG 1 cut(s) 394
BseLI CCNNNNNNNGG 3 cut(s) 294, 830, 875
BseMI GCAATG 1 cut(s) 866
BseMII CTCAG 1 cut(s) 307
BseNI ACTGG 1 cut(s) 398
BseRI GAGGAG 1 cut(s) 150
BseXI GCAGC 3 cut(s) 422, 938, 941
BsgI GTGCAG 1 cut(s) 733
BshFI GGCC 3 cut(s) 236, 257, 533
BslI CCNNNNNNNGG 3 cut(s) 294, 830, 875
BsmAI GTCTC 2 cut(s) 557, 830
BsmBI CGTCTC 1 cut(s) 557
BsnI GGCC 3 cut(s) 236, 257, 533
Bso31I GGTCTC 1 cut(s) 830
Bsp143I GATC 2 cut(s) 115, 547
BspACI CCGC 5 cut(s) 57, 81, 222, 880, 1016
BspANI GGCC 3 cut(s) 236, 257, 533
BspCNI CTCAG 1 cut(s) 306
BspHI TCATGA 1 cut(s) 33
BspLI GGNNCC 2 cut(s) 433, 451
BspMAI CTGCAG 1 cut(s) 959
BspTNI GGTCTC 1 cut(s) 830
BsrDI GCAATG 1 cut(s) 866
BsrI ACTGG 1 cut(s) 398
BssECI CCNNGG 1 cut(s) 769
BssMI GATC 2 cut(s) 115, 547
BssSI CACGAG 1 cut(s) 324
Bst2BI CACGAG 1 cut(s) 324
Bst2UI CCWGG 1 cut(s) 770
Bst4CI ACNGT 2 cut(s) 830, 976
Bst6I CTCTTC 1 cut(s) 885
BstC8I GCNNGC 3 cut(s) 718, 722, 857
BstDEI CTNAG 4 cut(s) 293, 588, 990, 1029
BstF5I GGATG 1 cut(s) 394
BstH2I RGCGCY 1 cut(s) 141
BstHHI GCGC 1 cut(s) 140
BstKTI GATC 2 cut(s) 118, 550
BstMAI GTCTC 2 cut(s) 557, 830
BstMBI GATC 2 cut(s) 115, 547
BstMWI GCNNNNNNNGC 5 cut(s) 144, 320, 440, 471, 707
BstNI CCWGG 1 cut(s) 770
BstNSI RCATGY 1 cut(s) 720
BstSCI CCNGG 1 cut(s) 768
BstSFI CTRYAG 2 cut(s) 417, 955
BstV1I GCAGC 3 cut(s) 422, 938, 941
BstV2I GAAGAC 1 cut(s) 1002
BsuRI GGCC 3 cut(s) 236, 257, 533
BtgZI GCGATG 1 cut(s) 489
BtsCI GGATG 1 cut(s) 394
BtsI GCAGTG 1 cut(s) 486
BtsIMutI CAGTG 2 cut(s) 486, 835
Cac8I GCNNGC 3 cut(s) 718, 722, 857
CaiI CAGNNNCTG 2 cut(s) 416, 529
CciI TCATGA 1 cut(s) 33
CfoI GCGC 1 cut(s) 140
Csp6I GTAC 2 cut(s) 179, 348
CviAII CATG 4 cut(s) 34, 107, 636, 717
CviQI GTAC 2 cut(s) 179, 348
DdeI CTNAG 4 cut(s) 293, 588, 990, 1029
DpnI GATC 2 cut(s) 117, 549
DpnII GATC 2 cut(s) 115, 547
EaeI YGGCCR 1 cut(s) 531
Eam1104I CTCTTC 1 cut(s) 885
EarI CTCTTC 1 cut(s) 885
Eco31I GGTCTC 1 cut(s) 830
EcoRII CCWGG 1 cut(s) 768
EcoT22I ATGCAT 1 cut(s) 718
Esp3I CGTCTC 1 cut(s) 557
FaeI CATG 4 cut(s) 37, 110, 639, 720
FatI CATG 4 cut(s) 33, 106, 635, 716
FauI CCCGC 2 cut(s) 74, 873
FauNDI CATATG 1 cut(s) 595
Fnu4HI GCNGC 3 cut(s) 411, 952, 955
FokI GGATG 1 cut(s) 381
Fsp4HI GCNGC 3 cut(s) 411, 952, 955
FspBI CTAG 4 cut(s) 404, 488, 581, 759
GlaI GCGC 1 cut(s) 139
GluI GCNGC 3 cut(s) 411, 952, 955
GsuI CTGGAG 2 cut(s) 154, 222
HaeII RGCGCY 1 cut(s) 141
HaeIII GGCC 3 cut(s) 236, 257, 533
HhaI GCGC 1 cut(s) 140
Hin1II CATG 4 cut(s) 37, 110, 639, 720
Hin6I GCGC 1 cut(s) 138
HinP1I GCGC 1 cut(s) 138
HincII GTYRAC 1 cut(s) 1021
HindII GTYRAC 1 cut(s) 1021
HinfI GANTC 6 cut(s) 484, 526, 663, 683, 741, 865
HpaI GTTAAC 1 cut(s) 1021
HphI GGTGA 4 cut(s) 155, 685, 692, 845
Hpy166II GTNNAC 3 cut(s) 373, 642, 1021
Hpy188I TCNGA 6 cut(s) 11, 173, 454, 525, 792, 852
Hpy188III TCNNGA 8 cut(s) 34, 47, 74, 133, 295, 390, 488, 608
Hpy8I GTNNAC 3 cut(s) 373, 642, 1021
Hpy99I CGWCG 3 cut(s) 28, 31, 94
HpyAV CCTTC 2 cut(s) 168, 787
HpyCH4III ACNGT 2 cut(s) 830, 976
HpyCH4IV ACGT 2 cut(s) 23, 494
HpyCH4V TGCA 9 cut(s) 314, 410, 479, 557, 716, 720, 750, 899, 957
HpyF10VI GCNNNNNNNGC 5 cut(s) 144, 320, 440, 471, 707
HpyF3I CTNAG 4 cut(s) 293, 588, 990, 1029
HpySE526I ACGT 2 cut(s) 23, 494
Hsp92II CATG 4 cut(s) 37, 110, 639, 720
HspAI GCGC 1 cut(s) 138
KspAI GTTAAC 1 cut(s) 1021
Kzo9I GATC 2 cut(s) 115, 547
LmnI GCTCC 5 cut(s) 94, 110, 135, 203, 431
Lsp1109I GCAGC 3 cut(s) 422, 938, 941
LweI GCATC 5 cut(s) 187, 233, 422, 466, 1015
MaeI CTAG 4 cut(s) 404, 488, 581, 759
MaeII ACGT 2 cut(s) 23, 494
MaeIII GTNAC 2 cut(s) 481, 796
MalI GATC 2 cut(s) 117, 549
MboI GATC 2 cut(s) 115, 547
MboII GAAGA 4 cut(s) 287, 626, 902, 1002
MlsI TGGCCA 1 cut(s) 533
MluCI AATT 4 cut(s) 240, 309, 330, 552
MluNI TGGCCA 1 cut(s) 533
MlyI GAGTC 1 cut(s) 478
MmeI TCCRAC 2 cut(s) 718, 1026
Mox20I TGGCCA 1 cut(s) 533
Mph1103I ATGCAT 1 cut(s) 718
MroXI GAANNNNTTC 2 cut(s) 503, 519
MscI TGGCCA 1 cut(s) 533
MseI TTAA 2 cut(s) 120, 1020
Msp20I TGGCCA 1 cut(s) 533
MspR9I CCNGG 1 cut(s) 770
MvaI CCWGG 1 cut(s) 770
MwoI GCNNNNNNNGC 5 cut(s) 144, 320, 440, 471, 707
NdeI CATATG 1 cut(s) 595
NdeII GATC 2 cut(s) 115, 547
NlaIII CATG 4 cut(s) 37, 110, 639, 720
NlaIV GGNNCC 2 cut(s) 433, 451
NmuCI GTSAC 1 cut(s) 481
NsiI ATGCAT 1 cut(s) 718
NspI RCATGY 1 cut(s) 720
PaeI GCATGC 1 cut(s) 720
PagI TCATGA 1 cut(s) 33
PdmI GAANNNNTTC 2 cut(s) 503, 519
PfeI GAWTC 5 cut(s) 526, 663, 683, 741, 865
PflMI CCANNNNNTGG 1 cut(s) 875
PkrI GCNGC 3 cut(s) 412, 953, 956
PleI GAGTC 1 cut(s) 478
PpsI GAGTC 1 cut(s) 478
Psp1406I AACGTT 1 cut(s) 494
Psp6I CCWGG 1 cut(s) 768
PspGI CCWGG 1 cut(s) 768
PspN4I GGNNCC 2 cut(s) 433, 451
PsrI GAACNNNNNNTAC 2 cut(s) 340, 372
PstI CTGCAG 1 cut(s) 959
PstNI CAGNNNCTG 2 cut(s) 416, 529
RsaI GTAC 2 cut(s) 180, 349
RsaNI GTAC 2 cut(s) 179, 348
SaqAI TTAA 2 cut(s) 120, 1020
SatI GCNGC 3 cut(s) 411, 952, 955
Sau3AI GATC 2 cut(s) 115, 547
SchI GAGTC 1 cut(s) 478
ScrFI CCNGG 1 cut(s) 770
SfaNI GCATC 5 cut(s) 187, 233, 422, 466, 1015
SfcI CTRYAG 2 cut(s) 417, 955
SmlI CTYRAG 1 cut(s) 608
SmoI CTYRAG 1 cut(s) 608
SphI GCATGC 1 cut(s) 720
Sse9I AATT 4 cut(s) 240, 309, 330, 552
SsiI CCGC 5 cut(s) 57, 81, 222, 880, 1016
SspMI CTAG 4 cut(s) 404, 488, 581, 759
StyD4I CCNGG 1 cut(s) 768
TaaI ACNGT 2 cut(s) 830, 976
TaiI ACGT 2 cut(s) 26, 497
TaqI TCGA 2 cut(s) 318, 872
TasI AATT 4 cut(s) 240, 309, 330, 552
TfiI GAWTC 5 cut(s) 526, 663, 683, 741, 865
Tru1I TTAA 2 cut(s) 120, 1020
Tru9I TTAA 2 cut(s) 120, 1020
TscAI CASTG 2 cut(s) 486, 835
TseFI GTSAC 1 cut(s) 481
TseI GCWGC 3 cut(s) 410, 951, 954
Tsp45I GTSAC 1 cut(s) 481
TspDTI ATGAA 3 cut(s) 22, 771, 903
TspGWI ACGGA 1 cut(s) 107
TspRI CASTG 2 cut(s) 486, 835
Van91I CCANNNNNTGG 1 cut(s) 875
XapI RAATTY 1 cut(s) 330
XbaI TCTAGA 1 cut(s) 487
XceI RCATGY 1 cut(s) 720
XmnI GAANNNNTTC 2 cut(s) 503, 519
XspI CTAG 4 cut(s) 404, 488, 581, 759
Zsp2I ATGCAT 1 cut(s) 718
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.