Rh5BG116300

mediator of RNA polymerase II transcription subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5B
OG0010538
Physical Location & Seq
Reverse (-)
10948314 .. 10955993
7680 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5BG116300.1

Sequence Viewer

Length: 1182 bp
ATGTCACGTTTATCATATTTTGGCGGGAACAAATCCCGTAAATCCAATTGGACGCAGGAACAGGTACTACCGCTTGTAGGAGATCAAAACTCAAAAGGGCGTTTCTCCCTCAACTCAAAACCTAAAAACTACAACTCAAAACCTAAATTATCGATTATCAGCGATCAGCCCCCAACCGCCGATCTCCAACATCCAATACGGCTTGTCGTTTTTCAGATGGATCTTGACGCGAAAAGGTTTGGAAGAGGGCCTCGGGAACTTGGTGGTGCTGCCAATCTCATAAATCAGTATAAGCTTGGGCCTTATCATGAATTCTTTTGCAAAAGGTCGCTTCCTTTATCAGAGACTCATTATCTGCATAATGTGGTGGGGGACACAGAAATCAGGAAAGGGGAGGGGATGAAATTGGATCAGCTATTTGAGAACACCCCTTATATGAGAGAAAGGAATGCAAACATACATCCTTTCAATTTGGGTATGCTTAGTGAAGCTTTCCGAATAAAGGAGACAACTCCTGTTCATTTATCTTCTGCCGAGAAAGGGATCCGTACCTCAGTGGTGAAGTCAAAGGGTGAGTTAGAAGACAAGGAAAGGAAGCATAAAAAGAACAAAGACAAGGATAAGGATCGTAAGAAGCACAAAAAATGTCGCCGGGACAACCGCGGTGATGCTGATTACAGCAATAAGAATGTTACTAATGGCCTGAAAACTGTGCAGTTGAAGGAACAGCCAGATATGTTCATTCAGAAGAGGAGGCTCAATGGTTATGGAGATCTTTCTGTCCATGAAAATAAAAGAGTGAGCCTCCCGTTCCTCCATGATCCACTTGAAAACAGCTCTTCCCACCTGACCAAAGCCCTGGACGCTGAAGAGTTCAGGAAACAAGGCCATATGGTCATAGACTTCATTGCAGATTACTACCAAAACATAGAAAAATACCCAGTTCTAAGCCGAGCAGAACCCGGGTATTTGAAAAAATGCCTACCAGAGTCTGCTCCATATAACCCTGAATCAATACAAACCATACTCCAAGATGTTAAAGATCACATTATTCCTGGCCTAACACATTGGCAAAGTCCCAATTTTTTCGCGTACTTTTCTTCGACTGCAAGCACTGCTGGGTTTCTTGGCGAAATGCTCATAACTGGATTCAATGTAGTGGGGTTCAATTGGGTTTCATAG
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

393

Amino Acids

45.0

Weight (kDa)

9.46

Isoelectric Point (pI)

41.02

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Pyridoxal_deC PF00282 321 - 392 2e-15 Pyridoxal-dependent decarboxylase conserved domain
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)
AccII CGCG 3 cut(s) 230, 663, 1091
AciI CCGC 5 cut(s) 24, 71, 177, 661, 663
AclWI GGATC 6 cut(s) 228, 417, 538, 551, 633, 815
AcsI RAATTY 1 cut(s) 311
AcuI CTGAAG 1 cut(s) 888
AfaI GTAC 3 cut(s) 66, 550, 1094
AfiI CCNNNNNNNGG 3 cut(s) 77, 502, 540
AgsI TTSAA 6 cut(s) 469, 721, 830, 973, 1153, 1168
AjnI CCWGG 2 cut(s) 858, 1054
AluBI AGCT 4 cut(s) 295, 415, 491, 837
AluI AGCT 4 cut(s) 295, 415, 491, 837
Alw26I GTCTC 2 cut(s) 338, 500
AlwI GGATC 6 cut(s) 228, 417, 538, 551, 633, 815
AlwNI CAGNNNCTG 1 cut(s) 992
Ama87I CYCGRG 2 cut(s) 252, 962
AoxI GGCC 5 cut(s) 248, 299, 700, 886, 1057
ApeKI GCWGC 1 cut(s) 269
ApoI RAATTY 1 cut(s) 311
AspS9I GGNCC 2 cut(s) 248, 299
AsuC2I CCSGG 3 cut(s) 653, 963, 964
AsuHPI GGTGA 3 cut(s) 571, 584, 677
AvaI CYCGRG 2 cut(s) 252, 962
BamHI GGATCC 1 cut(s) 543
BbsI GAAGAC 1 cut(s) 588
BbvI GCAGC 1 cut(s) 256
BccI CCATC 1 cut(s) 211
BceAI ACGGC 1 cut(s) 215
BciT130I CCWGG 2 cut(s) 860, 1056
BcnI CCSGG 3 cut(s) 653, 963, 964
BcoDI GTCTC 2 cut(s) 338, 500
BglII AGATCT 1 cut(s) 772
BisI GCNGC 1 cut(s) 270
BlsI GCNGC 1 cut(s) 271
Bme1390I CCNGG 5 cut(s) 653, 860, 963, 964, 1056
BmeT110I CYCGRG 2 cut(s) 252, 962
BmgT120I GGNCC 2 cut(s) 248, 299
BmiI GGNNCC 1 cut(s) 545
BmrFI CCNGG 5 cut(s) 653, 860, 963, 964, 1056
BmrI ACTGGG 1 cut(s) 935
BmsI GCATC 1 cut(s) 658
BmuI ACTGGG 1 cut(s) 935
BpiI GAAGAC 1 cut(s) 588
BplI GAGNNNNNCTC 2 cut(s) 789, 821
BpuMI CCSGG 3 cut(s) 653, 963, 964
Bsa29I ATCGAT 1 cut(s) 152
BsaBI GATNNNNATC 1 cut(s) 624
BsaJI CCNNGG 4 cut(s) 251, 661, 858, 962
Bsc4I CCNNNNNNNGG 3 cut(s) 77, 502, 540
Bse1I ACTGG 2 cut(s) 941, 1150
Bse3DI GCAATG 1 cut(s) 906
Bse8I GATNNNNATC 1 cut(s) 624
BseBI CCWGG 2 cut(s) 860, 1056
BseCI ATCGAT 1 cut(s) 152
BseDI CCNNGG 4 cut(s) 251, 661, 858, 962
BseGI GGATG 3 cut(s) 190, 405, 460
BseJI GATNNNNATC 1 cut(s) 624
BseLI CCNNNNNNNGG 3 cut(s) 77, 502, 540
BseMI GCAATG 1 cut(s) 906
BseMII CTCAG 1 cut(s) 567
BseNI ACTGG 2 cut(s) 941, 1150
BseRI GAGGAG 1 cut(s) 766
BseXI GCAGC 1 cut(s) 256
BseYI CCCAGC 1 cut(s) 1118
BsgI GTGCAG 1 cut(s) 734
Bsh1236I CGCG 3 cut(s) 230, 663, 1091
BshFI GGCC 5 cut(s) 250, 301, 702, 888, 1059
BshVI ATCGAT 1 cut(s) 152
BsiHKCI CYCGRG 2 cut(s) 252, 962
BsiSI CCGG 2 cut(s) 652, 963
BslFI GGGAC 3 cut(s) 386, 668, 1062
BslI CCNNNNNNNGG 3 cut(s) 77, 502, 540
BsmAI GTCTC 2 cut(s) 338, 500
BsmFI GGGAC 3 cut(s) 386, 668, 1062
BsmI GAATGC 1 cut(s) 454
BsnI GGCC 5 cut(s) 250, 301, 702, 888, 1059
BsoBI CYCGRG 2 cut(s) 252, 962
BspACI CCGC 5 cut(s) 24, 71, 177, 661, 663
BspANI GGCC 5 cut(s) 250, 301, 702, 888, 1059
BspCNI CTCAG 1 cut(s) 566
BspDI ATCGAT 1 cut(s) 152
BspFNI CGCG 3 cut(s) 230, 663, 1091
BspHI TCATGA 1 cut(s) 307
BspLI GGNNCC 1 cut(s) 545
BspPI GGATC 6 cut(s) 228, 417, 538, 551, 633, 815
BspQI GCTCTTC 1 cut(s) 844
BsrDI GCAATG 1 cut(s) 906
BsrI ACTGG 2 cut(s) 941, 1150
BssECI CCNNGG 4 cut(s) 251, 661, 858, 962
Bst2UI CCWGG 2 cut(s) 860, 1056
Bst4CI ACNGT 1 cut(s) 712
Bst6I CTCTTC 4 cut(s) 238, 743, 844, 864
BstAPI GCANNNNNTGC 1 cut(s) 1115
BstC8I GCNNGC 1 cut(s) 1111
BstDEI CTNAG 3 cut(s) 482, 553, 947
BstDSI CCRYGG 1 cut(s) 661
BstF5I GGATG 3 cut(s) 190, 405, 460
BstFNI CGCG 3 cut(s) 230, 663, 1091
BstMAI GTCTC 2 cut(s) 338, 500
BstMWI GCNNNNNNNGC 2 cut(s) 863, 1115
BstNI CCWGG 2 cut(s) 860, 1056
BstSCI CCNGG 5 cut(s) 651, 858, 961, 962, 1054
BstUI CGCG 3 cut(s) 230, 663, 1091
BstV1I GCAGC 1 cut(s) 256
BstV2I GAAGAC 1 cut(s) 588
BstX2I RGATCY 3 cut(s) 220, 543, 772
BstXI CCANNNNNNTGG 1 cut(s) 859
BstYI RGATCY 3 cut(s) 220, 543, 772
Bsu15I ATCGAT 1 cut(s) 152
BsuRI GGCC 5 cut(s) 250, 301, 702, 888, 1059
BsuTUI ATCGAT 1 cut(s) 152
BtgI CCRYGG 1 cut(s) 661
BtsCI GGATG 3 cut(s) 190, 405, 460
BtsI GCAGTG 1 cut(s) 1113
BtsIMutI CAGTG 2 cut(s) 561, 1113
Cac8I GCNNGC 1 cut(s) 1111
CaiI CAGNNNCTG 1 cut(s) 992
CciI TCATGA 1 cut(s) 307
Cfr13I GGNCC 2 cut(s) 248, 299
Cfr42I CCGCGG 1 cut(s) 664
Cfr9I CCCGGG 1 cut(s) 962
ClaI ATCGAT 1 cut(s) 152
CseI GACGC 3 cut(s) 61, 236, 872
Csp6I GTAC 3 cut(s) 65, 549, 1093
CviAII CATG 3 cut(s) 308, 785, 818
CviQI GTAC 3 cut(s) 65, 549, 1093
DdeI CTNAG 3 cut(s) 482, 553, 947
Eam1104I CTCTTC 4 cut(s) 238, 743, 844, 864
EarI CTCTTC 4 cut(s) 238, 743, 844, 864
Eco57I CTGAAG 1 cut(s) 888
Eco88I CYCGRG 2 cut(s) 252, 962
EcoO109I RGGNCCY 1 cut(s) 248
EcoRI GAATTC 1 cut(s) 311
EcoRII CCWGG 2 cut(s) 858, 1054
FaeI CATG 3 cut(s) 311, 788, 821
FaqI GGGAC 3 cut(s) 386, 668, 1062
FatI CATG 3 cut(s) 307, 784, 817
FauI CCCGC 1 cut(s) 17
FauNDI CATATG 1 cut(s) 891
Fnu4HI GCNGC 1 cut(s) 270
FokI GGATG 3 cut(s) 177, 412, 447
Fsp4HI GCNGC 1 cut(s) 270
GluI GCNGC 1 cut(s) 270
GsaI CCCAGC 1 cut(s) 1122
HaeIII GGCC 5 cut(s) 250, 301, 702, 888, 1059
HapII CCGG 2 cut(s) 652, 963
HgaI GACGC 3 cut(s) 61, 236, 872
Hin1II CATG 3 cut(s) 311, 788, 821
HindIII AAGCTT 2 cut(s) 293, 489
HinfI GANTC 4 cut(s) 346, 989, 1010, 1149
HpaII CCGG 2 cut(s) 652, 963
HphI GGTGA 3 cut(s) 571, 584, 677
Hpy188I TCNGA 4 cut(s) 216, 343, 497, 747
Hpy188III TCNNGA 5 cut(s) 224, 254, 308, 385, 877
HpyAV CCTTC 1 cut(s) 715
HpyCH4III ACNGT 1 cut(s) 712
HpyCH4IV ACGT 1 cut(s) 7
HpyCH4V TGCA 6 cut(s) 321, 358, 452, 715, 911, 1109
HpyF10VI GCNNNNNNNGC 2 cut(s) 863, 1115
HpyF3I CTNAG 3 cut(s) 482, 553, 947
HpySE526I ACGT 1 cut(s) 7
Hsp92II CATG 3 cut(s) 311, 788, 821
KspI CCGCGG 1 cut(s) 664
LguI GCTCTTC 1 cut(s) 844
LmnI GCTCC 1 cut(s) 1000
Lsp1109I GCAGC 1 cut(s) 256
LweI GCATC 1 cut(s) 658
MaeII ACGT 1 cut(s) 7
MaeIII GTNAC 2 cut(s) 3, 691
MboII GAAGA 7 cut(s) 255, 519, 593, 760, 831, 881, 1092
MfeI CAATTG 2 cut(s) 46, 1168
MflI RGATCY 3 cut(s) 220, 543, 772
MluCI AATT 7 cut(s) 46, 146, 311, 404, 469, 1081, 1168
MlyI GAGTC 2 cut(s) 340, 998
MmeI TCCRAC 1 cut(s) 211
MnlI CCTC 9 cut(s) 119, 239, 261, 388, 562, 744, 747, 815, 824
MseI TTAA 1 cut(s) 1038
MspA1I CMGCKG 1 cut(s) 663
MspI CCGG 2 cut(s) 652, 963
MspR9I CCNGG 5 cut(s) 653, 860, 963, 964, 1056
MunI CAATTG 2 cut(s) 46, 1168
Mva1269I GAATGC 1 cut(s) 454
MvaI CCWGG 2 cut(s) 860, 1056
MvnI CGCG 3 cut(s) 230, 663, 1091
MwoI GCNNNNNNNGC 2 cut(s) 863, 1115
NciI CCSGG 3 cut(s) 653, 963, 964
NdeI CATATG 1 cut(s) 891
NlaIII CATG 3 cut(s) 311, 788, 821
NlaIV GGNNCC 1 cut(s) 545
NmeAIII GCCGAG 2 cut(s) 559, 977
NmuCI GTSAC 1 cut(s) 3
PagI TCATGA 1 cut(s) 307
PciSI GCTCTTC 1 cut(s) 844
PctI GAATGC 1 cut(s) 454
PfeI GAWTC 2 cut(s) 1010, 1149
PkrI GCNGC 1 cut(s) 271
PleI GAGTC 2 cut(s) 340, 997
PpsI GAGTC 2 cut(s) 340, 997
Psp6I CCWGG 2 cut(s) 858, 1054
PspFI CCCAGC 1 cut(s) 1118
PspGI CCWGG 2 cut(s) 858, 1054
PspN4I GGNNCC 1 cut(s) 545
PspPI GGNCC 2 cut(s) 248, 299
PsrI GAACNNNNNNTAC 2 cut(s) 51, 83
PstNI CAGNNNCTG 1 cut(s) 992
PsuI RGATCY 3 cut(s) 220, 543, 772
RsaI GTAC 3 cut(s) 66, 550, 1094
RsaNI GTAC 3 cut(s) 65, 549, 1093
SacII CCGCGG 1 cut(s) 664
SapI GCTCTTC 1 cut(s) 844
SaqAI TTAA 1 cut(s) 1038
SatI GCNGC 1 cut(s) 270
Sau96I GGNCC 2 cut(s) 248, 299
SchI GAGTC 2 cut(s) 340, 998
ScrFI CCNGG 5 cut(s) 653, 860, 963, 964, 1056
SfaNI GCATC 1 cut(s) 658
Sfr303I CCGCGG 1 cut(s) 664
SgrBI CCGCGG 1 cut(s) 664
SmaI CCCGGG 1 cut(s) 964
Sse9I AATT 7 cut(s) 46, 146, 311, 404, 469, 1081, 1168
SsiI CCGC 5 cut(s) 24, 71, 177, 661, 663
StyD4I CCNGG 5 cut(s) 651, 858, 961, 962, 1054
TaaI ACNGT 1 cut(s) 712
TaiI ACGT 1 cut(s) 10
TaqI TCGA 2 cut(s) 152, 1103
TasI AATT 7 cut(s) 46, 146, 311, 404, 469, 1081, 1168
TfiI GAWTC 2 cut(s) 1010, 1149
Tru1I TTAA 1 cut(s) 1038
Tru9I TTAA 1 cut(s) 1038
TscAI CASTG 2 cut(s) 561, 1120
TseFI GTSAC 1 cut(s) 3
TseI GCWGC 1 cut(s) 269
Tsp45I GTSAC 1 cut(s) 3
TspDTI ATGAA 7 cut(s) 324, 416, 509, 730, 801, 895, 1167
TspGWI ACGGA 1 cut(s) 536
TspMI CCCGGG 1 cut(s) 962
TspRI CASTG 2 cut(s) 561, 1120
XapI RAATTY 1 cut(s) 311
XmaI CCCGGG 1 cut(s) 962
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.