Rh5DG299000

DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5D
OG0018192
Physical Location & Seq
Reverse (-)
37567562 .. 37568415
854 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5DG299000.1

Sequence Viewer

Length: 690 bp
ATGTTTTTTTTTTATGTACATGTATATACTCAAAATCTTGTCAGAAGCGAAAAGTTTAAAACTGGAGAAGAACAATGTCTTGACAAGCAGATTGTGACTACGGAGAGTAGAGATGTCTTTATTGGTAAGCTCCCAGTGATGGTGAAGTCTGACTTGTGTTGGCTGAAAGACGAGAGAGCTGACTGTGAATTTGACCATGGAGGTTATTTTATAATCAAGGGTGCAGAGAAGACCTTTATTGCGCAAGAGCAGACCTGTCTGAAGAGACTTCTAATTACAAGTAATCAGGGGCTCACAGTAGCATATAGGTCTGATGTCAAGCAGCATAGACTAATAATAAGATTATCTGGGATTTCTCAACTTGAAAACATTGAAGGATTAGAGAAAGTTTTGTCAGTGTACTTTATGTCAGCAGAAATCCCTGTCTGGATTTGGTTTTTTGCCCTTGGGGTTTCTTCGGACAATGAAGTTATAGATCTGATTGATTATGGCAAAGAAGATGCAAGCATTTCAAACATTCTAGTTGCCTCAATTCTTGATGCTGACCAACGAAAAGATATCTTCCGAAGAGGGAAGAATGCTCTCAGATATGTTGAAGAGATGATAAAGAATACCACGTTTCCTCCTTGGGAAAGCATTGAAGAATGCATCAGCATGTATCTGTTCCCCAATCTGAGAGGCATGAAGTGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0000228 GO:0000418 GO:0000419 GO:0000428 GO:0000785 GO:0000790 GO:0000792 GO:0002682 GO:0003674 GO:0003824 GO:0003899 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005694 GO:0005720 GO:0005730 GO:0005736 GO:0006139 GO:0006259 GO:0006304 GO:0006305 GO:0006306 GO:0006396 GO:0006725 GO:0006807 GO:0006950 GO:0006952 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009605 GO:0009607 GO:0009620 GO:0009892 GO:0009987 GO:0010033 GO:0010467 GO:0010468 GO:0010605 GO:0010608 GO:0010629 GO:0014070 GO:0016020 GO:0016070 GO:0016246 GO:0016441 GO:0016458 GO:0016740 GO:0016772 GO:0016779 GO:0018130 GO:0019222 GO:0019438 GO:0030422 GO:0030880 GO:0031047 GO:0031050 GO:0031974 GO:0031981 GO:0032259 GO:0032774 GO:0032991 GO:0034062 GO:0034641 GO:0034654 GO:0035194 GO:0040029 GO:0042221 GO:0043170 GO:0043207 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0043331 GO:0043412 GO:0043414 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044271 GO:0044422 GO:0044424 GO:0044427 GO:0044428 GO:0044446 GO:0044451 GO:0044452 GO:0044454 GO:0044464 GO:0044728 GO:0046483 GO:0048519 GO:0048583 GO:0050776 GO:0050789 GO:0050832 GO:0050896 GO:0051704 GO:0051707 GO:0051716 GO:0055029 GO:0060255 GO:0061695 GO:0065007 GO:0070013 GO:0070887 GO:0070918 GO:0071310 GO:0071359 GO:0071407 GO:0071704 GO:0090304 GO:0097747 GO:0098542 GO:0140098 GO:1901360 GO:1901362 GO:1901576 GO:1901698 GO:1901699 GO:1902494 GO:1990234
KEGG Pathways
Metabolic & Signaling
ko00230 ko00240 ko01100 ko03020 ko05016 ko05169 map00230 map00240 map01100 map03020 map05016 map05169
Pfam Domains
Protein Families
RNA_pol_Rpb2_1 RNA_pol_Rpb2_2 RNA_pol_Rpb2_3 RNA_pol_Rpb2_4 RNA_pol_Rpb2_5 RNA_pol_Rpb2_6 RNA_pol_Rpb2_7

Protein Analysis

229

Amino Acids

26.52

Weight (kDa)

5.38

Isoelectric Point (pI)

48.38

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RNA_pol_Rpb2_1 PF04563 31 - 195 3.7e-14 RNA polymerase beta subunit
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
Loading...
Style Settings
Image
Tree File
Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 212
Acc16I TGCGCA 1 cut(s) 243
AcsI RAATTY 1 cut(s) 188
AcuI CTGAAG 1 cut(s) 281
AfaI GTAC 2 cut(s) 18, 401
AfiI CCNNNNNNNGG 1 cut(s) 139
AflIII ACRYGT 1 cut(s) 19
AgsI TTSAA 5 cut(s) 365, 374, 513, 596, 641
AluBI AGCT 2 cut(s) 130, 179
AluI AGCT 2 cut(s) 130, 179
Alw26I GTCTC 1 cut(s) 259
ApeKI GCWGC 1 cut(s) 322
ApoI RAATTY 1 cut(s) 188
ArsI GACNNNNNNTTYG 2 cut(s) 173, 205
AspLEI GCGC 1 cut(s) 244
AsuHPI GGTGA 1 cut(s) 154
BanII GRGCYC 1 cut(s) 294
BbsI GAAGAC 1 cut(s) 236
BbvI GCAGC 1 cut(s) 334
BccI CCATC 1 cut(s) 133
BcoDI GTCTC 1 cut(s) 259
BfaI CTAG 1 cut(s) 521
BglII AGATCT 1 cut(s) 475
BisI GCNGC 1 cut(s) 323
BlsI GCNGC 1 cut(s) 324
BmrI ACTGGG 1 cut(s) 128
BmsI GCATC 3 cut(s) 490, 529, 657
BmuI ACTGGG 1 cut(s) 128
BpiI GAAGAC 1 cut(s) 236
BpmI CTGGAG 1 cut(s) 84
BsaJI CCNNGG 3 cut(s) 196, 445, 626
BsaXI ACNNNNNCTCC 2 cut(s) 607, 637
Bsc4I CCNNNNNNNGG 1 cut(s) 139
Bse1I ACTGG 2 cut(s) 67, 134
BseDI CCNNGG 3 cut(s) 196, 445, 626
BseLI CCNNNNNNNGG 1 cut(s) 139
BseMII CTCAG 2 cut(s) 598, 665
BseNI ACTGG 2 cut(s) 67, 134
BseXI GCAGC 1 cut(s) 334
BsgI GTGCAG 1 cut(s) 243
BslI CCNNNNNNNGG 1 cut(s) 139
BsmAI GTCTC 1 cut(s) 259
BsmI GAATGC 2 cut(s) 583, 650
Bsp1286I GDGCHC 1 cut(s) 294
Bsp1407I TGTACA 1 cut(s) 16
Bsp143I GATC 1 cut(s) 475
Bsp19I CCATGG 1 cut(s) 196
BspCNI CTCAG 2 cut(s) 597, 666
BsrGI TGTACA 1 cut(s) 16
BsrI ACTGG 2 cut(s) 67, 134
BssECI CCNNGG 3 cut(s) 196, 445, 626
BssMI GATC 1 cut(s) 475
BssT1I CCWWGG 3 cut(s) 196, 445, 626
Bst4CI ACNGT 2 cut(s) 185, 298
Bst6I CTCTTC 3 cut(s) 257, 562, 591
BstAUI TGTACA 1 cut(s) 16
BstC8I GCNNGC 1 cut(s) 505
BstDEI CTNAG 2 cut(s) 584, 674
BstDSI CCRYGG 1 cut(s) 196
BstHHI GCGC 1 cut(s) 244
BstKTI GATC 1 cut(s) 478
BstMAI GTCTC 1 cut(s) 259
BstMBI GATC 1 cut(s) 475
BstNSI RCATGY 2 cut(s) 23, 658
BstV1I GCAGC 1 cut(s) 334
BstV2I GAAGAC 1 cut(s) 236
BstX2I RGATCY 1 cut(s) 475
BstYI RGATCY 1 cut(s) 475
BtgI CCRYGG 1 cut(s) 196
BtsIMutI CAGTG 2 cut(s) 141, 402
Cac8I GCNNGC 1 cut(s) 505
CfoI GCGC 1 cut(s) 244
Csp6I GTAC 2 cut(s) 17, 400
CviAII CATG 4 cut(s) 20, 197, 655, 682
CviJI RGCY 4 cut(s) 130, 163, 179, 292
CviKI_1 RGCY 4 cut(s) 130, 163, 179, 292
CviQI GTAC 2 cut(s) 17, 400
DdeI CTNAG 2 cut(s) 584, 674
DpnI GATC 1 cut(s) 477
DpnII GATC 1 cut(s) 475
DraI TTTAAA 1 cut(s) 58
Eam1104I CTCTTC 3 cut(s) 257, 562, 591
EarI CTCTTC 3 cut(s) 257, 562, 591
Eco130I CCWWGG 3 cut(s) 196, 445, 626
Eco24I GRGCYC 1 cut(s) 294
Eco32I GATATC 1 cut(s) 559
Eco57I CTGAAG 1 cut(s) 281
EcoRV GATATC 1 cut(s) 559
EcoT14I CCWWGG 3 cut(s) 196, 445, 626
EcoT22I ATGCAT 1 cut(s) 650
EcoT38I GRGCYC 1 cut(s) 294
ErhI CCWWGG 3 cut(s) 196, 445, 626
FaeI CATG 4 cut(s) 23, 200, 658, 685
FalI AAGNNNNNCTT 2 cut(s) 137, 169
FatI CATG 4 cut(s) 19, 196, 654, 681
Fnu4HI GCNGC 1 cut(s) 323
FriOI GRGCYC 1 cut(s) 294
Fsp4HI GCNGC 1 cut(s) 323
FspBI CTAG 1 cut(s) 521
FspI TGCGCA 1 cut(s) 243
GlaI GCGC 1 cut(s) 243
GluI GCNGC 1 cut(s) 323
GsuI CTGGAG 1 cut(s) 84
HhaI GCGC 1 cut(s) 244
Hin1II CATG 4 cut(s) 23, 200, 658, 685
Hin6I GCGC 1 cut(s) 242
HinP1I GCGC 1 cut(s) 242
HphI GGTGA 1 cut(s) 154
Hpy166II GTNNAC 1 cut(s) 400
Hpy188I TCNGA 9 cut(s) 44, 151, 261, 313, 460, 480, 566, 587, 675
Hpy188III TCNNGA 3 cut(s) 80, 427, 536
Hpy8I GTNNAC 1 cut(s) 400
HpyAV CCTTC 1 cut(s) 368
HpyCH4III ACNGT 2 cut(s) 185, 298
HpyCH4IV ACGT 1 cut(s) 617
HpyCH4V TGCA 3 cut(s) 224, 503, 648
HpyF3I CTNAG 2 cut(s) 584, 674
HpySE526I ACGT 1 cut(s) 617
Hsp92II CATG 4 cut(s) 23, 200, 658, 685
HspAI GCGC 1 cut(s) 242
Kzo9I GATC 1 cut(s) 475
LmnI GCTCC 1 cut(s) 135
LpnPI CCDG 7 cut(s) 48, 147, 268, 272, 333, 412, 435
Lsp1109I GCAGC 1 cut(s) 334
LweI GCATC 3 cut(s) 490, 529, 657
MaeI CTAG 1 cut(s) 521
MaeII ACGT 1 cut(s) 617
MaeIII GTNAC 1 cut(s) 94
MalI GATC 1 cut(s) 477
MboI GATC 1 cut(s) 475
MflI RGATCY 1 cut(s) 475
MhlI GDGCHC 1 cut(s) 294
MluCI AATT 3 cut(s) 188, 273, 531
MnlI CCTC 5 cut(s) 194, 538, 563, 633, 671
Mph1103I ATGCAT 1 cut(s) 650
MseI TTAA 1 cut(s) 57
MslI CAYNNNNRTG 1 cut(s) 653
Mva1269I GAATGC 2 cut(s) 583, 650
NcoI CCATGG 1 cut(s) 196
NdeII GATC 1 cut(s) 475
NlaIII CATG 4 cut(s) 23, 200, 658, 685
NmuCI GTSAC 1 cut(s) 94
NsbI TGCGCA 1 cut(s) 243
NsiI ATGCAT 1 cut(s) 650
NspI RCATGY 2 cut(s) 23, 658
PciI ACATGT 1 cut(s) 19
PctI GAATGC 2 cut(s) 583, 650
PkrI GCNGC 1 cut(s) 324
PscI ACATGT 1 cut(s) 19
PsiI TTATAA 1 cut(s) 212
PsuI RGATCY 1 cut(s) 475
RsaI GTAC 2 cut(s) 18, 401
RsaNI GTAC 2 cut(s) 17, 400
RseI CAYNNNNRTG 1 cut(s) 653
SaqAI TTAA 1 cut(s) 57
SatI GCNGC 1 cut(s) 323
Sau3AI GATC 1 cut(s) 475
SduI GDGCHC 1 cut(s) 294
SetI ASST 7 cut(s) 132, 181, 205, 236, 257, 311, 620
SfaNI GCATC 3 cut(s) 490, 529, 657
SmiMI CAYNNNNRTG 1 cut(s) 653
Sse9I AATT 3 cut(s) 188, 273, 531
SspMI CTAG 1 cut(s) 521
StyI CCWWGG 3 cut(s) 196, 445, 626
TaaI ACNGT 2 cut(s) 185, 298
TaiI ACGT 1 cut(s) 620
TasI AATT 3 cut(s) 188, 273, 531
TatI WGTACW 2 cut(s) 16, 399
Tru1I TTAA 1 cut(s) 57
Tru9I TTAA 1 cut(s) 57
TscAI CASTG 2 cut(s) 141, 402
TseFI GTSAC 1 cut(s) 94
TseI GCWGC 1 cut(s) 322
Tsp45I GTSAC 1 cut(s) 94
TspDTI ATGAA 1 cut(s) 480
TspGWI ACGGA 1 cut(s) 116
TspRI CASTG 2 cut(s) 141, 402
XapI RAATTY 1 cut(s) 188
XceI RCATGY 2 cut(s) 23, 658
XspI CTAG 1 cut(s) 521
Zsp2I ATGCAT 1 cut(s) 650
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.