Rh5AG285000

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
Chr5A
OG0017267
Physical Location & Seq
Reverse (-)
38631219 .. 38633202
1984 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5AG285000.1

Sequence Viewer

Length: 798 bp
ATGCATGGGCAGAAGGGTGTCCTAGGCTTTTTGGAGTCTGAAGAGAACTTCCCCTTCACAATACAGGGGATAGTTCCAGATATTGTAATTAATCCACATGCATTTCCTTCACGACAAGCTCCTGGTCAACTCCTAGAGGCTGCTTTAGGGAAGGGGATTGCCTGTGGTGGCTCAATGAGATATGCAACTCCTTTCTCTACTCCCTCTGTTGATGACATCACAGATCAGCTTCATAGAGCTGGATTTCAAAGATGGGGAAATGAGAGAGTATACAGTGGTCAAACTGGTCAAATAGTTCGCCAACTGATATTTATGGGCCCAACATTCTATCAACGTCTCATTCACATGTCTGAAGACAAAGTGAAGTTCAGGAACACTGGGCCAGTTCACCCTCTCACCCGGCAGCCAGTGGCAGACAGGAAGAGATTTGGTGGGGTAAAGTTTGGTGAGATGGAGCGCGACTGCCTTATAGCCCATGGAGCATCAGCAAACTTACATGAACGCCTTTTCACTCTTAGTGACTCCTCCGAAATGCATGCTTGCCTGAAATGCAAAAATGCGGCTAATGTGATAGATGGAACAGTTGATGGCAGTAGAATAAGGGGTCCATATTGCCGGGTCTGTAAGTCTGTTGATGACATTGTCAGGTTGAATGTTCCATATGGGGCCAAGTTATTGTGCCAGAAACTTTTCTGCATGGGCATAAGTCTCAAGTTTGAGACCAGGCTCTGTTTCGGGAGCGCTATAGAACTTTGTTTTGTAAATGACTATGAATATCTCTCAGTTAATGCCCCGTAG
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

265

Amino Acids

29.42

Weight (kDa)

8.51

Isoelectric Point (pI)

36.04

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RNA_pol_Rpb2_6 PF00562 2 - 142 3.9e-54 RNA polymerase Rpb2, domain 6
RNA_pol_Rpb2_7 PF04560 144 - 240 1.3e-24 RNA polymerase Rpb2, domain 7
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)
AccI GTMKAC 1 cut(s) 270
AccII CGCG 1 cut(s) 459
AciI CCGC 1 cut(s) 560
AcuI CTGAAG 2 cut(s) 60, 372
AfeI AGCGCT 1 cut(s) 742
AflIII ACRYGT 1 cut(s) 345
AgsI TTSAA 2 cut(s) 248, 652
AjnI CCWGG 2 cut(s) 121, 722
AluBI AGCT 3 cut(s) 119, 229, 239
AluI AGCT 3 cut(s) 119, 229, 239
Alw26I GTCTC 3 cut(s) 341, 713, 713
AlwNI CAGNNNCTG 1 cut(s) 729
Aor51HI AGCGCT 1 cut(s) 742
AoxI GGCC 3 cut(s) 316, 380, 666
ApaI GGGCCC 1 cut(s) 320
ApeKI GCWGC 2 cut(s) 140, 403
AseI ATTAAT 1 cut(s) 90
Asp700I GAANNNNTTC 1 cut(s) 689
AspA2I CCTAGG 1 cut(s) 22
AspLEI GCGC 2 cut(s) 459, 743
AspS9I GGNCC 5 cut(s) 316, 317, 380, 605, 666
AsuC2I CCSGG 2 cut(s) 400, 617
AsuHPI GGTGA 3 cut(s) 380, 388, 458
AvaII GGWCC 1 cut(s) 605
AvrII CCTAGG 1 cut(s) 22
BaeGI GKGCMC 1 cut(s) 320
BanII GRGCYC 1 cut(s) 320
BbsI GAAGAC 1 cut(s) 360
BbvI GCAGC 2 cut(s) 127, 415
BccI CCATC 4 cut(s) 246, 445, 569, 581
BcgI CGANNNNNNTGC 2 cut(s) 518, 552
BciT130I CCWGG 2 cut(s) 123, 724
BcnI CCSGG 2 cut(s) 400, 617
BcoDI GTCTC 3 cut(s) 341, 713, 713
BfaI CTAG 2 cut(s) 23, 134
BfmI CTRYAG 1 cut(s) 744
BfoI RGCGCY 1 cut(s) 744
BisI GCNGC 3 cut(s) 141, 404, 561
BlnI CCTAGG 1 cut(s) 22
BlsI GCNGC 3 cut(s) 142, 405, 562
Bme1390I CCNGG 4 cut(s) 123, 400, 617, 724
Bme18I GGWCC 1 cut(s) 605
BmgT120I GGNCC 5 cut(s) 316, 317, 380, 605, 666
BmiI GGNNCC 3 cut(s) 318, 606, 667
BmrFI CCNGG 4 cut(s) 123, 400, 617, 724
BmrI ACTGGG 1 cut(s) 387
BmsI GCATC 1 cut(s) 491
BmuI ACTGGG 1 cut(s) 387
BpiI GAAGAC 1 cut(s) 360
BpuEI CTTGAG 1 cut(s) 695
BpuMI CCSGG 2 cut(s) 400, 617
BsaI GGTCTC 1 cut(s) 713
BsaJI CCNNGG 2 cut(s) 22, 475
Bse1I ACTGG 4 cut(s) 289, 382, 383, 407
BseBI CCWGG 2 cut(s) 123, 724
BseDI CCNNGG 2 cut(s) 22, 475
BseMII CTCAG 1 cut(s) 795
BseNI ACTGG 4 cut(s) 289, 382, 383, 407
BseRI GAGGAG 1 cut(s) 514
BseSI GKGCMC 1 cut(s) 320
BseXI GCAGC 2 cut(s) 127, 415
Bsh1236I CGCG 1 cut(s) 459
BshFI GGCC 3 cut(s) 318, 382, 668
BsiSI CCGG 2 cut(s) 400, 616
BsmAI GTCTC 3 cut(s) 341, 713, 713
BsmBI CGTCTC 1 cut(s) 341
BsnI GGCC 3 cut(s) 318, 382, 668
Bso31I GGTCTC 1 cut(s) 713
Bsp120I GGGCCC 1 cut(s) 316
Bsp1286I GDGCHC 1 cut(s) 320
Bsp143I GATC 1 cut(s) 223
Bsp19I CCATGG 1 cut(s) 475
BspACI CCGC 1 cut(s) 560
BspANI GGCC 3 cut(s) 318, 382, 668
BspCNI CTCAG 1 cut(s) 794
BspFNI CGCG 1 cut(s) 459
BspLI GGNNCC 3 cut(s) 318, 606, 667
BspTNI GGTCTC 1 cut(s) 713
BsrI ACTGG 4 cut(s) 289, 382, 383, 407
BssECI CCNNGG 2 cut(s) 22, 475
BssMI GATC 1 cut(s) 223
BssNAI GTATAC 1 cut(s) 271
BssT1I CCWWGG 2 cut(s) 22, 475
Bst1107I GTATAC 1 cut(s) 271
Bst2UI CCWGG 2 cut(s) 123, 724
Bst4CI ACNGT 2 cut(s) 275, 583
Bst6I CTCTTC 2 cut(s) 36, 416
BstC8I GCNNGC 2 cut(s) 537, 541
BstDEI CTNAG 2 cut(s) 515, 781
BstDSI CCRYGG 1 cut(s) 475
BstFNI CGCG 1 cut(s) 459
BstH2I RGCGCY 1 cut(s) 744
BstHHI GCGC 2 cut(s) 459, 743
BstKTI GATC 1 cut(s) 226
BstMAI GTCTC 3 cut(s) 341, 713, 713
BstMBI GATC 1 cut(s) 223
BstMWI GCNNNNNNNGC 2 cut(s) 479, 549
BstNI CCWGG 2 cut(s) 123, 724
BstNSI RCATGY 3 cut(s) 101, 349, 539
BstSCI CCNGG 4 cut(s) 121, 398, 615, 722
BstSFI CTRYAG 1 cut(s) 744
BstSLI GKGCMC 1 cut(s) 320
BstUI CGCG 1 cut(s) 459
BstV1I GCAGC 2 cut(s) 127, 415
BstV2I GAAGAC 1 cut(s) 360
BstZ17I GTATAC 1 cut(s) 271
BsuRI GGCC 3 cut(s) 318, 382, 668
BtgI CCRYGG 1 cut(s) 475
BtsIMutI CAGTG 3 cut(s) 280, 375, 414
Cac8I GCNNGC 2 cut(s) 537, 541
CaiI CAGNNNCTG 1 cut(s) 729
CfoI GCGC 2 cut(s) 459, 743
Cfr13I GGNCC 5 cut(s) 316, 317, 380, 605, 666
CviAII CATG 7 cut(s) 5, 98, 346, 476, 497, 536, 697
DdeI CTNAG 2 cut(s) 515, 781
DpnI GATC 1 cut(s) 225
DpnII GATC 1 cut(s) 223
Eam1104I CTCTTC 2 cut(s) 36, 416
EarI CTCTTC 2 cut(s) 36, 416
Eco130I CCWWGG 2 cut(s) 22, 475
Eco24I GRGCYC 1 cut(s) 320
Eco31I GGTCTC 1 cut(s) 713
Eco47I GGWCC 1 cut(s) 605
Eco47III AGCGCT 1 cut(s) 742
Eco57I CTGAAG 2 cut(s) 60, 372
EcoRII CCWGG 2 cut(s) 121, 722
EcoT14I CCWWGG 2 cut(s) 22, 475
EcoT22I ATGCAT 3 cut(s) 6, 103, 537
EcoT38I GRGCYC 1 cut(s) 320
ErhI CCWWGG 2 cut(s) 22, 475
Esp3I CGTCTC 1 cut(s) 341
FaeI CATG 7 cut(s) 8, 101, 349, 479, 500, 539, 700
FatI CATG 7 cut(s) 4, 97, 345, 475, 496, 535, 696
FauNDI CATATG 1 cut(s) 661
FblI GTMKAC 1 cut(s) 270
Fnu4HI GCNGC 3 cut(s) 141, 404, 561
FriOI GRGCYC 1 cut(s) 320
Fsp4HI GCNGC 3 cut(s) 141, 404, 561
FspBI CTAG 2 cut(s) 23, 134
GlaI GCGC 2 cut(s) 458, 742
GluI GCNGC 3 cut(s) 141, 404, 561
HaeII RGCGCY 1 cut(s) 744
HaeIII GGCC 3 cut(s) 318, 382, 668
HapII CCGG 2 cut(s) 400, 616
HhaI GCGC 2 cut(s) 459, 743
Hin1II CATG 7 cut(s) 8, 101, 349, 479, 500, 539, 700
Hin6I GCGC 2 cut(s) 457, 741
HinP1I GCGC 2 cut(s) 457, 741
HincII GTYRAC 1 cut(s) 128
HindII GTYRAC 1 cut(s) 128
HinfI GANTC 2 cut(s) 35, 521
HpaII CCGG 2 cut(s) 400, 616
HphI GGTGA 3 cut(s) 380, 388, 458
Hpy166II GTNNAC 3 cut(s) 128, 271, 388
Hpy188I TCNGA 3 cut(s) 40, 352, 529
Hpy188III TCNNGA 4 cut(s) 77, 111, 370, 736
Hpy8I GTNNAC 3 cut(s) 128, 271, 388
HpyAV CCTTC 4 cut(s) 7, 64, 117, 145
HpyCH4III ACNGT 2 cut(s) 275, 583
HpyCH4IV ACGT 1 cut(s) 334
HpyCH4V TGCA 6 cut(s) 4, 101, 185, 535, 552, 696
HpyF10VI GCNNNNNNNGC 2 cut(s) 479, 549
HpyF3I CTNAG 2 cut(s) 515, 781
HpySE526I ACGT 1 cut(s) 334
Hsp92II CATG 7 cut(s) 8, 101, 349, 479, 500, 539, 700
HspAI GCGC 2 cut(s) 457, 741
Kzo9I GATC 1 cut(s) 223
LmnI GCTCC 4 cut(s) 124, 454, 479, 738
Lsp1109I GCAGC 2 cut(s) 127, 415
LweI GCATC 1 cut(s) 491
MaeI CTAG 2 cut(s) 23, 134
MaeII ACGT 1 cut(s) 334
MaeIII GTNAC 1 cut(s) 518
MalI GATC 1 cut(s) 225
MboI GATC 1 cut(s) 223
MboII GAAGA 3 cut(s) 53, 365, 433
MhlI GDGCHC 1 cut(s) 320
MluCI AATT 1 cut(s) 87
MlyI GAGTC 2 cut(s) 44, 515
MnlI CCTC 4 cut(s) 130, 214, 402, 535
Mph1103I ATGCAT 3 cut(s) 6, 103, 537
MroXI GAANNNNTTC 1 cut(s) 689
MseI TTAA 2 cut(s) 90, 786
MslI CAYNNNNRTG 1 cut(s) 344
MspI CCGG 2 cut(s) 400, 616
MspR9I CCNGG 4 cut(s) 123, 400, 617, 724
MvaI CCWGG 2 cut(s) 123, 724
MvnI CGCG 1 cut(s) 459
MwoI GCNNNNNNNGC 2 cut(s) 479, 549
NciI CCSGG 2 cut(s) 400, 617
NcoI CCATGG 1 cut(s) 475
NdeI CATATG 1 cut(s) 661
NdeII GATC 1 cut(s) 223
NlaIII CATG 7 cut(s) 8, 101, 349, 479, 500, 539, 700
NlaIV GGNNCC 3 cut(s) 318, 606, 667
NmuCI GTSAC 1 cut(s) 518
NsiI ATGCAT 3 cut(s) 6, 103, 537
NspI RCATGY 3 cut(s) 101, 349, 539
PaeI GCATGC 1 cut(s) 539
PciI ACATGT 1 cut(s) 345
PdmI GAANNNNTTC 1 cut(s) 689
PflFI GACNNNGTC 1 cut(s) 641
PkrI GCNGC 3 cut(s) 142, 405, 562
PleI GAGTC 2 cut(s) 43, 515
PpsI GAGTC 2 cut(s) 43, 515
PscI ACATGT 1 cut(s) 345
PshBI ATTAAT 1 cut(s) 90
Psp6I CCWGG 2 cut(s) 121, 722
PspGI CCWGG 2 cut(s) 121, 722
PspN4I GGNNCC 3 cut(s) 318, 606, 667
PspOMI GGGCCC 1 cut(s) 316
PspPI GGNCC 5 cut(s) 316, 317, 380, 605, 666
PstNI CAGNNNCTG 1 cut(s) 729
PsyI GACNNNGTC 1 cut(s) 641
RseI CAYNNNNRTG 1 cut(s) 344
SaqAI TTAA 2 cut(s) 90, 786
SatI GCNGC 3 cut(s) 141, 404, 561
Sau3AI GATC 1 cut(s) 223
Sau96I GGNCC 5 cut(s) 316, 317, 380, 605, 666
SchI GAGTC 2 cut(s) 44, 515
ScrFI CCNGG 4 cut(s) 123, 400, 617, 724
SduI GDGCHC 1 cut(s) 320
SetI ASST 5 cut(s) 121, 231, 241, 337, 650
SfaNI GCATC 1 cut(s) 491
SfcI CTRYAG 1 cut(s) 744
SinI GGWCC 1 cut(s) 605
SmiMI CAYNNNNRTG 1 cut(s) 344
SmlI CTYRAG 1 cut(s) 710
SmoI CTYRAG 1 cut(s) 710
SphI GCATGC 1 cut(s) 539
Sse9I AATT 1 cut(s) 87
SsiI CCGC 1 cut(s) 560
SspMI CTAG 2 cut(s) 23, 134
StyD4I CCNGG 4 cut(s) 121, 398, 615, 722
StyI CCWWGG 2 cut(s) 22, 475
TaaI ACNGT 2 cut(s) 275, 583
TaiI ACGT 1 cut(s) 337
TasI AATT 1 cut(s) 87
TauI GCSGC 1 cut(s) 563
Tru1I TTAA 2 cut(s) 90, 786
Tru9I TTAA 2 cut(s) 90, 786
TscAI CASTG 3 cut(s) 280, 382, 414
TseFI GTSAC 1 cut(s) 518
TseI GCWGC 2 cut(s) 140, 403
Tsp45I GTSAC 1 cut(s) 518
TspDTI ATGAA 3 cut(s) 221, 513, 786
TspRI CASTG 3 cut(s) 280, 382, 414
Tth111I GACNNNGTC 1 cut(s) 641
VpaK11BI GGWCC 1 cut(s) 605
VspI ATTAAT 1 cut(s) 90
XceI RCATGY 3 cut(s) 101, 349, 539
XmaJI CCTAGG 1 cut(s) 22
XmiI GTMKAC 1 cut(s) 270
XmnI GAANNNNTTC 1 cut(s) 689
XspI CTAG 2 cut(s) 23, 134
Zsp2I ATGCAT 3 cut(s) 6, 103, 537
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.