Rh3CG224200

DNA-directed RNA polymerases I, II, and III subunit RPABC1-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr3C
OG0003607
Physical Location & Seq
Forward (+)
20948326 .. 20950726
2401 bp
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UTR
Exon/CDS
Intron
Rh3CG224200.1

Sequence Viewer

Length: 570 bp
ATGGCTACCGTGGTGTTGGACGACGCCGTTTCGGGTGGCGGTGGAGGAGGCCAGGCGGGATGCATGACGAGCCACGACGTCGTCGGTGGAGGGAGCTTGGAGAGCTACCGGTACTACGTGTCTCGTCGTACGGTGATGGAGATGCTGAGCGACCGAGGCTACAACGTCGCCGACTCGAACCTCACTCGCTCACTCACTGAGTTCCGTACCGCGTTCGGCCAAAACCCTGACCTCGACCACCTCACCATCTGCGCCTCTCTCCGCTCCAATTCCAAGAACAAGATTATGGTCATCTTCTGTGGAACTGATGAAATCAGAAAGGCGAGTGTTTGTGCCATTTATGCTAACCTCCTGAACAAAGATATAAGCTCTCTGATGCTTGTCCTGCAAAGTAAAATGAACTCCTATGCTAAAAAAGAGCTGGAAAACTATCCTTACAAAGTTGAAACTTTCCACGCAGTTCCTACACTGAATATATACATGTCATGTACATGTCCTGGATGTCTGGTACCTGATACTGATAGCATTGATTTAACTCCATTCAATATTATAAATGAAGTACCCGATTAA

Protein Analysis

189

Amino Acids

20.65

Weight (kDa)

5.17

Isoelectric Point (pI)

57.2

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RNA_pol_Rpb5_N PF03871 34 - 110 1.4e-21 RNA polymerase Rpb5, N-terminal domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 551
AatII GACGTC 1 cut(s) 81
Acc65I GGTACC 1 cut(s) 508
AccB1I GGYRCC 1 cut(s) 508
AccBSI CCGCTC 1 cut(s) 264
AccII CGCG 1 cut(s) 212
AciI CCGC 4 cut(s) 39, 56, 210, 262
AcoI YGGCCR 1 cut(s) 217
AcyI GRCGYC 2 cut(s) 24, 78
AfaI GTAC 6 cut(s) 113, 130, 208, 490, 510, 561
AflIII ACRYGT 3 cut(s) 117, 480, 491
AgeI ACCGGT 1 cut(s) 108
AgsI TTSAA 2 cut(s) 446, 544
AjnI CCWGG 2 cut(s) 51, 496
AluBI AGCT 4 cut(s) 96, 105, 369, 421
AluI AGCT 4 cut(s) 96, 105, 369, 421
Alw26I GTCTC 1 cut(s) 126
AoxI GGCC 2 cut(s) 49, 217
AsiGI ACCGGT 1 cut(s) 108
Asp718I GGTACC 1 cut(s) 508
AspLEI GCGC 1 cut(s) 254
AsuHPI GGTGA 2 cut(s) 145, 235
BanI GGYRCC 1 cut(s) 508
BccI CCATC 2 cut(s) 130, 254
BceAI ACGGC 1 cut(s) 11
BciT130I CCWGG 2 cut(s) 53, 498
BcoDI GTCTC 1 cut(s) 126
BlpI GCTNAGC 1 cut(s) 146
Bme1390I CCNGG 2 cut(s) 53, 498
BmiI GGNNCC 1 cut(s) 510
BmrFI CCNGG 2 cut(s) 53, 498
BmsI GCATC 3 cut(s) 50, 132, 366
Bpu1102I GCTNAGC 1 cut(s) 146
BsaAI YACGTR 1 cut(s) 118
BsaHI GRCGYC 2 cut(s) 24, 78
BsaJI CCNNGG 2 cut(s) 9, 154
BsaWI WCCGGW 1 cut(s) 108
Bse118I RCCGGY 1 cut(s) 108
BseBI CCWGG 2 cut(s) 53, 498
BseDI CCNNGG 2 cut(s) 9, 154
BseGI GGATG 2 cut(s) 65, 506
BseMII CTCAG 2 cut(s) 137, 189
BseRI GAGGAG 1 cut(s) 60
Bsh1236I CGCG 1 cut(s) 212
Bsh1285I CGRYCG 1 cut(s) 154
BshFI GGCC 2 cut(s) 51, 219
BshNI GGYRCC 1 cut(s) 508
BshTI ACCGGT 1 cut(s) 108
BsiEI CGRYCG 1 cut(s) 154
BsiSI CCGG 1 cut(s) 109
BsiWI CGTACG 1 cut(s) 128
BsmAI GTCTC 1 cut(s) 126
BsnI GGCC 2 cut(s) 51, 219
Bsp1407I TGTACA 1 cut(s) 488
Bsp1720I GCTNAGC 1 cut(s) 146
BspACI CCGC 4 cut(s) 39, 56, 210, 262
BspANI GGCC 2 cut(s) 51, 219
BspCNI CTCAG 2 cut(s) 138, 190
BspFNI CGCG 1 cut(s) 212
BspLI GGNNCC 1 cut(s) 510
BspT107I GGYRCC 1 cut(s) 508
BsrBI CCGCTC 1 cut(s) 264
BsrFI RCCGGY 1 cut(s) 108
BsrGI TGTACA 1 cut(s) 488
BssAI RCCGGY 1 cut(s) 108
BssECI CCNNGG 2 cut(s) 9, 154
BssNI GRCGYC 2 cut(s) 24, 78
Bst2UI CCWGG 2 cut(s) 53, 498
Bst4CI ACNGT 2 cut(s) 10, 133
BstACI GRCGYC 2 cut(s) 24, 78
BstAUI TGTACA 1 cut(s) 488
BstBAI YACGTR 1 cut(s) 118
BstDEI CTNAG 2 cut(s) 146, 198
BstDSI CCRYGG 1 cut(s) 9
BstF5I GGATG 2 cut(s) 65, 506
BstFNI CGCG 1 cut(s) 212
BstHHI GCGC 1 cut(s) 254
BstMAI GTCTC 1 cut(s) 126
BstMCI CGRYCG 1 cut(s) 154
BstMWI GCNNNNNNNGC 5 cut(s) 69, 102, 156, 341, 385
BstNI CCWGG 2 cut(s) 53, 498
BstNSI RCATGY 2 cut(s) 484, 495
BstSCI CCNGG 2 cut(s) 51, 496
BstUI CGCG 1 cut(s) 212
BsuRI GGCC 2 cut(s) 51, 219
BtgI CCRYGG 1 cut(s) 9
BtsCI GGATG 2 cut(s) 65, 506
BtsIMutI CAGTG 2 cut(s) 195, 467
CfoI GCGC 1 cut(s) 254
Cfr10I RCCGGY 1 cut(s) 108
CseI GACGC 1 cut(s) 32
Csp6I GTAC 6 cut(s) 112, 129, 207, 489, 509, 560
CspAI ACCGGT 1 cut(s) 108
CviAII CATG 4 cut(s) 64, 481, 486, 492
CviJI RGCY 9 cut(s) 5, 51, 72, 96, 105, 159, 219, 369, 421
CviKI_1 RGCY 9 cut(s) 5, 51, 72, 96, 105, 159, 219, 369, 421
CviQI GTAC 6 cut(s) 112, 129, 207, 489, 509, 560
DdeI CTNAG 2 cut(s) 146, 198
EaeI YGGCCR 1 cut(s) 217
EcoRII CCWGG 2 cut(s) 51, 496
EcoT22I ATGCAT 1 cut(s) 65
FaeI CATG 4 cut(s) 67, 484, 489, 495
FatI CATG 4 cut(s) 63, 480, 485, 491
FauI CCCGC 1 cut(s) 49
FokI GGATG 2 cut(s) 72, 513
GlaI GCGC 1 cut(s) 253
HaeIII GGCC 2 cut(s) 51, 219
HapII CCGG 1 cut(s) 109
HgaI GACGC 1 cut(s) 32
HhaI GCGC 1 cut(s) 254
Hin1I GRCGYC 2 cut(s) 24, 78
Hin1II CATG 4 cut(s) 67, 484, 489, 495
Hin6I GCGC 1 cut(s) 252
HinP1I GCGC 1 cut(s) 252
HinfI GANTC 1 cut(s) 173
HpaII CCGG 1 cut(s) 109
HphI GGTGA 2 cut(s) 145, 235
Hpy188I TCNGA 2 cut(s) 317, 375
Hpy188III TCNNGA 1 cut(s) 352
Hpy99I CGWCG 6 cut(s) 26, 80, 83, 86, 129, 170
HpyCH4III ACNGT 2 cut(s) 10, 133
HpyCH4IV ACGT 3 cut(s) 78, 117, 165
HpyCH4V TGCA 2 cut(s) 63, 388
HpyF10VI GCNNNNNNNGC 5 cut(s) 69, 102, 156, 341, 385
HpyF3I CTNAG 2 cut(s) 146, 198
HpySE526I ACGT 3 cut(s) 78, 117, 165
Hsp92I GRCGYC 2 cut(s) 24, 78
Hsp92II CATG 4 cut(s) 67, 484, 489, 495
HspAI GCGC 1 cut(s) 252
KpnI GGTACC 1 cut(s) 512
LmnI GCTCC 2 cut(s) 93, 269
LweI GCATC 3 cut(s) 50, 132, 366
MaeII ACGT 3 cut(s) 78, 117, 165
MbiI CCGCTC 1 cut(s) 264
MboII GAAGA 1 cut(s) 286
MluCI AATT 1 cut(s) 268
MlyI GAGTC 1 cut(s) 167
MnlI CCTC 9 cut(s) 38, 41, 83, 149, 191, 242, 251, 265, 359
Mph1103I ATGCAT 1 cut(s) 65
MseI TTAA 2 cut(s) 533, 568
MslI CAYNNNNRTG 1 cut(s) 490
MspI CCGG 1 cut(s) 109
MspR9I CCNGG 2 cut(s) 53, 498
MvaI CCWGG 2 cut(s) 53, 498
MvnI CGCG 1 cut(s) 212
MwoI GCNNNNNNNGC 5 cut(s) 69, 102, 156, 341, 385
NlaIII CATG 4 cut(s) 67, 484, 489, 495
NlaIV GGNNCC 1 cut(s) 510
NsiI ATGCAT 1 cut(s) 65
NspI RCATGY 2 cut(s) 484, 495
PciI ACATGT 2 cut(s) 480, 491
Pfl23II CGTACG 1 cut(s) 128
PflFI GACNNNGTC 1 cut(s) 80
PfoI TCCNGGA 1 cut(s) 496
PinAI ACCGGT 1 cut(s) 108
PleI GAGTC 1 cut(s) 167
PpsI GAGTC 1 cut(s) 167
Ppu21I YACGTR 1 cut(s) 118
PscI ACATGT 2 cut(s) 480, 491
PsiI TTATAA 1 cut(s) 551
Psp6I CCWGG 2 cut(s) 51, 496
PspGI CCWGG 2 cut(s) 51, 496
PspLI CGTACG 1 cut(s) 128
PspN4I GGNNCC 1 cut(s) 510
PsyI GACNNNGTC 1 cut(s) 80
RsaI GTAC 6 cut(s) 113, 130, 208, 490, 510, 561
RsaNI GTAC 6 cut(s) 112, 129, 207, 489, 509, 560
RseI CAYNNNNRTG 1 cut(s) 490
SaqAI TTAA 2 cut(s) 533, 568
SchI GAGTC 1 cut(s) 167
ScrFI CCNGG 2 cut(s) 53, 498
SfaNI GCATC 3 cut(s) 50, 132, 366
SmiMI CAYNNNNRTG 1 cut(s) 490
Sse9I AATT 1 cut(s) 268
SsiI CCGC 4 cut(s) 39, 56, 210, 262
SspI AATATT 1 cut(s) 547
StyD4I CCNGG 2 cut(s) 51, 496
TaaI ACNGT 2 cut(s) 10, 133
TaiI ACGT 3 cut(s) 81, 120, 168
TaqI TCGA 2 cut(s) 176, 234
TaqII GACCGA 1 cut(s) 168
TasI AATT 1 cut(s) 268
TatI WGTACW 1 cut(s) 488
Tru1I TTAA 2 cut(s) 533, 568
Tru9I TTAA 2 cut(s) 533, 568
TscAI CASTG 2 cut(s) 202, 474
TspDTI ATGAA 3 cut(s) 324, 413, 570
TspGWI ACGGA 1 cut(s) 194
TspRI CASTG 2 cut(s) 202, 474
Tth111I GACNNNGTC 1 cut(s) 80
XceI RCATGY 2 cut(s) 484, 495
ZraI GACGTC 1 cut(s) 79
Zsp2I ATGCAT 1 cut(s) 65
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.