RchiOBHm_Chr2g0102161

rna polymerase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
2
OG0017067
Physical Location & Seq
Forward (+)
13595500 .. 13595937
438 bp
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UTR
Exon/CDS
Intron
N/A

Sequence Viewer

Length: 438 bp
ATGAATCAGAATTTTTCTTCTATGATTGATCGGTATAAACATCAACAACTTCAGATTGGATTAGTTTCTCCTCAACAAATAAGCGCTAGGGCACAAAAAATCCTACCTAATGGAGAGATAGTTGGGGAGGTGACAAAACCCTATACTTTTCATTACAAAACAAATAAACCTGAAAAAGACGGATTGTTTTGTGAAAGAATTTTTGGGCCTATAAAAAGTGGGACTTGTGCTTGTGGAAATTATCGAGTAATCGGAGATGAAAAAAAAGACCCGAGATTTTGTGAACAGTGTGGAGTTGAATTTGTTGATTCTCGGATACGAAGATATCAAATGGGCTACATCAAACTGGCATGCCCACTAACCCACGTATGGTATTTGAAACGTCTTCCTAGTTATATCGCAAATCTCTTAGATAAGCCTCTTAAAGAATTAGATTGA

Protein Analysis

145

Amino Acids

16.78

Weight (kDa)

9.14

Isoelectric Point (pI)

32.22

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RNA_pol_Rpb1_1 PF04997 15 - 130 2.7e-16 RNA polymerase Rpb1, domain 1
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)
AcsI RAATTY 3 cut(s) 10, 198, 299
AcuI CTGAAG 1 cut(s) 35
AfeI AGCGCT 1 cut(s) 85
AfiI CCNNNNNNNGG 1 cut(s) 369
AgsI TTSAA 2 cut(s) 299, 379
AjuI GAANNNNNNNTTGG 2 cut(s) 186, 218
Ama87I CYCGRG 1 cut(s) 271
Aor51HI AGCGCT 1 cut(s) 85
AoxI GGCC 1 cut(s) 206
ApoI RAATTY 3 cut(s) 10, 198, 299
AspLEI GCGC 1 cut(s) 86
AspS9I GGNCC 1 cut(s) 206
AsuHPI GGTGA 1 cut(s) 142
AvaI CYCGRG 1 cut(s) 271
BaeGI GKGCMC 1 cut(s) 94
BbsI GAAGAC 1 cut(s) 377
BciVI GTATCC 1 cut(s) 309
BfaI CTAG 2 cut(s) 87, 390
BfoI RGCGCY 1 cut(s) 87
BfuI GTATCC 1 cut(s) 309
BmeT110I CYCGRG 1 cut(s) 271
BmgT120I GGNCC 1 cut(s) 206
BpiI GAAGAC 1 cut(s) 377
BsaAI YACGTR 1 cut(s) 367
BsaXI ACNNNNNCTCC 2 cut(s) 105, 135
Bsc4I CCNNNNNNNGG 1 cut(s) 369
Bse1I ACTGG 1 cut(s) 351
BseLI CCNNNNNNNGG 1 cut(s) 369
BseNI ACTGG 1 cut(s) 351
BseRI GAGGAG 1 cut(s) 60
BseSI GKGCMC 1 cut(s) 94
BshFI GGCC 1 cut(s) 208
BsiHKCI CYCGRG 1 cut(s) 271
BslFI GGGAC 1 cut(s) 235
BslI CCNNNNNNNGG 1 cut(s) 369
BsmFI GGGAC 1 cut(s) 235
BsnI GGCC 1 cut(s) 208
BsoBI CYCGRG 1 cut(s) 271
Bsp1286I GDGCHC 1 cut(s) 94
Bsp143I GATC 1 cut(s) 28
BspANI GGCC 1 cut(s) 208
BsrI ACTGG 1 cut(s) 351
BssMI GATC 1 cut(s) 28
Bst4CI ACNGT 1 cut(s) 288
BstBAI YACGTR 1 cut(s) 367
BstC8I GCNNGC 1 cut(s) 352
BstDEI CTNAG 1 cut(s) 409
BstH2I RGCGCY 1 cut(s) 87
BstHHI GCGC 1 cut(s) 86
BstKTI GATC 1 cut(s) 31
BstMBI GATC 1 cut(s) 28
BstNSI RCATGY 1 cut(s) 354
BstSLI GKGCMC 1 cut(s) 94
BstV2I GAAGAC 1 cut(s) 377
BsuI GTATCC 1 cut(s) 309
BsuRI GGCC 1 cut(s) 208
BtsIMutI CAGTG 1 cut(s) 293
Cac8I GCNNGC 1 cut(s) 352
CfoI GCGC 1 cut(s) 86
Cfr13I GGNCC 1 cut(s) 206
CviAII CATG 1 cut(s) 351
CviJI RGCY 3 cut(s) 208, 336, 418
CviKI_1 RGCY 3 cut(s) 208, 336, 418
DdeI CTNAG 1 cut(s) 409
DpnI GATC 1 cut(s) 30
DpnII GATC 1 cut(s) 28
Eco32I GATATC 1 cut(s) 326
Eco47III AGCGCT 1 cut(s) 85
Eco57I CTGAAG 1 cut(s) 35
Eco88I CYCGRG 1 cut(s) 271
EcoRV GATATC 1 cut(s) 326
FaeI CATG 1 cut(s) 354
FaiI YATR 7 cut(s) 23, 36, 144, 212, 352, 370, 396
FalI AAGNNNNNCTT 2 cut(s) 208, 240
FaqI GGGAC 1 cut(s) 235
FatI CATG 1 cut(s) 350
FspBI CTAG 2 cut(s) 87, 390
GlaI GCGC 1 cut(s) 85
HaeII RGCGCY 1 cut(s) 87
HaeIII GGCC 1 cut(s) 208
HhaI GCGC 1 cut(s) 86
Hin1II CATG 1 cut(s) 354
Hin6I GCGC 1 cut(s) 84
HinP1I GCGC 1 cut(s) 84
HinfI GANTC 2 cut(s) 4, 308
HphI GGTGA 1 cut(s) 142
Hpy166II GTNNAC 1 cut(s) 284
Hpy188I TCNGA 4 cut(s) 9, 54, 254, 315
Hpy8I GTNNAC 1 cut(s) 284
HpyCH4III ACNGT 1 cut(s) 288
HpyCH4IV ACGT 2 cut(s) 366, 382
HpyF3I CTNAG 1 cut(s) 409
HpySE526I ACGT 2 cut(s) 366, 382
Hsp92II CATG 1 cut(s) 354
HspAI GCGC 1 cut(s) 84
Kzo9I GATC 1 cut(s) 28
LpnPI CCDG 2 cut(s) 183, 332
MaeI CTAG 2 cut(s) 87, 390
MaeII ACGT 2 cut(s) 366, 382
MaeIII GTNAC 1 cut(s) 130
MalI GATC 1 cut(s) 30
MboI GATC 1 cut(s) 28
MboII GAAGA 3 cut(s) 9, 333, 377
MhlI GDGCHC 1 cut(s) 94
MluCI AATT 5 cut(s) 10, 198, 238, 299, 428
MnlI CCTC 3 cut(s) 81, 121, 429
MseI TTAA 1 cut(s) 423
NdeII GATC 1 cut(s) 28
NlaIII CATG 1 cut(s) 354
NmuCI GTSAC 1 cut(s) 130
NspI RCATGY 1 cut(s) 354
PaeI GCATGC 1 cut(s) 354
PfeI GAWTC 2 cut(s) 4, 308
Ppu21I YACGTR 1 cut(s) 367
PspPI GGNCC 1 cut(s) 206
SaqAI TTAA 1 cut(s) 423
Sau3AI GATC 1 cut(s) 28
Sau96I GGNCC 1 cut(s) 206
SduI GDGCHC 1 cut(s) 94
SetI ASST 5 cut(s) 109, 132, 172, 369, 385
SphI GCATGC 1 cut(s) 354
Sse9I AATT 5 cut(s) 10, 198, 238, 299, 428
SspMI CTAG 2 cut(s) 87, 390
TaaI ACNGT 1 cut(s) 288
TaiI ACGT 2 cut(s) 369, 385
TaqI TCGA 1 cut(s) 244
TasI AATT 5 cut(s) 10, 198, 238, 299, 428
TfiI GAWTC 2 cut(s) 4, 308
Tru1I TTAA 1 cut(s) 423
Tru9I TTAA 1 cut(s) 423
TscAI CASTG 1 cut(s) 293
TseFI GTSAC 1 cut(s) 130
Tsp45I GTSAC 1 cut(s) 130
TspDTI ATGAA 3 cut(s) 17, 140, 273
TspGWI ACGGA 1 cut(s) 195
TspRI CASTG 1 cut(s) 293
XapI RAATTY 3 cut(s) 10, 198, 299
XceI RCATGY 1 cut(s) 354
XspI CTAG 2 cut(s) 87, 390
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.