Rw1G004310

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

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr1
OG0003607
Physical Location & Seq
Reverse (-)
8161555 .. 8169500
7946 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw1G004310.1

Sequence Viewer

Length: 411 bp
ATGGAGATGCTAAGCGACCGATGCTACAACGTCGCTGACTCGGACCTTACTCACTCATTCACTGAGTTCCGTACCACGTTCGGCCAACACGCTGACCTCGACCGCCTCACCATCTGCGCCTCTCTCCGCTCCAATTCCAAGAACAAGATTATGGTCATCTTCTGTGGAACTGATGAAATCAGAAAAGCGAGTGTTCGTGCCATTTATGCTAACCTCCTGAACAAAGATATAAGCTCTCTGATGCTTGTCCTGCAAAATAAAATGAACTCCTATGCTCGAAAAGAACTGGAAAACTATCCTTACAAAGTTGAAACTTTTCACGAGCTGTCGGATCCATTGAAATTACCAGGAACAAGAAGTCAATTGATTTATGGTTCTTATATCGCAAACCTAAGTACCTCAGAGTTGTAA

Protein Analysis

136

Amino Acids

15.54

Weight (kDa)

6.82

Isoelectric Point (pI)

37.21

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RNA_pol_Rpb5_N PF03871 1 - 70 3.8e-15 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)
AccBSI CCGCTC 1 cut(s) 129
AciI CCGC 2 cut(s) 103, 127
AclWI GGATC 2 cut(s) 326, 339
AcoI YGGCCR 1 cut(s) 82
AfaI GTAC 2 cut(s) 73, 397
AgsI TTSAA 2 cut(s) 311, 340
AjnI CCWGG 1 cut(s) 346
AluBI AGCT 2 cut(s) 234, 325
AluI AGCT 2 cut(s) 234, 325
AlwI GGATC 2 cut(s) 326, 339
AoxI GGCC 1 cut(s) 82
Asp700I GAANNNNTTC 1 cut(s) 315
AspLEI GCGC 1 cut(s) 119
AspS9I GGNCC 1 cut(s) 43
AsuHPI GGTGA 1 cut(s) 100
AvaII GGWCC 1 cut(s) 43
BaeI ACNNNNGTAYC 1 cut(s) 379
BamHI GGATCC 1 cut(s) 331
BauI CACGAG 1 cut(s) 320
BccI CCATC 1 cut(s) 119
BciT130I CCWGG 1 cut(s) 348
BlpI GCTNAGC 1 cut(s) 11
Bme1390I CCNGG 1 cut(s) 348
Bme18I GGWCC 1 cut(s) 43
BmgT120I GGNCC 1 cut(s) 43
BmiI GGNNCC 1 cut(s) 333
BmrFI CCNGG 1 cut(s) 348
BmsI GCATC 2 cut(s) 11, 231
Bpu1102I GCTNAGC 1 cut(s) 11
Bse1I ACTGG 1 cut(s) 291
BseBI CCWGG 1 cut(s) 348
BseMII CTCAG 1 cut(s) 54
BseNI ACTGG 1 cut(s) 291
Bsh1285I CGRYCG 2 cut(s) 19, 103
BshFI GGCC 1 cut(s) 84
BsiEI CGRYCG 2 cut(s) 19, 103
BsnI GGCC 1 cut(s) 84
Bsp143I GATC 1 cut(s) 331
Bsp1720I GCTNAGC 1 cut(s) 11
BspACI CCGC 2 cut(s) 103, 127
BspANI GGCC 1 cut(s) 84
BspCNI CTCAG 1 cut(s) 55
BspLI GGNNCC 1 cut(s) 333
BspPI GGATC 2 cut(s) 326, 339
BsrBI CCGCTC 1 cut(s) 129
BsrI ACTGG 1 cut(s) 291
BssMI GATC 1 cut(s) 331
BssSI CACGAG 1 cut(s) 320
Bst2BI CACGAG 1 cut(s) 320
Bst2UI CCWGG 1 cut(s) 348
BstDEI CTNAG 4 cut(s) 11, 63, 392, 400
BstHHI GCGC 1 cut(s) 119
BstKTI GATC 1 cut(s) 334
BstMBI GATC 1 cut(s) 331
BstMCI CGRYCG 2 cut(s) 19, 103
BstMWI GCNNNNNNNGC 3 cut(s) 21, 206, 250
BstNI CCWGG 1 cut(s) 348
BstSCI CCNGG 1 cut(s) 346
BstX2I RGATCY 1 cut(s) 331
BstYI RGATCY 1 cut(s) 331
BsuRI GGCC 1 cut(s) 84
BtsIMutI CAGTG 1 cut(s) 60
CfoI GCGC 1 cut(s) 119
Cfr13I GGNCC 1 cut(s) 43
Csp6I GTAC 2 cut(s) 72, 396
CviJI RGCY 3 cut(s) 84, 234, 325
CviKI_1 RGCY 3 cut(s) 84, 234, 325
CviQI GTAC 2 cut(s) 72, 396
DdeI CTNAG 4 cut(s) 11, 63, 392, 400
DpnI GATC 1 cut(s) 333
DpnII GATC 1 cut(s) 331
EaeI YGGCCR 1 cut(s) 82
Eco47I GGWCC 1 cut(s) 43
EcoRII CCWGG 1 cut(s) 346
FaiI YATR 6 cut(s) 152, 207, 230, 273, 372, 381
GlaI GCGC 1 cut(s) 118
HaeIII GGCC 1 cut(s) 84
HhaI GCGC 1 cut(s) 119
Hin6I GCGC 1 cut(s) 117
HinP1I GCGC 1 cut(s) 117
HinfI GANTC 1 cut(s) 38
HphI GGTGA 1 cut(s) 100
Hpy188I TCNGA 5 cut(s) 43, 182, 240, 331, 403
Hpy188III TCNNGA 2 cut(s) 217, 320
Hpy99I CGWCG 1 cut(s) 35
HpyCH4IV ACGT 2 cut(s) 30, 77
HpyCH4V TGCA 1 cut(s) 253
HpyF10VI GCNNNNNNNGC 3 cut(s) 21, 206, 250
HpyF3I CTNAG 4 cut(s) 11, 63, 392, 400
HpySE526I ACGT 2 cut(s) 30, 77
HspAI GCGC 1 cut(s) 117
Kzo9I GATC 1 cut(s) 331
LmnI GCTCC 1 cut(s) 134
LpnPI CCDG 5 cut(s) 230, 263, 272, 333, 360
LweI GCATC 2 cut(s) 11, 231
MaeII ACGT 2 cut(s) 30, 77
MalI GATC 1 cut(s) 333
MbiI CCGCTC 1 cut(s) 129
MboI GATC 1 cut(s) 331
MboII GAAGA 1 cut(s) 151
MfeI CAATTG 1 cut(s) 362
MflI RGATCY 1 cut(s) 331
MluCI AATT 3 cut(s) 133, 341, 362
MlyI GAGTC 1 cut(s) 32
MmeI TCCRAC 1 cut(s) 309
MnlI CCTC 5 cut(s) 107, 116, 130, 224, 409
MroXI GAANNNNTTC 1 cut(s) 315
MspR9I CCNGG 1 cut(s) 348
MunI CAATTG 1 cut(s) 362
MvaI CCWGG 1 cut(s) 348
MwoI GCNNNNNNNGC 3 cut(s) 21, 206, 250
NdeII GATC 1 cut(s) 331
NlaIV GGNNCC 1 cut(s) 333
PcsI WCGNNNNNNNCGW 1 cut(s) 96
PdmI GAANNNNTTC 1 cut(s) 315
PleI GAGTC 1 cut(s) 32
PpsI GAGTC 1 cut(s) 32
Psp6I CCWGG 1 cut(s) 346
PspGI CCWGG 1 cut(s) 346
PspN4I GGNNCC 1 cut(s) 333
PspPI GGNCC 1 cut(s) 43
PsuI RGATCY 1 cut(s) 331
RsaI GTAC 2 cut(s) 73, 397
RsaNI GTAC 2 cut(s) 72, 396
Sau3AI GATC 1 cut(s) 331
Sau96I GGNCC 1 cut(s) 43
SchI GAGTC 1 cut(s) 32
ScrFI CCNGG 1 cut(s) 348
SetI ASST 9 cut(s) 33, 48, 80, 99, 216, 236, 327, 393, 401
SfaNI GCATC 2 cut(s) 11, 231
SinI GGWCC 1 cut(s) 43
Sse9I AATT 3 cut(s) 133, 341, 362
SsiI CCGC 2 cut(s) 103, 127
StyD4I CCNGG 1 cut(s) 346
TaiI ACGT 2 cut(s) 33, 80
TaqI TCGA 2 cut(s) 99, 277
TaqII GACCGA 1 cut(s) 33
TasI AATT 3 cut(s) 133, 341, 362
TscAI CASTG 1 cut(s) 67
TspDTI ATGAA 2 cut(s) 189, 278
TspGWI ACGGA 1 cut(s) 59
TspRI CASTG 1 cut(s) 67
VpaK11BI GGWCC 1 cut(s) 43
XmnI GAANNNNTTC 1 cut(s) 315
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.