Rh6AG330000

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

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr6A
OG0003607
Physical Location & Seq
Forward (+)
53181015 .. 53182252
1238 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh6AG330000.1

Sequence Viewer

Length: 534 bp
ATGGCTACCGTGGTGTTGGACGACGCCGTTTCGGGTGGCGGTGGAGGAGGCCGGGCGGGATGCATGACGAGCCACGACGTCGTCGGTGGAGGGAGCTTGGAGAGCTACCGGTACTACGTGTCTCGTCGTACGGTGATGGAGATGCTGAGCGACCGAGGCTACAACGTCGCCGACTCGGACCTCACTCGCTCACTCACTGAGTTCCGTACCGCGTTCGGCCAAAACCCTGACCTCGACCACCTCACCATCTGCGCCTCTCTCCGCTCCAATTCCAAGAACAAGATTATGGTCATCTTCTGTGGAACTGATGAAATCAGAAAGGCGAGTGTTTGTGCCATTTATGCTAACCTCCTGAACAAAGATATAAGCTCTCTGATGCTTGTCCTGCAAAGTAAAATGAACTCCTATGCTAAAAAAGAGCTGGAAAACTATCCTTACAAAGTTGAAACTTTCCACGTAAGTTGCCTCATGATTAATCTACGTTATTGTACTGTAAAGATGTTGAAAGGCCTAAGGACAACTTTGCCTAACTGA

Protein Analysis

177

Amino Acids

19.56

Weight (kDa)

8.72

Isoelectric Point (pI)

49.2

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RNA_pol_Rpb5_N PF03871 34 - 110 8.4e-22 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)
AatII GACGTC 1 cut(s) 81
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 4 cut(s) 113, 130, 208, 490
AflIII ACRYGT 1 cut(s) 117
AgeI ACCGGT 1 cut(s) 108
AgsI TTSAA 2 cut(s) 446, 505
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 3 cut(s) 49, 217, 508
AseI ATTAAT 1 cut(s) 474
AsiGI ACCGGT 1 cut(s) 108
AspLEI GCGC 1 cut(s) 254
AspS9I GGNCC 1 cut(s) 178
AsuC2I CCSGG 1 cut(s) 53
AsuHPI GGTGA 2 cut(s) 145, 235
AvaII GGWCC 1 cut(s) 178
AxyI CCTNAGG 1 cut(s) 512
BccI CCATC 2 cut(s) 130, 254
BceAI ACGGC 1 cut(s) 11
BcnI CCSGG 1 cut(s) 53
BcoDI GTCTC 1 cut(s) 126
BlpI GCTNAGC 1 cut(s) 146
Bme1390I CCNGG 1 cut(s) 53
Bme18I GGWCC 1 cut(s) 178
BmgT120I GGNCC 1 cut(s) 178
BmrFI CCNGG 1 cut(s) 53
BmsI GCATC 3 cut(s) 50, 132, 366
Bpu1102I GCTNAGC 1 cut(s) 146
BpuMI CCSGG 1 cut(s) 53
BsaAI YACGTR 2 cut(s) 118, 457
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
Bse21I CCTNAGG 1 cut(s) 512
BseDI CCNNGG 2 cut(s) 9, 154
BseGI GGATG 1 cut(s) 65
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 3 cut(s) 51, 219, 510
BshTI ACCGGT 1 cut(s) 108
BsiEI CGRYCG 1 cut(s) 154
BsiSI CCGG 2 cut(s) 52, 109
BsiWI CGTACG 1 cut(s) 128
BsmAI GTCTC 1 cut(s) 126
BsnI GGCC 3 cut(s) 51, 219, 510
Bsp1720I GCTNAGC 1 cut(s) 146
BspACI CCGC 4 cut(s) 39, 56, 210, 262
BspANI GGCC 3 cut(s) 51, 219, 510
BspCNI CTCAG 2 cut(s) 138, 190
BspFNI CGCG 1 cut(s) 212
BspHI TCATGA 1 cut(s) 468
BsrBI CCGCTC 1 cut(s) 264
BsrFI RCCGGY 1 cut(s) 108
BssAI RCCGGY 1 cut(s) 108
BssECI CCNNGG 2 cut(s) 9, 154
BssNI GRCGYC 2 cut(s) 24, 78
Bst4CI ACNGT 3 cut(s) 10, 133, 493
BstACI GRCGYC 2 cut(s) 24, 78
BstBAI YACGTR 2 cut(s) 118, 457
BstDEI CTNAG 3 cut(s) 146, 198, 512
BstDSI CCRYGG 1 cut(s) 9
BstF5I GGATG 1 cut(s) 65
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
BstSCI CCNGG 1 cut(s) 51
BstUI CGCG 1 cut(s) 212
Bsu36I CCTNAGG 1 cut(s) 512
BsuRI GGCC 3 cut(s) 51, 219, 510
BtgI CCRYGG 1 cut(s) 9
BtsCI GGATG 1 cut(s) 65
BtsIMutI CAGTG 1 cut(s) 195
CciI TCATGA 1 cut(s) 468
CfoI GCGC 1 cut(s) 254
Cfr10I RCCGGY 1 cut(s) 108
Cfr13I GGNCC 1 cut(s) 178
CseI GACGC 1 cut(s) 32
Csp6I GTAC 4 cut(s) 112, 129, 207, 489
CspAI ACCGGT 1 cut(s) 108
CspCI CAANNNNNGTGG 2 cut(s) 443, 478
CviAII CATG 2 cut(s) 64, 469
CviQI GTAC 4 cut(s) 112, 129, 207, 489
DdeI CTNAG 3 cut(s) 146, 198, 512
EaeI YGGCCR 1 cut(s) 217
Eco147I AGGCCT 1 cut(s) 510
Eco47I GGWCC 1 cut(s) 178
Eco81I CCTNAGG 1 cut(s) 512
EcoT22I ATGCAT 1 cut(s) 65
FaeI CATG 2 cut(s) 67, 472
FaiI YATR 6 cut(s) 65, 287, 342, 365, 408, 470
FalI AAGNNNNNCTT 1 cut(s) 505
FatI CATG 2 cut(s) 63, 468
FauI CCCGC 1 cut(s) 49
FokI GGATG 1 cut(s) 72
GlaI GCGC 1 cut(s) 253
HaeIII GGCC 3 cut(s) 51, 219, 510
HapII CCGG 2 cut(s) 52, 109
HgaI GACGC 1 cut(s) 32
HhaI GCGC 1 cut(s) 254
Hin1I GRCGYC 2 cut(s) 24, 78
Hin1II CATG 2 cut(s) 67, 472
Hin6I GCGC 1 cut(s) 252
HinP1I GCGC 1 cut(s) 252
HinfI GANTC 1 cut(s) 173
HpaII CCGG 2 cut(s) 52, 109
HphI GGTGA 2 cut(s) 145, 235
Hpy188I TCNGA 3 cut(s) 178, 317, 375
Hpy188III TCNNGA 2 cut(s) 352, 469
Hpy99I CGWCG 6 cut(s) 26, 80, 83, 86, 129, 170
HpyCH4III ACNGT 3 cut(s) 10, 133, 493
HpyCH4IV ACGT 5 cut(s) 78, 117, 165, 456, 481
HpyCH4V TGCA 2 cut(s) 63, 388
HpyF10VI GCNNNNNNNGC 5 cut(s) 69, 102, 156, 341, 385
HpyF3I CTNAG 3 cut(s) 146, 198, 512
HpySE526I ACGT 5 cut(s) 78, 117, 165, 456, 481
Hsp92I GRCGYC 2 cut(s) 24, 78
Hsp92II CATG 2 cut(s) 67, 472
HspAI GCGC 1 cut(s) 252
LmnI GCTCC 2 cut(s) 93, 269
LpnPI CCDG 6 cut(s) 65, 122, 240, 365, 398, 407
LweI GCATC 3 cut(s) 50, 132, 366
MaeII ACGT 5 cut(s) 78, 117, 165, 456, 481
MbiI CCGCTC 1 cut(s) 264
MboII GAAGA 1 cut(s) 286
MluCI AATT 1 cut(s) 268
MlyI GAGTC 1 cut(s) 167
Mph1103I ATGCAT 1 cut(s) 65
MseI TTAA 1 cut(s) 474
MspI CCGG 2 cut(s) 52, 109
MspR9I CCNGG 1 cut(s) 53
MvnI CGCG 1 cut(s) 212
MwoI GCNNNNNNNGC 5 cut(s) 69, 102, 156, 341, 385
NciI CCSGG 1 cut(s) 53
NlaIII CATG 2 cut(s) 67, 472
NsiI ATGCAT 1 cut(s) 65
PagI TCATGA 1 cut(s) 468
PceI AGGCCT 1 cut(s) 510
Pfl23II CGTACG 1 cut(s) 128
PflFI GACNNNGTC 1 cut(s) 80
PinAI ACCGGT 1 cut(s) 108
PleI GAGTC 1 cut(s) 167
PpsI GAGTC 1 cut(s) 167
Ppu21I YACGTR 2 cut(s) 118, 457
PshBI ATTAAT 1 cut(s) 474
PspLI CGTACG 1 cut(s) 128
PspPI GGNCC 1 cut(s) 178
PsyI GACNNNGTC 1 cut(s) 80
RsaI GTAC 4 cut(s) 113, 130, 208, 490
RsaNI GTAC 4 cut(s) 112, 129, 207, 489
SaqAI TTAA 1 cut(s) 474
Sau96I GGNCC 1 cut(s) 178
SchI GAGTC 1 cut(s) 167
ScrFI CCNGG 1 cut(s) 53
SfaNI GCATC 3 cut(s) 50, 132, 366
SinI GGWCC 1 cut(s) 178
Sse9I AATT 1 cut(s) 268
SseBI AGGCCT 1 cut(s) 510
SsiI CCGC 4 cut(s) 39, 56, 210, 262
StuI AGGCCT 1 cut(s) 510
StyD4I CCNGG 1 cut(s) 51
TaaI ACNGT 3 cut(s) 10, 133, 493
TaiI ACGT 5 cut(s) 81, 120, 168, 459, 484
TaqI TCGA 1 cut(s) 234
TaqII GACCGA 1 cut(s) 168
TasI AATT 1 cut(s) 268
TatI WGTACW 1 cut(s) 488
Tru1I TTAA 1 cut(s) 474
Tru9I TTAA 1 cut(s) 474
TscAI CASTG 1 cut(s) 202
TspDTI ATGAA 2 cut(s) 324, 413
TspGWI ACGGA 1 cut(s) 194
TspRI CASTG 1 cut(s) 202
Tth111I GACNNNGTC 1 cut(s) 80
VpaK11BI GGWCC 1 cut(s) 178
VspI ATTAAT 1 cut(s) 474
ZraI GACGTC 1 cut(s) 79
Zsp2I ATGCAT 1 cut(s) 65
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.