Rh6DG352400

DNA-directed RNA polymerase II subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr6D
OG0002628
Physical Location & Seq
Forward (+)
55208167 .. 55208520
354 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh6DG352400.1

Sequence Viewer

Length: 354 bp
ATGAACTGCGAAGTTTCTTTGATTCTTGAACACAGGTTGGCGCAGCTTCAACAGATGTCTGATGATCCCAAAAACAACCAAGTTTCTCAAGTATTTGACAAGTCGCTGCAGTATGTGAAGCGCTTTAGCCGTTACAAGAATCCTGATGCTGTTAAACAAGTGCGAGAAACCCTTAGTAATTATCAATTGACTGAGTTTGAGCTCTGTGTTCTTGGCAATCTCTGCACTGAAACAGTTGACGAAGCTATTGCTATGGTGCCAACTCTGAAGGCCAAAGGTCGACGGATGCATGATGATGATGATGCAATTCAAAACATGTTAAGAGACCTGGCTCTTATCAAGAAATTTTCTTGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0000288 GO:0000428 GO:0000932 GO:0000956 GO:0003674 GO:0003824 GO:0003899 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005665 GO:0005737 GO:0005829 GO:0006139 GO:0006351 GO:0006352 GO:0006366 GO:0006367 GO:0006396 GO:0006397 GO:0006401 GO:0006402 GO:0006403 GO:0006405 GO:0006406 GO:0006417 GO:0006446 GO:0006611 GO:0006725 GO:0006807 GO:0006810 GO:0006886 GO:0006913 GO:0006950 GO:0008104 GO:0008150 GO:0008152 GO:0009056 GO:0009057 GO:0009058 GO:0009059 GO:0009266 GO:0009408 GO:0009628 GO:0009889 GO:0009891 GO:0009892 GO:0009893 GO:0009987 GO:0010467 GO:0010468 GO:0010556 GO:0010557 GO:0010604 GO:0010605 GO:0010608 GO:0010628 GO:0010629 GO:0015031 GO:0015833 GO:0015931 GO:0016043 GO:0016070 GO:0016071 GO:0016591 GO:0016604 GO:0016607 GO:0016740 GO:0016772 GO:0016779 GO:0018130 GO:0019222 GO:0019438 GO:0019439 GO:0022607 GO:0022613 GO:0022618 GO:0030880 GO:0031123 GO:0031124 GO:0031323 GO:0031325 GO:0031326 GO:0031328 GO:0031369 GO:0031503 GO:0031974 GO:0031981 GO:0031990 GO:0032268 GO:0032270 GO:0032774 GO:0032991 GO:0033036 GO:0033554 GO:0034062 GO:0034248 GO:0034250 GO:0034402 GO:0034605 GO:0034613 GO:0034622 GO:0034641 GO:0034645 GO:0034654 GO:0034655 GO:0035770 GO:0036464 GO:0042886 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0043933 GO:0044085 GO:0044237 GO:0044238 GO:0044248 GO:0044249 GO:0044260 GO:0044265 GO:0044270 GO:0044271 GO:0044422 GO:0044424 GO:0044428 GO:0044444 GO:0044446 GO:0044451 GO:0044464 GO:0045184 GO:0045727 GO:0045948 GO:0046483 GO:0046700 GO:0046907 GO:0048518 GO:0048519 GO:0048522 GO:0050657 GO:0050658 GO:0050789 GO:0050794 GO:0050896 GO:0051028 GO:0051168 GO:0051169 GO:0051171 GO:0051173 GO:0051179 GO:0051234 GO:0051236 GO:0051246 GO:0051247 GO:0051641 GO:0051649 GO:0051716 GO:0055029 GO:0060255 GO:0061695 GO:0065003 GO:0065007 GO:0070013 GO:0070727 GO:0071166 GO:0071426 GO:0071427 GO:0071702 GO:0071704 GO:0071705 GO:0071826 GO:0071840 GO:0080090 GO:0090304 GO:0097659 GO:0097747 GO:0140098 GO:1901360 GO:1901361 GO:1901362 GO:1901575 GO:1901576 GO:1902494 GO:1990234 GO:1990904 GO:2000112
KEGG Pathways
Metabolic & Signaling
ko00230 ko00240 ko01100 ko03020 ko05016 ko05169 map00230 map00240 map01100 map03020 map05016 map05169
Pfam Domains
Protein Families
RNA_pol_Rpb4

Protein Analysis

117

Amino Acids

13.54

Weight (kDa)

6.09

Isoelectric Point (pI)

39.15

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RNA_pol_Rpb4 PF03874 1 - 111 1.1e-23 RNA polymerase Rpb4
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)
AccB1I GGYRCC 1 cut(s) 256
AccI GTMKAC 1 cut(s) 280
AclWI GGATC 1 cut(s) 59
AcsI RAATTY 1 cut(s) 344
AcuI CTGAAG 1 cut(s) 287
AfeI AGCGCT 1 cut(s) 122
AflIII ACRYGT 1 cut(s) 315
AgsI TTSAA 3 cut(s) 29, 50, 311
AjnI CCWGG 1 cut(s) 327
AluBI AGCT 3 cut(s) 46, 202, 245
AluI AGCT 3 cut(s) 46, 202, 245
Alw21I GWGCWC 1 cut(s) 204
Alw26I GTCTC 1 cut(s) 318
AlwI GGATC 1 cut(s) 59
Aor51HI AGCGCT 1 cut(s) 122
AoxI GGCC 1 cut(s) 270
ApeKI GCWGC 2 cut(s) 43, 106
ApoI RAATTY 1 cut(s) 344
AspLEI GCGC 2 cut(s) 43, 123
BanI GGYRCC 1 cut(s) 256
BanII GRGCYC 1 cut(s) 204
Bbv12I GWGCWC 1 cut(s) 204
BbvI GCAGC 2 cut(s) 55, 93
BceAI ACGGC 1 cut(s) 114
BcgI CGANNNNNNTGC 2 cut(s) 230, 264
BciT130I CCWGG 1 cut(s) 329
BcoDI GTCTC 1 cut(s) 318
BfmI CTRYAG 1 cut(s) 107
BfoI RGCGCY 1 cut(s) 124
BisI GCNGC 2 cut(s) 44, 107
BlsI GCNGC 2 cut(s) 45, 108
Bme1390I CCNGG 1 cut(s) 329
BmiI GGNNCC 1 cut(s) 258
BmrFI CCNGG 1 cut(s) 329
BmsI GCATC 3 cut(s) 136, 276, 292
BpuEI CTTGAG 1 cut(s) 72
BsaI GGTCTC 1 cut(s) 318
BseBI CCWGG 1 cut(s) 329
BseGI GGATG 1 cut(s) 291
BseMII CTCAG 1 cut(s) 183
BseXI GCAGC 2 cut(s) 55, 93
BsgI GTGCAG 1 cut(s) 208
BshFI GGCC 1 cut(s) 272
BshNI GGYRCC 1 cut(s) 256
BsiHKAI GWGCWC 1 cut(s) 204
BsmAI GTCTC 1 cut(s) 318
BsnI GGCC 1 cut(s) 272
Bso31I GGTCTC 1 cut(s) 318
Bsp1286I GDGCHC 1 cut(s) 204
Bsp143I GATC 1 cut(s) 64
BspANI GGCC 1 cut(s) 272
BspCNI CTCAG 1 cut(s) 184
BspLI GGNNCC 1 cut(s) 258
BspMAI CTGCAG 1 cut(s) 111
BspPI GGATC 1 cut(s) 59
BspT107I GGYRCC 1 cut(s) 256
BspTNI GGTCTC 1 cut(s) 318
BssMI GATC 1 cut(s) 64
Bst2UI CCWGG 1 cut(s) 329
Bst4CI ACNGT 1 cut(s) 235
BstAPI GCANNNNNTGC 1 cut(s) 222
BstDEI CTNAG 2 cut(s) 173, 192
BstF5I GGATG 1 cut(s) 291
BstH2I RGCGCY 1 cut(s) 124
BstHHI GCGC 2 cut(s) 43, 123
BstKTI GATC 1 cut(s) 67
BstMAI GTCTC 1 cut(s) 318
BstMBI GATC 1 cut(s) 64
BstMWI GCNNNNNNNGC 1 cut(s) 222
BstNI CCWGG 1 cut(s) 329
BstNSI RCATGY 1 cut(s) 319
BstSCI CCNGG 1 cut(s) 327
BstSFI CTRYAG 1 cut(s) 107
BstV1I GCAGC 2 cut(s) 55, 93
BsuRI GGCC 1 cut(s) 272
BtsCI GGATG 1 cut(s) 291
BtsIMutI CAGTG 1 cut(s) 225
CfoI GCGC 2 cut(s) 43, 123
CviAII CATG 2 cut(s) 290, 316
CviJI RGCY 6 cut(s) 46, 129, 202, 245, 272, 332
CviKI_1 RGCY 6 cut(s) 46, 129, 202, 245, 272, 332
DdeI CTNAG 2 cut(s) 173, 192
DpnI GATC 1 cut(s) 66
DpnII GATC 1 cut(s) 64
Ecl136II GAGCTC 1 cut(s) 202
Eco24I GRGCYC 1 cut(s) 204
Eco31I GGTCTC 1 cut(s) 318
Eco47III AGCGCT 1 cut(s) 122
Eco53kI GAGCTC 1 cut(s) 202
Eco57I CTGAAG 1 cut(s) 287
EcoICRI GAGCTC 1 cut(s) 202
EcoRII CCWGG 1 cut(s) 327
EcoT22I ATGCAT 1 cut(s) 291
EcoT38I GRGCYC 1 cut(s) 204
FaeI CATG 2 cut(s) 293, 319
FaiI YATR 4 cut(s) 114, 254, 291, 317
FatI CATG 2 cut(s) 289, 315
FblI GTMKAC 1 cut(s) 280
Fnu4HI GCNGC 2 cut(s) 44, 107
FokI GGATG 1 cut(s) 298
FriOI GRGCYC 1 cut(s) 204
Fsp4HI GCNGC 2 cut(s) 44, 107
GlaI GCGC 2 cut(s) 42, 122
GluI GCNGC 2 cut(s) 44, 107
HaeII RGCGCY 1 cut(s) 124
HaeIII GGCC 1 cut(s) 272
HhaI GCGC 2 cut(s) 43, 123
Hin1II CATG 2 cut(s) 293, 319
Hin6I GCGC 2 cut(s) 41, 121
HinP1I GCGC 2 cut(s) 41, 121
HincII GTYRAC 2 cut(s) 238, 281
HindII GTYRAC 2 cut(s) 238, 281
HinfI GANTC 2 cut(s) 22, 139
Hpy166II GTNNAC 2 cut(s) 238, 281
Hpy188I TCNGA 2 cut(s) 61, 267
Hpy188III TCNNGA 4 cut(s) 26, 143, 340, 351
Hpy8I GTNNAC 2 cut(s) 238, 281
Hpy99I CGWCG 1 cut(s) 285
HpyAV CCTTC 1 cut(s) 262
HpyCH4III ACNGT 1 cut(s) 235
HpyCH4V TGCA 4 cut(s) 109, 225, 289, 305
HpyF10VI GCNNNNNNNGC 1 cut(s) 222
HpyF3I CTNAG 2 cut(s) 173, 192
Hsp92II CATG 2 cut(s) 293, 319
HspAI GCGC 2 cut(s) 41, 121
Kzo9I GATC 1 cut(s) 64
LpnPI CCDG 4 cut(s) 19, 156, 314, 341
Lsp1109I GCAGC 2 cut(s) 55, 93
LweI GCATC 3 cut(s) 136, 276, 292
MaeIII GTNAC 1 cut(s) 131
MalI GATC 1 cut(s) 66
MboI GATC 1 cut(s) 64
MfeI CAATTG 1 cut(s) 185
MhlI GDGCHC 1 cut(s) 204
MluCI AATT 4 cut(s) 178, 185, 306, 344
Mph1103I ATGCAT 1 cut(s) 291
MseI TTAA 2 cut(s) 153, 320
MslI CAYNNNNRTG 1 cut(s) 294
MspR9I CCNGG 1 cut(s) 329
MunI CAATTG 1 cut(s) 185
MvaI CCWGG 1 cut(s) 329
MwoI GCNNNNNNNGC 1 cut(s) 222
NdeII GATC 1 cut(s) 64
NlaIII CATG 2 cut(s) 293, 319
NlaIV GGNNCC 1 cut(s) 258
NsiI ATGCAT 1 cut(s) 291
NspI RCATGY 1 cut(s) 319
PciI ACATGT 1 cut(s) 315
PfeI GAWTC 2 cut(s) 22, 139
PkrI GCNGC 2 cut(s) 45, 108
PscI ACATGT 1 cut(s) 315
Psp124BI GAGCTC 1 cut(s) 204
Psp6I CCWGG 1 cut(s) 327
PspGI CCWGG 1 cut(s) 327
PspN4I GGNNCC 1 cut(s) 258
PstI CTGCAG 1 cut(s) 111
RseI CAYNNNNRTG 1 cut(s) 294
SacI GAGCTC 1 cut(s) 204
SalI GTCGAC 1 cut(s) 279
SaqAI TTAA 2 cut(s) 153, 320
SatI GCNGC 2 cut(s) 44, 107
Sau3AI GATC 1 cut(s) 64
ScrFI CCNGG 1 cut(s) 329
SduI GDGCHC 1 cut(s) 204
SetI ASST 6 cut(s) 38, 48, 204, 247, 280, 330
SfaNI GCATC 3 cut(s) 136, 276, 292
SfcI CTRYAG 1 cut(s) 107
SmiMI CAYNNNNRTG 1 cut(s) 294
SmlI CTYRAG 1 cut(s) 87
SmoI CTYRAG 1 cut(s) 87
Sse9I AATT 4 cut(s) 178, 185, 306, 344
SstI GAGCTC 1 cut(s) 204
StyD4I CCNGG 1 cut(s) 327
TaaI ACNGT 1 cut(s) 235
TaqI TCGA 1 cut(s) 280
TasI AATT 4 cut(s) 178, 185, 306, 344
TfiI GAWTC 2 cut(s) 22, 139
Tru1I TTAA 2 cut(s) 153, 320
Tru9I TTAA 2 cut(s) 153, 320
TscAI CASTG 1 cut(s) 232
TseI GCWGC 2 cut(s) 43, 106
TspDTI ATGAA 1 cut(s) 17
TspGWI ACGGA 1 cut(s) 298
TspRI CASTG 1 cut(s) 232
XapI RAATTY 1 cut(s) 344
XceI RCATGY 1 cut(s) 319
XmiI GTMKAC 1 cut(s) 280
Zsp2I ATGCAT 1 cut(s) 291
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.