Rw2G020970

DNA-directed RNA polymerase II subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr2
OG0002628
Physical Location & Seq
Reverse (-)
28747200 .. 28749297
2098 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw2G020970.1

Sequence Viewer

Length: 417 bp
ATGTCCGGCGAAGAGGAAGAGAACGCCGCCGAGCTCAAAATCGGAGACGAGTTTCTCAAGGCCAAGTGTTTGATGAACTGCGAAGTTTCTCTGATTCTTGAGCACAAGTTCGAGCAGCTTCAGCAGATGTCTGATGATCCCAGGAACCAAGTCTCTCAAGTGTTTGAGAAGTCGCTGCAGTATGTGAAGCGCTTTAGCCGCTATAAGAATCCTGATGCCGTGAAGCAAGTGAGAGAAATCCTCAGTAGATATCAGTTGACTGAGTTTGAGCTTTGTGTGCTTGGCAATCTCTGTCCTGAAACTGTCGAGGAGGCTATTGCTATGGTACCATCTATAAAGGCAAAAGGACGGGTGCATGATGATGAGGCAATTGATAAAATGTTGAATGACCTGGCACTAATCAAGAAATTTGAGTAG
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

138

Amino Acids

15.93

Weight (kDa)

4.99

Isoelectric Point (pI)

46.61

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RNA_pol_Rpb4 PF03874 23 - 132 9.1e-28 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)
Acc65I GGTACC 1 cut(s) 325
AccB1I GGYRCC 1 cut(s) 325
AciI CCGC 2 cut(s) 27, 199
AclWI GGATC 1 cut(s) 131
AcsI RAATTY 1 cut(s) 407
AcuI CTGAAG 1 cut(s) 104
AfaI GTAC 1 cut(s) 327
AfeI AGCGCT 1 cut(s) 191
AgsI TTSAA 1 cut(s) 385
AjnI CCWGG 2 cut(s) 140, 390
AluBI AGCT 3 cut(s) 34, 118, 271
AluI AGCT 3 cut(s) 34, 118, 271
Alw21I GWGCWC 2 cut(s) 36, 105
Alw26I GTCTC 2 cut(s) 39, 157
AlwI GGATC 1 cut(s) 131
Aor51HI AGCGCT 1 cut(s) 191
AoxI GGCC 1 cut(s) 60
ApeKI GCWGC 2 cut(s) 115, 175
ApoI RAATTY 1 cut(s) 407
Asp718I GGTACC 1 cut(s) 325
AspLEI GCGC 1 cut(s) 192
BanI GGYRCC 1 cut(s) 325
BanII GRGCYC 1 cut(s) 36
Bbv12I GWGCWC 2 cut(s) 36, 105
BbvI GCAGC 2 cut(s) 127, 162
BccI CCATC 1 cut(s) 337
BceAI ACGGC 1 cut(s) 203
BciT130I CCWGG 2 cut(s) 142, 392
BcoDI GTCTC 2 cut(s) 39, 157
BfmI CTRYAG 1 cut(s) 176
BfoI RGCGCY 1 cut(s) 193
BisI GCNGC 4 cut(s) 27, 116, 176, 199
BlsI GCNGC 4 cut(s) 28, 117, 177, 200
Bme1390I CCNGG 2 cut(s) 142, 392
BmiI GGNNCC 2 cut(s) 146, 327
BmrFI CCNGG 2 cut(s) 142, 392
BmsI GCATC 1 cut(s) 205
BplI GAGNNNNNCTC 2 cut(s) 225, 257
BpuEI CTTGAG 3 cut(s) 41, 119, 141
BsaJI CCNNGG 1 cut(s) 140
BseBI CCWGG 2 cut(s) 142, 392
BseDI CCNNGG 1 cut(s) 140
BseMII CTCAG 2 cut(s) 252, 256
BseRI GAGGAG 1 cut(s) 323
BseXI GCAGC 2 cut(s) 127, 162
BshFI GGCC 1 cut(s) 62
BshNI GGYRCC 1 cut(s) 325
BsiHKAI GWGCWC 2 cut(s) 36, 105
BsiSI CCGG 1 cut(s) 6
BsmAI GTCTC 2 cut(s) 39, 157
BsmBI CGTCTC 1 cut(s) 39
BsnI GGCC 1 cut(s) 62
Bsp1286I GDGCHC 2 cut(s) 36, 105
Bsp143I GATC 1 cut(s) 136
BspACI CCGC 2 cut(s) 27, 199
BspANI GGCC 1 cut(s) 62
BspCNI CTCAG 2 cut(s) 253, 255
BspLI GGNNCC 2 cut(s) 146, 327
BspMAI CTGCAG 1 cut(s) 180
BspPI GGATC 1 cut(s) 131
BspT107I GGYRCC 1 cut(s) 325
BssECI CCNNGG 1 cut(s) 140
BssMI GATC 1 cut(s) 136
Bst2UI CCWGG 2 cut(s) 142, 392
Bst4CI ACNGT 1 cut(s) 304
Bst6I CTCTTC 2 cut(s) 6, 12
BstDEI CTNAG 2 cut(s) 242, 261
BstH2I RGCGCY 1 cut(s) 193
BstHHI GCGC 1 cut(s) 192
BstKTI GATC 1 cut(s) 139
BstMAI GTCTC 2 cut(s) 39, 157
BstMBI GATC 1 cut(s) 136
BstMWI GCNNNNNNNGC 3 cut(s) 121, 198, 277
BstNI CCWGG 2 cut(s) 142, 392
BstSCI CCNGG 2 cut(s) 140, 390
BstSFI CTRYAG 1 cut(s) 176
BstV1I GCAGC 2 cut(s) 127, 162
BsuRI GGCC 1 cut(s) 62
CfoI GCGC 1 cut(s) 192
Csp6I GTAC 1 cut(s) 326
CviAII CATG 1 cut(s) 356
CviJI RGCY 6 cut(s) 34, 62, 118, 198, 271, 314
CviKI_1 RGCY 6 cut(s) 34, 62, 118, 198, 271, 314
CviQI GTAC 1 cut(s) 326
DdeI CTNAG 2 cut(s) 242, 261
DpnI GATC 1 cut(s) 138
DpnII GATC 1 cut(s) 136
Eam1104I CTCTTC 2 cut(s) 6, 12
EarI CTCTTC 2 cut(s) 6, 12
Ecl136II GAGCTC 1 cut(s) 34
Eco24I GRGCYC 1 cut(s) 36
Eco32I GATATC 1 cut(s) 251
Eco47III AGCGCT 1 cut(s) 191
Eco53kI GAGCTC 1 cut(s) 34
Eco57I CTGAAG 1 cut(s) 104
EcoICRI GAGCTC 1 cut(s) 34
EcoRII CCWGG 2 cut(s) 140, 390
EcoRV GATATC 1 cut(s) 251
EcoT38I GRGCYC 1 cut(s) 36
Esp3I CGTCTC 1 cut(s) 39
FaeI CATG 1 cut(s) 359
FaiI YATR 5 cut(s) 183, 204, 323, 335, 357
FatI CATG 1 cut(s) 355
Fnu4HI GCNGC 4 cut(s) 27, 116, 176, 199
FriOI GRGCYC 1 cut(s) 36
Fsp4HI GCNGC 4 cut(s) 27, 116, 176, 199
GlaI GCGC 1 cut(s) 191
GluI GCNGC 4 cut(s) 27, 116, 176, 199
HaeII RGCGCY 1 cut(s) 193
HaeIII GGCC 1 cut(s) 62
HapII CCGG 1 cut(s) 6
HhaI GCGC 1 cut(s) 192
Hin1II CATG 1 cut(s) 359
Hin6I GCGC 1 cut(s) 190
HinP1I GCGC 1 cut(s) 190
HincII GTYRAC 1 cut(s) 258
HindII GTYRAC 1 cut(s) 258
HinfI GANTC 2 cut(s) 94, 208
HpaII CCGG 1 cut(s) 6
Hpy166II GTNNAC 1 cut(s) 258
Hpy188I TCNGA 3 cut(s) 44, 93, 133
Hpy188III TCNNGA 4 cut(s) 98, 212, 296, 403
Hpy8I GTNNAC 1 cut(s) 258
HpyCH4III ACNGT 1 cut(s) 304
HpyCH4V TGCA 2 cut(s) 178, 355
HpyF10VI GCNNNNNNNGC 3 cut(s) 121, 198, 277
HpyF3I CTNAG 2 cut(s) 242, 261
Hsp92II CATG 1 cut(s) 359
HspAI GCGC 1 cut(s) 190
KpnI GGTACC 1 cut(s) 329
Kzo9I GATC 1 cut(s) 136
LpnPI CCDG 7 cut(s) 19, 127, 154, 225, 309, 377, 404
Lsp1109I GCAGC 2 cut(s) 127, 162
LweI GCATC 1 cut(s) 205
MalI GATC 1 cut(s) 138
MboI GATC 1 cut(s) 136
MboII GAAGA 2 cut(s) 23, 29
MfeI CAATTG 1 cut(s) 369
MhlI GDGCHC 2 cut(s) 36, 105
MluCI AATT 2 cut(s) 369, 407
MnlI CCTC 5 cut(s) 7, 251, 301, 304, 358
MslI CAYNNNNRTG 1 cut(s) 360
MspI CCGG 1 cut(s) 6
MspR9I CCNGG 2 cut(s) 142, 392
MunI CAATTG 1 cut(s) 369
MvaI CCWGG 2 cut(s) 142, 392
MwoI GCNNNNNNNGC 3 cut(s) 121, 198, 277
NdeII GATC 1 cut(s) 136
NlaIII CATG 1 cut(s) 359
NlaIV GGNNCC 2 cut(s) 146, 327
NmeAIII GCCGAG 1 cut(s) 55
PfeI GAWTC 2 cut(s) 94, 208
PkrI GCNGC 4 cut(s) 28, 117, 177, 200
Psp124BI GAGCTC 1 cut(s) 36
Psp6I CCWGG 2 cut(s) 140, 390
PspGI CCWGG 2 cut(s) 140, 390
PspN4I GGNNCC 2 cut(s) 146, 327
PstI CTGCAG 1 cut(s) 180
RsaI GTAC 1 cut(s) 327
RsaNI GTAC 1 cut(s) 326
RseI CAYNNNNRTG 1 cut(s) 360
SacI GAGCTC 1 cut(s) 36
SatI GCNGC 4 cut(s) 27, 116, 176, 199
Sau3AI GATC 1 cut(s) 136
ScrFI CCNGG 2 cut(s) 142, 392
SduI GDGCHC 2 cut(s) 36, 105
SetI ASST 4 cut(s) 36, 120, 273, 393
SfaNI GCATC 1 cut(s) 205
SfcI CTRYAG 1 cut(s) 176
SmiMI CAYNNNNRTG 1 cut(s) 360
SmlI CTYRAG 3 cut(s) 56, 98, 156
SmoI CTYRAG 3 cut(s) 56, 98, 156
Sse9I AATT 2 cut(s) 369, 407
SsiI CCGC 2 cut(s) 27, 199
SstI GAGCTC 1 cut(s) 36
StyD4I CCNGG 2 cut(s) 140, 390
TaaI ACNGT 1 cut(s) 304
TaqI TCGA 2 cut(s) 111, 306
TasI AATT 2 cut(s) 369, 407
TauI GCSGC 2 cut(s) 29, 201
TfiI GAWTC 2 cut(s) 94, 208
TseI GCWGC 2 cut(s) 115, 175
TspDTI ATGAA 1 cut(s) 89
XapI RAATTY 1 cut(s) 407
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.