Rmu_ssc0000238.1_g000002

DNA-directed RNA polymerase II subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_multiflora
Rmu_ssc0000238.1
OG0002628
Physical Location & Seq
Forward (+)
6234 .. 8375
2142 bp
Loading structure...
UTR
Exon/CDS
Intron
Rmu_ssc0000238.1_g000002.1.cds

Sequence Viewer

Length: 606 bp
atgtccggcgaagaggaagagaacgccgccgagctcaaaatcggagacgagtttctcaaggccaagtgtttgatgaactgcgaagtttctctgattcttgagcacaagttcgagcagcttcagcagatgtctgatgatcccaggaaccaagtctctcagtttccgtcaccgtctgctagttcgtcaaacatgtccggcgaagaggaagagaacgccgccgagctcaaaatcggagacgagtttctcaaggccaagtgtttgatgaactgcgaagtttctctgattcttgagcacaagttcgagcagcttcagcagatgtctgatgatcccaggaaccaagtctctcaagtgtttgagaagtcgctgcagtatgtgaagcggtttagccgctacaagaatcctgatgccgtgaagcaagtgagagaaatcctcagtagatatcagttgactgagtttgagctttgtgtgcttggcaatctctgccctgaaactgtcgaggaggctattgctatggtaccatctataaaggcaaaaggacgggtgcatgatgatgaggcaattgataaaatgttgaatgacctggcactaatcaagaaatttgagtag
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

201

Amino Acids

22.96

Weight (kDa)

4.76

Isoelectric Point (pI)

55.89

Instability Index
Protein Domains (Pfam)
No Pfam domains detected for this protein.
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc65I GGTACC 1 cut(s) 514
AccB1I GGYRCC 1 cut(s) 514
AciI CCGC 4 cut(s) 27, 216, 379, 388
AclWI GGATC 2 cut(s) 131, 320
AcsI RAATTY 1 cut(s) 596
AcuI CTGAAG 2 cut(s) 104, 293
AfaI GTAC 1 cut(s) 516
AflIII ACRYGT 1 cut(s) 189
AgsI TTSAA 1 cut(s) 574
AjnI CCWGG 3 cut(s) 140, 329, 579
AluBI AGCT 5 cut(s) 34, 118, 223, 307, 460
AluI AGCT 5 cut(s) 34, 118, 223, 307, 460
Alw21I GWGCWC 4 cut(s) 36, 105, 225, 294
Alw26I GTCTC 4 cut(s) 39, 157, 228, 346
AlwI GGATC 2 cut(s) 131, 320
AoxI GGCC 2 cut(s) 60, 249
ApeKI GCWGC 3 cut(s) 115, 304, 364
ApoI RAATTY 1 cut(s) 596
Asp718I GGTACC 1 cut(s) 514
AsuHPI GGTGA 1 cut(s) 159
BanI GGYRCC 1 cut(s) 514
BanII GRGCYC 2 cut(s) 36, 225
Bbv12I GWGCWC 4 cut(s) 36, 105, 225, 294
BbvI GCAGC 3 cut(s) 127, 316, 351
BccI CCATC 1 cut(s) 526
BceAI ACGGC 1 cut(s) 392
BciT130I CCWGG 3 cut(s) 142, 331, 581
BcoDI GTCTC 4 cut(s) 39, 157, 228, 346
BfaI CTAG 1 cut(s) 177
BfmI CTRYAG 1 cut(s) 365
BisI GCNGC 6 cut(s) 27, 116, 216, 305, 365, 388
BlsI GCNGC 6 cut(s) 28, 117, 217, 306, 366, 389
Bme1390I CCNGG 3 cut(s) 142, 331, 581
BmiI GGNNCC 3 cut(s) 146, 335, 516
BmrFI CCNGG 3 cut(s) 142, 331, 581
BmsI GCATC 1 cut(s) 394
BplI GAGNNNNNCTC 2 cut(s) 414, 446
BpuEI CTTGAG 5 cut(s) 41, 119, 230, 308, 330
BsaJI CCNNGG 2 cut(s) 140, 329
BseBI CCWGG 3 cut(s) 142, 331, 581
BseDI CCNNGG 2 cut(s) 140, 329
BseMII CTCAG 3 cut(s) 170, 441, 445
BseRI GAGGAG 1 cut(s) 512
BseXI GCAGC 3 cut(s) 127, 316, 351
BshFI GGCC 2 cut(s) 62, 251
BshNI GGYRCC 1 cut(s) 514
BsiHKAI GWGCWC 4 cut(s) 36, 105, 225, 294
BsiSI CCGG 2 cut(s) 6, 195
BsmAI GTCTC 4 cut(s) 39, 157, 228, 346
BsmBI CGTCTC 2 cut(s) 39, 228
BsnI GGCC 2 cut(s) 62, 251
Bsp1286I GDGCHC 4 cut(s) 36, 105, 225, 294
Bsp143I GATC 2 cut(s) 136, 325
BspACI CCGC 4 cut(s) 27, 216, 379, 388
BspANI GGCC 2 cut(s) 62, 251
BspCNI CTCAG 3 cut(s) 169, 442, 444
BspLI GGNNCC 3 cut(s) 146, 335, 516
BspMAI CTGCAG 1 cut(s) 369
BspPI GGATC 2 cut(s) 131, 320
BspT107I GGYRCC 1 cut(s) 514
BssECI CCNNGG 2 cut(s) 140, 329
BssMI GATC 2 cut(s) 136, 325
Bst2UI CCWGG 3 cut(s) 142, 331, 581
Bst4CI ACNGT 2 cut(s) 171, 493
Bst6I CTCTTC 4 cut(s) 6, 12, 195, 201
BstAPI GCANNNNNTGC 1 cut(s) 480
BstDEI CTNAG 3 cut(s) 156, 431, 450
BstKTI GATC 2 cut(s) 139, 328
BstMAI GTCTC 4 cut(s) 39, 157, 228, 346
BstMBI GATC 2 cut(s) 136, 325
BstMWI GCNNNNNNNGC 4 cut(s) 121, 310, 466, 480
BstNI CCWGG 3 cut(s) 142, 331, 581
BstNSI RCATGY 1 cut(s) 193
BstSCI CCNGG 3 cut(s) 140, 329, 579
BstSFI CTRYAG 1 cut(s) 365
BstV1I GCAGC 3 cut(s) 127, 316, 351
BsuRI GGCC 2 cut(s) 62, 251
Csp6I GTAC 1 cut(s) 515
CviAII CATG 2 cut(s) 190, 545
CviJI RGCY 9 cut(s) 34, 62, 118, 223, 251, 307, 387, 460, 503
CviKI_1 RGCY 9 cut(s) 34, 62, 118, 223, 251, 307, 387, 460, 503
CviQI GTAC 1 cut(s) 515
DdeI CTNAG 3 cut(s) 156, 431, 450
DpnI GATC 2 cut(s) 138, 327
DpnII GATC 2 cut(s) 136, 325
Eam1104I CTCTTC 4 cut(s) 6, 12, 195, 201
EarI CTCTTC 4 cut(s) 6, 12, 195, 201
Ecl136II GAGCTC 2 cut(s) 34, 223
Eco24I GRGCYC 2 cut(s) 36, 225
Eco32I GATATC 1 cut(s) 440
Eco53kI GAGCTC 2 cut(s) 34, 223
Eco57I CTGAAG 2 cut(s) 104, 293
EcoICRI GAGCTC 2 cut(s) 34, 223
EcoRII CCWGG 3 cut(s) 140, 329, 579
EcoRV GATATC 1 cut(s) 440
EcoT38I GRGCYC 2 cut(s) 36, 225
Esp3I CGTCTC 2 cut(s) 39, 228
FaeI CATG 2 cut(s) 193, 548
FaiI YATR 5 cut(s) 191, 372, 512, 524, 546
FatI CATG 2 cut(s) 189, 544
Fnu4HI GCNGC 6 cut(s) 27, 116, 216, 305, 365, 388
FriOI GRGCYC 2 cut(s) 36, 225
Fsp4HI GCNGC 6 cut(s) 27, 116, 216, 305, 365, 388
FspBI CTAG 1 cut(s) 177
GluI GCNGC 6 cut(s) 27, 116, 216, 305, 365, 388
HaeIII GGCC 2 cut(s) 62, 251
HapII CCGG 2 cut(s) 6, 195
Hin1II CATG 2 cut(s) 193, 548
HincII GTYRAC 1 cut(s) 447
HindII GTYRAC 1 cut(s) 447
HinfI GANTC 3 cut(s) 94, 283, 397
HpaII CCGG 2 cut(s) 6, 195
HphI GGTGA 1 cut(s) 159
Hpy166II GTNNAC 1 cut(s) 447
Hpy188I TCNGA 6 cut(s) 44, 93, 133, 233, 282, 322
Hpy188III TCNNGA 4 cut(s) 98, 287, 401, 592
Hpy8I GTNNAC 1 cut(s) 447
HpyCH4III ACNGT 2 cut(s) 171, 493
HpyCH4V TGCA 2 cut(s) 367, 544
HpyF10VI GCNNNNNNNGC 4 cut(s) 121, 310, 466, 480
HpyF3I CTNAG 3 cut(s) 156, 431, 450
Hsp92II CATG 2 cut(s) 193, 548
KpnI GGTACC 1 cut(s) 518
Kzo9I GATC 2 cut(s) 136, 325
Lsp1109I GCAGC 3 cut(s) 127, 316, 351
LweI GCATC 1 cut(s) 394
MaeI CTAG 1 cut(s) 177
MaeIII GTNAC 1 cut(s) 165
MalI GATC 2 cut(s) 138, 327
MboI GATC 2 cut(s) 136, 325
MboII GAAGA 4 cut(s) 23, 29, 212, 218
MfeI CAATTG 1 cut(s) 558
MhlI GDGCHC 4 cut(s) 36, 105, 225, 294
MluCI AATT 2 cut(s) 558, 596
MnlI CCTC 6 cut(s) 7, 196, 440, 490, 493, 547
MslI CAYNNNNRTG 1 cut(s) 549
MspI CCGG 2 cut(s) 6, 195
MspR9I CCNGG 3 cut(s) 142, 331, 581
MunI CAATTG 1 cut(s) 558
MvaI CCWGG 3 cut(s) 142, 331, 581
MwoI GCNNNNNNNGC 4 cut(s) 121, 310, 466, 480
NdeII GATC 2 cut(s) 136, 325
NlaIII CATG 2 cut(s) 193, 548
NlaIV GGNNCC 3 cut(s) 146, 335, 516
NmeAIII GCCGAG 2 cut(s) 55, 244
NmuCI GTSAC 1 cut(s) 165
NspI RCATGY 1 cut(s) 193
PciI ACATGT 1 cut(s) 189
PfeI GAWTC 3 cut(s) 94, 283, 397
PkrI GCNGC 6 cut(s) 28, 117, 217, 306, 366, 389
PscI ACATGT 1 cut(s) 189
Psp124BI GAGCTC 2 cut(s) 36, 225
Psp6I CCWGG 3 cut(s) 140, 329, 579
PspGI CCWGG 3 cut(s) 140, 329, 579
PspN4I GGNNCC 3 cut(s) 146, 335, 516
PstI CTGCAG 1 cut(s) 369
RsaI GTAC 1 cut(s) 516
RsaNI GTAC 1 cut(s) 515
RseI CAYNNNNRTG 1 cut(s) 549
SacI GAGCTC 2 cut(s) 36, 225
SatI GCNGC 6 cut(s) 27, 116, 216, 305, 365, 388
Sau3AI GATC 2 cut(s) 136, 325
ScrFI CCNGG 3 cut(s) 142, 331, 581
SduI GDGCHC 4 cut(s) 36, 105, 225, 294
SetI ASST 6 cut(s) 36, 120, 225, 309, 462, 582
SfaNI GCATC 1 cut(s) 394
SfcI CTRYAG 1 cut(s) 365
SmiMI CAYNNNNRTG 1 cut(s) 549
SmlI CTYRAG 5 cut(s) 56, 98, 245, 287, 345
SmoI CTYRAG 5 cut(s) 56, 98, 245, 287, 345
Sse9I AATT 2 cut(s) 558, 596
SsiI CCGC 4 cut(s) 27, 216, 379, 388
SspMI CTAG 1 cut(s) 177
SstI GAGCTC 2 cut(s) 36, 225
StyD4I CCNGG 3 cut(s) 140, 329, 579
TaaI ACNGT 2 cut(s) 171, 493
TaqI TCGA 3 cut(s) 111, 300, 495
TasI AATT 2 cut(s) 558, 596
TauI GCSGC 3 cut(s) 29, 218, 390
TfiI GAWTC 3 cut(s) 94, 283, 397
TseFI GTSAC 1 cut(s) 165
TseI GCWGC 3 cut(s) 115, 304, 364
Tsp45I GTSAC 1 cut(s) 165
TspDTI ATGAA 2 cut(s) 89, 278
TspGWI ACGGA 1 cut(s) 153
XapI RAATTY 1 cut(s) 596
XceI RCATGY 1 cut(s) 193
XspI CTAG 1 cut(s) 177
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.