Rh5AG283500

DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5A
OG0022785
Physical Location & Seq
Reverse (-)
38437138 .. 38438481
1344 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5AG283500.1

Sequence Viewer

Length: 408 bp
ATGGGTGTCCTAGGCTTTTTGGAGTCTGAAGAGAACTTCCCCTTTACAATACAGGGGATTGTTCCAGATATTGTAATTAATCCACATGCTTTTCCTTCACGACAAGCTCCTGGTCAACTCCTAGAGGCTGCTTTGGGGAAGGGGATTGCCTGTGGTGGCTCAATGAGATATGCAACTCCTTTCTCTACTCCCTCTGTTGATGACATCACAGATCAGCTTCATGGAGCTGGATTTCAAAGATGGGGAAATGAGAGAGTATACAGTGGTCAAACTGGTCAAATGGTTCGCCAACTGATATTTATGGGCCCAACATTTTATCAACGTCTCATTCACATTTTAGGAACATTGGGCCAGTTCACCCTCTCACCCGGGAGCCAGTGGCAGACAGGAAGAGATTTTGTGGGGTAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0000228 GO:0000418 GO:0000419 GO:0000428 GO:0000785 GO:0000790 GO:0000792 GO:0002682 GO:0003674 GO:0003824 GO:0003899 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005694 GO:0005720 GO:0005730 GO:0005736 GO:0006139 GO:0006259 GO:0006304 GO:0006305 GO:0006306 GO:0006396 GO:0006725 GO:0006807 GO:0006950 GO:0006952 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009605 GO:0009607 GO:0009620 GO:0009892 GO:0009987 GO:0010033 GO:0010467 GO:0010468 GO:0010605 GO:0010608 GO:0010629 GO:0014070 GO:0016020 GO:0016070 GO:0016246 GO:0016441 GO:0016458 GO:0016740 GO:0016772 GO:0016779 GO:0018130 GO:0019222 GO:0019438 GO:0030422 GO:0030880 GO:0031047 GO:0031050 GO:0031974 GO:0031981 GO:0032259 GO:0032774 GO:0032991 GO:0034062 GO:0034641 GO:0034654 GO:0035194 GO:0040029 GO:0042221 GO:0043170 GO:0043207 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0043331 GO:0043412 GO:0043414 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044271 GO:0044422 GO:0044424 GO:0044427 GO:0044428 GO:0044446 GO:0044451 GO:0044452 GO:0044454 GO:0044464 GO:0044728 GO:0046483 GO:0048519 GO:0048583 GO:0050776 GO:0050789 GO:0050832 GO:0050896 GO:0051704 GO:0051707 GO:0051716 GO:0055029 GO:0060255 GO:0061695 GO:0065007 GO:0070013 GO:0070887 GO:0070918 GO:0071310 GO:0071359 GO:0071407 GO:0071704 GO:0090304 GO:0097747 GO:0098542 GO:0140098 GO:1901360 GO:1901362 GO:1901576 GO:1901698 GO:1901699 GO:1902494 GO:1990234
KEGG Pathways
Metabolic & Signaling
ko00230 ko00240 ko01100 ko03020 ko05016 ko05169 map00230 map00240 map01100 map03020 map05016 map05169
Pfam Domains
Protein Families
RNA_pol_Rpb2_1 RNA_pol_Rpb2_2 RNA_pol_Rpb2_3 RNA_pol_Rpb2_4 RNA_pol_Rpb2_5 RNA_pol_Rpb2_6 RNA_pol_Rpb2_7

Protein Analysis

135

Amino Acids

14.73

Weight (kDa)

5.82

Isoelectric Point (pI)

39.79

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RNA_pol_Rpb2_6 PF00562 2 - 112 6.8e-38 RNA polymerase Rpb2, domain 6
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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Orthologous Genes (Group: OG0022785)

Species Orthologous Gene IDs
rosa_chinensis RchiOBHm_Chr5g0042231
rosa_samantha Rh5AG283500 Rh5BG289500 Rh5DG298800

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccI GTMKAC 1 cut(s) 258
AcuI CTGAAG 1 cut(s) 48
AgsI TTSAA 1 cut(s) 236
AjnI CCWGG 1 cut(s) 109
AluBI AGCT 3 cut(s) 107, 217, 227
AluI AGCT 3 cut(s) 107, 217, 227
Alw26I GTCTC 1 cut(s) 329
Ama87I CYCGRG 1 cut(s) 368
AoxI GGCC 2 cut(s) 304, 349
ApaI GGGCCC 1 cut(s) 308
ApeKI GCWGC 1 cut(s) 128
AseI ATTAAT 1 cut(s) 78
AspA2I CCTAGG 1 cut(s) 10
AspS9I GGNCC 3 cut(s) 304, 305, 349
AsuC2I CCSGG 2 cut(s) 369, 370
AsuHPI GGTGA 2 cut(s) 349, 357
AvaI CYCGRG 1 cut(s) 368
AvrII CCTAGG 1 cut(s) 10
BaeGI GKGCMC 1 cut(s) 308
BanII GRGCYC 1 cut(s) 308
BbvI GCAGC 1 cut(s) 115
BccI CCATC 1 cut(s) 234
BciT130I CCWGG 1 cut(s) 111
BcnI CCSGG 2 cut(s) 369, 370
BcoDI GTCTC 1 cut(s) 329
BfaI CTAG 2 cut(s) 11, 122
BisI GCNGC 1 cut(s) 129
BlnI CCTAGG 1 cut(s) 10
BlsI GCNGC 1 cut(s) 130
Bme1390I CCNGG 3 cut(s) 111, 369, 370
BmeT110I CYCGRG 1 cut(s) 368
BmgT120I GGNCC 3 cut(s) 304, 305, 349
BmiI GGNNCC 2 cut(s) 306, 374
BmrFI CCNGG 3 cut(s) 111, 369, 370
BpuMI CCSGG 2 cut(s) 369, 370
BsaJI CCNNGG 2 cut(s) 10, 368
Bse1I ACTGG 3 cut(s) 277, 352, 376
BseBI CCWGG 1 cut(s) 111
BseDI CCNNGG 2 cut(s) 10, 368
BseNI ACTGG 3 cut(s) 277, 352, 376
BseSI GKGCMC 1 cut(s) 308
BseXI GCAGC 1 cut(s) 115
BshFI GGCC 2 cut(s) 306, 351
BsiHKCI CYCGRG 1 cut(s) 368
BsiSI CCGG 1 cut(s) 369
BsmAI GTCTC 1 cut(s) 329
BsmBI CGTCTC 1 cut(s) 329
BsnI GGCC 2 cut(s) 306, 351
BsoBI CYCGRG 1 cut(s) 368
Bsp120I GGGCCC 1 cut(s) 304
Bsp1286I GDGCHC 1 cut(s) 308
Bsp143I GATC 1 cut(s) 211
BspANI GGCC 2 cut(s) 306, 351
BspLI GGNNCC 2 cut(s) 306, 374
BsrI ACTGG 3 cut(s) 277, 352, 376
BssECI CCNNGG 2 cut(s) 10, 368
BssMI GATC 1 cut(s) 211
BssNAI GTATAC 1 cut(s) 259
BssT1I CCWWGG 1 cut(s) 10
Bst1107I GTATAC 1 cut(s) 259
Bst2UI CCWGG 1 cut(s) 111
Bst4CI ACNGT 1 cut(s) 263
Bst6I CTCTTC 2 cut(s) 24, 385
BstKTI GATC 1 cut(s) 214
BstMAI GTCTC 1 cut(s) 329
BstMBI GATC 1 cut(s) 211
BstNI CCWGG 1 cut(s) 111
BstNSI RCATGY 1 cut(s) 89
BstSCI CCNGG 3 cut(s) 109, 367, 368
BstSLI GKGCMC 1 cut(s) 308
BstV1I GCAGC 1 cut(s) 115
BstZ17I GTATAC 1 cut(s) 259
BsuRI GGCC 2 cut(s) 306, 351
BtsIMutI CAGTG 2 cut(s) 268, 383
Cfr13I GGNCC 3 cut(s) 304, 305, 349
Cfr9I CCCGGG 1 cut(s) 368
CviAII CATG 2 cut(s) 86, 221
CviJI RGCY 9 cut(s) 15, 107, 128, 159, 217, 227, 306, 351, 375
CviKI_1 RGCY 9 cut(s) 15, 107, 128, 159, 217, 227, 306, 351, 375
DpnI GATC 1 cut(s) 213
DpnII GATC 1 cut(s) 211
Eam1104I CTCTTC 2 cut(s) 24, 385
EarI CTCTTC 2 cut(s) 24, 385
Eco130I CCWWGG 1 cut(s) 10
Eco24I GRGCYC 1 cut(s) 308
Eco57I CTGAAG 1 cut(s) 48
Eco88I CYCGRG 1 cut(s) 368
EcoRII CCWGG 1 cut(s) 109
EcoT14I CCWWGG 1 cut(s) 10
EcoT38I GRGCYC 1 cut(s) 308
ErhI CCWWGG 1 cut(s) 10
Esp3I CGTCTC 1 cut(s) 329
FaeI CATG 2 cut(s) 89, 224
FaiI YATR 5 cut(s) 87, 171, 222, 259, 302
FatI CATG 2 cut(s) 85, 220
FblI GTMKAC 1 cut(s) 258
Fnu4HI GCNGC 1 cut(s) 129
FriOI GRGCYC 1 cut(s) 308
Fsp4HI GCNGC 1 cut(s) 129
FspBI CTAG 2 cut(s) 11, 122
GluI GCNGC 1 cut(s) 129
HaeIII GGCC 2 cut(s) 306, 351
HapII CCGG 1 cut(s) 369
Hin1II CATG 2 cut(s) 89, 224
HincII GTYRAC 1 cut(s) 116
HindII GTYRAC 1 cut(s) 116
HinfI GANTC 1 cut(s) 23
HpaII CCGG 1 cut(s) 369
HphI GGTGA 2 cut(s) 349, 357
Hpy166II GTNNAC 3 cut(s) 116, 259, 357
Hpy188I TCNGA 1 cut(s) 28
Hpy188III TCNNGA 2 cut(s) 65, 99
Hpy8I GTNNAC 3 cut(s) 116, 259, 357
HpyAV CCTTC 2 cut(s) 105, 133
HpyCH4III ACNGT 1 cut(s) 263
HpyCH4IV ACGT 1 cut(s) 322
HpyCH4V TGCA 1 cut(s) 173
HpySE526I ACGT 1 cut(s) 322
Hsp92II CATG 2 cut(s) 89, 224
Kzo9I GATC 1 cut(s) 211
LmnI GCTCC 3 cut(s) 112, 224, 372
Lsp1109I GCAGC 1 cut(s) 115
MaeI CTAG 2 cut(s) 11, 122
MaeII ACGT 1 cut(s) 322
MalI GATC 1 cut(s) 213
MboI GATC 1 cut(s) 211
MboII GAAGA 2 cut(s) 41, 402
MhlI GDGCHC 1 cut(s) 308
MluCI AATT 1 cut(s) 75
MlyI GAGTC 1 cut(s) 32
MnlI CCTC 3 cut(s) 118, 202, 371
MseI TTAA 1 cut(s) 78
MspI CCGG 1 cut(s) 369
MspR9I CCNGG 3 cut(s) 111, 369, 370
MvaI CCWGG 1 cut(s) 111
NciI CCSGG 2 cut(s) 369, 370
NdeII GATC 1 cut(s) 211
NlaIII CATG 2 cut(s) 89, 224
NlaIV GGNNCC 2 cut(s) 306, 374
NspI RCATGY 1 cut(s) 89
PkrI GCNGC 1 cut(s) 130
PleI GAGTC 1 cut(s) 31
PpsI GAGTC 1 cut(s) 31
PshBI ATTAAT 1 cut(s) 78
Psp6I CCWGG 1 cut(s) 109
PspGI CCWGG 1 cut(s) 109
PspN4I GGNNCC 2 cut(s) 306, 374
PspOMI GGGCCC 1 cut(s) 304
PspPI GGNCC 3 cut(s) 304, 305, 349
SaqAI TTAA 1 cut(s) 78
SatI GCNGC 1 cut(s) 129
Sau3AI GATC 1 cut(s) 211
Sau96I GGNCC 3 cut(s) 304, 305, 349
SchI GAGTC 1 cut(s) 32
ScrFI CCNGG 3 cut(s) 111, 369, 370
SduI GDGCHC 1 cut(s) 308
SetI ASST 4 cut(s) 109, 219, 229, 325
SmaI CCCGGG 1 cut(s) 370
Sse9I AATT 1 cut(s) 75
SspMI CTAG 2 cut(s) 11, 122
StyD4I CCNGG 3 cut(s) 109, 367, 368
StyI CCWWGG 1 cut(s) 10
TaaI ACNGT 1 cut(s) 263
TaiI ACGT 1 cut(s) 325
TasI AATT 1 cut(s) 75
Tru1I TTAA 1 cut(s) 78
Tru9I TTAA 1 cut(s) 78
TscAI CASTG 2 cut(s) 268, 383
TseI GCWGC 1 cut(s) 128
TspDTI ATGAA 1 cut(s) 209
TspMI CCCGGG 1 cut(s) 368
TspRI CASTG 2 cut(s) 268, 383
VspI ATTAAT 1 cut(s) 78
XceI RCATGY 1 cut(s) 89
XmaI CCCGGG 1 cut(s) 368
XmaJI CCTAGG 1 cut(s) 10
XmiI GTMKAC 1 cut(s) 258
XspI CTAG 2 cut(s) 11, 122
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.