RchiOBHm_Chr4g0422341

DNA-directed RNA polymerase III subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
4
OG0000459
Physical Location & Seq
Reverse (-)
47964467 .. 47965965
1499 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ39190

Sequence Viewer

Length: 597 bp
ATGGCGTTTAGAGGGCGTGGAGGTGGTTTCGGAGGCTATCAATGTCATGGTAAAGAAGAACCCTTTGTGCTGTTCCCTGATATTAACCTACCTGATGCCACAGATGTTTTGTCCATCTCCGATCAGAAGAAAAACAAGGAAGAGATGTTGTTGATCAAAGAAAGTTTGGAGTGGCTGAACAAAACAGGGTATTATCTTGAACAGACTGACAAAGACAAGCAGCGAAAGGGTAACAGAGAAATCCATTCTTTCTCGCAGTACCTAGTGCCGAGTATGTTTCCTGGAGAACTGACTAGAGGTTCGAATGTGAGGGGGTTAAGCAGGGACAGCGTTGAGTGGGACAGAAAGAAGAAGGAAGAGATCGACTGGAATCGGATTGAGAAGATGGAACAGGATAGTGATGCCAAGCAAAAGAAAAAACTCGAAAAGGATGAGGAAGATGTGGATAAGGAAGATGATGATGATGATGATGATGATGAGGACGATGAGGATTATGAAGACCCTGACTTGAATGATTATATTGTTGATGTGAAGCCAGACGATGACGAAGATGTTTATAATGATGAGGAGGAGGGTGGTGATGAACCTGAGTTGTAG
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko00230 ko00240 ko01100 ko03020 ko04623 ko05169 map00230 map00240 map01100 map03020 map04623 map05169
Pfam Domains
Protein Families
RNA_pol_3_Rpc31

Protein Analysis

198

Amino Acids

23.13

Weight (kDa)

4.23

Isoelectric Point (pI)

45.2

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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Orthologous Genes (Group: OG0000459)

Species Orthologous Gene IDs
arabidopsis_thaliana AT4G01590 AT4G01590 AT4G01590 AT4G35685
fragaria_vesca FvH4_2g26230 FvH4_3g43010 FvH4_3g43011 FvH4_4g18161 FvH4_4g18202 FvH4_5g23500 FvH4_6g36040 FvH4_6g36040 FvH4_6g36040
malus_domestica MD08G1165000.v1.1 MD08G1171800.v1.1 MD15G1357300.v1.1 MD15G1382800.v1.1
prunus_persica Prupe.1G504500_v2.0.a1 Prupe.1G504500_v2.0.a1 Prupe.1G504500_v2.0.a1 Prupe.1G504500_v2.0.a1 Prupe.1G504500_v2.0.a1 Prupe.1G504500_v2.0.a1 Prupe.1G582300_v2.0.a1 Prupe.6G034400_v2.0.a1 Prupe.6G034600_v2.0.a1
pyrus_communis pycom02g25390 pycom08g14650
rosa_chinensis RchiOBHm_Chr2g0143271 RchiOBHm_Chr4g0422341 RchiOBHm_Chr6g0253151 RchiOBHm_Chr6g0294801
rosa_laevigata RLG00000007621 RLG00000011839 RLG00000020015 RLG00000020019 RLG00000020023 RLG00000036652 RLG00000036658
rosa_multiflora Rmu_co8140216.1_g000001 Rmu_co8510555.1_g000002 Rmu_sc0003323.1_g000013 Rmu_sc0003323.1_g000024 Rmu_sc0003323.1_g000031 Rmu_sc0013245.1_g000016 Rmu_sc0030690.1_g000001
rosa_roxburghii Rroxscaffold_1G00005030 Rroxscaffold_2G00101900 Rroxscaffold_2G00102030 Rroxscaffold_4G00318680 Rroxscaffold_5G00364400 Rroxscaffold_5G00364410 Rroxscaffold_7G00173000 Rroxscaffold_7G00212110
rosa_rugosa Rorug04G0179200 Rorug05G0451000 Rorug05G0451400.1 Rorug05G0451500 Rorug06G0246900
rosa_samantha Rh1AG104900 Rh1CG244000 Rh1DG126500 Rh2AG432700 Rh2CG418500 Rh4AG238500 Rh4BG241700 Rh4BG242000 Rh4CG253500 Rh4CG253600 Rh4DG237400 Rh5AG505300 Rh5AG505500 Rh5BG527000 Rh5BG527200 Rh5BG527500 Rh5CG551000 Rh5CG551300 Rh5CG551800 Rh5DG539300 Rh5DG539900 Rh6AG057300 Rh6AG360500 Rh6BG051900 Rh6BG367200 Rh6CG049800 Rh6CG374200 Rh6DG046000
rosa_wichuraiana Rw1G009810 Rw5G047080 Rw5G047100 Rw6G031450

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 558
AfaI GTAC 1 cut(s) 260
AgsI TTSAA 2 cut(s) 200, 511
AjnI CCWGG 1 cut(s) 280
ApeKI GCWGC 1 cut(s) 220
ArsI GACNNNNNNTTYG 2 cut(s) 283, 315
AsuHPI GGTGA 1 cut(s) 590
AsuII TTCGAA 1 cut(s) 302
BbsI GAAGAC 1 cut(s) 504
BbvI GCAGC 1 cut(s) 232
BccI CCATC 2 cut(s) 122, 379
BciT130I CCWGG 1 cut(s) 282
BclI TGATCA 1 cut(s) 153
BfaI CTAG 2 cut(s) 263, 294
BisI GCNGC 1 cut(s) 221
BlsI GCNGC 1 cut(s) 222
Bme1390I CCNGG 1 cut(s) 282
BmrFI CCNGG 1 cut(s) 282
BmsI GCATC 2 cut(s) 85, 391
BpiI GAAGAC 1 cut(s) 504
BpmI CTGGAG 1 cut(s) 303
Bpu14I TTCGAA 1 cut(s) 302
Bse1I ACTGG 1 cut(s) 371
BseBI CCWGG 1 cut(s) 282
BseGI GGATG 1 cut(s) 436
BseMII CTCAG 1 cut(s) 579
BseNI ACTGG 1 cut(s) 371
BseRI GAGGAG 2 cut(s) 581, 584
BseXI GCAGC 1 cut(s) 232
BslFI GGGAC 2 cut(s) 338, 353
BsmFI GGGAC 2 cut(s) 338, 353
Bsp119I TTCGAA 1 cut(s) 302
Bsp143I GATC 3 cut(s) 121, 153, 360
BspCNI CTCAG 1 cut(s) 580
BspT104I TTCGAA 1 cut(s) 302
BsrI ACTGG 1 cut(s) 371
BssMI GATC 3 cut(s) 121, 153, 360
Bst2UI CCWGG 1 cut(s) 282
Bst6I CTCTTC 2 cut(s) 135, 351
BstBI TTCGAA 1 cut(s) 302
BstDEI CTNAG 1 cut(s) 588
BstF5I GGATG 1 cut(s) 436
BstKTI GATC 3 cut(s) 124, 156, 363
BstMBI GATC 3 cut(s) 121, 153, 360
BstMWI GCNNNNNNNGC 1 cut(s) 327
BstNI CCWGG 1 cut(s) 282
BstSCI CCNGG 1 cut(s) 280
BstV1I GCAGC 1 cut(s) 232
BstV2I GAAGAC 1 cut(s) 504
BtsCI GGATG 1 cut(s) 436
Csp6I GTAC 1 cut(s) 259
CviAII CATG 1 cut(s) 47
CviJI RGCY 3 cut(s) 36, 175, 535
CviKI_1 RGCY 3 cut(s) 36, 175, 535
CviQI GTAC 1 cut(s) 259
DdeI CTNAG 1 cut(s) 588
DpnI GATC 3 cut(s) 123, 155, 362
DpnII GATC 3 cut(s) 121, 153, 360
Eam1104I CTCTTC 2 cut(s) 135, 351
EarI CTCTTC 2 cut(s) 135, 351
EcoRII CCWGG 1 cut(s) 280
FaeI CATG 1 cut(s) 50
FaiI YATR 5 cut(s) 48, 275, 495, 519, 558
FaqI GGGAC 2 cut(s) 338, 353
FatI CATG 1 cut(s) 46
FbaI TGATCA 1 cut(s) 153
Fnu4HI GCNGC 1 cut(s) 221
FokI GGATG 1 cut(s) 443
Fsp4HI GCNGC 1 cut(s) 221
FspBI CTAG 2 cut(s) 263, 294
GluI GCNGC 1 cut(s) 221
GsuI CTGGAG 1 cut(s) 303
Hin1II CATG 1 cut(s) 50
HinfI GANTC 1 cut(s) 370
HphI GGTGA 1 cut(s) 590
Hpy188I TCNGA 4 cut(s) 32, 121, 126, 375
Hpy188III TCNNGA 1 cut(s) 197
HpyAV CCTTC 1 cut(s) 346
HpyF10VI GCNNNNNNNGC 1 cut(s) 327
HpyF3I CTNAG 1 cut(s) 588
Hsp92II CATG 1 cut(s) 50
Ksp22I TGATCA 1 cut(s) 153
Kzo9I GATC 3 cut(s) 121, 153, 360
Lsp1109I GCAGC 1 cut(s) 232
LweI GCATC 2 cut(s) 85, 391
MaeI CTAG 2 cut(s) 263, 294
MaeIII GTNAC 1 cut(s) 230
MalI GATC 3 cut(s) 123, 155, 362
MboI GATC 3 cut(s) 121, 153, 360
MseI TTAA 2 cut(s) 84, 317
MspR9I CCNGG 1 cut(s) 282
MvaI CCWGG 1 cut(s) 282
MwoI GCNNNNNNNGC 1 cut(s) 327
NdeII GATC 3 cut(s) 121, 153, 360
NlaIII CATG 1 cut(s) 50
NmeAIII GCCGAG 1 cut(s) 294
NspV TTCGAA 1 cut(s) 302
PfeI GAWTC 1 cut(s) 370
PfoI TCCNGGA 1 cut(s) 280
PkrI GCNGC 1 cut(s) 222
PsiI TTATAA 1 cut(s) 558
Psp6I CCWGG 1 cut(s) 280
PspGI CCWGG 1 cut(s) 280
RsaI GTAC 1 cut(s) 260
RsaNI GTAC 1 cut(s) 259
SaqAI TTAA 2 cut(s) 84, 317
SatI GCNGC 1 cut(s) 221
Sau3AI GATC 3 cut(s) 121, 153, 360
ScrFI CCNGG 1 cut(s) 282
SetI ASST 6 cut(s) 25, 90, 94, 264, 301, 589
SfaNI GCATC 2 cut(s) 85, 391
SfuI TTCGAA 1 cut(s) 302
SspMI CTAG 2 cut(s) 263, 294
StyD4I CCNGG 1 cut(s) 280
TaqI TCGA 3 cut(s) 302, 363, 423
TfiI GAWTC 1 cut(s) 370
Tru1I TTAA 2 cut(s) 84, 317
Tru9I TTAA 2 cut(s) 84, 317
TseI GCWGC 1 cut(s) 220
TspDTI ATGAA 2 cut(s) 510, 597
XspI CTAG 2 cut(s) 263, 294
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.