Rh4CG253500

DNA-directed RNA polymerase III subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr4C
OG0000459
Physical Location & Seq
Reverse (-)
50355010 .. 50356113
1104 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh4CG253500.1

Sequence Viewer

Length: 558 bp
ATGGCGTTTAGAGGGCGTGGAGGTGGTTTCGGAGGCTATCAATGTCATGGTAAAGAAGAACCCTTTGTGCTGTTCCCTGATATTAACCTACCTGATGCCACAGATGTTTTGTCCATCTCCGATCAGAAGAAAAACAAGGAAGAGATGTTGTTGATCAAAGAAAGTTTGGAGTGGCTGAACAAAACAGGTTATTATCTTGAACAGACTGACAAAGACAAGCAGCGAAAGGGTAACAGAGAAATCCATTCTTTCTCGCAGTACCTAGTGCCGAGTATGTTTCCTGGAGAACTGACTAGAGGTTCGAATGTGAGGGGGTTAAGCAGGGACAAAGTTGAGTGGCACAGAAAGAAGAAGGAAGAGATCGACTGGAATCGGATTGAGAAGATGGAACAGGACAGTGATGCCAAGCAAAAGAAAAAACTCGAAAAGGATGAGGAAGATGTGGATAAGGAAGATGATGATGATGATGAGGATGATGAGGACGATGAGGATTATGAAGACCCTGACTTGAATGATTATATTGTTGATCTTTCTGTGAAAAGGTGGGTGTACAACTGA
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

185

Amino Acids

21.86

Weight (kDa)

4.6

Isoelectric Point (pI)

46.44

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
Loading...
Style Settings
Image
Tree File
Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

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)
AfaI GTAC 2 cut(s) 260, 551
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
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 2 cut(s) 436, 478
BseNI ACTGG 1 cut(s) 371
BseXI GCAGC 1 cut(s) 232
BslFI GGGAC 1 cut(s) 338
BsmFI GGGAC 1 cut(s) 338
Bsp119I TTCGAA 1 cut(s) 302
Bsp1407I TGTACA 1 cut(s) 549
Bsp143I GATC 4 cut(s) 121, 153, 360, 526
BspT104I TTCGAA 1 cut(s) 302
BsrGI TGTACA 1 cut(s) 549
BsrI ACTGG 1 cut(s) 371
BssMI GATC 4 cut(s) 121, 153, 360, 526
Bst2UI CCWGG 1 cut(s) 282
Bst4CI ACNGT 1 cut(s) 398
Bst6I CTCTTC 2 cut(s) 135, 351
BstAUI TGTACA 1 cut(s) 549
BstBI TTCGAA 1 cut(s) 302
BstF5I GGATG 2 cut(s) 436, 478
BstKTI GATC 4 cut(s) 124, 156, 363, 529
BstMBI GATC 4 cut(s) 121, 153, 360, 526
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 2 cut(s) 436, 478
BtsIMutI CAGTG 1 cut(s) 403
Csp6I GTAC 2 cut(s) 259, 550
CviAII CATG 1 cut(s) 47
CviJI RGCY 2 cut(s) 36, 175
CviKI_1 RGCY 2 cut(s) 36, 175
CviQI GTAC 2 cut(s) 259, 550
DpnI GATC 4 cut(s) 123, 155, 362, 528
DpnII GATC 4 cut(s) 121, 153, 360, 526
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 4 cut(s) 48, 275, 495, 519
FaqI GGGAC 1 cut(s) 338
FatI CATG 1 cut(s) 46
FbaI TGATCA 1 cut(s) 153
Fnu4HI GCNGC 1 cut(s) 221
FokI GGATG 2 cut(s) 443, 485
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
Hpy166II GTNNAC 1 cut(s) 550
Hpy188I TCNGA 4 cut(s) 32, 121, 126, 375
Hpy188III TCNNGA 1 cut(s) 197
Hpy8I GTNNAC 1 cut(s) 550
HpyAV CCTTC 1 cut(s) 346
HpyCH4III ACNGT 1 cut(s) 398
Hsp92II CATG 1 cut(s) 50
Ksp22I TGATCA 1 cut(s) 153
Kzo9I GATC 4 cut(s) 121, 153, 360, 526
LpnPI CCDG 9 cut(s) 90, 105, 171, 267, 294, 307, 352, 377, 516
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 4 cut(s) 123, 155, 362, 528
MboI GATC 4 cut(s) 121, 153, 360, 526
MboII GAAGA 9 cut(s) 68, 139, 152, 361, 368, 394, 449, 464, 509
MnlI CCTC 9 cut(s) 5, 14, 26, 290, 303, 427, 463, 472, 481
MseI TTAA 2 cut(s) 84, 317
MspR9I CCNGG 1 cut(s) 282
MvaI CCWGG 1 cut(s) 282
NdeII GATC 4 cut(s) 121, 153, 360, 526
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
Psp6I CCWGG 1 cut(s) 280
PspGI CCWGG 1 cut(s) 280
RsaI GTAC 2 cut(s) 260, 551
RsaNI GTAC 2 cut(s) 259, 550
SaqAI TTAA 2 cut(s) 84, 317
SatI GCNGC 1 cut(s) 221
Sau3AI GATC 4 cut(s) 121, 153, 360, 526
ScrFI CCNGG 1 cut(s) 282
SetI ASST 7 cut(s) 25, 90, 94, 190, 264, 301, 545
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
TaaI ACNGT 1 cut(s) 398
TaqI TCGA 3 cut(s) 302, 363, 423
TatI WGTACW 1 cut(s) 549
TfiI GAWTC 1 cut(s) 370
Tru1I TTAA 2 cut(s) 84, 317
Tru9I TTAA 2 cut(s) 84, 317
TscAI CASTG 1 cut(s) 403
TseI GCWGC 1 cut(s) 220
TspDTI ATGAA 1 cut(s) 510
TspRI CASTG 1 cut(s) 403
XspI CTAG 2 cut(s) 263, 294
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.