Rh2DG112000

RNA polymerase I-specific transcription initiation factor

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr2D
OG0018982
Physical Location & Seq
Reverse (-)
9227987 .. 9234038
6052 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh2DG112000.1

Sequence Viewer

Length: 648 bp
ATGATGGTAGTGAGCTTCCCAGAGAAGACACTAAAAATGAATGGTGGCCGATTGGTTGAGGTATTTGAAACTCTGCTCAAGTCATTTAAGAAGAATGTAATGACCGCATTCAAGTCAAAATTTGTCCAGTTTGTGATGTTTTATGCATGTGAACTCGATCCATCAACTGTGGTGAGAGATTTGCTTCCACGCTTGCAGAAATTTTGTATTCGTCCTCCGAACTCACACGTGTTAGGTCATTTGGTGGATTGGTGTAACGAATATGTCAAAGAGCAAGATGGTAAAATAAACCCAGAAACCCATGGAATATTTTATTCTACATGCCAGGAATACAAGCTTTCTGTATGGCAGTTGGGTTCCAAGCCTGTATATCGGTTTCATAATCAGGGGATGGAGTCTCAACTCATTTCATGCATAATATTCATGTTCATCAAAAGATTCATCCGGCAGAATTTCATTTACTGGGACATGGTTCAACGTACTGATGAAGCAGTCAAAGAAATTTCCAGCTATGAAGATGTTGGTGAAGCCTTTGTGCGTGAAAATGAGGAGAATGAAATGGATTGTGAGGTTTTGCAGAGCTTGGAGGAACAACATTTTGGTGTTAATGAGGATTCCATGCACCAACCTGTGCGAATGCCCTCGTGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
RRN3

Protein Analysis

215

Amino Acids

25.34

Weight (kDa)

5.58

Isoelectric Point (pI)

43.24

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RRN3 PF05327 11 - 72 5.3e-11 RNA polymerase I specific transcription initiation factor RRN3
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: OG0018982)

Species Orthologous Gene IDs
rosa_chinensis RchiOBHm_Chr2g0096821 RchiOBHm_Chr2g0096831
rosa_samantha Rh2AG108700 Rh2BG110700 Rh2CG112600 Rh2CG112700 Rh2DG112000
rosa_wichuraiana Rw2G008400 Rw2G008410

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AciI CCGC 1 cut(s) 105
AclWI GGATC 1 cut(s) 152
AcoI YGGCCR 1 cut(s) 46
AcsI RAATTY 4 cut(s) 119, 200, 451, 501
AcvI CACGTG 1 cut(s) 229
AfaI GTAC 1 cut(s) 481
AflIII ACRYGT 2 cut(s) 226, 228
AgsI TTSAA 3 cut(s) 68, 112, 476
AjnI CCWGG 1 cut(s) 324
AjuI GAANNNNNNNTTGG 2 cut(s) 582, 614
AluBI AGCT 4 cut(s) 15, 337, 510, 582
AluI AGCT 4 cut(s) 15, 337, 510, 582
Alw26I GTCTC 1 cut(s) 402
AlwI GGATC 1 cut(s) 152
AoxI GGCC 1 cut(s) 46
ApoI RAATTY 4 cut(s) 119, 200, 451, 501
AsuHPI GGTGA 2 cut(s) 184, 536
BauI CACGAG 1 cut(s) 643
BbrPI CACGTG 1 cut(s) 229
BbsI GAAGAC 1 cut(s) 32
BccI CCATC 3 cut(s) 169, 272, 385
BciT130I CCWGG 1 cut(s) 326
BcoDI GTCTC 1 cut(s) 402
Bme1390I CCNGG 1 cut(s) 326
BmiI GGNNCC 1 cut(s) 358
BmrFI CCNGG 1 cut(s) 326
BmrI ACTGGG 1 cut(s) 472
BmuI ACTGGG 1 cut(s) 472
BpiI GAAGAC 1 cut(s) 32
BpuEI CTTGAG 1 cut(s) 62
BsaAI YACGTR 1 cut(s) 229
BsaJI CCNNGG 1 cut(s) 301
Bse1I ACTGG 2 cut(s) 127, 467
BseBI CCWGG 1 cut(s) 326
BseDI CCNNGG 1 cut(s) 301
BseGI GGATG 2 cut(s) 396, 441
BseNI ACTGG 2 cut(s) 127, 467
BseRI GAGGAG 1 cut(s) 563
BshFI GGCC 1 cut(s) 48
BsiSI CCGG 1 cut(s) 445
BslFI GGGAC 1 cut(s) 479
BsmAI GTCTC 1 cut(s) 402
BsmFI GGGAC 1 cut(s) 479
BsmI GAATGC 2 cut(s) 107, 642
BsnI GGCC 1 cut(s) 48
Bsp143I GATC 1 cut(s) 157
Bsp19I CCATGG 1 cut(s) 301
BspACI CCGC 1 cut(s) 105
BspANI GGCC 1 cut(s) 48
BspLI GGNNCC 1 cut(s) 358
BspPI GGATC 1 cut(s) 152
BsrI ACTGG 2 cut(s) 127, 467
BssECI CCNNGG 1 cut(s) 301
BssMI GATC 1 cut(s) 157
BssSI CACGAG 1 cut(s) 643
BssT1I CCWWGG 1 cut(s) 301
Bst2BI CACGAG 1 cut(s) 643
Bst2UI CCWGG 1 cut(s) 326
Bst4CI ACNGT 1 cut(s) 169
BstBAI YACGTR 1 cut(s) 229
BstC8I GCNNGC 1 cut(s) 194
BstDSI CCRYGG 1 cut(s) 301
BstF5I GGATG 2 cut(s) 396, 441
BstKTI GATC 1 cut(s) 160
BstMAI GTCTC 1 cut(s) 402
BstMBI GATC 1 cut(s) 157
BstNI CCWGG 1 cut(s) 326
BstNSI RCATGY 2 cut(s) 150, 324
BstSCI CCNGG 1 cut(s) 324
BstV2I GAAGAC 1 cut(s) 32
BsuRI GGCC 1 cut(s) 48
BtgI CCRYGG 1 cut(s) 301
BtsCI GGATG 2 cut(s) 396, 441
Cac8I GCNNGC 1 cut(s) 194
Csp6I GTAC 1 cut(s) 480
CviAII CATG 7 cut(s) 147, 302, 321, 411, 424, 469, 619
CviJI RGCY 7 cut(s) 15, 48, 337, 364, 510, 530, 582
CviKI_1 RGCY 7 cut(s) 15, 48, 337, 364, 510, 530, 582
CviQI GTAC 1 cut(s) 480
DpnI GATC 1 cut(s) 159
DpnII GATC 1 cut(s) 157
EaeI YGGCCR 1 cut(s) 46
Eco130I CCWWGG 1 cut(s) 301
Eco72I CACGTG 1 cut(s) 229
EcoRII CCWGG 1 cut(s) 324
EcoT14I CCWWGG 1 cut(s) 301
EcoT22I ATGCAT 2 cut(s) 148, 416
ErhI CCWWGG 1 cut(s) 301
FaeI CATG 7 cut(s) 150, 305, 324, 414, 427, 472, 622
FaqI GGGAC 1 cut(s) 479
FatI CATG 7 cut(s) 146, 301, 320, 410, 423, 468, 618
FokI GGATG 2 cut(s) 403, 428
HaeIII GGCC 1 cut(s) 48
HapII CCGG 1 cut(s) 445
Hin1II CATG 7 cut(s) 150, 305, 324, 414, 427, 472, 622
HindIII AAGCTT 1 cut(s) 335
HinfI GANTC 3 cut(s) 395, 438, 614
HpaII CCGG 1 cut(s) 445
HphI GGTGA 2 cut(s) 184, 536
Hpy166II GTNNAC 1 cut(s) 152
Hpy188I TCNGA 1 cut(s) 219
Hpy188III TCNNGA 1 cut(s) 645
Hpy8I GTNNAC 1 cut(s) 152
HpyCH4III ACNGT 1 cut(s) 169
HpyCH4IV ACGT 2 cut(s) 228, 478
HpyCH4V TGCA 5 cut(s) 146, 196, 414, 577, 622
HpySE526I ACGT 2 cut(s) 228, 478
Hsp92II CATG 7 cut(s) 150, 305, 324, 414, 427, 472, 622
Kzo9I GATC 1 cut(s) 157
MaeII ACGT 2 cut(s) 228, 478
MaeIII GTNAC 1 cut(s) 254
MalI GATC 1 cut(s) 159
MboI GATC 1 cut(s) 157
MboII GAAGA 3 cut(s) 37, 103, 527
MluCI AATT 4 cut(s) 119, 200, 451, 501
MlyI GAGTC 1 cut(s) 404
MnlI CCTC 6 cut(s) 52, 225, 541, 562, 580, 604
Mph1103I ATGCAT 2 cut(s) 148, 416
MseI TTAA 2 cut(s) 87, 606
MslI CAYNNNNRTG 1 cut(s) 600
MspI CCGG 1 cut(s) 445
MspR9I CCNGG 1 cut(s) 326
Mva1269I GAATGC 2 cut(s) 107, 642
MvaI CCWGG 1 cut(s) 326
NcoI CCATGG 1 cut(s) 301
NdeII GATC 1 cut(s) 157
NlaIII CATG 7 cut(s) 150, 305, 324, 414, 427, 472, 622
NlaIV GGNNCC 1 cut(s) 358
NsiI ATGCAT 2 cut(s) 148, 416
NspI RCATGY 2 cut(s) 150, 324
PctI GAATGC 2 cut(s) 107, 642
PfeI GAWTC 2 cut(s) 438, 614
PleI GAGTC 1 cut(s) 403
PmaCI CACGTG 1 cut(s) 229
PmlI CACGTG 1 cut(s) 229
PpsI GAGTC 1 cut(s) 403
Ppu21I YACGTR 1 cut(s) 229
Psp6I CCWGG 1 cut(s) 324
PspCI CACGTG 1 cut(s) 229
PspGI CCWGG 1 cut(s) 324
PspN4I GGNNCC 1 cut(s) 358
RsaI GTAC 1 cut(s) 481
RsaNI GTAC 1 cut(s) 480
RseI CAYNNNNRTG 1 cut(s) 600
SaqAI TTAA 2 cut(s) 87, 606
Sau3AI GATC 1 cut(s) 157
SchI GAGTC 1 cut(s) 404
ScrFI CCNGG 1 cut(s) 326
SmiMI CAYNNNNRTG 1 cut(s) 600
SmlI CTYRAG 1 cut(s) 77
SmoI CTYRAG 1 cut(s) 77
Sse9I AATT 4 cut(s) 119, 200, 451, 501
SsiI CCGC 1 cut(s) 105
SspI AATATT 2 cut(s) 309, 420
StyD4I CCNGG 1 cut(s) 324
StyI CCWWGG 1 cut(s) 301
TaaI ACNGT 1 cut(s) 169
TaiI ACGT 2 cut(s) 231, 481
TaqI TCGA 1 cut(s) 156
TasI AATT 4 cut(s) 119, 200, 451, 501
TfiI GAWTC 2 cut(s) 438, 614
Tru1I TTAA 2 cut(s) 87, 606
Tru9I TTAA 2 cut(s) 87, 606
XapI RAATTY 4 cut(s) 119, 200, 451, 501
XceI RCATGY 2 cut(s) 150, 324
Zsp2I ATGCAT 2 cut(s) 148, 416
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.