Rh5BG083700

Rho termination factor, N-terminal domain

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5B
OG0013074
Physical Location & Seq
Reverse (-)
7233655 .. 7234960
1306 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5BG083700.1

Sequence Viewer

Length: 780 bp
ATGGGTGGAATTGTGTATCAGTATCACTCTGTGCTTCGCTTTCCGGCATTCTTATCTTTCAGTAAGCAGCCCAAGCTGGGAAAACCTATTTTCTCACTCAAAGACATTGCAGACGTGTCTTCACCGTTTGAGAGGAAGGGGCTGAAGTTAACTGTGTCCTGTGTTGGATCTGATCAAGGAAGCGGAAGAGGTCAATCTTCTAGGAGAAGTTCAGGTTCAGGAAGAACAAGGAAAAATGATGAAACTAAGAAACCTCGAGGTGGGAGAAAGTCCAAGTCATCTAACCAGGAAGAGATCATTTCTCTGTTTAGGCGGATACAATCTTCGATCTCAAAGGAAGTAGACTCTGTAGATACTAAGAAGATAAAGTCCAATGAATCGGAAGAGAAGCCGCCCTCGGCTGAGTCAATTCTTAGGGTTCTTCAAGGTGGATCAACAAAGCAAAGAGAAGAAGCTAACCAGGAAGGAGAAAAGGTTGATATGAAGGAGCAGCAAATACAGGCTAATCTATCAGTTACAGACTTCAAGTTAACGCGGCCACCATCCAAATTTGTGAAGAGGTCTCCAATTCCGTCTTCATCAAACAATTCAAGCCCACCACGAGAGCTTCTTGAGATGAAAAATGGAGCATCACTTGCCACTGCTGGAACCAAAGAGTTAAAGTTGGAAAGAGTAGAAGAAATGAAACTCCCTGAGCTGAAAGAACTGGCAAAGTCTAGGGGGATGGTAGGTTACTCAAAACTCAAAAAGAGGGAGCTTGTAGAACTGTTGAAGTCCTAA
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
Rho_N

Protein Analysis

259

Amino Acids

28.74

Weight (kDa)

9.97

Isoelectric Point (pI)

49.31

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Rho_N PF07498 226 - 258 1.5e-06 Rho termination factor, N-terminal domain
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: OG0013074)

Species Orthologous Gene IDs
arabidopsis_thaliana AT4G18740 AT4G18740 AT4G18740 AT4G18740
fragaria_vesca FvH4_3g07440
malus_domestica MD05G1297000.v1.1
prunus_persica Prupe.4G065300_v2.0.a1
rosa_chinensis RchiOBHm_Chr5g0011411
rosa_laevigata RLG00000031831
rosa_multiflora Rmu_co8186696.1_g000001 Rmu_sc0009975.1_g000015
rosa_roxburghii Rroxscaffold_1G00065040
rosa_rugosa Rorug04G0456900
rosa_samantha Rh5AG088700 Rh5BG083700 Rh5CG097000 Rh5DG083700
rosa_wichuraiana Rw5G007700

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AbsI CCTCGAGG 1 cut(s) 255
AccI GTMKAC 1 cut(s) 342
AccII CGCG 1 cut(s) 535
AciI CCGC 4 cut(s) 183, 313, 392, 535
AclWI GGATC 2 cut(s) 175, 439
AcoI YGGCCR 1 cut(s) 536
AcsI RAATTY 1 cut(s) 548
AcuI CTGAAG 1 cut(s) 164
AdeI CACNNNGTG 1 cut(s) 31
AfiI CCNNNNNNNGG 2 cut(s) 77, 260
AflIII ACRYGT 1 cut(s) 114
AgsI TTSAA 4 cut(s) 425, 526, 591, 772
AjiI CACGTC 1 cut(s) 115
AjnI CCWGG 2 cut(s) 285, 459
AjuI GAANNNNNNNTTGG 2 cut(s) 559, 591
AluBI AGCT 5 cut(s) 76, 455, 607, 697, 757
AluI AGCT 5 cut(s) 76, 455, 607, 697, 757
Alw26I GTCTC 1 cut(s) 567
AlwI GGATC 2 cut(s) 175, 439
Ama87I CYCGRG 1 cut(s) 255
AoxI GGCC 1 cut(s) 536
ApeKI GCWGC 2 cut(s) 67, 490
ApoI RAATTY 1 cut(s) 548
AsuHPI GGTGA 1 cut(s) 114
AvaI CYCGRG 1 cut(s) 255
BauI CACGAG 1 cut(s) 600
BbsI GAAGAC 2 cut(s) 111, 567
BbvI GCAGC 2 cut(s) 79, 502
BccI CCATC 2 cut(s) 550, 718
BciT130I CCWGG 2 cut(s) 287, 461
BciVI GTATCC 1 cut(s) 309
BclI TGATCA 1 cut(s) 172
BcoDI GTCTC 1 cut(s) 567
BfaI CTAG 2 cut(s) 201, 717
BfmI CTRYAG 1 cut(s) 348
BfuI GTATCC 1 cut(s) 309
BisI GCNGC 4 cut(s) 68, 392, 491, 536
BlsI GCNGC 4 cut(s) 69, 393, 492, 537
Bme1390I CCNGG 2 cut(s) 287, 461
BmeT110I CYCGRG 1 cut(s) 255
BmgBI CACGTC 1 cut(s) 115
BmiI GGNNCC 1 cut(s) 649
BmrFI CCNGG 2 cut(s) 287, 461
BmsI GCATC 1 cut(s) 638
BpiI GAAGAC 2 cut(s) 111, 567
Bpu10I CCTNAGC 1 cut(s) 693
BpuEI CTTGAG 1 cut(s) 632
BsaI GGTCTC 1 cut(s) 567
BsaJI CCNNGG 1 cut(s) 396
BsaXI ACNNNNNCTCC 2 cut(s) 459, 489
Bsc4I CCNNNNNNNGG 2 cut(s) 77, 260
Bse1I ACTGG 1 cut(s) 711
Bse3DI GCAATG 1 cut(s) 105
BseBI CCWGG 2 cut(s) 287, 461
BseDI CCNNGG 1 cut(s) 396
BseGI GGATG 2 cut(s) 542, 729
BseLI CCNNNNNNNGG 2 cut(s) 77, 260
BseMI GCAATG 1 cut(s) 105
BseMII CTCAG 2 cut(s) 393, 684
BseNI ACTGG 1 cut(s) 711
BseXI GCAGC 2 cut(s) 79, 502
BseYI CCCAGC 1 cut(s) 76
Bsh1236I CGCG 1 cut(s) 535
BshFI GGCC 1 cut(s) 538
BsiHKCI CYCGRG 1 cut(s) 255
BsiSI CCGG 1 cut(s) 44
BslI CCNNNNNNNGG 2 cut(s) 77, 260
BsmAI GTCTC 1 cut(s) 567
BsmI GAATGC 1 cut(s) 47
BsnI GGCC 1 cut(s) 538
Bso31I GGTCTC 1 cut(s) 567
BsoBI CYCGRG 1 cut(s) 255
Bsp143I GATC 5 cut(s) 167, 172, 294, 327, 431
BspACI CCGC 4 cut(s) 183, 313, 392, 535
BspANI GGCC 1 cut(s) 538
BspCNI CTCAG 2 cut(s) 394, 685
BspFNI CGCG 1 cut(s) 535
BspLI GGNNCC 1 cut(s) 649
BspPI GGATC 2 cut(s) 175, 439
BspTNI GGTCTC 1 cut(s) 567
BsrDI GCAATG 1 cut(s) 105
BsrI ACTGG 1 cut(s) 711
BssECI CCNNGG 1 cut(s) 396
BssMI GATC 5 cut(s) 167, 172, 294, 327, 431
BssSI CACGAG 1 cut(s) 600
Bst2BI CACGAG 1 cut(s) 600
Bst2UI CCWGG 2 cut(s) 287, 461
Bst4CI ACNGT 3 cut(s) 126, 154, 768
Bst6I CTCTTC 4 cut(s) 181, 285, 378, 551
BstAPI GCANNNNNTGC 1 cut(s) 635
BstDEI CTNAG 5 cut(s) 246, 357, 402, 413, 693
BstF5I GGATG 2 cut(s) 542, 729
BstFNI CGCG 1 cut(s) 535
BstKTI GATC 5 cut(s) 170, 175, 297, 330, 434
BstMAI GTCTC 1 cut(s) 567
BstMBI GATC 5 cut(s) 167, 172, 294, 327, 431
BstMWI GCNNNNNNNGC 2 cut(s) 73, 635
BstNI CCWGG 2 cut(s) 287, 461
BstSCI CCNGG 2 cut(s) 285, 459
BstSFI CTRYAG 1 cut(s) 348
BstUI CGCG 1 cut(s) 535
BstV1I GCAGC 2 cut(s) 79, 502
BstV2I GAAGAC 2 cut(s) 111, 567
BstX2I RGATCY 1 cut(s) 167
BstYI RGATCY 1 cut(s) 167
BsuI GTATCC 1 cut(s) 309
BsuRI GGCC 1 cut(s) 538
BtrI CACGTC 1 cut(s) 115
BtsCI GGATG 2 cut(s) 542, 729
BtsI GCAGTG 1 cut(s) 639
BtsIMutI CAGTG 1 cut(s) 639
DdeI CTNAG 5 cut(s) 246, 357, 402, 413, 693
DpnI GATC 5 cut(s) 169, 174, 296, 329, 433
DpnII GATC 5 cut(s) 167, 172, 294, 327, 431
DraIII CACNNNGTG 1 cut(s) 31
EaeI YGGCCR 1 cut(s) 536
Eam1104I CTCTTC 4 cut(s) 181, 285, 378, 551
EarI CTCTTC 4 cut(s) 181, 285, 378, 551
EciI GGCGGA 1 cut(s) 328
Eco31I GGTCTC 1 cut(s) 567
Eco57I CTGAAG 1 cut(s) 164
Eco88I CYCGRG 1 cut(s) 255
EcoRII CCWGG 2 cut(s) 285, 459
FaiI YATR 1 cut(s) 482
FbaI TGATCA 1 cut(s) 172
FblI GTMKAC 1 cut(s) 342
Fnu4HI GCNGC 4 cut(s) 68, 392, 491, 536
FokI GGATG 2 cut(s) 529, 736
Fsp4HI GCNGC 4 cut(s) 68, 392, 491, 536
FspBI CTAG 2 cut(s) 201, 717
GluI GCNGC 4 cut(s) 68, 392, 491, 536
GsaI CCCAGC 1 cut(s) 80
HaeIII GGCC 1 cut(s) 538
HapII CCGG 1 cut(s) 44
HincII GTYRAC 2 cut(s) 150, 531
HindII GTYRAC 2 cut(s) 150, 531
HinfI GANTC 3 cut(s) 344, 377, 404
HpaI GTTAAC 2 cut(s) 150, 531
HpaII CCGG 1 cut(s) 44
HphI GGTGA 1 cut(s) 114
Hpy166II GTNNAC 3 cut(s) 150, 343, 531
Hpy188I TCNGA 2 cut(s) 172, 382
Hpy188III TCNNGA 2 cut(s) 219, 611
Hpy8I GTNNAC 3 cut(s) 150, 343, 531
HpyAV CCTTC 3 cut(s) 130, 458, 478
HpyCH4III ACNGT 3 cut(s) 126, 154, 768
HpyCH4IV ACGT 1 cut(s) 114
HpyCH4V TGCA 1 cut(s) 110
HpyF10VI GCNNNNNNNGC 2 cut(s) 73, 635
HpyF3I CTNAG 5 cut(s) 246, 357, 402, 413, 693
HpySE526I ACGT 1 cut(s) 114
Ksp22I TGATCA 1 cut(s) 172
KspAI GTTAAC 2 cut(s) 150, 531
Kzo9I GATC 5 cut(s) 167, 172, 294, 327, 431
LmnI GCTCC 3 cut(s) 487, 626, 754
Lsp1109I GCAGC 2 cut(s) 79, 502
LweI GCATC 1 cut(s) 638
MaeI CTAG 2 cut(s) 201, 717
MaeII ACGT 1 cut(s) 114
MaeIII GTNAC 2 cut(s) 514, 731
MalI GATC 5 cut(s) 169, 174, 296, 329, 433
MboI GATC 5 cut(s) 167, 172, 294, 327, 431
MflI RGATCY 1 cut(s) 167
MluCI AATT 5 cut(s) 9, 408, 548, 567, 586
MlyI GAGTC 2 cut(s) 338, 413
MmeI TCCRAC 2 cut(s) 145, 645
MnlI CCTC 7 cut(s) 126, 182, 251, 264, 406, 552, 744
MseI TTAA 3 cut(s) 149, 530, 659
MspI CCGG 1 cut(s) 44
MspR9I CCNGG 2 cut(s) 287, 461
Mva1269I GAATGC 1 cut(s) 47
MvaI CCWGG 2 cut(s) 287, 461
MvnI CGCG 1 cut(s) 535
MwoI GCNNNNNNNGC 2 cut(s) 73, 635
NdeII GATC 5 cut(s) 167, 172, 294, 327, 431
NlaIV GGNNCC 1 cut(s) 649
NmeAIII GCCGAG 1 cut(s) 377
PaeR7I CTCGAG 1 cut(s) 255
PctI GAATGC 1 cut(s) 47
PfeI GAWTC 1 cut(s) 377
PkrI GCNGC 4 cut(s) 69, 393, 492, 537
PleI GAGTC 2 cut(s) 338, 412
PpsI GAGTC 2 cut(s) 338, 412
Psp6I CCWGG 2 cut(s) 285, 459
PspFI CCCAGC 1 cut(s) 76
PspGI CCWGG 2 cut(s) 285, 459
PspN4I GGNNCC 1 cut(s) 649
PspXI VCTCGAGB 1 cut(s) 255
PsuI RGATCY 1 cut(s) 167
SaqAI TTAA 3 cut(s) 149, 530, 659
SatI GCNGC 4 cut(s) 68, 392, 491, 536
Sau3AI GATC 5 cut(s) 167, 172, 294, 327, 431
SchI GAGTC 2 cut(s) 338, 413
ScrFI CCNGG 2 cut(s) 287, 461
SfaNI GCATC 1 cut(s) 638
SfcI CTRYAG 1 cut(s) 348
Sfr274I CTCGAG 1 cut(s) 255
SlaI CTCGAG 1 cut(s) 255
SmlI CTYRAG 2 cut(s) 255, 611
SmoI CTYRAG 2 cut(s) 255, 611
Sse9I AATT 5 cut(s) 9, 408, 548, 567, 586
SsiI CCGC 4 cut(s) 183, 313, 392, 535
SspMI CTAG 2 cut(s) 201, 717
StyD4I CCNGG 2 cut(s) 285, 459
TaaI ACNGT 3 cut(s) 126, 154, 768
TaiI ACGT 1 cut(s) 117
TaqI TCGA 2 cut(s) 256, 326
TasI AATT 5 cut(s) 9, 408, 548, 567, 586
TauI GCSGC 2 cut(s) 394, 538
TfiI GAWTC 1 cut(s) 377
Tru1I TTAA 3 cut(s) 149, 530, 659
Tru9I TTAA 3 cut(s) 149, 530, 659
TscAI CASTG 1 cut(s) 646
TseI GCWGC 2 cut(s) 67, 490
TspDTI ATGAA 6 cut(s) 255, 390, 497, 567, 632, 698
TspGWI ACGGA 1 cut(s) 561
TspRI CASTG 1 cut(s) 646
XapI RAATTY 1 cut(s) 548
XhoI CTCGAG 1 cut(s) 255
XmiI GTMKAC 1 cut(s) 342
XspI CTAG 2 cut(s) 201, 717
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.