Rroxscaffold_1G00065040

Rho termination factor, N-terminal domain

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000001
OG0013074
Physical Location & Seq
Forward (+)
86825920 .. 86827330
1411 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_1G00065040.1

Sequence Viewer

Length: 774 bp
ATGGGTGGAATTGTTTATCAGTATCACTCTGTGCTTCGCTTTCCGGCATTCTTATCTTTCAGCAAGCAGCCCAAGCTTGGAATTTTCTCTGCCAAAGACATTGCAGATGTGTCTTCACCGTTTGAGAGGAAGGGGCTGAAGTTAACTGTGTCCTGTGTTGGATCTGATGAAGGAAGCGGAAGACGTCAATCTTCTAGGAGAAGTTCAGGTTCAGGAAGGACAAGGAAAAATGATGAAACTAAGAAACCTCGAGGTGGGAGAAAGTCCAAGTCATCTAACCAGGAAGAGATCATTTCTCTGTTCAGGCGGATACAGTCTTCGATCTCAAACGAAGTAGACTCTGTAGATACTAAGAAGATAAAGTCCAATGAATCGGAAGAGAAGCCGCCCTCGGCTGAGTCAATTCTTAGGGTTCTTCAAGGTGGATCAACAAAGCAAAGAGAAGAAGCTAACCAGGAAGGAGAAAAGGTTGATATGAAAGAGCAGCAAATGCAGGCTAATCTATCAGTTACAGACTTCAAGTTAACGCGGCCACCATCCAAATTCGTGAAGAGGTCTCCAATTCCGTCTTCATCAAACAATTCAAGCCCACCACGAGAGCTTCTTGAGATGAATAATGGAGTATCACTTGCCACTGCTGGAACCAAAGAGTTAGAGTCGGAAAGAGTAGAAGAAATGAAACTTCCTGAGCTGAAAGAACTAGCAAAGTCTAGGGGGATGGTAGGTTACTCAAAACTCAAAAAGAGGGAGCTTGTAGAACTGTTGAAGTCCTAA
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

257

Amino Acids

28.57

Weight (kDa)

9.8

Isoelectric Point (pI)

55.75

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Rho_N PF07498 224 - 256 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)
AatII GACGTC 1 cut(s) 187
AbsI CCTCGAGG 1 cut(s) 249
AccI GTMKAC 1 cut(s) 336
AccII CGCG 1 cut(s) 529
AciI CCGC 4 cut(s) 177, 307, 386, 529
AclWI GGATC 2 cut(s) 169, 433
AcoI YGGCCR 1 cut(s) 530
AcsI RAATTY 2 cut(s) 81, 542
AcuI CTGAAG 1 cut(s) 158
AcyI GRCGYC 1 cut(s) 184
AdeI CACNNNGTG 1 cut(s) 31
AfiI CCNNNNNNNGG 2 cut(s) 77, 254
AgsI TTSAA 4 cut(s) 419, 520, 585, 766
AjnI CCWGG 2 cut(s) 279, 453
AjuI GAANNNNNNNTTGG 2 cut(s) 553, 585
AluBI AGCT 5 cut(s) 76, 449, 601, 691, 751
AluI AGCT 5 cut(s) 76, 449, 601, 691, 751
Alw26I GTCTC 1 cut(s) 561
AlwI GGATC 2 cut(s) 169, 433
Ama87I CYCGRG 1 cut(s) 249
AoxI GGCC 1 cut(s) 530
ApeKI GCWGC 2 cut(s) 67, 484
ApoI RAATTY 2 cut(s) 81, 542
AsuHPI GGTGA 1 cut(s) 108
AvaI CYCGRG 1 cut(s) 249
BauI CACGAG 1 cut(s) 594
BbsI GAAGAC 4 cut(s) 105, 187, 309, 561
BbvI GCAGC 2 cut(s) 79, 496
BccI CCATC 2 cut(s) 544, 712
BciT130I CCWGG 2 cut(s) 281, 455
BciVI GTATCC 1 cut(s) 303
BcoDI GTCTC 1 cut(s) 561
BfaI CTAG 3 cut(s) 195, 701, 711
BfmI CTRYAG 1 cut(s) 342
BfuI GTATCC 1 cut(s) 303
BisI GCNGC 4 cut(s) 68, 386, 485, 530
BlsI GCNGC 4 cut(s) 69, 387, 486, 531
Bme1390I CCNGG 2 cut(s) 281, 455
BmeT110I CYCGRG 1 cut(s) 249
BmiI GGNNCC 1 cut(s) 643
BmrFI CCNGG 2 cut(s) 281, 455
BpiI GAAGAC 4 cut(s) 105, 187, 309, 561
Bpu10I CCTNAGC 1 cut(s) 687
BpuEI CTTGAG 1 cut(s) 626
BsaHI GRCGYC 1 cut(s) 184
BsaI GGTCTC 1 cut(s) 561
BsaJI CCNNGG 1 cut(s) 390
BsaXI ACNNNNNCTCC 2 cut(s) 453, 483
Bsc4I CCNNNNNNNGG 2 cut(s) 77, 254
Bse3DI GCAATG 1 cut(s) 99
BseBI CCWGG 2 cut(s) 281, 455
BseDI CCNNGG 1 cut(s) 390
BseGI GGATG 2 cut(s) 536, 723
BseLI CCNNNNNNNGG 2 cut(s) 77, 254
BseMI GCAATG 1 cut(s) 99
BseMII CTCAG 2 cut(s) 387, 678
BseXI GCAGC 2 cut(s) 79, 496
Bsh1236I CGCG 1 cut(s) 529
BshFI GGCC 1 cut(s) 532
BsiHKCI CYCGRG 1 cut(s) 249
BsiSI CCGG 1 cut(s) 44
BslI CCNNNNNNNGG 2 cut(s) 77, 254
BsmAI GTCTC 1 cut(s) 561
BsmI GAATGC 1 cut(s) 47
BsnI GGCC 1 cut(s) 532
Bso31I GGTCTC 1 cut(s) 561
BsoBI CYCGRG 1 cut(s) 249
Bsp143I GATC 4 cut(s) 161, 288, 321, 425
BspACI CCGC 4 cut(s) 177, 307, 386, 529
BspANI GGCC 1 cut(s) 532
BspCNI CTCAG 2 cut(s) 388, 679
BspFNI CGCG 1 cut(s) 529
BspLI GGNNCC 1 cut(s) 643
BspPI GGATC 2 cut(s) 169, 433
BspTNI GGTCTC 1 cut(s) 561
BsrDI GCAATG 1 cut(s) 99
BssECI CCNNGG 1 cut(s) 390
BssMI GATC 4 cut(s) 161, 288, 321, 425
BssNI GRCGYC 1 cut(s) 184
BssSI CACGAG 1 cut(s) 594
Bst2BI CACGAG 1 cut(s) 594
Bst2UI CCWGG 2 cut(s) 281, 455
Bst4CI ACNGT 4 cut(s) 120, 148, 315, 762
Bst6I CTCTTC 3 cut(s) 279, 372, 545
BstACI GRCGYC 1 cut(s) 184
BstAPI GCANNNNNTGC 1 cut(s) 490
BstC8I GCNNGC 2 cut(s) 65, 495
BstDEI CTNAG 5 cut(s) 240, 351, 396, 407, 687
BstF5I GGATG 2 cut(s) 536, 723
BstFNI CGCG 1 cut(s) 529
BstKTI GATC 4 cut(s) 164, 291, 324, 428
BstMAI GTCTC 1 cut(s) 561
BstMBI GATC 4 cut(s) 161, 288, 321, 425
BstMWI GCNNNNNNNGC 2 cut(s) 73, 490
BstNI CCWGG 2 cut(s) 281, 455
BstSCI CCNGG 2 cut(s) 279, 453
BstSFI CTRYAG 1 cut(s) 342
BstUI CGCG 1 cut(s) 529
BstV1I GCAGC 2 cut(s) 79, 496
BstV2I GAAGAC 4 cut(s) 105, 187, 309, 561
BstX2I RGATCY 1 cut(s) 161
BstYI RGATCY 1 cut(s) 161
BsuI GTATCC 1 cut(s) 303
BsuRI GGCC 1 cut(s) 532
BtsCI GGATG 2 cut(s) 536, 723
BtsI GCAGTG 1 cut(s) 633
BtsIMutI CAGTG 1 cut(s) 633
Cac8I GCNNGC 2 cut(s) 65, 495
DdeI CTNAG 5 cut(s) 240, 351, 396, 407, 687
DpnI GATC 4 cut(s) 163, 290, 323, 427
DpnII GATC 4 cut(s) 161, 288, 321, 425
DraIII CACNNNGTG 1 cut(s) 31
EaeI YGGCCR 1 cut(s) 530
Eam1104I CTCTTC 3 cut(s) 279, 372, 545
EarI CTCTTC 3 cut(s) 279, 372, 545
EciI GGCGGA 1 cut(s) 322
Eco31I GGTCTC 1 cut(s) 561
Eco57I CTGAAG 1 cut(s) 158
Eco88I CYCGRG 1 cut(s) 249
EcoRII CCWGG 2 cut(s) 279, 453
FaiI YATR 1 cut(s) 476
FblI GTMKAC 1 cut(s) 336
Fnu4HI GCNGC 4 cut(s) 68, 386, 485, 530
FokI GGATG 2 cut(s) 523, 730
Fsp4HI GCNGC 4 cut(s) 68, 386, 485, 530
FspBI CTAG 3 cut(s) 195, 701, 711
GluI GCNGC 4 cut(s) 68, 386, 485, 530
HaeIII GGCC 1 cut(s) 532
HapII CCGG 1 cut(s) 44
Hin1I GRCGYC 1 cut(s) 184
HincII GTYRAC 2 cut(s) 144, 525
HindII GTYRAC 2 cut(s) 144, 525
HindIII AAGCTT 1 cut(s) 74
HinfI GANTC 4 cut(s) 338, 371, 398, 656
HpaI GTTAAC 2 cut(s) 144, 525
HpaII CCGG 1 cut(s) 44
HphI GGTGA 1 cut(s) 108
Hpy166II GTNNAC 3 cut(s) 144, 337, 525
Hpy188I TCNGA 3 cut(s) 166, 376, 661
Hpy188III TCNNGA 4 cut(s) 213, 547, 605, 686
Hpy8I GTNNAC 3 cut(s) 144, 337, 525
HpyAV CCTTC 4 cut(s) 124, 164, 210, 452
HpyCH4III ACNGT 4 cut(s) 120, 148, 315, 762
HpyCH4IV ACGT 1 cut(s) 184
HpyCH4V TGCA 2 cut(s) 104, 493
HpyF10VI GCNNNNNNNGC 2 cut(s) 73, 490
HpyF3I CTNAG 5 cut(s) 240, 351, 396, 407, 687
HpySE526I ACGT 1 cut(s) 184
Hsp92I GRCGYC 1 cut(s) 184
KspAI GTTAAC 2 cut(s) 144, 525
Kzo9I GATC 4 cut(s) 161, 288, 321, 425
LmnI GCTCC 1 cut(s) 748
Lsp1109I GCAGC 2 cut(s) 79, 496
MaeI CTAG 3 cut(s) 195, 701, 711
MaeII ACGT 1 cut(s) 184
MaeIII GTNAC 2 cut(s) 508, 725
MalI GATC 4 cut(s) 163, 290, 323, 427
MboI GATC 4 cut(s) 161, 288, 321, 425
MflI RGATCY 1 cut(s) 161
MluCI AATT 6 cut(s) 9, 81, 402, 542, 561, 580
MlyI GAGTC 3 cut(s) 332, 407, 665
MmeI TCCRAC 2 cut(s) 139, 639
MnlI CCTC 6 cut(s) 120, 245, 258, 400, 546, 738
MseI TTAA 2 cut(s) 143, 524
MspI CCGG 1 cut(s) 44
MspR9I CCNGG 2 cut(s) 281, 455
Mva1269I GAATGC 1 cut(s) 47
MvaI CCWGG 2 cut(s) 281, 455
MvnI CGCG 1 cut(s) 529
MwoI GCNNNNNNNGC 2 cut(s) 73, 490
NdeII GATC 4 cut(s) 161, 288, 321, 425
NlaIV GGNNCC 1 cut(s) 643
NmeAIII GCCGAG 1 cut(s) 371
PaeR7I CTCGAG 1 cut(s) 249
PctI GAATGC 1 cut(s) 47
PfeI GAWTC 1 cut(s) 371
PkrI GCNGC 4 cut(s) 69, 387, 486, 531
PleI GAGTC 3 cut(s) 332, 406, 664
PpsI GAGTC 3 cut(s) 332, 406, 664
Psp6I CCWGG 2 cut(s) 279, 453
PspGI CCWGG 2 cut(s) 279, 453
PspN4I GGNNCC 1 cut(s) 643
PspXI VCTCGAGB 1 cut(s) 249
PsuI RGATCY 1 cut(s) 161
SaqAI TTAA 2 cut(s) 143, 524
SatI GCNGC 4 cut(s) 68, 386, 485, 530
Sau3AI GATC 4 cut(s) 161, 288, 321, 425
SchI GAGTC 3 cut(s) 332, 407, 665
ScrFI CCNGG 2 cut(s) 281, 455
SfcI CTRYAG 1 cut(s) 342
Sfr274I CTCGAG 1 cut(s) 249
SlaI CTCGAG 1 cut(s) 249
SmlI CTYRAG 2 cut(s) 249, 605
SmoI CTYRAG 2 cut(s) 249, 605
Sse9I AATT 6 cut(s) 9, 81, 402, 542, 561, 580
SsiI CCGC 4 cut(s) 177, 307, 386, 529
SspMI CTAG 3 cut(s) 195, 701, 711
StyD4I CCNGG 2 cut(s) 279, 453
TaaI ACNGT 4 cut(s) 120, 148, 315, 762
TaiI ACGT 1 cut(s) 187
TaqI TCGA 2 cut(s) 250, 320
TasI AATT 6 cut(s) 9, 81, 402, 542, 561, 580
TauI GCSGC 2 cut(s) 388, 532
TfiI GAWTC 1 cut(s) 371
Tru1I TTAA 2 cut(s) 143, 524
Tru9I TTAA 2 cut(s) 143, 524
TscAI CASTG 1 cut(s) 640
TseI GCWGC 2 cut(s) 67, 484
TspDTI ATGAA 7 cut(s) 183, 249, 384, 491, 561, 626, 692
TspGWI ACGGA 1 cut(s) 555
TspRI CASTG 1 cut(s) 640
XapI RAATTY 2 cut(s) 81, 542
XhoI CTCGAG 1 cut(s) 249
XmiI GTMKAC 1 cut(s) 336
XspI CTAG 3 cut(s) 195, 701, 711
ZraI GACGTC 1 cut(s) 185
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.