Rroxscaffold_2G00085290

Transcription initiation factor

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000002
OG0016543
Physical Location & Seq
Reverse (-)
7645549 .. 7647225
1677 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_2G00085290.1

Sequence Viewer

Length: 951 bp
ATGGCCTACGCGGTCTCCGACACCGATCAGTATTGCAAAGACTGCAAAAGAATCACACAGACCGTCTTGGACCACCGACAAGGCGACACTATCTGCTCCGAGTGCGGTTTGGTTCTCGAAGCCTACTTCGTCGACACCACCGCCGAGTGGCGAACCTTTGCCGACACCGAAAACGACCACGACCCTCAACGCACCGGCGACGCCGTCAATCCTCTTCTCCACAACGGCGGCCTCGGCACCATGATCTCCGACGCCAAAAACAACGTCGTTGGCTCTAACCAATCGAGAAGTCTCGGCCGGGTTAACAAGATGGTGCAGAAGCAGCAAAACCCTGATAGGTCTCTCACCCAAGCTTTCGCCTCCATCGCTTCGAAAGCTAGCATGTTAGGGCTTATGAACACAGTGGTTTCTCGTGCTCAACAGATTTACAAGGAGGCAGATGATAAAAAGTTTTGTAGGGGAAGAAAAGACGAGGCCTTGACGACGGCTTGTCTATTCCTTGCTTGCCAGGAGGAGGGCTTTCCCCGAACGCTAAAGGAAGTCGCCACGGTTGGGAATGGGGCCACTAAGAAAGAGATTAACAAAATCAAGGAACAGTTGAAGAAAGTATTGGAGATTGATAGCAAAATCATACATGCCGAGGACCTTACGCGGCGGAGTTGCTCTTCCATTGGTATGAAACATCAAGGGATGAAGGCGGTGAACGAGACACTGGAGAAGTTGAAGGAGTATGATATAAGGAGGACCCCCAAGTCGGTTTTGGCTGCGGTTATGTACATGATGGTGCAGCTCTCAAACGACGTGACAAGCCTTAAAGAAGTATCGCAAGCCGCTGATGTTGCGGTAGGAACAACTAAAAAGACATACAAGGATCTTTATCCCTATGCTTCAAGGATAATACCCAGCTGGTTCGCCAAGTTGGAGGACATCAAGAAACTTCGCATCCCTTGA

Protein Analysis

316

Amino Acids

35.29

Weight (kDa)

8.86

Isoelectric Point (pI)

36.78

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Zn_Ribbon_TF PF08271 11 - 53 3.7e-12 TFIIB zinc-binding
TFIIB PF00382 112 - 186 6.4e-16 Transcription factor TFIIB repeat
TFIIB PF00382 209 - 293 7.9e-06 Transcription factor TFIIB repeat
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: OG0016543)

Species Orthologous Gene IDs
arabidopsis_thaliana AT2G41630
fragaria_vesca FvH4_6g46960
prunus_persica Prupe.3G255700_v2.0.a1 Prupe.3G255800_v2.0.a1
rosa_chinensis RchiOBHm_Chr2g0165941
rosa_laevigata RLG00000021571
rosa_multiflora Rmu_sc0006218.1_g000012
rosa_roxburghii Rroxscaffold_2G00085290
rosa_rugosa Rorug02G0519300
rosa_samantha Rh2AG585000 Rh2BG596800 Rh2CG567600 Rh2DG607000
rosa_wichuraiana Rw2G048780

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AasI GACNNNNNNGTC 1 cut(s) 751
AccB1I GGYRCC 1 cut(s) 236
AccI GTMKAC 1 cut(s) 132
AccII CGCG 2 cut(s) 11, 652
AclWI GGATC 1 cut(s) 879
AcoI YGGCCR 1 cut(s) 295
AcyI GRCGYC 2 cut(s) 201, 252
AfaI GTAC 1 cut(s) 776
AfiI CCNNNNNNNGG 4 cut(s) 147, 514, 552, 754
AgsI TTSAA 3 cut(s) 601, 724, 891
AhdI GACNNNNNGTC 1 cut(s) 489
AjiI CACGTC 1 cut(s) 802
AjnI CCWGG 1 cut(s) 507
AjuI GAANNNNNNNTTGG 2 cut(s) 593, 625
AluBI AGCT 4 cut(s) 353, 377, 790, 906
AluI AGCT 4 cut(s) 353, 377, 790, 906
Alw21I GWGCWC 1 cut(s) 418
Alw26I GTCTC 4 cut(s) 19, 296, 345, 701
AlwI GGATC 1 cut(s) 879
AoxI GGCC 5 cut(s) 3, 229, 295, 474, 561
ApeKI GCWGC 3 cut(s) 322, 764, 787
ArsI GACNNNNNNTTYG 2 cut(s) 249, 281
AspS9I GGNCC 4 cut(s) 70, 561, 643, 744
AsuC2I CCSGG 1 cut(s) 299
AsuHPI GGTGA 2 cut(s) 337, 712
AsuII TTCGAA 1 cut(s) 371
AsuNHI GCTAGC 1 cut(s) 377
AvaII GGWCC 3 cut(s) 70, 643, 744
BanI GGYRCC 1 cut(s) 236
BauI CACGAG 1 cut(s) 411
Bbv12I GWGCWC 1 cut(s) 418
BbvI GCAGC 3 cut(s) 334, 751, 799
BccI CCATC 3 cut(s) 304, 371, 775
BceAI ACGGC 3 cut(s) 188, 241, 501
BciT130I CCWGG 1 cut(s) 509
BcnI CCSGG 1 cut(s) 299
BcoDI GTCTC 4 cut(s) 19, 296, 345, 701
BfaI CTAG 1 cut(s) 378
BisI GCNGC 6 cut(s) 229, 323, 653, 765, 788, 831
BlsI GCNGC 6 cut(s) 230, 324, 654, 766, 789, 832
Bme1390I CCNGG 2 cut(s) 299, 509
Bme18I GGWCC 3 cut(s) 70, 643, 744
BmeRI GACNNNNNGTC 1 cut(s) 489
BmgBI CACGTC 1 cut(s) 802
BmgT120I GGNCC 4 cut(s) 70, 561, 643, 744
BmiI GGNNCC 3 cut(s) 238, 562, 746
BmrFI CCNGG 2 cut(s) 299, 509
BmtI GCTAGC 1 cut(s) 381
BpmI CTGGAG 1 cut(s) 734
Bpu14I TTCGAA 1 cut(s) 371
BpuMI CCSGG 1 cut(s) 299
BsaBI GATNNNNATC 1 cut(s) 876
BsaHI GRCGYC 2 cut(s) 201, 252
BsaI GGTCTC 2 cut(s) 19, 345
BsaJI CCNNGG 3 cut(s) 232, 546, 639
BsaXI ACNNNNNCTCC 1 cut(s) 29
Bsc4I CCNNNNNNNGG 4 cut(s) 147, 514, 552, 754
Bse118I RCCGGY 1 cut(s) 194
Bse1I ACTGG 1 cut(s) 717
Bse8I GATNNNNATC 1 cut(s) 876
BseBI CCWGG 1 cut(s) 509
BseDI CCNNGG 3 cut(s) 232, 546, 639
BseGI GGATG 2 cut(s) 696, 942
BseJI GATNNNNATC 1 cut(s) 876
BseLI CCNNNNNNNGG 4 cut(s) 147, 514, 552, 754
BseNI ACTGG 1 cut(s) 717
BseRI GAGGAG 1 cut(s) 527
BseX3I CGGCCG 1 cut(s) 295
BseXI GCAGC 3 cut(s) 334, 751, 799
BseYI CCCAGC 1 cut(s) 902
BsgI GTGCAG 2 cut(s) 335, 806
Bsh1236I CGCG 2 cut(s) 11, 652
Bsh1285I CGRYCG 1 cut(s) 298
BshFI GGCC 5 cut(s) 5, 231, 297, 476, 563
BshNI GGYRCC 1 cut(s) 236
BsiEI CGRYCG 1 cut(s) 298
BsiHKAI GWGCWC 1 cut(s) 418
BsiSI CCGG 2 cut(s) 195, 298
BslI CCNNNNNNNGG 4 cut(s) 147, 514, 552, 754
BsmAI GTCTC 4 cut(s) 19, 296, 345, 701
BsnI GGCC 5 cut(s) 5, 231, 297, 476, 563
Bso31I GGTCTC 2 cut(s) 19, 345
Bsp119I TTCGAA 1 cut(s) 371
Bsp1286I GDGCHC 1 cut(s) 418
Bsp1407I TGTACA 1 cut(s) 774
Bsp143I GATC 3 cut(s) 25, 243, 871
BspANI GGCC 5 cut(s) 5, 231, 297, 476, 563
BspFNI CGCG 2 cut(s) 11, 652
BspLI GGNNCC 3 cut(s) 238, 562, 746
BspOI GCTAGC 1 cut(s) 381
BspPI GGATC 1 cut(s) 879
BspQI GCTCTTC 1 cut(s) 670
BspT104I TTCGAA 1 cut(s) 371
BspT107I GGYRCC 1 cut(s) 236
BspTNI GGTCTC 2 cut(s) 19, 345
BsrFI RCCGGY 1 cut(s) 194
BsrGI TGTACA 1 cut(s) 774
BsrI ACTGG 1 cut(s) 717
BssAI RCCGGY 1 cut(s) 194
BssECI CCNNGG 3 cut(s) 232, 546, 639
BssMI GATC 3 cut(s) 25, 243, 871
BssNI GRCGYC 2 cut(s) 201, 252
BssSI CACGAG 1 cut(s) 411
Bst2BI CACGAG 1 cut(s) 411
Bst2UI CCWGG 1 cut(s) 509
Bst4CI ACNGT 4 cut(s) 64, 403, 550, 597
Bst6I CTCTTC 2 cut(s) 219, 670
BstACI GRCGYC 2 cut(s) 201, 252
BstAPI GCANNNNNTGC 1 cut(s) 42
BstAUI TGTACA 1 cut(s) 774
BstBI TTCGAA 1 cut(s) 371
BstC8I GCNNGC 3 cut(s) 379, 505, 828
BstDEI CTNAG 1 cut(s) 567
BstDSI CCRYGG 1 cut(s) 546
BstF5I GGATG 2 cut(s) 696, 942
BstFNI CGCG 2 cut(s) 11, 652
BstKTI GATC 3 cut(s) 28, 246, 874
BstMAI GTCTC 4 cut(s) 19, 296, 345, 701
BstMBI GATC 3 cut(s) 25, 243, 871
BstMCI CGRYCG 1 cut(s) 298
BstMWI GCNNNNNNNGC 7 cut(s) 42, 102, 234, 322, 365, 374, 839
BstNI CCWGG 1 cut(s) 509
BstNSI RCATGY 2 cut(s) 385, 638
BstSCI CCNGG 2 cut(s) 297, 507
BstUI CGCG 2 cut(s) 11, 652
BstV1I GCAGC 3 cut(s) 334, 751, 799
BstX2I RGATCY 1 cut(s) 871
BstYI RGATCY 1 cut(s) 871
BstZI CGGCCG 1 cut(s) 295
BsuRI GGCC 5 cut(s) 5, 231, 297, 476, 563
BtgI CCRYGG 1 cut(s) 546
BtgZI GCGATG 1 cut(s) 349
BtrI CACGTC 1 cut(s) 802
BtsCI GGATG 2 cut(s) 696, 942
BtsIMutI CAGTG 2 cut(s) 408, 710
Cac8I GCNNGC 3 cut(s) 379, 505, 828
Cfr10I RCCGGY 1 cut(s) 194
Cfr13I GGNCC 4 cut(s) 70, 561, 643, 744
CseI GACGC 2 cut(s) 209, 260
Csp6I GTAC 1 cut(s) 775
CviAII CATG 4 cut(s) 241, 382, 635, 778
CviQI GTAC 1 cut(s) 775
DdeI CTNAG 1 cut(s) 567
DpnI GATC 3 cut(s) 27, 245, 873
DpnII GATC 3 cut(s) 25, 243, 871
DrdI GACNNNNNNGTC 1 cut(s) 751
DriI GACNNNNNGTC 1 cut(s) 489
DseDI GACNNNNNNGTC 1 cut(s) 751
EaeI YGGCCR 1 cut(s) 295
EagI CGGCCG 1 cut(s) 295
Eam1104I CTCTTC 2 cut(s) 219, 670
Eam1105I GACNNNNNGTC 1 cut(s) 489
EarI CTCTTC 2 cut(s) 219, 670
EciI GGCGGA 1 cut(s) 670
EclXI CGGCCG 1 cut(s) 295
Eco147I AGGCCT 1 cut(s) 476
Eco31I GGTCTC 2 cut(s) 19, 345
Eco47I GGWCC 3 cut(s) 70, 643, 744
Eco52I CGGCCG 1 cut(s) 295
EcoO109I RGGNCCY 2 cut(s) 643, 744
EcoRII CCWGG 1 cut(s) 507
FaeI CATG 4 cut(s) 244, 385, 638, 781
FatI CATG 4 cut(s) 240, 381, 634, 777
FblI GTMKAC 1 cut(s) 132
Fnu4HI GCNGC 6 cut(s) 229, 323, 653, 765, 788, 831
FokI GGATG 2 cut(s) 703, 929
Fsp4HI GCNGC 6 cut(s) 229, 323, 653, 765, 788, 831
FspBI CTAG 1 cut(s) 378
GluI GCNGC 6 cut(s) 229, 323, 653, 765, 788, 831
GsaI CCCAGC 1 cut(s) 906
GsuI CTGGAG 1 cut(s) 734
HaeIII GGCC 5 cut(s) 5, 231, 297, 476, 563
HapII CCGG 2 cut(s) 195, 298
HgaI GACGC 2 cut(s) 209, 260
Hin1I GRCGYC 2 cut(s) 201, 252
Hin1II CATG 4 cut(s) 244, 385, 638, 781
HincII GTYRAC 2 cut(s) 133, 304
HindII GTYRAC 2 cut(s) 133, 304
HindIII AAGCTT 1 cut(s) 351
HinfI GANTC 1 cut(s) 51
HpaI GTTAAC 1 cut(s) 304
HpaII CCGG 2 cut(s) 195, 298
HphI GGTGA 2 cut(s) 337, 712
Hpy166II GTNNAC 3 cut(s) 133, 304, 703
Hpy188I TCNGA 3 cut(s) 19, 100, 250
Hpy188III TCNNGA 3 cut(s) 116, 285, 931
Hpy8I GTNNAC 3 cut(s) 133, 304, 703
Hpy99I CGWCG 6 cut(s) 134, 203, 254, 269, 487, 803
HpyAV CCTTC 2 cut(s) 688, 718
HpyCH4III ACNGT 4 cut(s) 64, 403, 550, 597
HpyCH4IV ACGT 2 cut(s) 264, 801
HpyCH4V TGCA 4 cut(s) 36, 45, 316, 787
HpyF10VI GCNNNNNNNGC 7 cut(s) 42, 102, 234, 322, 365, 374, 839
HpyF3I CTNAG 1 cut(s) 567
HpySE526I ACGT 2 cut(s) 264, 801
Hsp92I GRCGYC 2 cut(s) 201, 252
Hsp92II CATG 4 cut(s) 244, 385, 638, 781
KspAI GTTAAC 1 cut(s) 304
Kzo9I GATC 3 cut(s) 25, 243, 871
LguI GCTCTTC 1 cut(s) 670
LmnI GCTCC 1 cut(s) 101
LpnPI CCDG 8 cut(s) 208, 311, 345, 494, 521, 698, 892, 916
Lsp1109I GCAGC 3 cut(s) 334, 751, 799
MaeI CTAG 1 cut(s) 378
MaeII ACGT 2 cut(s) 264, 801
MaeIII GTNAC 1 cut(s) 802
MalI GATC 3 cut(s) 27, 245, 873
MboI GATC 3 cut(s) 25, 243, 871
MboII GAAGA 4 cut(s) 206, 474, 613, 657
MflI RGATCY 1 cut(s) 871
MhlI GDGCHC 1 cut(s) 418
MmeI TCCRAC 3 cut(s) 42, 273, 900
MseI TTAA 3 cut(s) 303, 579, 813
MslI CAYNNNNRTG 2 cut(s) 674, 782
MspA1I CMGCKG 2 cut(s) 833, 906
MspI CCGG 2 cut(s) 195, 298
MspR9I CCNGG 2 cut(s) 299, 509
MvaI CCWGG 1 cut(s) 509
MvnI CGCG 2 cut(s) 11, 652
MwoI GCNNNNNNNGC 7 cut(s) 42, 102, 234, 322, 365, 374, 839
NciI CCSGG 1 cut(s) 299
NdeII GATC 3 cut(s) 25, 243, 871
NheI GCTAGC 1 cut(s) 377
NlaIII CATG 4 cut(s) 244, 385, 638, 781
NlaIV GGNNCC 3 cut(s) 238, 562, 746
NmeAIII GCCGAG 4 cut(s) 169, 213, 273, 664
NmuCI GTSAC 1 cut(s) 802
NspI RCATGY 2 cut(s) 385, 638
NspV TTCGAA 1 cut(s) 371
PceI AGGCCT 1 cut(s) 476
PciSI GCTCTTC 1 cut(s) 670
PcsI WCGNNNNNNNCGW 1 cut(s) 15
PfeI GAWTC 1 cut(s) 51
PflFI GACNNNGTC 1 cut(s) 203
PkrI GCNGC 6 cut(s) 230, 324, 654, 766, 789, 832
PpuMI RGGWCCY 2 cut(s) 643, 744
Psp5II RGGWCCY 2 cut(s) 643, 744
Psp6I CCWGG 1 cut(s) 507
PspFI CCCAGC 1 cut(s) 902
PspGI CCWGG 1 cut(s) 507
PspN4I GGNNCC 3 cut(s) 238, 562, 746
PspPI GGNCC 4 cut(s) 70, 561, 643, 744
PspPPI RGGWCCY 2 cut(s) 643, 744
PsuI RGATCY 1 cut(s) 871
PsyI GACNNNGTC 1 cut(s) 203
PvuII CAGCTG 1 cut(s) 906
RsaI GTAC 1 cut(s) 776
RsaNI GTAC 1 cut(s) 775
RseI CAYNNNNRTG 2 cut(s) 674, 782
SalI GTCGAC 1 cut(s) 131
SapI GCTCTTC 1 cut(s) 670
SaqAI TTAA 3 cut(s) 303, 579, 813
SatI GCNGC 6 cut(s) 229, 323, 653, 765, 788, 831
Sau3AI GATC 3 cut(s) 25, 243, 871
Sau96I GGNCC 4 cut(s) 70, 561, 643, 744
ScrFI CCNGG 2 cut(s) 299, 509
SduI GDGCHC 1 cut(s) 418
SetI ASST 9 cut(s) 158, 267, 341, 355, 379, 648, 792, 804, 908
SfuI TTCGAA 1 cut(s) 371
SgrAI CRCCGGYG 1 cut(s) 194
SinI GGWCC 3 cut(s) 70, 643, 744
SmiMI CAYNNNNRTG 2 cut(s) 674, 782
SseBI AGGCCT 1 cut(s) 476
SspMI CTAG 1 cut(s) 378
StuI AGGCCT 1 cut(s) 476
StyD4I CCNGG 2 cut(s) 297, 507
TaaI ACNGT 4 cut(s) 64, 403, 550, 597
TaiI ACGT 2 cut(s) 267, 804
TaqI TCGA 4 cut(s) 117, 132, 284, 371
TatI WGTACW 1 cut(s) 774
TauI GCSGC 3 cut(s) 231, 655, 833
TfiI GAWTC 1 cut(s) 51
Tru1I TTAA 3 cut(s) 303, 579, 813
Tru9I TTAA 3 cut(s) 303, 579, 813
TscAI CASTG 2 cut(s) 408, 717
TseFI GTSAC 1 cut(s) 802
TseI GCWGC 3 cut(s) 322, 764, 787
Tsp45I GTSAC 1 cut(s) 802
TspDTI ATGAA 3 cut(s) 410, 692, 707
TspRI CASTG 2 cut(s) 408, 717
Tth111I GACNNNGTC 1 cut(s) 203
VpaK11BI GGWCC 3 cut(s) 70, 643, 744
XceI RCATGY 2 cut(s) 385, 638
XcmI CCANNNNNNNNNTGG 1 cut(s) 757
XmiI GTMKAC 1 cut(s) 132
XspI CTAG 1 cut(s) 378
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.