RchiOBHm_Chr1g0363871

General transcription factor IIF subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
1
OG0013034
Physical Location & Seq
Reverse (-)
55186801 .. 55190279
3479 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ58858

Sequence Viewer

Length: 858 bp
ATGGCGCCAAGCCAAATAGCAATGGAAGACCAAAAACCACAACGAACCAGTAGCACTAGTAATAGTGGTGCCAACAGCAACAAAAATTTGAGGGGGCATTTGGAGACGAGCAAAGCAGCGGAGCCAGTGTGGCTTATGAAATGCCCTCCCAACGTCGCCAAATCGTTTAAGCCTGACGCCGCCGCCGACCGCTCCGTCACCGCAGAGGAGCCTTGTCCTTCCGGCCCTGTCGCCAAGGTCATCCTCTCCCTTGACCCTCTCAACTCCAATAACGAACCTAAGTTTACCATGGAACTGGCGGCCACTGAATCTGCAAATACCCCCAAGTGTTACGCTTTGGATATGTCCAGGGACTTCATTCCAATGTCTGTGTTTTCAGAGTCGTCAGAAGGAAAGTTATCTGTGGAGGGGAAAATCTTCAACAAATTTGACATGAAGCCCCATGATGAGAATCTTGAGAATTATGGGAAACTTTGCCGTGAACGAACAAAAAAGCATATGAAAAGTAGAAAGATTCAGGTGATCGACAATGACAATGGGGCACATATGAGGCCTATGCCAGGGATGATTGGTTTTGTGGTTCCTGGACCCAGTGACAAGAAGAAAGCGCCAACTAAGGGATCAGAAATGAAGAGAACAAGGAGGGACCGTGGAGAAATGGAACATATTATGTTTAAGCTCTTTGAAAGGCAACCTAATTGGACTTTAAGACAATTGATCCAAGAGACAGATCAACCCGAACAATTTCTGAAAGACATACTGAAGGACCTCTCTGTTTACAACAACAAGGGAGCTAATCAAGGCACTTACGAGCTGAAACCTGAATACAGGAGAACATGCCAGGAGCCAGCTCACTAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0000375 GO:0000377 GO:0000398 GO:0000428 GO:0000988 GO:0000990 GO:0000991 GO:0003674 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005667 GO:0005674 GO:0005856 GO:0006139 GO:0006351 GO:0006352 GO:0006354 GO:0006355 GO:0006357 GO:0006366 GO:0006367 GO:0006368 GO:0006370 GO:0006396 GO:0006397 GO:0006725 GO:0006807 GO:0007154 GO:0007165 GO:0007166 GO:0007167 GO:0007169 GO:0008150 GO:0008152 GO:0008380 GO:0008543 GO:0009058 GO:0009059 GO:0009301 GO:0009452 GO:0009719 GO:0009889 GO:0009891 GO:0009893 GO:0009987 GO:0010033 GO:0010467 GO:0010468 GO:0010556 GO:0010557 GO:0010604 GO:0010628 GO:0015630 GO:0016070 GO:0016071 GO:0016073 GO:0016591 GO:0018130 GO:0019219 GO:0019222 GO:0019438 GO:0023052 GO:0030880 GO:0031323 GO:0031325 GO:0031326 GO:0031328 GO:0031334 GO:0031974 GO:0031981 GO:0032774 GO:0032784 GO:0032786 GO:0032968 GO:0032991 GO:0032993 GO:0034243 GO:0034641 GO:0034645 GO:0034654 GO:0034660 GO:0036260 GO:0042221 GO:0042795 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0043254 GO:0044087 GO:0044089 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044271 GO:0044344 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044451 GO:0044464 GO:0044798 GO:0045893 GO:0045935 GO:0045944 GO:0046483 GO:0048518 GO:0048522 GO:0050789 GO:0050794 GO:0050896 GO:0051128 GO:0051130 GO:0051171 GO:0051173 GO:0051252 GO:0051254 GO:0051716 GO:0055029 GO:0060255 GO:0060260 GO:0060261 GO:0061695 GO:0065007 GO:0070013 GO:0070848 GO:0070887 GO:0071310 GO:0071363 GO:0071495 GO:0071704 GO:0071774 GO:0080090 GO:0090304 GO:0090575 GO:0097550 GO:0097659 GO:0098781 GO:0140110 GO:1901360 GO:1901362 GO:1901576 GO:1902494 GO:1902680 GO:1903506 GO:1903508 GO:1990234 GO:2000112 GO:2000142 GO:2000144 GO:2001141
KEGG Pathways
Metabolic & Signaling
ko03022 map03022
Pfam Domains
Protein Families
TFIIF_beta

Protein Analysis

285

Amino Acids

32.16

Weight (kDa)

8.94

Isoelectric Point (pI)

41.03

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
TFIIF_beta PF02270 214 - 277 3.3e-18 TFIIF, beta subunit HTH 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: OG0013034)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G52270
fragaria_vesca FvH4_7g19881
malus_domestica MD01G1111000.v1.1 MD07G1177200.v1.1
prunus_persica Prupe.2G215900_v2.0.a1
pyrus_communis pycom07g17120
rosa_chinensis RchiOBHm_Chr1g0363871
rosa_laevigata RLG00000027539
rosa_multiflora Rmu_sc0002483.1_g000003
rosa_roxburghii Rroxscaffold_4G00292900
rosa_rugosa Rorug01G0310400 Rorug01G0310500 Rorug01G0310600
rosa_samantha Rh1AG318500 Rh1BG281700 Rh1CG298100 Rh1DG313000
rosa_wichuraiana Rw1G028270

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AasI GACNNNNNNGTC 1 cut(s) 194
AccB1I GGYRCC 2 cut(s) 4, 68
AccBSI CCGCTC 1 cut(s) 192
AciI CCGC 6 cut(s) 119, 180, 183, 190, 201, 299
AclWI GGATC 2 cut(s) 628, 712
AcoI YGGCCR 1 cut(s) 300
AcsI RAATTY 2 cut(s) 85, 425
AcuI CTGAAG 1 cut(s) 782
AcyI GRCGYC 2 cut(s) 5, 177
AfiI CCNNNNNNNGG 2 cut(s) 560, 617
AgsI TTSAA 2 cut(s) 421, 686
AhlI ACTAGT 1 cut(s) 56
AjnI CCWGG 4 cut(s) 347, 559, 583, 840
AluBI AGCT 4 cut(s) 679, 794, 814, 851
AluI AGCT 4 cut(s) 679, 794, 814, 851
Alw26I GTCTC 2 cut(s) 98, 719
AlwI GGATC 2 cut(s) 628, 712
AoxI GGCC 3 cut(s) 223, 300, 551
ApeKI GCWGC 1 cut(s) 116
ApoI RAATTY 2 cut(s) 85, 425
Asp700I GAANNNNTTC 2 cut(s) 416, 744
AspLEI GCGC 2 cut(s) 7, 610
AspS9I GGNCC 4 cut(s) 224, 587, 646, 766
AsuHPI GGTGA 2 cut(s) 190, 532
AvaII GGWCC 3 cut(s) 587, 646, 766
BaeGI GKGCMC 1 cut(s) 544
BanI GGYRCC 2 cut(s) 4, 68
BbsI GAAGAC 1 cut(s) 33
BbvI GCAGC 1 cut(s) 128
BceAI ACGGC 1 cut(s) 462
BciT130I CCWGG 4 cut(s) 349, 561, 585, 842
BcoDI GTCTC 2 cut(s) 98, 719
BcuI ACTAGT 1 cut(s) 56
BfaI CTAG 1 cut(s) 57
BfoI RGCGCY 2 cut(s) 8, 611
BglI GCCNNNNNGGC 1 cut(s) 130
BisI GCNGC 4 cut(s) 117, 180, 183, 300
BlsI GCNGC 4 cut(s) 118, 181, 184, 301
Bme1390I CCNGG 4 cut(s) 349, 561, 585, 842
Bme18I GGWCC 3 cut(s) 587, 646, 766
BmgT120I GGNCC 4 cut(s) 224, 587, 646, 766
BmiI GGNNCC 8 cut(s) 6, 70, 123, 210, 582, 589, 647, 846
BmrFI CCNGG 4 cut(s) 349, 561, 585, 842
BmrI ACTGGG 1 cut(s) 585
BmuI ACTGGG 1 cut(s) 585
BpiI GAAGAC 1 cut(s) 33
BpuEI CTTGAG 1 cut(s) 476
BsaBI GATNNNNATC 1 cut(s) 450
BsaHI GRCGYC 2 cut(s) 5, 177
BsaJI CCNNGG 5 cut(s) 234, 288, 348, 560, 649
BsaXI ACNNNNNCTCC 4 cut(s) 113, 143, 634, 664
Bsc4I CCNNNNNNNGG 2 cut(s) 560, 617
Bse1I ACTGG 4 cut(s) 48, 125, 300, 591
Bse3DI GCAATG 1 cut(s) 27
Bse8I GATNNNNATC 1 cut(s) 450
BseBI CCWGG 4 cut(s) 349, 561, 585, 842
BseDI CCNNGG 5 cut(s) 234, 288, 348, 560, 649
BseGI GGATG 2 cut(s) 240, 570
BseJI GATNNNNATC 1 cut(s) 450
BseLI CCNNNNNNNGG 2 cut(s) 560, 617
BseMI GCAATG 1 cut(s) 27
BseNI ACTGG 4 cut(s) 48, 125, 300, 591
BseRI GAGGAG 1 cut(s) 221
BseSI GKGCMC 1 cut(s) 544
BseXI GCAGC 1 cut(s) 128
Bsh1285I CGRYCG 1 cut(s) 190
BshFI GGCC 3 cut(s) 225, 302, 553
BshNI GGYRCC 2 cut(s) 4, 68
BsiEI CGRYCG 1 cut(s) 190
BsiSI CCGG 1 cut(s) 222
BslFI GGGAC 2 cut(s) 365, 659
BslI CCNNNNNNNGG 2 cut(s) 560, 617
BsmAI GTCTC 2 cut(s) 98, 719
BsmBI CGTCTC 1 cut(s) 98
BsmFI GGGAC 2 cut(s) 365, 659
BsnI GGCC 3 cut(s) 225, 302, 553
Bsp1286I GDGCHC 1 cut(s) 544
Bsp143I GATC 4 cut(s) 522, 620, 717, 730
Bsp19I CCATGG 1 cut(s) 288
BspACI CCGC 6 cut(s) 119, 180, 183, 190, 201, 299
BspANI GGCC 3 cut(s) 225, 302, 553
BspLI GGNNCC 8 cut(s) 6, 70, 123, 210, 582, 589, 647, 846
BspPI GGATC 2 cut(s) 628, 712
BspT107I GGYRCC 2 cut(s) 4, 68
BsrBI CCGCTC 1 cut(s) 192
BsrDI GCAATG 1 cut(s) 27
BsrI ACTGG 4 cut(s) 48, 125, 300, 591
BssECI CCNNGG 5 cut(s) 234, 288, 348, 560, 649
BssMI GATC 4 cut(s) 522, 620, 717, 730
BssNI GRCGYC 2 cut(s) 5, 177
BssT1I CCWWGG 2 cut(s) 234, 288
Bst2UI CCWGG 4 cut(s) 349, 561, 585, 842
Bst4CI ACNGT 1 cut(s) 650
Bst6I CTCTTC 1 cut(s) 626
BstACI GRCGYC 2 cut(s) 5, 177
BstC8I GCNNGC 1 cut(s) 849
BstDEI CTNAG 2 cut(s) 279, 615
BstDSI CCRYGG 2 cut(s) 288, 649
BstENI CCTNNNNNAGG 1 cut(s) 558
BstF5I GGATG 2 cut(s) 240, 570
BstH2I RGCGCY 2 cut(s) 8, 611
BstHHI GCGC 2 cut(s) 7, 610
BstKTI GATC 4 cut(s) 525, 623, 720, 733
BstMAI GTCTC 2 cut(s) 98, 719
BstMBI GATC 4 cut(s) 522, 620, 717, 730
BstMCI CGRYCG 1 cut(s) 190
BstMWI GCNNNNNNNGC 1 cut(s) 130
BstNI CCWGG 4 cut(s) 349, 561, 585, 842
BstNSI RCATGY 1 cut(s) 840
BstSCI CCNGG 4 cut(s) 347, 559, 583, 840
BstSLI GKGCMC 1 cut(s) 544
BstV1I GCAGC 1 cut(s) 128
BstV2I GAAGAC 1 cut(s) 33
BstXI CCANNNNNNTGG 1 cut(s) 295
BsuRI GGCC 3 cut(s) 225, 302, 553
BtgI CCRYGG 2 cut(s) 288, 649
BtsCI GGATG 2 cut(s) 240, 570
BtsIMutI CAGTG 3 cut(s) 132, 303, 598
Cac8I GCNNGC 1 cut(s) 849
CfoI GCGC 2 cut(s) 7, 610
Cfr13I GGNCC 4 cut(s) 224, 587, 646, 766
CseI GACGC 1 cut(s) 185
CviAII CATG 4 cut(s) 289, 433, 443, 837
DdeI CTNAG 2 cut(s) 279, 615
DinI GGCGCC 1 cut(s) 6
DpnI GATC 4 cut(s) 524, 622, 719, 732
DpnII GATC 4 cut(s) 522, 620, 717, 730
DrdI GACNNNNNNGTC 1 cut(s) 194
DseDI GACNNNNNNGTC 1 cut(s) 194
EaeI YGGCCR 1 cut(s) 300
Eam1104I CTCTTC 1 cut(s) 626
EarI CTCTTC 1 cut(s) 626
Eco130I CCWWGG 2 cut(s) 234, 288
Eco147I AGGCCT 1 cut(s) 553
Eco47I GGWCC 3 cut(s) 587, 646, 766
Eco57I CTGAAG 1 cut(s) 782
EcoNI CCTNNNNNAGG 1 cut(s) 558
EcoO109I RGGNCCY 1 cut(s) 766
EcoRII CCWGG 4 cut(s) 347, 559, 583, 840
EcoT14I CCWWGG 2 cut(s) 234, 288
EgeI GGCGCC 1 cut(s) 6
EheI GGCGCC 1 cut(s) 6
ErhI CCWWGG 2 cut(s) 234, 288
Esp3I CGTCTC 1 cut(s) 98
FaeI CATG 4 cut(s) 292, 436, 446, 840
FaqI GGGAC 2 cut(s) 365, 659
FatI CATG 4 cut(s) 288, 432, 442, 836
FauNDI CATATG 2 cut(s) 498, 546
Fnu4HI GCNGC 4 cut(s) 117, 180, 183, 300
FokI GGATG 2 cut(s) 227, 577
Fsp4HI GCNGC 4 cut(s) 117, 180, 183, 300
FspBI CTAG 1 cut(s) 57
GlaI GCGC 2 cut(s) 6, 609
GluI GCNGC 4 cut(s) 117, 180, 183, 300
HaeII RGCGCY 2 cut(s) 8, 611
HaeIII GGCC 3 cut(s) 225, 302, 553
HapII CCGG 1 cut(s) 222
HgaI GACGC 1 cut(s) 185
HhaI GCGC 2 cut(s) 7, 610
Hin1I GRCGYC 2 cut(s) 5, 177
Hin1II CATG 4 cut(s) 292, 436, 446, 840
Hin6I GCGC 2 cut(s) 5, 608
HinP1I GCGC 2 cut(s) 5, 608
HinfI GANTC 4 cut(s) 308, 380, 451, 514
HpaII CCGG 1 cut(s) 222
HphI GGTGA 2 cut(s) 190, 532
Hpy166II GTNNAC 3 cut(s) 285, 482, 778
Hpy188I TCNGA 4 cut(s) 379, 388, 625, 750
Hpy188III TCNNGA 1 cut(s) 455
Hpy8I GTNNAC 3 cut(s) 285, 482, 778
Hpy99I CGWCG 1 cut(s) 158
HpyAV CCTTC 3 cut(s) 228, 383, 757
HpyCH4III ACNGT 1 cut(s) 650
HpyCH4IV ACGT 1 cut(s) 153
HpyCH4V TGCA 1 cut(s) 314
HpyF10VI GCNNNNNNNGC 1 cut(s) 130
HpyF3I CTNAG 2 cut(s) 279, 615
HpySE526I ACGT 1 cut(s) 153
Hsp92I GRCGYC 2 cut(s) 5, 177
Hsp92II CATG 4 cut(s) 292, 436, 446, 840
HspAI GCGC 2 cut(s) 5, 608
KasI GGCGCC 1 cut(s) 4
Kzo9I GATC 4 cut(s) 522, 620, 717, 730
LmnI GCTCC 5 cut(s) 121, 197, 208, 791, 844
Lsp1109I GCAGC 1 cut(s) 128
MaeI CTAG 1 cut(s) 57
MaeII ACGT 1 cut(s) 153
MaeIII GTNAC 3 cut(s) 196, 329, 593
MalI GATC 4 cut(s) 524, 622, 719, 732
MbiI CCGCTC 1 cut(s) 192
MboI GATC 4 cut(s) 522, 620, 717, 730
MboII GAAGA 4 cut(s) 38, 409, 613, 643
MfeI CAATTG 1 cut(s) 713
MhlI GDGCHC 1 cut(s) 544
MluCI AATT 6 cut(s) 85, 425, 460, 697, 713, 743
Mly113I GGCGCC 1 cut(s) 5
MlyI GAGTC 1 cut(s) 389
MnlI CCTC 9 cut(s) 84, 156, 199, 254, 267, 400, 543, 636, 779
MroXI GAANNNNTTC 2 cut(s) 416, 744
MseI TTAA 3 cut(s) 168, 675, 707
MslI CAYNNNNRTG 1 cut(s) 362
MspA1I CMGCKG 1 cut(s) 119
MspI CCGG 1 cut(s) 222
MspR9I CCNGG 4 cut(s) 349, 561, 585, 842
MunI CAATTG 1 cut(s) 713
MvaI CCWGG 4 cut(s) 349, 561, 585, 842
MwoI GCNNNNNNNGC 1 cut(s) 130
NarI GGCGCC 1 cut(s) 5
NcoI CCATGG 1 cut(s) 288
NdeI CATATG 2 cut(s) 498, 546
NdeII GATC 4 cut(s) 522, 620, 717, 730
NlaIII CATG 4 cut(s) 292, 436, 446, 840
NlaIV GGNNCC 8 cut(s) 6, 70, 123, 210, 582, 589, 647, 846
NmuCI GTSAC 2 cut(s) 196, 593
NspI RCATGY 1 cut(s) 840
PceI AGGCCT 1 cut(s) 553
PcsI WCGNNNNNNNCGW 1 cut(s) 183
PdmI GAANNNNTTC 2 cut(s) 416, 744
PfeI GAWTC 3 cut(s) 308, 451, 514
PfoI TCCNGGA 1 cut(s) 583
PkrI GCNGC 4 cut(s) 118, 181, 184, 301
PleI GAGTC 1 cut(s) 388
PluTI GGCGCC 1 cut(s) 8
PpsI GAGTC 1 cut(s) 388
PpuMI RGGWCCY 1 cut(s) 766
Psp5II RGGWCCY 1 cut(s) 766
Psp6I CCWGG 4 cut(s) 347, 559, 583, 840
PspGI CCWGG 4 cut(s) 347, 559, 583, 840
PspN4I GGNNCC 8 cut(s) 6, 70, 123, 210, 582, 589, 647, 846
PspPI GGNCC 4 cut(s) 224, 587, 646, 766
PspPPI RGGWCCY 1 cut(s) 766
RseI CAYNNNNRTG 1 cut(s) 362
SaqAI TTAA 3 cut(s) 168, 675, 707
SatI GCNGC 4 cut(s) 117, 180, 183, 300
Sau3AI GATC 4 cut(s) 522, 620, 717, 730
Sau96I GGNCC 4 cut(s) 224, 587, 646, 766
SchI GAGTC 1 cut(s) 389
ScrFI CCNGG 4 cut(s) 349, 561, 585, 842
SduI GDGCHC 1 cut(s) 544
SfoI GGCGCC 1 cut(s) 6
SinI GGWCC 3 cut(s) 587, 646, 766
SmiMI CAYNNNNRTG 1 cut(s) 362
SmlI CTYRAG 1 cut(s) 455
SmoI CTYRAG 1 cut(s) 455
SpeI ACTAGT 1 cut(s) 56
Sse9I AATT 6 cut(s) 85, 425, 460, 697, 713, 743
SseBI AGGCCT 1 cut(s) 553
SsiI CCGC 6 cut(s) 119, 180, 183, 190, 201, 299
SspDI GGCGCC 1 cut(s) 4
SspMI CTAG 1 cut(s) 57
StuI AGGCCT 1 cut(s) 553
StyD4I CCNGG 4 cut(s) 347, 559, 583, 840
StyI CCWWGG 2 cut(s) 234, 288
TaaI ACNGT 1 cut(s) 650
TaiI ACGT 1 cut(s) 156
TaqI TCGA 1 cut(s) 525
TasI AATT 6 cut(s) 85, 425, 460, 697, 713, 743
TauI GCSGC 3 cut(s) 182, 185, 302
TfiI GAWTC 3 cut(s) 308, 451, 514
Tru1I TTAA 3 cut(s) 168, 675, 707
Tru9I TTAA 3 cut(s) 168, 675, 707
TscAI CASTG 3 cut(s) 132, 310, 598
TseFI GTSAC 2 cut(s) 196, 593
TseI GCWGC 1 cut(s) 116
Tsp45I GTSAC 2 cut(s) 196, 593
TspDTI ATGAA 5 cut(s) 152, 346, 449, 515, 644
TspGWI ACGGA 1 cut(s) 184
TspRI CASTG 3 cut(s) 132, 310, 598
VpaK11BI GGWCC 3 cut(s) 587, 646, 766
XagI CCTNNNNNAGG 1 cut(s) 558
XapI RAATTY 2 cut(s) 85, 425
XceI RCATGY 1 cut(s) 840
XmnI GAANNNNTTC 2 cut(s) 416, 744
XspI CTAG 1 cut(s) 57
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.