RLG00000027539

General transcription factor IIF subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_laevigata
Chr6
OG0013034
Physical Location & Seq
Forward (+)
12509196 .. 12512165
2970 bp
Loading structure...
UTR
Exon/CDS
Intron
RLM00000027539

Sequence Viewer

Length: 900 bp
ATGGCGCCAAGCCAAATAGCAATGGAAGACCAAAAACTACAACGAACCGCTAGCACTAGTAATAGTGGTGCCAACAACAGCAACAGCAACAAAAATTTGAGGGGGCATTTGGAGACGAAAAGCAAAGAAAATTGGGGACATTTGGAGACGAGCAAAGCAGCGGAGCCAGTGTGGCTTATGAAATGCCCTCCCAACGTCGCCAAATCGTTTAAGCCTGACGCCGCCGACGATGGCTCCGTCGCCGCAGATGAGCCTTGTTCTTCCGGCCCTGTCGCCAAAGTCATCCTCTCCCTGGACCCTCTCAACTCCAATAACGAACCTAAGTTTACCATGGAACTGGCGGCCACAGAATCTGCAAATACCCCCAAGTGTTACATTTTGGATATGTCCAGGGACTTCATTCCAATGTCTGTGTTTTCAGAGTCGTCAGGAGGAAAGTTATCTGTGGAGGGGAAAATCTTCAACAAATTTGACATGAAGCCCCATGATGAAAATCTTGAGAATTATGGGAAACTTTGCCGTGAACGAACAAAAAAGCATATGAAAAGTAGAAAGATTCAGGTGATCGACAATGACAATGGGGCTCATATGAGGCCTATGCCAGGGATGATTGGTTTTGTGGCTCCTGGACCCAGTGACAAGAAGAAAGCGCCAACTAAGGGATCAGAAATGAAGAGAACAAGGAGGGACCGTGGAGAAATGGAACATATTATGTTTAAGCTCTTTGAAAGGCAACCTAATTGGACTTTAAGACAATTGATCCAAGAGACAGATCAACCTGAACAATTTCTGAAAGACATACTTAAGGACCTCTCTGTTTACAACAACAAGGGAGCTAATCAAGGCACTTACGAGCTGAAACCTGAATACAGGAGAACAGGGCAGGAGCCAGCTCCCTAA
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

300

Amino Acids

33.53

Weight (kDa)

8.86

Isoelectric Point (pI)

36.22

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
TFIIF_beta PF02270 228 - 291 3.6e-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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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)
AccB1I GGYRCC 2 cut(s) 4, 68
AciI CCGC 5 cut(s) 48, 161, 222, 243, 341
AclWI GGATC 2 cut(s) 670, 754
AcoI YGGCCR 1 cut(s) 342
AcsI RAATTY 2 cut(s) 94, 467
AcyI GRCGYC 2 cut(s) 5, 219
AfiI CCNNNNNNNGG 3 cut(s) 292, 602, 659
AflII CTTAAG 1 cut(s) 803
AgsI TTSAA 2 cut(s) 463, 728
AhlI ACTAGT 1 cut(s) 56
AjnI CCWGG 4 cut(s) 291, 389, 601, 625
AluBI AGCT 4 cut(s) 721, 836, 856, 893
AluI AGCT 4 cut(s) 721, 836, 856, 893
Alw26I GTCTC 3 cut(s) 107, 140, 761
AlwI GGATC 2 cut(s) 670, 754
AlwNI CAGNNNCTG 1 cut(s) 353
AoxI GGCC 3 cut(s) 265, 342, 593
ApeKI GCWGC 1 cut(s) 158
ApoI RAATTY 2 cut(s) 94, 467
Asp700I GAANNNNTTC 2 cut(s) 458, 786
AspLEI GCGC 2 cut(s) 7, 652
AspS9I GGNCC 5 cut(s) 266, 295, 629, 688, 808
AsuHPI GGTGA 1 cut(s) 574
AsuNHI GCTAGC 1 cut(s) 50
AvaII GGWCC 4 cut(s) 295, 629, 688, 808
BanI GGYRCC 2 cut(s) 4, 68
BanII GRGCYC 1 cut(s) 586
BbsI GAAGAC 1 cut(s) 33
BbvI GCAGC 1 cut(s) 170
BccI CCATC 1 cut(s) 224
BceAI ACGGC 1 cut(s) 504
BciT130I CCWGG 4 cut(s) 293, 391, 603, 627
BcoDI GTCTC 3 cut(s) 107, 140, 761
BcuI ACTAGT 1 cut(s) 56
BfaI CTAG 2 cut(s) 51, 57
BfoI RGCGCY 2 cut(s) 8, 653
BfrI CTTAAG 1 cut(s) 803
BglI GCCNNNNNGGC 1 cut(s) 172
BisI GCNGC 4 cut(s) 159, 222, 243, 342
BlsI GCNGC 4 cut(s) 160, 223, 244, 343
Bme1390I CCNGG 4 cut(s) 293, 391, 603, 627
Bme18I GGWCC 4 cut(s) 295, 629, 688, 808
BmgT120I GGNCC 5 cut(s) 266, 295, 629, 688, 808
BmiI GGNNCC 9 cut(s) 6, 70, 165, 235, 297, 624, 631, 689, 888
BmrFI CCNGG 4 cut(s) 293, 391, 603, 627
BmrI ACTGGG 1 cut(s) 627
BmtI GCTAGC 1 cut(s) 54
BmuI ACTGGG 1 cut(s) 627
BpiI GAAGAC 1 cut(s) 33
BpuEI CTTGAG 1 cut(s) 518
BsaBI GATNNNNATC 1 cut(s) 492
BsaHI GRCGYC 2 cut(s) 5, 219
BsaJI CCNNGG 5 cut(s) 291, 330, 390, 602, 691
BsaXI ACNNNNNCTCC 6 cut(s) 155, 185, 218, 248, 676, 706
Bsc4I CCNNNNNNNGG 3 cut(s) 292, 602, 659
Bse1I ACTGG 3 cut(s) 167, 342, 633
Bse3DI GCAATG 1 cut(s) 27
Bse8I GATNNNNATC 1 cut(s) 492
BseBI CCWGG 4 cut(s) 293, 391, 603, 627
BseDI CCNNGG 5 cut(s) 291, 330, 390, 602, 691
BseGI GGATG 2 cut(s) 282, 612
BseJI GATNNNNATC 1 cut(s) 492
BseLI CCNNNNNNNGG 3 cut(s) 292, 602, 659
BseMI GCAATG 1 cut(s) 27
BseNI ACTGG 3 cut(s) 167, 342, 633
BseXI GCAGC 1 cut(s) 170
BshFI GGCC 3 cut(s) 267, 344, 595
BshNI GGYRCC 2 cut(s) 4, 68
BsiSI CCGG 1 cut(s) 264
BslFI GGGAC 3 cut(s) 150, 407, 701
BslI CCNNNNNNNGG 3 cut(s) 292, 602, 659
BsmAI GTCTC 3 cut(s) 107, 140, 761
BsmBI CGTCTC 2 cut(s) 107, 140
BsmFI GGGAC 3 cut(s) 150, 407, 701
BsnI GGCC 3 cut(s) 267, 344, 595
Bsp1286I GDGCHC 1 cut(s) 586
Bsp143I GATC 4 cut(s) 564, 662, 759, 772
Bsp19I CCATGG 1 cut(s) 330
BspACI CCGC 5 cut(s) 48, 161, 222, 243, 341
BspANI GGCC 3 cut(s) 267, 344, 595
BspLI GGNNCC 9 cut(s) 6, 70, 165, 235, 297, 624, 631, 689, 888
BspOI GCTAGC 1 cut(s) 54
BspPI GGATC 2 cut(s) 670, 754
BspT107I GGYRCC 2 cut(s) 4, 68
BspTI CTTAAG 1 cut(s) 803
BsrDI GCAATG 1 cut(s) 27
BsrI ACTGG 3 cut(s) 167, 342, 633
BssECI CCNNGG 5 cut(s) 291, 330, 390, 602, 691
BssMI GATC 4 cut(s) 564, 662, 759, 772
BssNI GRCGYC 2 cut(s) 5, 219
BssT1I CCWWGG 1 cut(s) 330
Bst2UI CCWGG 4 cut(s) 293, 391, 603, 627
Bst4CI ACNGT 1 cut(s) 692
Bst6I CTCTTC 1 cut(s) 668
BstACI GRCGYC 2 cut(s) 5, 219
BstAFI CTTAAG 1 cut(s) 803
BstC8I GCNNGC 2 cut(s) 52, 891
BstDEI CTNAG 2 cut(s) 321, 657
BstDSI CCRYGG 2 cut(s) 330, 691
BstENI CCTNNNNNAGG 1 cut(s) 600
BstF5I GGATG 2 cut(s) 282, 612
BstH2I RGCGCY 2 cut(s) 8, 653
BstHHI GCGC 2 cut(s) 7, 652
BstKTI GATC 4 cut(s) 567, 665, 762, 775
BstMAI GTCTC 3 cut(s) 107, 140, 761
BstMBI GATC 4 cut(s) 564, 662, 759, 772
BstMWI GCNNNNNNNGC 1 cut(s) 172
BstNI CCWGG 4 cut(s) 293, 391, 603, 627
BstSCI CCNGG 4 cut(s) 291, 389, 601, 625
BstV1I GCAGC 1 cut(s) 170
BstV2I GAAGAC 1 cut(s) 33
BstXI CCANNNNNNTGG 1 cut(s) 337
BsuRI GGCC 3 cut(s) 267, 344, 595
BtgI CCRYGG 2 cut(s) 330, 691
BtsCI GGATG 2 cut(s) 282, 612
BtsIMutI CAGTG 2 cut(s) 174, 640
Cac8I GCNNGC 2 cut(s) 52, 891
CaiI CAGNNNCTG 1 cut(s) 353
CfoI GCGC 2 cut(s) 7, 652
Cfr13I GGNCC 5 cut(s) 266, 295, 629, 688, 808
CseI GACGC 1 cut(s) 227
CviAII CATG 3 cut(s) 331, 475, 485
DdeI CTNAG 2 cut(s) 321, 657
DinI GGCGCC 1 cut(s) 6
DpnI GATC 4 cut(s) 566, 664, 761, 774
DpnII GATC 4 cut(s) 564, 662, 759, 772
EaeI YGGCCR 1 cut(s) 342
Eam1104I CTCTTC 1 cut(s) 668
EarI CTCTTC 1 cut(s) 668
Eco130I CCWWGG 1 cut(s) 330
Eco147I AGGCCT 1 cut(s) 595
Eco24I GRGCYC 1 cut(s) 586
Eco47I GGWCC 4 cut(s) 295, 629, 688, 808
EcoNI CCTNNNNNAGG 1 cut(s) 600
EcoO109I RGGNCCY 1 cut(s) 808
EcoRII CCWGG 4 cut(s) 291, 389, 601, 625
EcoT14I CCWWGG 1 cut(s) 330
EcoT38I GRGCYC 1 cut(s) 586
EgeI GGCGCC 1 cut(s) 6
EheI GGCGCC 1 cut(s) 6
ErhI CCWWGG 1 cut(s) 330
Esp3I CGTCTC 2 cut(s) 107, 140
FaeI CATG 3 cut(s) 334, 478, 488
FalI AAGNNNNNCTT 2 cut(s) 786, 818
FaqI GGGAC 3 cut(s) 150, 407, 701
FatI CATG 3 cut(s) 330, 474, 484
FauNDI CATATG 2 cut(s) 540, 588
Fnu4HI GCNGC 4 cut(s) 159, 222, 243, 342
FokI GGATG 2 cut(s) 269, 619
FriOI GRGCYC 1 cut(s) 586
Fsp4HI GCNGC 4 cut(s) 159, 222, 243, 342
FspBI CTAG 2 cut(s) 51, 57
GlaI GCGC 2 cut(s) 6, 651
GluI GCNGC 4 cut(s) 159, 222, 243, 342
HaeII RGCGCY 2 cut(s) 8, 653
HaeIII GGCC 3 cut(s) 267, 344, 595
HapII CCGG 1 cut(s) 264
HgaI GACGC 1 cut(s) 227
HhaI GCGC 2 cut(s) 7, 652
Hin1I GRCGYC 2 cut(s) 5, 219
Hin1II CATG 3 cut(s) 334, 478, 488
Hin6I GCGC 2 cut(s) 5, 650
HinP1I GCGC 2 cut(s) 5, 650
HinfI GANTC 3 cut(s) 350, 422, 556
HpaII CCGG 1 cut(s) 264
HphI GGTGA 1 cut(s) 574
Hpy166II GTNNAC 3 cut(s) 327, 524, 820
Hpy188I TCNGA 3 cut(s) 421, 667, 792
Hpy188III TCNNGA 2 cut(s) 429, 497
Hpy8I GTNNAC 3 cut(s) 327, 524, 820
Hpy99I CGWCG 3 cut(s) 200, 230, 242
HpyCH4III ACNGT 1 cut(s) 692
HpyCH4IV ACGT 1 cut(s) 195
HpyCH4V TGCA 1 cut(s) 356
HpyF10VI GCNNNNNNNGC 1 cut(s) 172
HpyF3I CTNAG 2 cut(s) 321, 657
HpySE526I ACGT 1 cut(s) 195
Hsp92I GRCGYC 2 cut(s) 5, 219
Hsp92II CATG 3 cut(s) 334, 478, 488
HspAI GCGC 2 cut(s) 5, 650
KasI GGCGCC 1 cut(s) 4
Kzo9I GATC 4 cut(s) 564, 662, 759, 772
LmnI GCTCC 6 cut(s) 163, 239, 628, 833, 886, 898
Lsp1109I GCAGC 1 cut(s) 170
MaeI CTAG 2 cut(s) 51, 57
MaeII ACGT 1 cut(s) 195
MaeIII GTNAC 2 cut(s) 371, 635
MalI GATC 4 cut(s) 566, 664, 761, 774
MboI GATC 4 cut(s) 564, 662, 759, 772
MboII GAAGA 5 cut(s) 38, 252, 451, 655, 685
MfeI CAATTG 1 cut(s) 755
MhlI GDGCHC 1 cut(s) 586
MluCI AATT 7 cut(s) 94, 130, 467, 502, 739, 755, 785
Mly113I GGCGCC 1 cut(s) 5
MlyI GAGTC 1 cut(s) 431
MnlI CCTC 9 cut(s) 93, 198, 296, 309, 425, 442, 585, 678, 821
MroXI GAANNNNTTC 2 cut(s) 458, 786
MseI TTAA 4 cut(s) 210, 717, 749, 804
MslI CAYNNNNRTG 1 cut(s) 404
MspA1I CMGCKG 1 cut(s) 161
MspCI CTTAAG 1 cut(s) 803
MspI CCGG 1 cut(s) 264
MspR9I CCNGG 4 cut(s) 293, 391, 603, 627
MunI CAATTG 1 cut(s) 755
MvaI CCWGG 4 cut(s) 293, 391, 603, 627
MwoI GCNNNNNNNGC 1 cut(s) 172
NarI GGCGCC 1 cut(s) 5
NcoI CCATGG 1 cut(s) 330
NdeI CATATG 2 cut(s) 540, 588
NdeII GATC 4 cut(s) 564, 662, 759, 772
NheI GCTAGC 1 cut(s) 50
NlaIII CATG 3 cut(s) 334, 478, 488
NlaIV GGNNCC 9 cut(s) 6, 70, 165, 235, 297, 624, 631, 689, 888
NmuCI GTSAC 1 cut(s) 635
PceI AGGCCT 1 cut(s) 595
PcsI WCGNNNNNNNCGW 2 cut(s) 225, 234
PdmI GAANNNNTTC 2 cut(s) 458, 786
PfeI GAWTC 2 cut(s) 350, 556
PfoI TCCNGGA 1 cut(s) 625
PkrI GCNGC 4 cut(s) 160, 223, 244, 343
PleI GAGTC 1 cut(s) 430
PluTI GGCGCC 1 cut(s) 8
PpsI GAGTC 1 cut(s) 430
PpuMI RGGWCCY 1 cut(s) 808
Psp5II RGGWCCY 1 cut(s) 808
Psp6I CCWGG 4 cut(s) 291, 389, 601, 625
PspGI CCWGG 4 cut(s) 291, 389, 601, 625
PspN4I GGNNCC 9 cut(s) 6, 70, 165, 235, 297, 624, 631, 689, 888
PspPI GGNCC 5 cut(s) 266, 295, 629, 688, 808
PspPPI RGGWCCY 1 cut(s) 808
PstNI CAGNNNCTG 1 cut(s) 353
RseI CAYNNNNRTG 1 cut(s) 404
SaqAI TTAA 4 cut(s) 210, 717, 749, 804
SatI GCNGC 4 cut(s) 159, 222, 243, 342
Sau3AI GATC 4 cut(s) 564, 662, 759, 772
Sau96I GGNCC 5 cut(s) 266, 295, 629, 688, 808
SchI GAGTC 1 cut(s) 431
ScrFI CCNGG 4 cut(s) 293, 391, 603, 627
SduI GDGCHC 1 cut(s) 586
SfoI GGCGCC 1 cut(s) 6
SinI GGWCC 4 cut(s) 295, 629, 688, 808
SmiMI CAYNNNNRTG 1 cut(s) 404
SmlI CTYRAG 2 cut(s) 497, 803
SmoI CTYRAG 2 cut(s) 497, 803
SpeI ACTAGT 1 cut(s) 56
Sse9I AATT 7 cut(s) 94, 130, 467, 502, 739, 755, 785
SseBI AGGCCT 1 cut(s) 595
SsiI CCGC 5 cut(s) 48, 161, 222, 243, 341
SspDI GGCGCC 1 cut(s) 4
SspMI CTAG 2 cut(s) 51, 57
StuI AGGCCT 1 cut(s) 595
StyD4I CCNGG 4 cut(s) 291, 389, 601, 625
StyI CCWWGG 1 cut(s) 330
TaaI ACNGT 1 cut(s) 692
TaiI ACGT 1 cut(s) 198
TaqI TCGA 1 cut(s) 567
TasI AATT 7 cut(s) 94, 130, 467, 502, 739, 755, 785
TauI GCSGC 3 cut(s) 224, 245, 344
TfiI GAWTC 2 cut(s) 350, 556
Tru1I TTAA 4 cut(s) 210, 717, 749, 804
Tru9I TTAA 4 cut(s) 210, 717, 749, 804
TscAI CASTG 2 cut(s) 174, 640
TseFI GTSAC 1 cut(s) 635
TseI GCWGC 1 cut(s) 158
Tsp45I GTSAC 1 cut(s) 635
TspDTI ATGAA 6 cut(s) 194, 388, 491, 504, 557, 686
TspGWI ACGGA 1 cut(s) 226
TspRI CASTG 2 cut(s) 174, 640
Vha464I CTTAAG 1 cut(s) 803
VpaK11BI GGWCC 4 cut(s) 295, 629, 688, 808
XagI CCTNNNNNAGG 1 cut(s) 600
XapI RAATTY 2 cut(s) 94, 467
XmnI GAANNNNTTC 2 cut(s) 458, 786
XspI CTAG 2 cut(s) 51, 57
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.