Rroxscaffold_7G00179490

Transcription initiation factor IIF subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000007
OG0001724
Physical Location & Seq
Forward (+)
19045929 .. 19048717
2789 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_7G00179490.1

Sequence Viewer

Length: 951 bp
ATGAAAGCTGCAACTAATGGAGCTGTTGCATTTGGAAAAGTGAACAAATTTGGTGGCAAGGATAGCAAACAAAAAACTTGTTTTTATGATGATGATGAAGGAAACAGCTCAGATAATGATGATGAGGAACAAGAGGGAGCAAGGAATAATAGAGTCGGACTGAAGAGAAGAGGTGGTGATGATGAAGGAAACATCTCCGATAACGGTGATGAGGAAGACGATGTAGCAAGGAAAAATAGACTCGGACTCGAGAGAAGAGGTGATGATGACTGGGAGGTTGAGGAGATTTTCAGCGATGATGATGATAATAATACCGAGGAAATAGAAGACTTTGCAATCGAGGATCCGGATCCACTAGAACTTGAGCATTTGACATGTTTGTTTAGCCTTGTGTCTTCGATCCTCGAAGATGAGGAAGATGATAATAATGAAGAGGGTGGACTCGGTGAATCCGGAAAAGAGTTGAAGAAGCTACTTGAGCACCTCCCCGAGTCGGATACACGGAATGACGACGAAACTGAGGATATAGAACAGTCATTCTGGATCGTCTCAAACTACCCCATCCCATCAACCTCCAAGCCATCCAAAGGGAAGAGAAAACAATATGATGATGATGCCGAGGCATTTAGCTGTGCACCTCCCAAGAAGTTGAAGACCAAAAATAATCAGGATCAAAAACCTTCCATAAAAGAAGAGCCTGCATCTACTAGTCCTATCGGTGAGGAAGAAATCAGGGCTGTTCTTGAGAAAGAACAAGCAATTTCCTTACAAGACCTTGTTGACCACTATCTAGGAAGAATCGAATCGAATGAGTGGCGATCTGCAATCGAAAGTTACGATAATGAAGCAGGTTTTGAAACTGATCGATCGATGGTGAACAGAATGGCCGGGAAAGAAAACCCTAATTCGATACCGGAAAATAGAATTGGGGAAGATTTTTCAGTGACTTGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0003674 GO:0005488 GO:0005515 GO:0008022
KEGG Pathways
Metabolic & Signaling
ko03022 map03022
Pfam Domains
Protein Families
TFIIF_alpha

Protein Analysis

316

Amino Acids

35.51

Weight (kDa)

4.27

Isoelectric Point (pI)

60.58

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
TFIIF_alpha PF05793 189 - 266 3.8e-06 Transcription initiation factor IIF, alpha subunit (TFIIF-alpha)
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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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc36I ACCTGC 1 cut(s) 839
AccIII TCCGGA 2 cut(s) 346, 452
AclWI GGATC 7 cut(s) 338, 344, 351, 357, 394, 551, 678
AcoI YGGCCR 1 cut(s) 885
AcsI RAATTY 1 cut(s) 47
AcuI CTGAAG 1 cut(s) 182
AfiI CCNNNNNNNGG 2 cut(s) 493, 587
AflIII ACRYGT 1 cut(s) 374
AgsI TTSAA 3 cut(s) 466, 652, 857
AhlI ACTAGT 1 cut(s) 707
AjuI GAANNNNNNNTTGG 2 cut(s) 909, 941
AluBI AGCT 5 cut(s) 8, 23, 108, 472, 630
AluI AGCT 5 cut(s) 8, 23, 108, 472, 630
Alw21I GWGCWC 2 cut(s) 483, 637
Alw26I GTCTC 1 cut(s) 553
Alw44I GTGCAC 1 cut(s) 633
AlwI GGATC 7 cut(s) 338, 344, 351, 357, 394, 551, 678
Ama87I CYCGRG 2 cut(s) 248, 488
Aor13HI TCCGGA 2 cut(s) 346, 452
AoxI GGCC 1 cut(s) 885
ApaLI GTGCAC 1 cut(s) 633
ApeKI GCWGC 1 cut(s) 8
ApoI RAATTY 1 cut(s) 47
AsuC2I CCSGG 1 cut(s) 889
AsuHPI GGTGA 6 cut(s) 188, 218, 272, 458, 731, 886
AvaI CYCGRG 2 cut(s) 248, 488
BaeGI GKGCMC 1 cut(s) 637
BamHI GGATCC 2 cut(s) 343, 349
BbsI GAAGAC 4 cut(s) 222, 333, 387, 659
Bbv12I GWGCWC 2 cut(s) 483, 637
BccI CCATC 4 cut(s) 569, 574, 589, 865
BciVI GTATCC 1 cut(s) 490
BcnI CCSGG 1 cut(s) 889
BcoDI GTCTC 1 cut(s) 553
BcuI ACTAGT 1 cut(s) 707
BfaI CTAG 3 cut(s) 356, 708, 791
BfuAI ACCTGC 1 cut(s) 839
BfuI GTATCC 1 cut(s) 490
BisI GCNGC 1 cut(s) 9
BlsI GCNGC 1 cut(s) 10
Bme1390I CCNGG 1 cut(s) 889
BmeT110I CYCGRG 2 cut(s) 248, 488
BmiI GGNNCC 2 cut(s) 345, 351
BmrFI CCNGG 1 cut(s) 889
BmrI ACTGGG 1 cut(s) 280
BmsI GCATC 2 cut(s) 604, 710
BmuI ACTGGG 1 cut(s) 280
BpiI GAAGAC 4 cut(s) 222, 333, 387, 659
BpuEI CTTGAG 3 cut(s) 383, 497, 764
BpuMI CCSGG 1 cut(s) 889
Bsa29I ATCGAT 2 cut(s) 865, 869
BsaBI GATNNNNATC 1 cut(s) 348
BsaJI CCNNGG 2 cut(s) 315, 618
BsaWI WCCGGW 3 cut(s) 346, 452, 913
Bsc4I CCNNNNNNNGG 2 cut(s) 493, 587
Bse1I ACTGG 1 cut(s) 275
Bse8I GATNNNNATC 1 cut(s) 348
BseAI TCCGGA 2 cut(s) 346, 452
BseCI ATCGAT 2 cut(s) 865, 869
BseDI CCNNGG 2 cut(s) 315, 618
BseGI GGATG 2 cut(s) 561, 581
BseJI GATNNNNATC 1 cut(s) 348
BseLI CCNNNNNNNGG 2 cut(s) 493, 587
BseMII CTCAG 2 cut(s) 123, 510
BseNI ACTGG 1 cut(s) 275
BseRI GAGGAG 1 cut(s) 296
BseSI GKGCMC 1 cut(s) 637
Bsh1285I CGRYCG 1 cut(s) 869
BshFI GGCC 1 cut(s) 887
BshVI ATCGAT 2 cut(s) 865, 869
BsiEI CGRYCG 1 cut(s) 869
BsiHKAI GWGCWC 2 cut(s) 483, 637
BsiHKCI CYCGRG 2 cut(s) 248, 488
BsiSI CCGG 4 cut(s) 347, 453, 888, 914
BslI CCNNNNNNNGG 2 cut(s) 493, 587
BsmAI GTCTC 1 cut(s) 553
BsmBI CGTCTC 1 cut(s) 553
BsnI GGCC 1 cut(s) 887
BsoBI CYCGRG 2 cut(s) 248, 488
Bsp1286I GDGCHC 2 cut(s) 483, 637
Bsp13I TCCGGA 2 cut(s) 346, 452
Bsp143I GATC 8 cut(s) 343, 349, 399, 543, 670, 818, 862, 866
BspANI GGCC 1 cut(s) 887
BspCNI CTCAG 2 cut(s) 122, 511
BspDI ATCGAT 2 cut(s) 865, 869
BspEI TCCGGA 2 cut(s) 346, 452
BspLI GGNNCC 2 cut(s) 345, 351
BspMI ACCTGC 1 cut(s) 839
BspPI GGATC 7 cut(s) 338, 344, 351, 357, 394, 551, 678
BspQI GCTCTTC 1 cut(s) 687
BsrI ACTGG 1 cut(s) 275
BssECI CCNNGG 2 cut(s) 315, 618
BssMI GATC 8 cut(s) 343, 349, 399, 543, 670, 818, 862, 866
Bst4CI ACNGT 2 cut(s) 206, 534
Bst6I CTCTTC 6 cut(s) 158, 163, 250, 426, 587, 687
BstC8I GCNNGC 1 cut(s) 699
BstDEI CTNAG 2 cut(s) 109, 519
BstF5I GGATG 2 cut(s) 561, 581
BstKTI GATC 8 cut(s) 346, 352, 402, 546, 673, 821, 865, 869
BstMAI GTCTC 1 cut(s) 553
BstMBI GATC 8 cut(s) 343, 349, 399, 543, 670, 818, 862, 866
BstMCI CGRYCG 1 cut(s) 869
BstMWI GCNNNNNNNGC 2 cut(s) 63, 478
BstNSI RCATGY 1 cut(s) 378
BstSCI CCNGG 1 cut(s) 887
BstSLI GKGCMC 1 cut(s) 637
BstV2I GAAGAC 4 cut(s) 222, 333, 387, 659
BstX2I RGATCY 2 cut(s) 343, 349
BstYI RGATCY 2 cut(s) 343, 349
Bsu15I ATCGAT 2 cut(s) 865, 869
BsuI GTATCC 1 cut(s) 490
BsuRI GGCC 1 cut(s) 887
BsuTUI ATCGAT 2 cut(s) 865, 869
BtgZI GCGATG 1 cut(s) 309
BtsCI GGATG 2 cut(s) 561, 581
BtsIMutI CAGTG 1 cut(s) 948
BveI ACCTGC 1 cut(s) 839
Cac8I GCNNGC 1 cut(s) 699
ClaI ATCGAT 2 cut(s) 865, 869
CspCI CAANNNNNGTGG 2 cut(s) 34, 69
CviAII CATG 1 cut(s) 375
DdeI CTNAG 2 cut(s) 109, 519
DpnI GATC 8 cut(s) 345, 351, 401, 545, 672, 820, 864, 868
DpnII GATC 8 cut(s) 343, 349, 399, 543, 670, 818, 862, 866
EaeI YGGCCR 1 cut(s) 885
Eam1104I CTCTTC 6 cut(s) 158, 163, 250, 426, 587, 687
EarI CTCTTC 6 cut(s) 158, 163, 250, 426, 587, 687
Eco57I CTGAAG 1 cut(s) 182
Eco88I CYCGRG 2 cut(s) 248, 488
Esp3I CGTCTC 1 cut(s) 553
FaeI CATG 1 cut(s) 378
FaiI YATR 5 cut(s) 87, 376, 527, 606, 686
FatI CATG 1 cut(s) 374
Fnu4HI GCNGC 1 cut(s) 9
FokI GGATG 2 cut(s) 548, 568
Fsp4HI GCNGC 1 cut(s) 9
FspBI CTAG 3 cut(s) 356, 708, 791
GluI GCNGC 1 cut(s) 9
HaeIII GGCC 1 cut(s) 887
HapII CCGG 4 cut(s) 347, 453, 888, 914
Hin1II CATG 1 cut(s) 378
HincII GTYRAC 1 cut(s) 781
HindII GTYRAC 1 cut(s) 781
HinfI GANTC 8 cut(s) 153, 240, 246, 441, 449, 491, 798, 803
HpaII CCGG 4 cut(s) 347, 453, 888, 914
HphI GGTGA 6 cut(s) 188, 218, 272, 458, 731, 886
Hpy166II GTNNAC 5 cut(s) 43, 440, 635, 781, 877
Hpy188I TCNGA 5 cut(s) 112, 158, 199, 245, 496
Hpy188III TCNNGA 6 cut(s) 250, 347, 453, 541, 668, 743
Hpy8I GTNNAC 5 cut(s) 43, 440, 635, 781, 877
Hpy99I CGWCG 1 cut(s) 515
HpyAV CCTTC 3 cut(s) 92, 179, 690
HpyCH4III ACNGT 2 cut(s) 206, 534
HpyCH4V TGCA 6 cut(s) 11, 29, 335, 635, 701, 824
HpyF10VI GCNNNNNNNGC 2 cut(s) 63, 478
HpyF3I CTNAG 2 cut(s) 109, 519
Hsp92II CATG 1 cut(s) 378
Kpn2I TCCGGA 2 cut(s) 346, 452
Kzo9I GATC 8 cut(s) 343, 349, 399, 543, 670, 818, 862, 866
LguI GCTCTTC 1 cut(s) 687
LmnI GCTCC 2 cut(s) 20, 137
LweI GCATC 2 cut(s) 604, 710
MaeI CTAG 3 cut(s) 356, 708, 791
MaeIII GTNAC 2 cut(s) 833, 943
MalI GATC 8 cut(s) 345, 351, 401, 545, 672, 820, 864, 868
MboI GATC 8 cut(s) 343, 349, 399, 543, 670, 818, 862, 866
MflI RGATCY 2 cut(s) 343, 349
MhlI GDGCHC 2 cut(s) 483, 637
MluCI AATT 4 cut(s) 47, 759, 904, 924
MlyI GAGTC 5 cut(s) 162, 234, 240, 435, 500
MmeI TCCRAC 2 cut(s) 136, 474
MroI TCCGGA 2 cut(s) 346, 452
MspI CCGG 4 cut(s) 347, 453, 888, 914
MspR9I CCNGG 1 cut(s) 889
MwoI GCNNNNNNNGC 2 cut(s) 63, 478
NciI CCSGG 1 cut(s) 889
NdeII GATC 8 cut(s) 343, 349, 399, 543, 670, 818, 862, 866
NlaIII CATG 1 cut(s) 378
NlaIV GGNNCC 2 cut(s) 345, 351
NmeAIII GCCGAG 1 cut(s) 643
NmuCI GTSAC 1 cut(s) 943
NspI RCATGY 1 cut(s) 378
PaeR7I CTCGAG 1 cut(s) 248
PciI ACATGT 1 cut(s) 374
PciSI GCTCTTC 1 cut(s) 687
PcsI WCGNNNNNNNCGW 1 cut(s) 834
PfeI GAWTC 3 cut(s) 449, 798, 803
PkrI GCNGC 1 cut(s) 10
Ple19I CGATCG 1 cut(s) 869
PleI GAGTC 5 cut(s) 161, 234, 240, 435, 499
PpsI GAGTC 5 cut(s) 161, 234, 240, 435, 499
PscI ACATGT 1 cut(s) 374
PspN4I GGNNCC 2 cut(s) 345, 351
PsuI RGATCY 2 cut(s) 343, 349
PvuI CGATCG 1 cut(s) 869
SapI GCTCTTC 1 cut(s) 687
SatI GCNGC 1 cut(s) 9
Sau3AI GATC 8 cut(s) 343, 349, 399, 543, 670, 818, 862, 866
SchI GAGTC 5 cut(s) 162, 234, 240, 435, 500
ScrFI CCNGG 1 cut(s) 889
SduI GDGCHC 2 cut(s) 483, 637
SfaNI GCATC 2 cut(s) 604, 710
Sfr274I CTCGAG 1 cut(s) 248
SlaI CTCGAG 1 cut(s) 248
SmlI CTYRAG 4 cut(s) 248, 362, 476, 743
SmoI CTYRAG 4 cut(s) 248, 362, 476, 743
SpeI ACTAGT 1 cut(s) 707
Sse9I AATT 4 cut(s) 47, 759, 904, 924
SspMI CTAG 3 cut(s) 356, 708, 791
StyD4I CCNGG 1 cut(s) 887
TaaI ACNGT 2 cut(s) 206, 534
TasI AATT 4 cut(s) 47, 759, 904, 924
TfiI GAWTC 3 cut(s) 449, 798, 803
TscAI CASTG 1 cut(s) 948
TseFI GTSAC 1 cut(s) 943
TseI GCWGC 1 cut(s) 8
Tsp45I GTSAC 1 cut(s) 943
TspDTI ATGAA 5 cut(s) 17, 111, 198, 444, 858
TspGWI ACGGA 1 cut(s) 517
TspRI CASTG 1 cut(s) 948
VneI GTGCAC 1 cut(s) 633
XapI RAATTY 1 cut(s) 47
XceI RCATGY 1 cut(s) 378
XhoI CTCGAG 1 cut(s) 248
XspI CTAG 3 cut(s) 356, 708, 791
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.