Rh6AG312800

Transcription initiation factor IIF subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr6A
OG0001724
Physical Location & Seq
Reverse (-)
51206041 .. 51219193
13153 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh6AG312800.1

Sequence Viewer

Length: 1356 bp
ATGTCAACTAGGGGGTGTGAACCTGGTGCAATCAGCTACTCTGTGTTAATCAACGGTTACTGCAAGTATAGGAAGATACAGGAAGCCATCAATCTTTATGAGGAAATGATTTTCAAAGGAGTTAAGCCAACAGTAATAACATATAATGCCTTATTAACTGGTATTTTTCAGATGGGCAAAGTTCAGGATGCACAGAAACTGTTTCATGAGATGCACACTCAGAATGTGCTACCGGATTCAGCTACATATTTAATATTATTGGATGGCCTTTGCAAACATGATTGCAAACCAGAAGCAATGGATATTTTTCATTCTTTAGAAAATTCCAATTTTAGATTTAGTGTTGAAATTTTTAATTGTCTTATGGATGGGTTCTGTAAATCGGGGAAGCTTGAAATTGCTTGGGACCTATTTCACAAAATGTCAAGTCTTCTCAAGCCTTTTGTTGGATTCCTTTTTCATGATGGGCACAAATGTTTCTCAACTGATGTGCAGGCTGGCAAATTTGAGTCTGGGCAGCTTGGGAAAACTGAGTATGATGTTGTGCGTGCAAACAATGATGACAAGAACTACTTCATTGGGAACATCTCAGATAATGATGATGAGGAACAAGAGGGAGCAAGGAAAAATAGACTTGGACCCAAGAGAAGAGATGGTGATGATGAAGGAAACATCTCAGATAATAGTGATGAGGAAGAAGATGTAGCAAGGAAAAACATACTTGAACTCGAGAGAATGGGTGGCGATGATGAAGGTACAAGTGGAGATGATGACTTTGATGATGATGATAATGAGAAGGATGATGACTGGAAGCTTGAGGAGATTTTTAGCGATGATGATGAAAATAATACCAAGGAAATAGAAGACTTTGTAACTGAGGATGATGAGGAAGATGATAATAATGAAGAGGGTGGGCTTAGTGAATCCGGAAAAGAGTTGAAGAAGCTACTTGGGCACCTCATTGATCATTCTAGATCGGCTCAGACTACCCCATCTCCCTCCAAGCCATCCAAAAGTATGAGAAAACGATATGATGATGATACCGAGACATTTAGCTGTGCACCTCCCCAGAAGTTGAAGATTGAAAATGATAAAAAACCTTCCACAAAAGAAGAGTTTGCATCTACTAGTCCTATCAGTGAGGAAGAAATCAGGGCTGTTCTTGAGAAAGAACTAGCGATTTCCTTACAAGACCCTGTTGACCACTATCCAGGAAGAGTCAAATCGAATGAGGAGCTGAAGGCTTTAATAGCAGGGACGTTGAGGAGTATGTCTTACAAAATACTATACGGTAAACACAGACTTTCCAAATTTACTTCTAATCACGGATACGTCTTTTTTGGTGTATCAGTGTGA
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

451

Amino Acids

51.09

Weight (kDa)

4.69

Isoelectric Point (pI)

46.08

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_1 PF12854 4 - 36 1.9e-08 PPR repeat
PPR_2 PF13041 8 - 55 7.2e-15 PPR repeat family
PPR PF01535 11 - 41 1.3e-07 PPR repeat
PPR_3 PF13812 32 - 87 9.4e-09 Pentatricopeptide repeat domain
PPR_1 PF12854 39 - 71 3.2e-09 PPR repeat
PPR_2 PF13041 43 - 92 1.1e-16 PPR repeat family
PPR_2 PF13041 115 - 142 3.6e-07 PPR repeat family
PPR_1 PF12854 115 - 142 7.6e-07 PPR repeat
PPR PF01535 117 - 142 4.2e-06 PPR repeat
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 1 cut(s) 954
AccIII TCCGGA 1 cut(s) 926
AcsI RAATTY 4 cut(s) 322, 348, 503, 1310
AcuI CTGAAG 1 cut(s) 1259
AfaI GTAC 1 cut(s) 757
AfiI CCNNNNNNNGG 1 cut(s) 446
AgsI TTSAA 7 cut(s) 115, 347, 395, 725, 940, 1078, 1085
AhlI ACTAGT 1 cut(s) 1127
AjnI CCWGG 2 cut(s) 22, 1210
AluBI AGCT 8 cut(s) 36, 242, 391, 520, 814, 946, 1056, 1237
AluI AGCT 8 cut(s) 36, 242, 391, 520, 814, 946, 1056, 1237
Alw21I GWGCWC 1 cut(s) 1063
Alw26I GTCTC 1 cut(s) 1040
Alw44I GTGCAC 1 cut(s) 1059
AlwNI CAGNNNCTG 1 cut(s) 199
Ama87I CYCGRG 1 cut(s) 728
Aor13HI TCCGGA 1 cut(s) 926
AoxI GGCC 1 cut(s) 265
ApaLI GTGCAC 1 cut(s) 1059
ApeKI GCWGC 1 cut(s) 517
ApoI RAATTY 4 cut(s) 322, 348, 503, 1310
Asp700I GAANNNNTTC 1 cut(s) 572
AspS9I GGNCC 2 cut(s) 406, 638
AsuHPI GGTGA 1 cut(s) 668
AvaI CYCGRG 1 cut(s) 728
AvaII GGWCC 2 cut(s) 406, 638
BaeGI GKGCMC 3 cut(s) 471, 957, 1063
BanI GGYRCC 1 cut(s) 954
BbsI GAAGAC 2 cut(s) 422, 870
Bbv12I GWGCWC 1 cut(s) 1063
BbvI GCAGC 1 cut(s) 529
BccI CCATC 8 cut(s) 95, 166, 257, 362, 458, 647, 1000, 1015
BciT130I CCWGG 2 cut(s) 24, 1212
BciVI GTATCC 1 cut(s) 1322
BclI TGATCA 1 cut(s) 964
BcoDI GTCTC 1 cut(s) 1040
BcuI ACTAGT 1 cut(s) 1127
BfaI CTAG 4 cut(s) 9, 972, 1128, 1175
BfuI GTATCC 1 cut(s) 1322
BisI GCNGC 1 cut(s) 518
BlsI GCNGC 1 cut(s) 519
Bme1390I CCNGG 2 cut(s) 24, 1212
Bme18I GGWCC 2 cut(s) 406, 638
BmeT110I CYCGRG 1 cut(s) 728
BmgT120I GGNCC 2 cut(s) 406, 638
BmiI GGNNCC 3 cut(s) 407, 640, 956
BmrFI CCNGG 2 cut(s) 24, 1212
BmsI GCATC 3 cut(s) 178, 201, 1130
BpiI GAAGAC 2 cut(s) 422, 870
BpuEI CTTGAG 3 cut(s) 419, 836, 1184
BsaJI CCNNGG 1 cut(s) 852
BsaWI WCCGGW 2 cut(s) 232, 926
BsaXI ACNNNNNCTCC 2 cut(s) 979, 1009
Bsc4I CCNNNNNNNGG 1 cut(s) 446
Bse1I ACTGG 2 cut(s) 163, 812
Bse3DI GCAATG 1 cut(s) 303
BseAI TCCGGA 1 cut(s) 926
BseBI CCWGG 2 cut(s) 24, 1212
BseDI CCNNGG 1 cut(s) 852
BseGI GGATG 6 cut(s) 193, 268, 373, 805, 886, 1007
BseLI CCNNNNNNNGG 1 cut(s) 446
BseMI GCAATG 1 cut(s) 303
BseMII CTCAG 6 cut(s) 233, 522, 603, 690, 867, 995
BseNI ACTGG 2 cut(s) 163, 812
BseRI GAGGAG 3 cut(s) 833, 1247, 1279
BseSI GKGCMC 3 cut(s) 471, 957, 1063
BseXI GCAGC 1 cut(s) 529
BsgI GTGCAG 1 cut(s) 512
BshFI GGCC 1 cut(s) 267
BshNI GGYRCC 1 cut(s) 954
BsiHKAI GWGCWC 1 cut(s) 1063
BsiHKCI CYCGRG 1 cut(s) 728
BsiSI CCGG 2 cut(s) 233, 927
BslFI GGGAC 2 cut(s) 419, 1270
BslI CCNNNNNNNGG 1 cut(s) 446
BsmAI GTCTC 1 cut(s) 1040
BsmFI GGGAC 2 cut(s) 419, 1270
BsnI GGCC 1 cut(s) 267
BsoBI CYCGRG 1 cut(s) 728
Bsp1286I GDGCHC 3 cut(s) 471, 957, 1063
Bsp13I TCCGGA 1 cut(s) 926
Bsp143I GATC 2 cut(s) 964, 974
BspANI GGCC 1 cut(s) 267
BspCNI CTCAG 6 cut(s) 232, 523, 602, 689, 868, 994
BspEI TCCGGA 1 cut(s) 926
BspHI TCATGA 2 cut(s) 205, 460
BspLI GGNNCC 3 cut(s) 407, 640, 956
BspT107I GGYRCC 1 cut(s) 954
BsrDI GCAATG 1 cut(s) 303
BsrI ACTGG 2 cut(s) 163, 812
BssECI CCNNGG 1 cut(s) 852
BssMI GATC 2 cut(s) 964, 974
BssT1I CCWWGG 1 cut(s) 852
Bst2UI CCWGG 2 cut(s) 24, 1212
Bst4CI ACNGT 4 cut(s) 56, 133, 201, 1292
Bst6I CTCTTC 4 cut(s) 643, 900, 1107, 1210
BstC8I GCNNGC 3 cut(s) 495, 499, 549
BstDEI CTNAG 7 cut(s) 219, 531, 589, 676, 876, 917, 981
BstF5I GGATG 6 cut(s) 193, 268, 373, 805, 886, 1007
BstKTI GATC 2 cut(s) 967, 977
BstMAI GTCTC 1 cut(s) 1040
BstMBI GATC 2 cut(s) 964, 974
BstMWI GCNNNNNNNGC 2 cut(s) 952, 1250
BstNI CCWGG 2 cut(s) 24, 1212
BstSCI CCNGG 2 cut(s) 22, 1210
BstSLI GKGCMC 3 cut(s) 471, 957, 1063
BstV1I GCAGC 1 cut(s) 529
BstV2I GAAGAC 2 cut(s) 422, 870
BsuI GTATCC 1 cut(s) 1322
BsuRI GGCC 1 cut(s) 267
BtgZI GCGATG 2 cut(s) 759, 846
BtsCI GGATG 6 cut(s) 193, 268, 373, 805, 886, 1007
BtsIMutI CAGTG 2 cut(s) 1144, 1356
Cac8I GCNNGC 3 cut(s) 495, 499, 549
CaiI CAGNNNCTG 1 cut(s) 199
CciI TCATGA 2 cut(s) 205, 460
Cfr13I GGNCC 2 cut(s) 406, 638
CsiI ACCWGGT 1 cut(s) 22
Csp6I GTAC 1 cut(s) 756
CviAII CATG 3 cut(s) 206, 278, 461
CviQI GTAC 1 cut(s) 756
DdeI CTNAG 7 cut(s) 219, 531, 589, 676, 876, 917, 981
DpnI GATC 2 cut(s) 966, 976
DpnII GATC 2 cut(s) 964, 974
Eam1104I CTCTTC 4 cut(s) 643, 900, 1107, 1210
EarI CTCTTC 4 cut(s) 643, 900, 1107, 1210
Eco130I CCWWGG 1 cut(s) 852
Eco47I GGWCC 2 cut(s) 406, 638
Eco57I CTGAAG 1 cut(s) 1259
Eco88I CYCGRG 1 cut(s) 728
EcoO109I RGGNCCY 1 cut(s) 406
EcoRII CCWGG 2 cut(s) 22, 1210
EcoT14I CCWWGG 1 cut(s) 852
ErhI CCWWGG 1 cut(s) 852
FaeI CATG 3 cut(s) 209, 281, 464
FalI AAGNNNNNCTT 2 cut(s) 557, 589
FaqI GGGAC 2 cut(s) 419, 1270
FatI CATG 3 cut(s) 205, 277, 460
FbaI TGATCA 1 cut(s) 964
Fnu4HI GCNGC 1 cut(s) 518
FokI GGATG 6 cut(s) 200, 275, 380, 812, 893, 994
Fsp4HI GCNGC 1 cut(s) 518
FspBI CTAG 4 cut(s) 9, 972, 1128, 1175
GluI GCNGC 1 cut(s) 518
HaeIII GGCC 1 cut(s) 267
HapII CCGG 2 cut(s) 233, 927
Hin1II CATG 3 cut(s) 209, 281, 464
HincII GTYRAC 2 cut(s) 6, 1201
HindII GTYRAC 2 cut(s) 6, 1201
HindIII AAGCTT 2 cut(s) 389, 812
HinfI GANTC 5 cut(s) 236, 450, 509, 923, 1218
HpaII CCGG 2 cut(s) 233, 927
HphI GGTGA 1 cut(s) 668
Hpy166II GTNNAC 5 cut(s) 6, 20, 1061, 1201, 1295
Hpy188I TCNGA 5 cut(s) 171, 222, 592, 679, 984
Hpy188III TCNNGA 7 cut(s) 185, 206, 461, 730, 927, 972, 1163
Hpy8I GTNNAC 5 cut(s) 6, 20, 1061, 1201, 1295
HpyAV CCTTC 5 cut(s) 659, 746, 790, 1110, 1234
HpyCH4III ACNGT 4 cut(s) 56, 133, 201, 1292
HpyCH4IV ACGT 2 cut(s) 1259, 1332
HpyF10VI GCNNNNNNNGC 2 cut(s) 952, 1250
HpyF3I CTNAG 7 cut(s) 219, 531, 589, 676, 876, 917, 981
HpySE526I ACGT 2 cut(s) 1259, 1332
Hsp92II CATG 3 cut(s) 209, 281, 464
Kpn2I TCCGGA 1 cut(s) 926
Ksp22I TGATCA 1 cut(s) 964
Kzo9I GATC 2 cut(s) 964, 974
LmnI GCTCC 2 cut(s) 617, 1234
Lsp1109I GCAGC 1 cut(s) 529
LweI GCATC 3 cut(s) 178, 201, 1130
MabI ACCWGGT 1 cut(s) 22
MaeI CTAG 4 cut(s) 9, 972, 1128, 1175
MaeII ACGT 2 cut(s) 1259, 1332
MaeIII GTNAC 2 cut(s) 56, 871
MalI GATC 2 cut(s) 966, 976
MboI GATC 2 cut(s) 964, 974
MhlI GDGCHC 3 cut(s) 471, 957, 1063
MluCI AATT 7 cut(s) 322, 328, 348, 355, 396, 503, 1310
MlyI GAGTC 2 cut(s) 518, 1227
MmeI TCCRAC 1 cut(s) 427
MroI TCCGGA 1 cut(s) 926
MroXI GAANNNNTTC 1 cut(s) 572
MseI TTAA 6 cut(s) 47, 123, 155, 251, 354, 1247
MspI CCGG 2 cut(s) 233, 927
MspR9I CCNGG 2 cut(s) 24, 1212
MvaI CCWGG 2 cut(s) 24, 1212
MwoI GCNNNNNNNGC 2 cut(s) 952, 1250
NdeII GATC 2 cut(s) 964, 974
NlaIII CATG 3 cut(s) 209, 281, 464
NlaIV GGNNCC 3 cut(s) 407, 640, 956
PaeR7I CTCGAG 1 cut(s) 728
PagI TCATGA 2 cut(s) 205, 460
PdmI GAANNNNTTC 1 cut(s) 572
PfeI GAWTC 3 cut(s) 236, 450, 923
PfoI TCCNGGA 1 cut(s) 1210
PkrI GCNGC 1 cut(s) 519
PleI GAGTC 2 cut(s) 517, 1226
PpsI GAGTC 2 cut(s) 517, 1226
PpuMI RGGWCCY 1 cut(s) 406
Psp5II RGGWCCY 1 cut(s) 406
Psp6I CCWGG 2 cut(s) 22, 1210
PspGI CCWGG 2 cut(s) 22, 1210
PspN4I GGNNCC 3 cut(s) 407, 640, 956
PspPI GGNCC 2 cut(s) 406, 638
PspPPI RGGWCCY 1 cut(s) 406
PstNI CAGNNNCTG 1 cut(s) 199
RsaI GTAC 1 cut(s) 757
RsaNI GTAC 1 cut(s) 756
SaqAI TTAA 6 cut(s) 47, 123, 155, 251, 354, 1247
SatI GCNGC 1 cut(s) 518
Sau3AI GATC 2 cut(s) 964, 974
Sau96I GGNCC 2 cut(s) 406, 638
SchI GAGTC 2 cut(s) 518, 1227
ScrFI CCNGG 2 cut(s) 24, 1212
SduI GDGCHC 3 cut(s) 471, 957, 1063
SexAI ACCWGGT 1 cut(s) 22
SfaNI GCATC 3 cut(s) 178, 201, 1130
Sfr274I CTCGAG 1 cut(s) 728
SinI GGWCC 2 cut(s) 406, 638
SlaI CTCGAG 1 cut(s) 728
SmlI CTYRAG 4 cut(s) 434, 728, 815, 1163
SmoI CTYRAG 4 cut(s) 434, 728, 815, 1163
SpeI ACTAGT 1 cut(s) 1127
Sse9I AATT 7 cut(s) 322, 328, 348, 355, 396, 503, 1310
SspI AATATT 1 cut(s) 255
SspMI CTAG 4 cut(s) 9, 972, 1128, 1175
StyD4I CCNGG 2 cut(s) 22, 1210
StyI CCWWGG 1 cut(s) 852
TaaI ACNGT 4 cut(s) 56, 133, 201, 1292
TaiI ACGT 2 cut(s) 1262, 1335
TaqI TCGA 2 cut(s) 729, 1226
TasI AATT 7 cut(s) 322, 328, 348, 355, 396, 503, 1310
TfiI GAWTC 3 cut(s) 236, 450, 923
Tru1I TTAA 6 cut(s) 47, 123, 155, 251, 354, 1247
Tru9I TTAA 6 cut(s) 47, 123, 155, 251, 354, 1247
TscAI CASTG 2 cut(s) 1144, 1356
TseI GCWGC 1 cut(s) 517
TspDTI ATGAA 8 cut(s) 194, 299, 449, 565, 678, 765, 855, 918
TspGWI ACGGA 1 cut(s) 1341
TspRI CASTG 2 cut(s) 1144, 1356
VneI GTGCAC 1 cut(s) 1059
VpaK11BI GGWCC 2 cut(s) 406, 638
XapI RAATTY 4 cut(s) 322, 348, 503, 1310
XbaI TCTAGA 1 cut(s) 971
XhoI CTCGAG 1 cut(s) 728
XmnI GAANNNNTTC 1 cut(s) 572
XspI CTAG 4 cut(s) 9, 972, 1128, 1175
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.