Rh1DG313000

General transcription factor IIF subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr1D
OG0013034
Physical Location & Seq
Reverse (-)
54008082 .. 54011503
3422 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh1DG313000.1

Sequence Viewer

Length: 669 bp
ATGGAAGACCAAAAACCACAACGAACCAGTGGCACTAGTAATAGTGGTGCCAACAGCAACAAAAATTTGAGGGGGCATTTGGAGACGAGCAAAGCAGCGGAGCCAGTGTGGCTTATGAAATGCCCTCCCAACGTCGCCAAATCGTTTAAGCCTGACGCCGCCGGCGATGGCTCCGTCGCCGCAGAGGAGCCTTGTCCTTCCGGCCCTGTCGCCAAGGTCATCCTCTCCCTTGACCCTCTCAACTCCAATAACGAACCTAAGGTACCCCCACGACGACGACGAAAGTTATCTGTGGAGGGGAAAATCTTCAACAAATTTGACATGAAGCCCCATGATGAGAATCTTGAGAATTATGGGAAACTTTGCCGTGAACGAACAAAAAAGCATATGAAAAGTAGAAAGATTCAGGTGATCGACAATGACAATGGGGCACATATGAGGCCTATGCCAGGGATGATTGGTTTTGTGGCTCCTGGACCCAGTGACAAGAAGAAAGCACCAACTAAGGGATCAGAAATGAAGAGAACAAGGAGGGACCGTGGAGAAATGGAACATATTATGTTTAAGCTCTTTGAAAGGCAACCTAATTGGACTTTAAGACAATTGATCCAAGAGACAGATCAACCCGAAGTATGTTTTCTGCTCATTTACTTTCTGCTTAACTTTTAG
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

222

Amino Acids

25.17

Weight (kDa)

9.65

Isoelectric Point (pI)

39.81

Instability Index
Protein Domains (Pfam)
No Pfam domains detected for this protein.
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)
Acc65I GGTACC 1 cut(s) 262
AccB1I GGYRCC 2 cut(s) 47, 262
AciI CCGC 3 cut(s) 98, 159, 180
AclWI GGATC 2 cut(s) 517, 601
AcsI RAATTY 2 cut(s) 64, 314
AcyI GRCGYC 1 cut(s) 156
AfaI GTAC 1 cut(s) 264
AfiI CCNNNNNNNGG 2 cut(s) 449, 506
AgsI TTSAA 2 cut(s) 310, 575
AhlI ACTAGT 1 cut(s) 35
AjnI CCWGG 2 cut(s) 448, 472
AluBI AGCT 1 cut(s) 568
AluI AGCT 1 cut(s) 568
Alw26I GTCTC 2 cut(s) 77, 608
AlwI GGATC 2 cut(s) 517, 601
AoxI GGCC 2 cut(s) 202, 440
ApeKI GCWGC 1 cut(s) 95
ApoI RAATTY 2 cut(s) 64, 314
Asp700I GAANNNNTTC 1 cut(s) 305
Asp718I GGTACC 1 cut(s) 262
AspS9I GGNCC 3 cut(s) 203, 476, 535
AsuHPI GGTGA 1 cut(s) 421
AvaII GGWCC 2 cut(s) 476, 535
AxyI CCTNAGG 1 cut(s) 258
BaeGI GKGCMC 1 cut(s) 433
BanI GGYRCC 2 cut(s) 47, 262
BbsI GAAGAC 1 cut(s) 12
BbvI GCAGC 1 cut(s) 107
BccI CCATC 1 cut(s) 161
BceAI ACGGC 1 cut(s) 351
BciT130I CCWGG 2 cut(s) 450, 474
BcoDI GTCTC 2 cut(s) 77, 608
BcuI ACTAGT 1 cut(s) 35
BfaI CTAG 1 cut(s) 36
BglI GCCNNNNNGGC 1 cut(s) 109
BisI GCNGC 3 cut(s) 96, 159, 180
BlsI GCNGC 3 cut(s) 97, 160, 181
Bme1390I CCNGG 2 cut(s) 450, 474
Bme18I GGWCC 2 cut(s) 476, 535
BmgT120I GGNCC 3 cut(s) 203, 476, 535
BmiI GGNNCC 8 cut(s) 49, 102, 172, 189, 264, 471, 478, 536
BmrFI CCNGG 2 cut(s) 450, 474
BmrI ACTGGG 1 cut(s) 474
BmuI ACTGGG 1 cut(s) 474
BpiI GAAGAC 1 cut(s) 12
BpuEI CTTGAG 1 cut(s) 365
BsaBI GATNNNNATC 1 cut(s) 339
BsaHI GRCGYC 1 cut(s) 156
BsaJI CCNNGG 3 cut(s) 213, 449, 538
BsaXI ACNNNNNCTCC 4 cut(s) 92, 122, 523, 553
Bsc4I CCNNNNNNNGG 2 cut(s) 449, 506
Bse118I RCCGGY 1 cut(s) 161
Bse1I ACTGG 3 cut(s) 27, 104, 480
Bse21I CCTNAGG 1 cut(s) 258
Bse8I GATNNNNATC 1 cut(s) 339
BseBI CCWGG 2 cut(s) 450, 474
BseDI CCNNGG 3 cut(s) 213, 449, 538
BseGI GGATG 2 cut(s) 219, 459
BseJI GATNNNNATC 1 cut(s) 339
BseLI CCNNNNNNNGG 2 cut(s) 449, 506
BseNI ACTGG 3 cut(s) 27, 104, 480
BseRI GAGGAG 1 cut(s) 200
BseSI GKGCMC 1 cut(s) 433
BseXI GCAGC 1 cut(s) 107
BshFI GGCC 2 cut(s) 204, 442
BshNI GGYRCC 2 cut(s) 47, 262
BsiSI CCGG 2 cut(s) 162, 201
BslFI GGGAC 1 cut(s) 548
BslI CCNNNNNNNGG 2 cut(s) 449, 506
BsmAI GTCTC 2 cut(s) 77, 608
BsmBI CGTCTC 1 cut(s) 77
BsmFI GGGAC 1 cut(s) 548
BsnI GGCC 2 cut(s) 204, 442
Bsp1286I GDGCHC 1 cut(s) 433
Bsp143I GATC 4 cut(s) 411, 509, 606, 619
BspACI CCGC 3 cut(s) 98, 159, 180
BspANI GGCC 2 cut(s) 204, 442
BspLI GGNNCC 8 cut(s) 49, 102, 172, 189, 264, 471, 478, 536
BspPI GGATC 2 cut(s) 517, 601
BspT107I GGYRCC 2 cut(s) 47, 262
BsrFI RCCGGY 1 cut(s) 161
BsrI ACTGG 3 cut(s) 27, 104, 480
BssAI RCCGGY 1 cut(s) 161
BssECI CCNNGG 3 cut(s) 213, 449, 538
BssMI GATC 4 cut(s) 411, 509, 606, 619
BssNI GRCGYC 1 cut(s) 156
BssT1I CCWWGG 1 cut(s) 213
Bst2UI CCWGG 2 cut(s) 450, 474
Bst4CI ACNGT 1 cut(s) 539
Bst6I CTCTTC 1 cut(s) 515
BstACI GRCGYC 1 cut(s) 156
BstC8I GCNNGC 1 cut(s) 163
BstDEI CTNAG 2 cut(s) 258, 504
BstDSI CCRYGG 1 cut(s) 538
BstENI CCTNNNNNAGG 1 cut(s) 447
BstF5I GGATG 2 cut(s) 219, 459
BstKTI GATC 4 cut(s) 414, 512, 609, 622
BstMAI GTCTC 2 cut(s) 77, 608
BstMBI GATC 4 cut(s) 411, 509, 606, 619
BstMWI GCNNNNNNNGC 1 cut(s) 109
BstNI CCWGG 2 cut(s) 450, 474
BstSCI CCNGG 2 cut(s) 448, 472
BstSLI GKGCMC 1 cut(s) 433
BstV1I GCAGC 1 cut(s) 107
BstV2I GAAGAC 1 cut(s) 12
Bsu36I CCTNAGG 1 cut(s) 258
BsuRI GGCC 2 cut(s) 204, 442
BtgI CCRYGG 1 cut(s) 538
BtgZI GCGATG 1 cut(s) 180
BtsCI GGATG 2 cut(s) 219, 459
BtsIMutI CAGTG 3 cut(s) 34, 111, 487
Cac8I GCNNGC 1 cut(s) 163
Cfr10I RCCGGY 1 cut(s) 161
Cfr13I GGNCC 3 cut(s) 203, 476, 535
CseI GACGC 1 cut(s) 164
Csp6I GTAC 1 cut(s) 263
CviAII CATG 2 cut(s) 322, 332
CviQI GTAC 1 cut(s) 263
DdeI CTNAG 2 cut(s) 258, 504
DpnI GATC 4 cut(s) 413, 511, 608, 621
DpnII GATC 4 cut(s) 411, 509, 606, 619
Eam1104I CTCTTC 1 cut(s) 515
EarI CTCTTC 1 cut(s) 515
Eco130I CCWWGG 1 cut(s) 213
Eco147I AGGCCT 1 cut(s) 442
Eco47I GGWCC 2 cut(s) 476, 535
Eco81I CCTNAGG 1 cut(s) 258
EcoNI CCTNNNNNAGG 1 cut(s) 447
EcoRII CCWGG 2 cut(s) 448, 472
EcoT14I CCWWGG 1 cut(s) 213
ErhI CCWWGG 1 cut(s) 213
Esp3I CGTCTC 1 cut(s) 77
FaeI CATG 2 cut(s) 325, 335
FaqI GGGAC 1 cut(s) 548
FatI CATG 2 cut(s) 321, 331
FauNDI CATATG 2 cut(s) 387, 435
Fnu4HI GCNGC 3 cut(s) 96, 159, 180
FokI GGATG 2 cut(s) 206, 466
Fsp4HI GCNGC 3 cut(s) 96, 159, 180
FspBI CTAG 1 cut(s) 36
GluI GCNGC 3 cut(s) 96, 159, 180
HaeIII GGCC 2 cut(s) 204, 442
HapII CCGG 2 cut(s) 162, 201
HgaI GACGC 1 cut(s) 164
Hin1I GRCGYC 1 cut(s) 156
Hin1II CATG 2 cut(s) 325, 335
HinfI GANTC 2 cut(s) 340, 403
HpaII CCGG 2 cut(s) 162, 201
HphI GGTGA 1 cut(s) 421
Hpy166II GTNNAC 1 cut(s) 371
Hpy188I TCNGA 1 cut(s) 514
Hpy188III TCNNGA 1 cut(s) 344
Hpy8I GTNNAC 1 cut(s) 371
Hpy99I CGWCG 5 cut(s) 137, 179, 276, 279, 282
HpyAV CCTTC 1 cut(s) 207
HpyCH4III ACNGT 1 cut(s) 539
HpyCH4IV ACGT 1 cut(s) 132
HpyF10VI GCNNNNNNNGC 1 cut(s) 109
HpyF3I CTNAG 2 cut(s) 258, 504
HpySE526I ACGT 1 cut(s) 132
Hsp92I GRCGYC 1 cut(s) 156
Hsp92II CATG 2 cut(s) 325, 335
KpnI GGTACC 1 cut(s) 266
KroI GCCGGC 1 cut(s) 161
KroNI GCCGGC 1 cut(s) 163
Kzo9I GATC 4 cut(s) 411, 509, 606, 619
LmnI GCTCC 4 cut(s) 100, 176, 187, 475
Lsp1109I GCAGC 1 cut(s) 107
MaeI CTAG 1 cut(s) 36
MaeII ACGT 1 cut(s) 132
MaeIII GTNAC 1 cut(s) 482
MalI GATC 4 cut(s) 413, 511, 608, 621
MboI GATC 4 cut(s) 411, 509, 606, 619
MboII GAAGA 4 cut(s) 17, 298, 502, 532
MfeI CAATTG 1 cut(s) 602
MhlI GDGCHC 1 cut(s) 433
MluCI AATT 5 cut(s) 64, 314, 349, 586, 602
MnlI CCTC 8 cut(s) 63, 135, 178, 233, 246, 289, 432, 525
MreI CGCCGGCG 1 cut(s) 161
MroNI GCCGGC 1 cut(s) 161
MroXI GAANNNNTTC 1 cut(s) 305
MseI TTAA 4 cut(s) 147, 564, 596, 660
MspA1I CMGCKG 1 cut(s) 98
MspI CCGG 2 cut(s) 162, 201
MspR9I CCNGG 2 cut(s) 450, 474
MunI CAATTG 1 cut(s) 602
MvaI CCWGG 2 cut(s) 450, 474
MwoI GCNNNNNNNGC 1 cut(s) 109
NaeI GCCGGC 1 cut(s) 163
NdeI CATATG 2 cut(s) 387, 435
NdeII GATC 4 cut(s) 411, 509, 606, 619
NgoMIV GCCGGC 1 cut(s) 161
NlaIII CATG 2 cut(s) 325, 335
NlaIV GGNNCC 8 cut(s) 49, 102, 172, 189, 264, 471, 478, 536
NmuCI GTSAC 1 cut(s) 482
PceI AGGCCT 1 cut(s) 442
PcsI WCGNNNNNNNCGW 2 cut(s) 162, 277
PdiI GCCGGC 1 cut(s) 163
PdmI GAANNNNTTC 1 cut(s) 305
PfeI GAWTC 2 cut(s) 340, 403
PfoI TCCNGGA 1 cut(s) 472
PkrI GCNGC 3 cut(s) 97, 160, 181
Psp6I CCWGG 2 cut(s) 448, 472
PspGI CCWGG 2 cut(s) 448, 472
PspN4I GGNNCC 8 cut(s) 49, 102, 172, 189, 264, 471, 478, 536
PspPI GGNCC 3 cut(s) 203, 476, 535
PsrI GAACNNNNNNTAC 2 cut(s) 246, 278
RsaI GTAC 1 cut(s) 264
RsaNI GTAC 1 cut(s) 263
SaqAI TTAA 4 cut(s) 147, 564, 596, 660
SatI GCNGC 3 cut(s) 96, 159, 180
Sau3AI GATC 4 cut(s) 411, 509, 606, 619
Sau96I GGNCC 3 cut(s) 203, 476, 535
ScrFI CCNGG 2 cut(s) 450, 474
SduI GDGCHC 1 cut(s) 433
SetI ASST 7 cut(s) 135, 219, 259, 264, 411, 570, 586
SgrAI CRCCGGYG 1 cut(s) 161
SinI GGWCC 2 cut(s) 476, 535
SmlI CTYRAG 1 cut(s) 344
SmoI CTYRAG 1 cut(s) 344
SpeI ACTAGT 1 cut(s) 35
Sse9I AATT 5 cut(s) 64, 314, 349, 586, 602
SseBI AGGCCT 1 cut(s) 442
SsiI CCGC 3 cut(s) 98, 159, 180
SspMI CTAG 1 cut(s) 36
StuI AGGCCT 1 cut(s) 442
StyD4I CCNGG 2 cut(s) 448, 472
StyI CCWWGG 1 cut(s) 213
TaaI ACNGT 1 cut(s) 539
TaiI ACGT 1 cut(s) 135
TaqI TCGA 1 cut(s) 414
TasI AATT 5 cut(s) 64, 314, 349, 586, 602
TauI GCSGC 2 cut(s) 161, 182
TfiI GAWTC 2 cut(s) 340, 403
Tru1I TTAA 4 cut(s) 147, 564, 596, 660
Tru9I TTAA 4 cut(s) 147, 564, 596, 660
TscAI CASTG 3 cut(s) 34, 111, 487
TseFI GTSAC 1 cut(s) 482
TseI GCWGC 1 cut(s) 95
Tsp45I GTSAC 1 cut(s) 482
TspDTI ATGAA 4 cut(s) 131, 338, 404, 533
TspGWI ACGGA 1 cut(s) 163
TspRI CASTG 3 cut(s) 34, 111, 487
VpaK11BI GGWCC 2 cut(s) 476, 535
XagI CCTNNNNNAGG 1 cut(s) 447
XapI RAATTY 2 cut(s) 64, 314
XmnI GAANNNNTTC 1 cut(s) 305
XspI CTAG 1 cut(s) 36
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.