RchiOBHm_Chr1g0354511

Transcription initiation factor TFIID subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
1
OG0000428
Physical Location & Seq
Reverse (-)
47448614 .. 47449852
1239 bp
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UTR
Exon/CDS
Intron
PRQ58005

Sequence Viewer

Length: 1239 bp
ATGAGTTTTCTCTCCAAGCAATGGGAAGGTGTTTTGTCCTCGGTCCCTATATTAGATTTCGATGAGGGTGATGAGAATGACAACAACCTGGTTCGACATAGGAAGTTCGTTGACAACATTTTGAAAAGGTCTTTGGAATTGTGTGAGAAAGAGAAGCAGAAACAACTGCTCGATAAATTCAGGCTTTGCATGACGAGGTACTTATCTGCAGACGCTACCGTAGTAAATAAGTGGTTGCGTTATTCAATGGAGAGAAGTGTGAAGGAGTTGGATATCAGCCTTAGGGTTGATAAATCCTATTGGCTTTGGGGTGGACTGAGAAGCTACTACTGCTTGTCTCGAAAGGCACTTGCCAATGCAAACAGCATAACTACTCTGAATTTGGAGTACATGAGAATAAAGAACATTAGCAGATTTGGCAGCAGTACTGCTAAGCCTATACGCCTTCTTCCCTCTTTGAAAGCTATGTCCCTTAAAAATGTGCACTTTGATACTAATGCTCTCTTGTACTTAACTGGAGAGTGCCCTTCCATGGAGTCTTTGTCACTAACTTCATGTTCCTTCGCAAATTTCGAAATTTGTGTTTCAAATTCCAGTCTCAGATCCTTTGGTGTTAAGCAGTGTAAGGCTGGTGAAATTCGAGTTTACGAAGCAGTGAATCTTGAATCACTTACTGTTGTTTCTTCGAGTTTTGAGCTCGAGAGTATGATCTTTAGAGAGTGCTACAATCTGAAATATATGAACATATTTGCTCGGCATTTGAAAGTGTTTCAGTTAGATGGATGCTATGATGTGAAAGCCACAATCAATGCCCCGAAGCTCTGCGATTTTAACTTCGAGGGTTATCTGAAGTCCGAATTTTCTTTGAAAGCTCCGAAGCTGTGGTCGGCCTCCATCCTACTATGGGACAATTGGGACGGAGAGTTTCTGAATTTCGACGGACCATGGAAACATCTTCCTAGATTGAGAGACTTTCTTGGAGAATTCAAAGCTACCAAAGGTATGACACTTCTCGTATCTCATTTCAAGGCACTCATCTTTCCGAAAGAATTCAGAGAGACCTTCTCTTCATCTTCACCAAAATTGCTTAATCTCAAAGTTCTTGATCTGGCGATGGAGAACGCCCCAACAAACATGAGAGACAAAAAACACTTGACGAACTCCTTACTTTGGATGGCGCCTACTCTACAGGAAATTAATCAATTAGAATACAATGAAGAGTTGGAAATGTATGAATAA

Protein Analysis

412

Amino Acids

47.73

Weight (kDa)

8.38

Isoelectric Point (pI)

44.12

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
LRR_At1g61320_AtMIF1 PF23622 59 - 225 2.7e-08 At1g61320/AtMIF1, LRR domain
LRR_At5g56370 PF24758 76 - 230 5.1e-13 FBD-associated F-box protein At5g56370, LRR repeats
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: OG0000428)

Species Orthologous Gene IDs
fragaria_vesca FvH4_1g09331 FvH4_1g09661 FvH4_1g21942 FvH4_2g05841 FvH4_2g06090 FvH4_3g02580 FvH4_3g02591 FvH4_6g51091 FvH4_7g18893 FvH4_7g20022 FvH4_7g20111
malus_domestica MD09G1117600.v1.1 MD17G1117300.v1.1 MD17G1286200.v1.1
prunus_persica Prupe.8G124500_v2.0.a1 Prupe.8G124700_v2.0.a1 Prupe.8G124700_v2.0.a1
pyrus_communis pycom17g10120
rosa_chinensis RchiOBHm_Chr1g0354511 RchiOBHm_Chr1g0360131 RchiOBHm_Chr1g0365181 RchiOBHm_Chr1g0365201 RchiOBHm_Chr2g0096151 RchiOBHm_Chr2g0113181 RchiOBHm_Chr6g0257131 RchiOBHm_Chr6g0257771 RchiOBHm_Chr6g0265441 RchiOBHm_Chr6g0265451 RchiOBHm_Chr6g0265471 RchiOBHm_Chr6g0265481
rosa_multiflora Rmu_co8204816.1_g000001 Rmu_co8281643.1_g000001 Rmu_sc0000146.1_g000019 Rmu_sc0000217.1_g000012 Rmu_sc0001530.1_g000020 Rmu_sc0003520.1_g000002 Rmu_sc0003983.1_g000008 Rmu_sc0004419.1_g000008 Rmu_sc0004448.1_g000035 Rmu_sc0004896.1_g000001 Rmu_sc0005996.1_g000016 Rmu_sc0006683.1_g000002 Rmu_sc0007813.1_g000006 Rmu_sc0008035.1_g000004 Rmu_sc0008490.1_g000002 Rmu_sc0008742.1_g000001 Rmu_sc0010908.1_g000002 Rmu_sc0010908.1_g000007 Rmu_sc0011315.1_g000015 Rmu_sc0013544.1_g000002 Rmu_sc0014962.1_g000001 Rmu_sc0015275.1_g000003 Rmu_sc0017847.1_g000006 Rmu_sc0024070.1_g000003 Rmu_sc0040696.1_g000001 Rmu_ssc0000066.1_g000007 Rmu_ssc0000368.1_g000042
rosa_roxburghii Rroxscaffold_175G00432410 Rroxscaffold_2G00129540 Rroxscaffold_2G00146070 Rroxscaffold_6G00430280 Rroxscaffold_7G00202650 Rroxscaffold_7G00208930
rosa_rugosa Rorug01G0302700 Rorug01G0302800 Rorug02G0116400 Rorug04G0099000 Rorug05G0568500 Rorug05G0575100
rosa_samantha Rh1CG237300 Rh1CG272100 Rh1CG307500 Rh2BG009200 Rh2DG103600 Rh2DG169700 Rh2DG169800 Rh2DG248200 Rh2DG609700 Rh3AG050300 Rh5AG024900 Rh5AG025400 Rh6AG092900 Rh6BG079600 Rh6BG083600 Rh6BG137900 Rh6BG138600 Rh6BG138900 Rh6BG139000 Rh6CG136100
rosa_wichuraiana Rw1G022220 Rw2G008030 Rw2G012930 Rw5G002340 Rw6G008000 Rw6G011990 Rw6G012000

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 1 cut(s) 1177
AccB7I CCANNNNNTGG 1 cut(s) 21
AclWI GGATC 1 cut(s) 597
AcuI CTGAAG 1 cut(s) 869
AcyI GRCGYC 1 cut(s) 1178
AfaI GTAC 4 cut(s) 200, 389, 427, 509
AfiI CCNNNNNNNGG 4 cut(s) 21, 532, 904, 1170
AgsI TTSAA 9 cut(s) 124, 246, 460, 588, 665, 763, 868, 988, 1027
AjnI CCWGG 1 cut(s) 87
AjuI GAANNNNNNNTTGG 2 cut(s) 116, 148
AluBI AGCT 7 cut(s) 324, 464, 697, 820, 872, 880, 992
AluI AGCT 7 cut(s) 324, 464, 697, 820, 872, 880, 992
Alw21I GWGCWC 2 cut(s) 486, 699
Alw26I GTCTC 5 cut(s) 342, 602, 963, 1052, 1134
Alw44I GTGCAC 1 cut(s) 482
AlwI GGATC 1 cut(s) 597
Ama87I CYCGRG 1 cut(s) 698
AoxI GGCC 1 cut(s) 888
ApaLI GTGCAC 1 cut(s) 482
ApeKI GCWGC 1 cut(s) 420
ArsI GACNNNNNNTTYG 2 cut(s) 869, 901
AseI ATTAAT 1 cut(s) 1197
Asp700I GAANNNNTTC 1 cut(s) 1049
AspLEI GCGC 1 cut(s) 1180
AspS9I GGNCC 2 cut(s) 43, 941
AsuHPI GGTGA 3 cut(s) 80, 644, 1068
AsuII TTCGAA 1 cut(s) 573
AvaI CYCGRG 1 cut(s) 698
AvaII GGWCC 2 cut(s) 43, 941
AxyI CCTNAGG 1 cut(s) 281
BaeGI GKGCMC 2 cut(s) 486, 527
BanI GGYRCC 1 cut(s) 1177
BanII GRGCYC 1 cut(s) 699
Bbv12I GWGCWC 2 cut(s) 486, 699
BbvI GCAGC 1 cut(s) 432
BccI CCATC 4 cut(s) 773, 902, 1108, 1168
BciT130I CCWGG 1 cut(s) 89
BcoDI GTCTC 5 cut(s) 342, 602, 963, 1052, 1134
BfaI CTAG 1 cut(s) 960
BfmI CTRYAG 2 cut(s) 207, 1187
BfoI RGCGCY 1 cut(s) 1181
BisI GCNGC 1 cut(s) 421
BlpI GCTNAGC 1 cut(s) 432
BlsI GCNGC 1 cut(s) 422
BmcAI AGTACT 1 cut(s) 427
Bme1390I CCNGG 1 cut(s) 89
Bme18I GGWCC 2 cut(s) 43, 941
BmeT110I CYCGRG 1 cut(s) 698
BmgT120I GGNCC 2 cut(s) 43, 941
BmiI GGNNCC 2 cut(s) 45, 1179
BmrFI CCNGG 1 cut(s) 89
BmsI GCATC 1 cut(s) 773
BplI GAGNNNNNCTC 2 cut(s) 1049, 1081
BpmI CTGGAG 1 cut(s) 537
Bpu1102I GCTNAGC 1 cut(s) 432
Bpu14I TTCGAA 1 cut(s) 573
BsaHI GRCGYC 1 cut(s) 1178
BsaI GGTCTC 1 cut(s) 1052
BsaJI CCNNGG 3 cut(s) 39, 531, 944
BsaXI ACNNNNNCTCC 2 cut(s) 527, 557
Bsc4I CCNNNNNNNGG 4 cut(s) 21, 532, 904, 1170
Bse1I ACTGG 2 cut(s) 520, 594
Bse21I CCTNAGG 1 cut(s) 281
Bse3DI GCAATG 1 cut(s) 26
BseBI CCWGG 1 cut(s) 89
BseDI CCNNGG 3 cut(s) 39, 531, 944
BseGI GGATG 3 cut(s) 788, 894, 1179
BseLI CCNNNNNNNGG 4 cut(s) 21, 532, 904, 1170
BseMI GCAATG 1 cut(s) 26
BseMII CTCAG 2 cut(s) 308, 613
BseNI ACTGG 2 cut(s) 520, 594
BseSI GKGCMC 2 cut(s) 486, 527
BseXI GCAGC 1 cut(s) 432
BshFI GGCC 1 cut(s) 890
BshNI GGYRCC 1 cut(s) 1177
BsiHKAI GWGCWC 2 cut(s) 486, 699
BsiHKCI CYCGRG 1 cut(s) 698
BslFI GGGAC 4 cut(s) 29, 454, 920, 929
BslI CCNNNNNNNGG 4 cut(s) 21, 532, 904, 1170
BsmAI GTCTC 5 cut(s) 342, 602, 963, 1052, 1134
BsmFI GGGAC 4 cut(s) 29, 454, 920, 929
BsnI GGCC 1 cut(s) 890
Bso31I GGTCTC 1 cut(s) 1052
BsoBI CYCGRG 1 cut(s) 698
Bsp119I TTCGAA 1 cut(s) 573
Bsp1286I GDGCHC 3 cut(s) 486, 527, 699
Bsp143I GATC 3 cut(s) 602, 708, 1105
Bsp1720I GCTNAGC 1 cut(s) 432
Bsp19I CCATGG 2 cut(s) 531, 944
BspANI GGCC 1 cut(s) 890
BspCNI CTCAG 2 cut(s) 309, 612
BspLI GGNNCC 2 cut(s) 45, 1179
BspMAI CTGCAG 1 cut(s) 211
BspPI GGATC 1 cut(s) 597
BspT104I TTCGAA 1 cut(s) 573
BspT107I GGYRCC 1 cut(s) 1177
BspTNI GGTCTC 1 cut(s) 1052
BsrDI GCAATG 1 cut(s) 26
BsrI ACTGG 2 cut(s) 520, 594
BssECI CCNNGG 3 cut(s) 39, 531, 944
BssMI GATC 3 cut(s) 602, 708, 1105
BssNI GRCGYC 1 cut(s) 1178
BssT1I CCWWGG 2 cut(s) 531, 944
Bst2UI CCWGG 1 cut(s) 89
Bst4CI ACNGT 2 cut(s) 220, 676
Bst6I CTCTTC 2 cut(s) 1072, 1212
BstACI GRCGYC 1 cut(s) 1178
BstBI TTCGAA 1 cut(s) 573
BstDEI CTNAG 4 cut(s) 281, 317, 432, 599
BstDSI CCRYGG 2 cut(s) 531, 944
BstF5I GGATG 3 cut(s) 788, 894, 1179
BstH2I RGCGCY 1 cut(s) 1181
BstHHI GCGC 1 cut(s) 1180
BstKTI GATC 3 cut(s) 605, 711, 1108
BstMAI GTCTC 5 cut(s) 342, 602, 963, 1052, 1134
BstMBI GATC 3 cut(s) 602, 708, 1105
BstMWI GCNNNNNNNGC 2 cut(s) 330, 417
BstNI CCWGG 1 cut(s) 89
BstSCI CCNGG 1 cut(s) 87
BstSFI CTRYAG 2 cut(s) 207, 1187
BstSLI GKGCMC 2 cut(s) 486, 527
BstV1I GCAGC 1 cut(s) 432
BstX2I RGATCY 1 cut(s) 602
BstYI RGATCY 1 cut(s) 602
Bsu36I CCTNAGG 1 cut(s) 281
BsuRI GGCC 1 cut(s) 890
BtgI CCRYGG 2 cut(s) 531, 944
BtgZI GCGATG 1 cut(s) 1127
BtsCI GGATG 3 cut(s) 788, 894, 1179
BtsI GCAGTG 2 cut(s) 626, 660
BtsIMutI CAGTG 2 cut(s) 626, 660
CfoI GCGC 1 cut(s) 1180
Cfr13I GGNCC 2 cut(s) 43, 941
CseI GACGC 1 cut(s) 221
CsiI ACCWGGT 1 cut(s) 87
Csp6I GTAC 4 cut(s) 199, 388, 426, 508
CviAII CATG 6 cut(s) 190, 391, 532, 555, 945, 1135
CviQI GTAC 4 cut(s) 199, 388, 426, 508
DdeI CTNAG 4 cut(s) 281, 317, 432, 599
DinI GGCGCC 1 cut(s) 1179
DpnI GATC 3 cut(s) 604, 710, 1107
DpnII GATC 3 cut(s) 602, 708, 1105
Eam1104I CTCTTC 2 cut(s) 1072, 1212
EarI CTCTTC 2 cut(s) 1072, 1212
Ecl136II GAGCTC 1 cut(s) 697
Eco130I CCWWGG 2 cut(s) 531, 944
Eco24I GRGCYC 1 cut(s) 699
Eco31I GGTCTC 1 cut(s) 1052
Eco32I GATATC 1 cut(s) 274
Eco47I GGWCC 2 cut(s) 43, 941
Eco53kI GAGCTC 1 cut(s) 697
Eco57I CTGAAG 1 cut(s) 869
Eco81I CCTNAGG 1 cut(s) 281
Eco88I CYCGRG 1 cut(s) 698
EcoICRI GAGCTC 1 cut(s) 697
EcoRI GAATTC 2 cut(s) 983, 1049
EcoRII CCWGG 1 cut(s) 87
EcoRV GATATC 1 cut(s) 274
EcoT14I CCWWGG 2 cut(s) 531, 944
EcoT38I GRGCYC 1 cut(s) 699
EgeI GGCGCC 1 cut(s) 1179
EheI GGCGCC 1 cut(s) 1179
ErhI CCWWGG 2 cut(s) 531, 944
FaeI CATG 6 cut(s) 193, 394, 535, 558, 948, 1138
FaqI GGGAC 4 cut(s) 29, 454, 920, 929
FatI CATG 6 cut(s) 189, 390, 531, 554, 944, 1134
Fnu4HI GCNGC 1 cut(s) 421
FokI GGATG 3 cut(s) 795, 881, 1186
FriOI GRGCYC 1 cut(s) 699
Fsp4HI GCNGC 1 cut(s) 421
FspBI CTAG 1 cut(s) 960
GlaI GCGC 1 cut(s) 1179
GluI GCNGC 1 cut(s) 421
GsuI CTGGAG 1 cut(s) 537
HaeII RGCGCY 1 cut(s) 1181
HaeIII GGCC 1 cut(s) 890
HgaI GACGC 1 cut(s) 221
HhaI GCGC 1 cut(s) 1180
Hin1I GRCGYC 1 cut(s) 1178
Hin1II CATG 6 cut(s) 193, 394, 535, 558, 948, 1138
Hin6I GCGC 1 cut(s) 1178
HinP1I GCGC 1 cut(s) 1178
HincII GTYRAC 1 cut(s) 112
HindII GTYRAC 1 cut(s) 112
HinfI GANTC 3 cut(s) 536, 658, 665
HphI GGTGA 3 cut(s) 80, 644, 1068
Hpy166II GTNNAC 4 cut(s) 112, 314, 484, 646
Hpy188I TCNGA 9 cut(s) 378, 602, 732, 849, 856, 876, 930, 1044, 1055
Hpy188III TCNNGA 4 cut(s) 339, 662, 700, 1103
Hpy8I GTNNAC 4 cut(s) 112, 314, 484, 646
Hpy99I CGWCG 1 cut(s) 941
HpyAV CCTTC 6 cut(s) 20, 256, 455, 537, 571, 1072
HpyCH4III ACNGT 2 cut(s) 220, 676
HpyCH4V TGCA 4 cut(s) 189, 209, 359, 484
HpyF10VI GCNNNNNNNGC 2 cut(s) 330, 417
HpyF3I CTNAG 4 cut(s) 281, 317, 432, 599
Hsp92I GRCGYC 1 cut(s) 1178
Hsp92II CATG 6 cut(s) 193, 394, 535, 558, 948, 1138
HspAI GCGC 1 cut(s) 1178
KasI GGCGCC 1 cut(s) 1177
Kzo9I GATC 3 cut(s) 602, 708, 1105
LmnI GCTCC 1 cut(s) 877
LpnPI CCDG 8 cut(s) 74, 101, 166, 501, 607, 615, 1094, 1175
Lsp1109I GCAGC 1 cut(s) 432
LweI GCATC 1 cut(s) 773
MabI ACCWGGT 1 cut(s) 87
MaeI CTAG 1 cut(s) 960
MaeIII GTNAC 1 cut(s) 543
MalI GATC 3 cut(s) 604, 710, 1107
MboI GATC 3 cut(s) 602, 708, 1105
MboII GAAGA 6 cut(s) 440, 675, 947, 1059, 1065, 1229
MfeI CAATTG 1 cut(s) 910
MflI RGATCY 1 cut(s) 602
MhlI GDGCHC 3 cut(s) 486, 527, 699
Mly113I GGCGCC 1 cut(s) 1178
MlyI GAGTC 1 cut(s) 545
MmeI TCCRAC 2 cut(s) 249, 1203
MnlI CCTC 6 cut(s) 49, 58, 189, 463, 832, 901
MroXI GAANNNNTTC 1 cut(s) 1049
MseI TTAA 6 cut(s) 474, 512, 615, 831, 1089, 1197
MspR9I CCNGG 1 cut(s) 89
MunI CAATTG 1 cut(s) 910
MvaI CCWGG 1 cut(s) 89
MwoI GCNNNNNNNGC 2 cut(s) 330, 417
NarI GGCGCC 1 cut(s) 1178
NcoI CCATGG 2 cut(s) 531, 944
NdeII GATC 3 cut(s) 602, 708, 1105
NlaIII CATG 6 cut(s) 193, 394, 535, 558, 948, 1138
NlaIV GGNNCC 2 cut(s) 45, 1179
NmeAIII GCCGAG 1 cut(s) 733
NmuCI GTSAC 1 cut(s) 543
NspV TTCGAA 1 cut(s) 573
PaeR7I CTCGAG 1 cut(s) 698
PcsI WCGNNNNNNNCGW 1 cut(s) 570
PdmI GAANNNNTTC 1 cut(s) 1049
PfeI GAWTC 2 cut(s) 658, 665
PflMI CCANNNNNTGG 1 cut(s) 21
PkrI GCNGC 1 cut(s) 422
PleI GAGTC 1 cut(s) 544
PluTI GGCGCC 1 cut(s) 1181
PpsI GAGTC 1 cut(s) 544
PshBI ATTAAT 1 cut(s) 1197
Psp124BI GAGCTC 1 cut(s) 699
Psp6I CCWGG 1 cut(s) 87
PspGI CCWGG 1 cut(s) 87
PspN4I GGNNCC 2 cut(s) 45, 1179
PspPI GGNCC 2 cut(s) 43, 941
PstI CTGCAG 1 cut(s) 211
PsuI RGATCY 1 cut(s) 602
RsaI GTAC 4 cut(s) 200, 389, 427, 509
RsaNI GTAC 4 cut(s) 199, 388, 426, 508
SacI GAGCTC 1 cut(s) 699
SaqAI TTAA 6 cut(s) 474, 512, 615, 831, 1089, 1197
SatI GCNGC 1 cut(s) 421
Sau3AI GATC 3 cut(s) 602, 708, 1105
Sau96I GGNCC 2 cut(s) 43, 941
ScaI AGTACT 1 cut(s) 427
SchI GAGTC 1 cut(s) 545
ScrFI CCNGG 1 cut(s) 89
SduI GDGCHC 3 cut(s) 486, 527, 699
SexAI ACCWGGT 1 cut(s) 87
SfaNI GCATC 1 cut(s) 773
SfcI CTRYAG 2 cut(s) 207, 1187
SfoI GGCGCC 1 cut(s) 1179
Sfr274I CTCGAG 1 cut(s) 698
SfuI TTCGAA 1 cut(s) 573
SinI GGWCC 2 cut(s) 43, 941
SlaI CTCGAG 1 cut(s) 698
SmlI CTYRAG 1 cut(s) 698
SmoI CTYRAG 1 cut(s) 698
SspDI GGCGCC 1 cut(s) 1177
SspMI CTAG 1 cut(s) 960
SstI GAGCTC 1 cut(s) 699
StyD4I CCNGG 1 cut(s) 87
StyI CCWWGG 2 cut(s) 531, 944
TaaI ACNGT 2 cut(s) 220, 676
TaqII GACCGA 1 cut(s) 31
TatI WGTACW 3 cut(s) 387, 425, 507
TfiI GAWTC 2 cut(s) 658, 665
Tru1I TTAA 6 cut(s) 474, 512, 615, 831, 1089, 1197
Tru9I TTAA 6 cut(s) 474, 512, 615, 831, 1089, 1197
TscAI CASTG 2 cut(s) 626, 660
TseFI GTSAC 1 cut(s) 543
TseI GCWGC 1 cut(s) 420
Tsp45I GTSAC 1 cut(s) 543
TspDTI ATGAA 4 cut(s) 543, 755, 1059, 1230
TspGWI ACGGA 2 cut(s) 933, 954
TspRI CASTG 2 cut(s) 626, 660
Van91I CCANNNNNTGG 1 cut(s) 21
VneI GTGCAC 1 cut(s) 482
VpaK11BI GGWCC 2 cut(s) 43, 941
VspI ATTAAT 1 cut(s) 1197
XhoI CTCGAG 1 cut(s) 698
XmnI GAANNNNTTC 1 cut(s) 1049
XspI CTAG 1 cut(s) 960
ZrmI AGTACT 1 cut(s) 427
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.