Rroxscaffold_2G00085690

Transcription initiation factor TFIID subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000002
OG0009894
Physical Location & Seq
Forward (+)
7975133 .. 7977204
2072 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_2G00085690.1

Sequence Viewer

Length: 1140 bp
ATGAGCGATGGAGGTGGGGAGAGTGGAAGAGAGCATGAGCAATCCAATAGAGCACTAAGAAAATCAAGCGGTGGTGGTGATGATTTTGCACGAGCTATTTCGAAGATTGCAGTAGCGCAAGTATGTGAGATAGTGGGGTTTCAGACTTTCCAGTTGTCTGCTCTTGAAACACTGTCGGATGTTGCGGTTCAGTACATTTGTAACGTTGGAAAGACAGCACATTTTTATGCAAATTTATCTGGCAGAACGGATTGTAATGTTTTGGATATCATTCAAGGGTTGGAAGATTTGAGCGTGGCTCAGGGGTTTGCAGGCGCTTCAGATATTAATCATTGTCTCACAAGTTCAGGGACGATTAAGGAAATTTCTCAGTATGTTGCCGAAACTGAGCATGTTCCATTTGCCTACTCTACTCCTCAATTCCCAGTTATTAAGGACCGGAAGCTGACTCCAAGTTTTTGGCAAAGCAGGGAAGAGACTCCTGGAGAGCATATACCTACTTGGTTGCCTGCATTTCCAGAACCACATACGTATTCCCAATCAACTACATGCAATGAGAGAGCCACAGAACCTGACAGTGCTATAGTTGAGCAGGAAAAACAACACAGAAATGTGGAGCGGGCCATGCTGAATTTTCAGCGTAGGCTAGTCTGTAATGGGATGGAAGGACCCTCTGTTGACCCTGGGGATGTTGAAAAGGCGAAACAAGCAAGAGAGAGTAACCCATTTCTTGCTACACCTCTGCAATTTGGGGAGACAGAAGTATCTCAGGTTACTCTTCCAGCTAAACTGTCAATCGAAGCAACAGAGGAAAATCTTAAGGCTGAGAACCATGTCAAGGATAAATGTTCTTCAGTGCTGGAGACCTTTGCCCCAGCCATTGAAGCAATCAAGAACAAATCGTTTGAATTGGAGGAGGATCAAAAGATTCTTTCGAGCAGGAAACCCCCTGTGCAATTTAAGATTGGGATTTCAAAGAAGTCCTTAGGTGCTATGTTACATTCAGGGCCGCATAAGAAGGGTTTTGAGGAAGTGTATCCCTGGTTCGGGAGAGAAAATGAAAAGGATGAAAAGAAAAGGAGGGCCGAAAAAATTCTGAAGAACTCCATGGAAAACTCACAGGAGCTTGCTCAGTTGTAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko03022 map03022
Pfam Domains
Protein Families
Bromo_TP TAF8_C

Protein Analysis

379

Amino Acids

42.03

Weight (kDa)

5.52

Isoelectric Point (pI)

46.32

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Bromo_TP PF07524 28 - 99 4.8e-19 Bromodomain associated
TAF8_C PF10406 164 - 212 2.6e-12 Transcription factor TFIID complex subunit 8 C-term
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: OG0009894)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G02160 AT3G02160 AT5G15570
fragaria_vesca FvH4_6g46720 FvH4_6g46720
malus_domestica MD09G1068300.v1.1 MD17G1061200.v1.1
prunus_persica Prupe.3G252500_v2.0.a1
pyrus_communis pycom12433g00130 pycom17g06110
rosa_chinensis RchiOBHm_Chr2g0165611
rosa_laevigata RLG00000021543
rosa_multiflora Rmu_co8454451.1_g000001
rosa_roxburghii Rroxscaffold_2G00085690
rosa_rugosa Rorug02G0516400
rosa_samantha Rh2AG582700 Rh2BG594800 Rh2CG564600 Rh2DG604600
rosa_wichuraiana Rw0G016050 Rw2G048600

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccBSI CCGCTC 1 cut(s) 619
AciI CCGC 4 cut(s) 69, 185, 619, 1010
AclI AACGTT 1 cut(s) 204
AclWI GGATC 1 cut(s) 927
AcsI RAATTY 4 cut(s) 232, 363, 631, 1092
AcuI CTGAAG 3 cut(s) 303, 837, 1118
AfaI GTAC 1 cut(s) 194
AfiI CCNNNNNNNGG 3 cut(s) 838, 1046, 1047
AflII CTTAAG 1 cut(s) 818
AgsI TTSAA 6 cut(s) 167, 275, 695, 884, 908, 975
AjnI CCWGG 3 cut(s) 481, 682, 1040
AluBI AGCT 4 cut(s) 95, 445, 785, 1126
AluI AGCT 4 cut(s) 95, 445, 785, 1126
Alw21I GWGCWC 1 cut(s) 55
Alw26I GTCTC 4 cut(s) 341, 470, 749, 857
AlwI GGATC 1 cut(s) 927
AlwNI CAGNNNCTG 1 cut(s) 572
AoxI GGCC 3 cut(s) 621, 1007, 1083
ApoI RAATTY 4 cut(s) 232, 363, 631, 1092
AseI ATTAAT 1 cut(s) 327
Asp700I GAANNNNTTC 1 cut(s) 1092
AspLEI GCGC 2 cut(s) 118, 317
AspS9I GGNCC 5 cut(s) 436, 621, 668, 1007, 1083
AsuHPI GGTGA 1 cut(s) 89
AsuII TTCGAA 1 cut(s) 101
AvaII GGWCC 2 cut(s) 436, 668
AxyI CCTNAGG 1 cut(s) 985
BaeI ACNNNNGTAYC 2 cut(s) 747, 780
BauI CACGAG 1 cut(s) 90
Bbv12I GWGCWC 1 cut(s) 55
BccI CCATC 2 cut(s) 2, 655
BciT130I CCWGG 3 cut(s) 483, 684, 1042
BciVI GTATCC 1 cut(s) 1047
BcoDI GTCTC 4 cut(s) 341, 470, 749, 857
BfaI CTAG 1 cut(s) 647
BfmI CTRYAG 1 cut(s) 582
BfoI RGCGCY 1 cut(s) 318
BfrI CTTAAG 1 cut(s) 818
BfuI GTATCC 1 cut(s) 1047
BisI GCNGC 1 cut(s) 1010
BlsI GCNGC 1 cut(s) 1011
Bme1390I CCNGG 3 cut(s) 483, 684, 1042
Bme18I GGWCC 2 cut(s) 436, 668
BmgT120I GGNCC 5 cut(s) 436, 621, 668, 1007, 1083
BmiI GGNNCC 1 cut(s) 670
BmrFI CCNGG 3 cut(s) 483, 684, 1042
BmrI ACTGGG 1 cut(s) 419
BmuI ACTGGG 1 cut(s) 419
BplI GAGNNNNNCTC 2 cut(s) 283, 315
BpmI CTGGAG 2 cut(s) 504, 881
Bpu10I CCTNAGC 1 cut(s) 300
Bpu14I TTCGAA 1 cut(s) 101
BsaAI YACGTR 1 cut(s) 531
BsaBI GATNNNNATC 1 cut(s) 327
BsaI GGTCTC 1 cut(s) 857
BsaJI CCNNGG 4 cut(s) 682, 683, 1040, 1107
BsaWI WCCGGW 1 cut(s) 438
Bsc4I CCNNNNNNNGG 3 cut(s) 838, 1046, 1047
Bse1I ACTGG 2 cut(s) 151, 425
Bse21I CCTNAGG 1 cut(s) 985
Bse3DI GCAATG 1 cut(s) 559
Bse8I GATNNNNATC 1 cut(s) 327
BseBI CCWGG 3 cut(s) 483, 684, 1042
BseDI CCNNGG 4 cut(s) 682, 683, 1040, 1107
BseGI GGATG 4 cut(s) 184, 666, 694, 1072
BseJI GATNNNNATC 1 cut(s) 327
BseLI CCNNNNNNNGG 3 cut(s) 838, 1046, 1047
BseMI GCAATG 1 cut(s) 559
BseMII CTCAG 5 cut(s) 314, 378, 383, 782, 816
BseNI ACTGG 2 cut(s) 151, 425
BseRI GAGGAG 2 cut(s) 405, 929
BseYI CCCAGC 1 cut(s) 874
BshFI GGCC 3 cut(s) 623, 1009, 1085
BsiHKAI GWGCWC 1 cut(s) 55
BsiSI CCGG 1 cut(s) 439
BslFI GGGAC 1 cut(s) 364
BslI CCNNNNNNNGG 3 cut(s) 838, 1046, 1047
BsmAI GTCTC 4 cut(s) 341, 470, 749, 857
BsmFI GGGAC 1 cut(s) 364
BsnI GGCC 3 cut(s) 623, 1009, 1085
Bso31I GGTCTC 1 cut(s) 857
Bsp119I TTCGAA 1 cut(s) 101
Bsp1286I GDGCHC 1 cut(s) 55
Bsp143I GATC 1 cut(s) 919
Bsp19I CCATGG 1 cut(s) 1107
BspACI CCGC 4 cut(s) 69, 185, 619, 1010
BspANI GGCC 3 cut(s) 623, 1009, 1085
BspCNI CTCAG 5 cut(s) 313, 379, 382, 781, 817
BspLI GGNNCC 1 cut(s) 670
BspPI GGATC 1 cut(s) 927
BspT104I TTCGAA 1 cut(s) 101
BspTI CTTAAG 1 cut(s) 818
BspTNI GGTCTC 1 cut(s) 857
BsrBI CCGCTC 1 cut(s) 619
BsrDI GCAATG 1 cut(s) 559
BsrI ACTGG 2 cut(s) 151, 425
BssECI CCNNGG 4 cut(s) 682, 683, 1040, 1107
BssMI GATC 1 cut(s) 919
BssSI CACGAG 1 cut(s) 90
BssT1I CCWWGG 1 cut(s) 1107
Bst2BI CACGAG 1 cut(s) 90
Bst2UI CCWGG 3 cut(s) 483, 684, 1042
Bst4CI ACNGT 3 cut(s) 174, 578, 792
Bst6I CTCTTC 3 cut(s) 22, 468, 783
BstAFI CTTAAG 1 cut(s) 818
BstBAI YACGTR 1 cut(s) 531
BstBI TTCGAA 1 cut(s) 101
BstC8I GCNNGC 4 cut(s) 313, 510, 621, 1128
BstDEI CTNAG 8 cut(s) 56, 300, 369, 387, 768, 825, 985, 1131
BstDSI CCRYGG 1 cut(s) 1107
BstF5I GGATG 4 cut(s) 184, 666, 694, 1072
BstH2I RGCGCY 1 cut(s) 318
BstHHI GCGC 2 cut(s) 118, 317
BstKTI GATC 1 cut(s) 922
BstMAI GTCTC 4 cut(s) 341, 470, 749, 857
BstMBI GATC 1 cut(s) 919
BstMWI GCNNNNNNNGC 3 cut(s) 625, 707, 884
BstNI CCWGG 3 cut(s) 483, 684, 1042
BstNSI RCATGY 2 cut(s) 395, 552
BstSCI CCNGG 3 cut(s) 481, 682, 1040
BstSFI CTRYAG 1 cut(s) 582
BstSNI TACGTA 1 cut(s) 531
BstXI CCANNNNNNTGG 1 cut(s) 459
Bsu36I CCTNAGG 1 cut(s) 985
BsuI GTATCC 1 cut(s) 1047
BsuRI GGCC 3 cut(s) 623, 1009, 1085
BtgI CCRYGG 1 cut(s) 1107
BtgZI GCGATG 1 cut(s) 21
BtsCI GGATG 4 cut(s) 184, 666, 694, 1072
BtsIMutI CAGTG 3 cut(s) 170, 583, 861
Cac8I GCNNGC 4 cut(s) 313, 510, 621, 1128
CaiI CAGNNNCTG 1 cut(s) 572
CfoI GCGC 2 cut(s) 118, 317
Cfr13I GGNCC 5 cut(s) 436, 621, 668, 1007, 1083
Csp6I GTAC 1 cut(s) 193
CviAII CATG 6 cut(s) 35, 392, 549, 625, 833, 1108
CviQI GTAC 1 cut(s) 193
DdeI CTNAG 8 cut(s) 56, 300, 369, 387, 768, 825, 985, 1131
DpnI GATC 1 cut(s) 921
DpnII GATC 1 cut(s) 919
Eam1104I CTCTTC 3 cut(s) 22, 468, 783
EarI CTCTTC 3 cut(s) 22, 468, 783
Eco105I TACGTA 1 cut(s) 531
Eco130I CCWWGG 1 cut(s) 1107
Eco31I GGTCTC 1 cut(s) 857
Eco32I GATATC 1 cut(s) 268
Eco47I GGWCC 2 cut(s) 436, 668
Eco57I CTGAAG 3 cut(s) 303, 837, 1118
Eco81I CCTNAGG 1 cut(s) 985
EcoO109I RGGNCCY 1 cut(s) 668
EcoRII CCWGG 3 cut(s) 481, 682, 1040
EcoRV GATATC 1 cut(s) 268
EcoT14I CCWWGG 1 cut(s) 1107
ErhI CCWWGG 1 cut(s) 1107
FaeI CATG 6 cut(s) 38, 395, 552, 628, 836, 1111
FalI AAGNNNNNCTT 2 cut(s) 968, 1000
FaqI GGGAC 1 cut(s) 364
FatI CATG 6 cut(s) 34, 391, 548, 624, 832, 1107
FauI CCCGC 1 cut(s) 612
Fnu4HI GCNGC 1 cut(s) 1010
FokI GGATG 4 cut(s) 191, 673, 701, 1079
Fsp4HI GCNGC 1 cut(s) 1010
FspBI CTAG 1 cut(s) 647
GlaI GCGC 2 cut(s) 117, 316
GluI GCNGC 1 cut(s) 1010
GsaI CCCAGC 1 cut(s) 878
GsuI CTGGAG 2 cut(s) 504, 881
HaeII RGCGCY 1 cut(s) 318
HaeIII GGCC 3 cut(s) 623, 1009, 1085
HapII CCGG 1 cut(s) 439
HhaI GCGC 2 cut(s) 118, 317
Hin1II CATG 6 cut(s) 38, 395, 552, 628, 836, 1111
Hin6I GCGC 2 cut(s) 116, 315
HinP1I GCGC 2 cut(s) 116, 315
HincII GTYRAC 1 cut(s) 679
HindII GTYRAC 1 cut(s) 679
HinfI GANTC 3 cut(s) 448, 478, 928
HpaII CCGG 1 cut(s) 439
HphI GGTGA 1 cut(s) 89
Hpy166II GTNNAC 1 cut(s) 679
Hpy188I TCNGA 4 cut(s) 144, 178, 322, 1098
Hpy188III TCNNGA 4 cut(s) 164, 518, 892, 1048
Hpy8I GTNNAC 1 cut(s) 679
HpyAV CCTTC 2 cut(s) 659, 1012
HpyCH4III ACNGT 3 cut(s) 174, 578, 792
HpyCH4IV ACGT 2 cut(s) 204, 530
HpyCH4V TGCA 8 cut(s) 89, 110, 230, 311, 512, 552, 745, 955
HpyF10VI GCNNNNNNNGC 3 cut(s) 625, 707, 884
HpyF3I CTNAG 8 cut(s) 56, 300, 369, 387, 768, 825, 985, 1131
HpySE526I ACGT 2 cut(s) 204, 530
Hsp92II CATG 6 cut(s) 38, 395, 552, 628, 836, 1111
HspAI GCGC 2 cut(s) 116, 315
Kzo9I GATC 1 cut(s) 919
LmnI GCTCC 2 cut(s) 616, 1123
MaeI CTAG 1 cut(s) 647
MaeII ACGT 2 cut(s) 204, 530
MaeIII GTNAC 4 cut(s) 200, 719, 772, 996
MalI GATC 1 cut(s) 921
MbiI CCGCTC 1 cut(s) 619
MboI GATC 1 cut(s) 919
MboII GAAGA 7 cut(s) 39, 115, 296, 485, 770, 843, 1111
MhlI GDGCHC 1 cut(s) 55
MluCI AATT 8 cut(s) 232, 363, 419, 631, 746, 908, 956, 1092
MlyI GAGTC 2 cut(s) 442, 472
MmeI TCCRAC 3 cut(s) 156, 187, 261
MnlI CCTC 9 cut(s) 5, 426, 682, 750, 802, 907, 910, 1021, 1074
MroXI GAANNNNTTC 1 cut(s) 1092
MseI TTAA 5 cut(s) 327, 357, 432, 819, 960
MslI CAYNNNNRTG 2 cut(s) 225, 609
MspCI CTTAAG 1 cut(s) 818
MspI CCGG 1 cut(s) 439
MspR9I CCNGG 3 cut(s) 483, 684, 1042
MvaI CCWGG 3 cut(s) 483, 684, 1042
MwoI GCNNNNNNNGC 3 cut(s) 625, 707, 884
NcoI CCATGG 1 cut(s) 1107
NdeII GATC 1 cut(s) 919
NlaIII CATG 6 cut(s) 38, 395, 552, 628, 836, 1111
NlaIV GGNNCC 1 cut(s) 670
NspI RCATGY 2 cut(s) 395, 552
NspV TTCGAA 1 cut(s) 101
PasI CCCWGGG 1 cut(s) 683
PdmI GAANNNNTTC 1 cut(s) 1092
PfeI GAWTC 1 cut(s) 928
PfoI TCCNGGA 1 cut(s) 481
PkrI GCNGC 1 cut(s) 1011
PleI GAGTC 2 cut(s) 442, 472
PpsI GAGTC 2 cut(s) 442, 472
Ppu21I YACGTR 1 cut(s) 531
PpuMI RGGWCCY 1 cut(s) 668
PshBI ATTAAT 1 cut(s) 327
Psp1406I AACGTT 1 cut(s) 204
Psp5II RGGWCCY 1 cut(s) 668
Psp6I CCWGG 3 cut(s) 481, 682, 1040
PspFI CCCAGC 1 cut(s) 874
PspGI CCWGG 3 cut(s) 481, 682, 1040
PspN4I GGNNCC 1 cut(s) 670
PspPI GGNCC 5 cut(s) 436, 621, 668, 1007, 1083
PspPPI RGGWCCY 1 cut(s) 668
PsrI GAACNNNNNNTAC 2 cut(s) 1028, 1060
PstNI CAGNNNCTG 1 cut(s) 572
RsaI GTAC 1 cut(s) 194
RsaNI GTAC 1 cut(s) 193
RseI CAYNNNNRTG 2 cut(s) 225, 609
SaqAI TTAA 5 cut(s) 327, 357, 432, 819, 960
SatI GCNGC 1 cut(s) 1010
Sau3AI GATC 1 cut(s) 919
Sau96I GGNCC 5 cut(s) 436, 621, 668, 1007, 1083
SchI GAGTC 2 cut(s) 442, 472
ScrFI CCNGG 3 cut(s) 483, 684, 1042
SduI GDGCHC 1 cut(s) 55
SfcI CTRYAG 1 cut(s) 582
SfuI TTCGAA 1 cut(s) 101
SinI GGWCC 2 cut(s) 436, 668
SmiMI CAYNNNNRTG 2 cut(s) 225, 609
SmlI CTYRAG 1 cut(s) 818
SmoI CTYRAG 1 cut(s) 818
SnaBI TACGTA 1 cut(s) 531
Sse9I AATT 8 cut(s) 232, 363, 419, 631, 746, 908, 956, 1092
SsiI CCGC 4 cut(s) 69, 185, 619, 1010
SspMI CTAG 1 cut(s) 647
StyD4I CCNGG 3 cut(s) 481, 682, 1040
StyI CCWWGG 1 cut(s) 1107
TaaI ACNGT 3 cut(s) 174, 578, 792
TaiI ACGT 2 cut(s) 207, 533
TaqI TCGA 3 cut(s) 101, 798, 935
TasI AATT 8 cut(s) 232, 363, 419, 631, 746, 908, 956, 1092
TatI WGTACW 1 cut(s) 192
TauI GCSGC 1 cut(s) 1012
TfiI GAWTC 1 cut(s) 928
Tru1I TTAA 5 cut(s) 327, 357, 432, 819, 960
Tru9I TTAA 5 cut(s) 327, 357, 432, 819, 960
TscAI CASTG 3 cut(s) 177, 583, 861
TspDTI ATGAA 2 cut(s) 1074, 1083
TspGWI ACGGA 1 cut(s) 263
TspRI CASTG 3 cut(s) 177, 583, 861
Vha464I CTTAAG 1 cut(s) 818
VpaK11BI GGWCC 2 cut(s) 436, 668
VspI ATTAAT 1 cut(s) 327
XapI RAATTY 4 cut(s) 232, 363, 631, 1092
XceI RCATGY 2 cut(s) 395, 552
XmnI GAANNNNTTC 1 cut(s) 1092
XspI CTAG 1 cut(s) 647
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.