Basic Information

Type: gene

Biological Identity

Species

rosa_wichuraiana

Chromosome

Chr1

Orthogroup ID

OG0001724

Physical Location & Seq

Genomic Coordinates Reverse (-)

36506873 .. 36511462

Gene Structure 4590 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rw1G016380.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1266 bp

ATGTTAAAAAGAAAGATTGATGATTCTGTGGATTTAGCTTTGTTGACAAAAGAGTTCAAAAAAAATTTTAAAAACAAAAACTTTTCTGGAAACTCATCGAAAATTTTTCCTAACAAACCTAAATGCTTTGAGTGTGGTGGAATTGGACATCTTGCTGCTTTAAAATCCACATGGCACTACACCAAATCTGGGCTTTTACCGCCTAAAATTTACGCAATTTACTACCTACTAATGTTGCAAGGAAAGGAGTTTTCTGCTATTCCTGCTGGTTCGTGGTTCAACTTTAACAAGGTTGCACAATATAAGCAACTTACTCTAGAGGAAGCGGAAGAGAAGATGAACAATAGGAAAAAGACTCAAGATGGATATGAAAGATGGATGATGAAATTGGAACTAACGAACCTGGTCCACTTCGGACGCAAAAAAATGACTGGTGATGATGATGAGGGAAATTTCTCTGATAAAGGGGAGGAAGATGAGGAAGAAGAGACAGCAAGGAAAAATAGACTTGGTCTCAATAAAAAAGGTGGTGATGATGACGATGATGAAGGTGGAAATGAAGAAGATGACTTAGATGATGATAGCAGTGAGAAGGGTGATGATTGGGAGCATGAAGAAATATTCACCGATGATGATGAAGCTGTTGGTATTAATCCTGAGGAGAGAGAAGAATTCGAACCTGAGGTTCCAGCTCCTCCAGAAATTAAGCAGAATATGTGCATGGTTTTTTTTTTTTTGGGCATTAAACTAATTGGGTACGATTTCTTACGATTTGTACAGATGGATGATGATATTGCCTTGCCTCAAGCGCTTGCACCAAAGCAGAAGGATGCACCCAAACAGGAACCAGTTGACAACAGTCCTATTAAACCCGGGACTTCTGGATCTGCTGCTAAAGCAAATCCATCTGCCTCCAAGTCGGCGAAGGGAAAGAGAAAATTAAATGGTGATGACGCTAAAGCGTCCAACAGTGCACCTCCCAAGAAGGTGAAGACTGAAAATGAGCAAAAATCAGTCAAAGAGGAGCCTGCTTCTGAAAGTAGTGTGCCTGCAAAAGGTACTGCTGCATCCTCGAAAACGGGTTCAACACCATCTGGTGGTCCTACAGGTCCTGTATCTGAGGAAGAAATTAGGGCAGTTTTGATGCAAAAGTCACCCATCACCACACGCGATCTTGAGAAGGATGCTTTTGCAGCAATCCTGAGGAAAATGTTTAGGATACAGAAGAACAATGGGATCAGCTATGTTGTATTAAGGGAGAAGTGA

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

421

Amino Acids

46.92

Weight (kDa)

5.26

Isoelectric Point (pI)

47.87

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
TFIIF_alpha	PF05793	72 - 238	2e-36	Transcription initiation factor IIF, alpha subunit (TFIIF-alpha)
TFIIF_alpha	PF05793	262 - 393	1.6e-17	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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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0001724)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G12610 AT4G12610
fragaria_vesca	FvH4_2g22070 FvH4_2g22070 FvH4_2g22070 FvH4_3g01042
malus_domestica	MD05G1357300.v1.1 MD10G1331000.v1.1
prunus_persica	Prupe.4G011300_v2.0.a1 Prupe.4G011300_v2.0.a1
pyrus_communis	pycom05g32330 pycom10g28050
rosa_chinensis	RchiOBHm_Chr5g0001581 RchiOBHm_Chr6g0288941
rosa_laevigata	RLG00000009133 RLG00000012342 RLG00000012344 RLG00000030944
rosa_multiflora	Rmu_sc0003749.1_g000001 Rmu_sc0006320.1_g000007 Rmu_sc0007182.1_g000001
rosa_roxburghii	Rroxscaffold_1G00074740 Rroxscaffold_7G00179460 Rroxscaffold_7G00179470 Rroxscaffold_7G00179490
rosa_rugosa	Rorug04G0391100 Rorug06G0199700 Rorug06G0201700
rosa_samantha	Rh2BG455300 Rh2DG465300 Rh5AG012500 Rh5BG015400 Rh5CG013500 Rh5CG313700 Rh5DG013300 Rh6AG312800 Rh6BG317400 Rh6BG319600 Rh6CG326300 Rh6DG312400
rosa_wichuraiana	Rw0G003180 Rw0G005580 Rw1G016380 Rw2G040560 Rw5G001200 Rw6G027030 Rw7G019510 Rw7G019540

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB7I	CCANNNNNTGG	1 cut(s)	1097
AccII	CGCG	1 cut(s)	1170
AciI	CCGC	2 cut(s)	200, 326
AclWI	GGATC	2 cut(s)	892, 1244
AcsI	RAATTY	5 cut(s)	64, 102, 207, 451, 671
AfaI	GTAC	3 cut(s)	758, 777, 1060
AfeI	AGCGCT	1 cut(s)	810
AfiI	CCNNNNNNNGG	3 cut(s)	189, 1055, 1097
AgsI	TTSAA	3 cut(s)	58, 280, 1086
AjnI	CCWGG	1 cut(s)	402
AluBI	AGCT	4 cut(s)	38, 641, 692, 1242
AluI	AGCT	4 cut(s)	38, 641, 692, 1242
Alw21I	GWGCWC	1 cut(s)	976
Alw26I	GTCTC	2 cut(s)	482, 518
Alw44I	GTGCAC	1 cut(s)	972
AlwI	GGATC	2 cut(s)	892, 1244
AlwNI	CAGNNNCTG	1 cut(s)	1112
Ama87I	CYCGRG	1 cut(s)	872
Aor51HI	AGCGCT	1 cut(s)	810
ApaLI	GTGCAC	1 cut(s)	972
ApeKI	GCWGC	4 cut(s)	155, 890, 1064, 1193
ApoI	RAATTY	5 cut(s)	64, 102, 207, 451, 671
AseI	ATTAAT	1 cut(s)	651
AspLEI	GCGC	1 cut(s)	811
AspS9I	GGNCC	3 cut(s)	406, 1100, 1109
AsuC2I	CCSGG	2 cut(s)	873, 874
AsuHPI	GGTGA	8 cut(s)	446, 542, 608, 616, 959, 1000, 1146, 1153
AsuII	TTCGAA	1 cut(s)	675
AvaI	CYCGRG	1 cut(s)	872
AvaII	GGWCC	3 cut(s)	406, 1100, 1109
AxyI	CCTNAGG	3 cut(s)	657, 681, 1202
BaeGI	GKGCMC	1 cut(s)	976
BbsI	GAAGAC	1 cut(s)	998
Bbv12I	GWGCWC	1 cut(s)	976
BbvI	GCAGC	4 cut(s)	142, 877, 1051, 1205
BccI	CCATC	6 cut(s)	356, 369, 775, 913, 1099, 1166
BciT130I	CCWGG	1 cut(s)	404
BciVI	GTATCC	1 cut(s)	1212
BcnI	CCSGG	2 cut(s)	873, 874
BcoDI	GTCTC	2 cut(s)	482, 518
BfaI	CTAG	1 cut(s)	317
BfmI	CTRYAG	1 cut(s)	1104
BfoI	RGCGCY	1 cut(s)	812
BfuI	GTATCC	1 cut(s)	1212
BisI	GCNGC	4 cut(s)	156, 891, 1065, 1194
BlsI	GCNGC	4 cut(s)	157, 892, 1066, 1195
Bme1390I	CCNGG	3 cut(s)	404, 873, 874
Bme18I	GGWCC	3 cut(s)	406, 1100, 1109
BmeT110I	CYCGRG	1 cut(s)	872
BmgT120I	GGNCC	3 cut(s)	406, 1100, 1109
BmiI	GGNNCC	3 cut(s)	687, 846, 1026
BmrFI	CCNGG	3 cut(s)	404, 873, 874
BmsI	GCATC	4 cut(s)	820, 1076, 1134, 1174
BoxI	GACNNNNGTC	1 cut(s)	858
BpiI	GAAGAC	1 cut(s)	998
BpmI	CTGGAG	1 cut(s)	681
Bpu14I	TTCGAA	1 cut(s)	675
BpuEI	CTTGAG	3 cut(s)	342, 789, 1196
BpuMI	CCSGG	2 cut(s)	873, 874
BsaI	GGTCTC	1 cut(s)	518
BsaJI	CCNNGG	1 cut(s)	872
Bsc4I	CCNNNNNNNGG	3 cut(s)	189, 1055, 1097
Bse1I	ACTGG	2 cut(s)	436, 848
Bse21I	CCTNAGG	3 cut(s)	657, 681, 1202
BseBI	CCWGG	1 cut(s)	404
BseDI	CCNNGG	1 cut(s)	872
BseGI	GGATG	5 cut(s)	384, 790, 835, 1067, 1189
BseLI	CCNNNNNNNGG	3 cut(s)	189, 1055, 1097
BseMII	CTCAG	4 cut(s)	648, 672, 1110, 1193
BseNI	ACTGG	2 cut(s)	436, 848
BseRI	GAGGAG	3 cut(s)	674, 684, 1037
BseSI	GKGCMC	1 cut(s)	976
BseXI	GCAGC	4 cut(s)	142, 877, 1051, 1205
Bsh1236I	CGCG	1 cut(s)	1170
BsiHKAI	GWGCWC	1 cut(s)	976
BsiHKCI	CYCGRG	1 cut(s)	872
BsiSI	CCGG	1 cut(s)	873
BslFI	GGGAC	1 cut(s)	889
BslI	CCNNNNNNNGG	3 cut(s)	189, 1055, 1097
BsmAI	GTCTC	2 cut(s)	482, 518
BsmFI	GGGAC	1 cut(s)	889
Bso31I	GGTCTC	1 cut(s)	518
BsoBI	CYCGRG	1 cut(s)	872
Bsp119I	TTCGAA	1 cut(s)	675
Bsp1286I	GDGCHC	1 cut(s)	976
Bsp1407I	TGTACA	1 cut(s)	775
Bsp143I	GATC	3 cut(s)	884, 1171, 1236
BspACI	CCGC	2 cut(s)	200, 326
BspCNI	CTCAG	4 cut(s)	649, 673, 1111, 1194
BspFNI	CGCG	1 cut(s)	1170
BspLI	GGNNCC	3 cut(s)	687, 846, 1026
BspPI	GGATC	2 cut(s)	892, 1244
BspT104I	TTCGAA	1 cut(s)	675
BspTNI	GGTCTC	1 cut(s)	518
BsrGI	TGTACA	1 cut(s)	775
BsrI	ACTGG	2 cut(s)	436, 848
BssECI	CCNNGG	1 cut(s)	872
BssMI	GATC	3 cut(s)	884, 1171, 1236
Bst2UI	CCWGG	1 cut(s)	404
Bst4CI	ACNGT	2 cut(s)	860, 971
Bst6I	CTCTTC	2 cut(s)	324, 480
BstAUI	TGTACA	1 cut(s)	775
BstBI	TTCGAA	1 cut(s)	675
BstC8I	GCNNGC	3 cut(s)	813, 1029, 1050
BstDEI	CTNAG	5 cut(s)	571, 657, 681, 1119, 1202
BstENI	CCTNNNNNAGG	1 cut(s)	1053
BstF5I	GGATG	5 cut(s)	384, 790, 835, 1067, 1189
BstFNI	CGCG	1 cut(s)	1170
BstH2I	RGCGCY	1 cut(s)	812
BstHHI	GCGC	1 cut(s)	811
BstKTI	GATC	3 cut(s)	887, 1174, 1239
BstMAI	GTCTC	2 cut(s)	482, 518
BstMBI	GATC	3 cut(s)	884, 1171, 1236
BstMWI	GCNNNNNNNGC	5 cut(s)	199, 263, 808, 896, 1193
BstNI	CCWGG	1 cut(s)	404
BstPAI	GACNNNNGTC	1 cut(s)	858
BstSCI	CCNGG	3 cut(s)	402, 871, 872
BstSFI	CTRYAG	1 cut(s)	1104
BstSLI	GKGCMC	1 cut(s)	976
BstUI	CGCG	1 cut(s)	1170
BstV1I	GCAGC	4 cut(s)	142, 877, 1051, 1205
BstV2I	GAAGAC	1 cut(s)	998
BstX2I	RGATCY	1 cut(s)	884
BstYI	RGATCY	1 cut(s)	884
Bsu36I	CCTNAGG	3 cut(s)	657, 681, 1202
BsuI	GTATCC	1 cut(s)	1212
BtsCI	GGATG	5 cut(s)	384, 790, 835, 1067, 1189
BtsI	GCAGTG	1 cut(s)	592
BtsIMutI	CAGTG	2 cut(s)	592, 976
Cac8I	GCNNGC	3 cut(s)	813, 1029, 1050
CaiI	CAGNNNCTG	1 cut(s)	1112
CfoI	GCGC	1 cut(s)	811
Cfr13I	GGNCC	3 cut(s)	406, 1100, 1109
Cfr9I	CCCGGG	1 cut(s)	872
CseI	GACGC	3 cut(s)	426, 951, 962
CsiI	ACCWGGT	1 cut(s)	402
Csp6I	GTAC	3 cut(s)	757, 776, 1059
CviAII	CATG	3 cut(s)	171, 611, 721
CviJI	RGCY	6 cut(s)	38, 193, 641, 692, 1027, 1242
CviKI_1	RGCY	6 cut(s)	38, 193, 641, 692, 1027, 1242
CviQI	GTAC	3 cut(s)	757, 776, 1059
DdeI	CTNAG	5 cut(s)	571, 657, 681, 1119, 1202
DpnI	GATC	3 cut(s)	886, 1173, 1238
DpnII	GATC	3 cut(s)	884, 1171, 1236
DraI	TTTAAA	2 cut(s)	70, 162
Eam1104I	CTCTTC	2 cut(s)	324, 480
EarI	CTCTTC	2 cut(s)	324, 480
Eco31I	GGTCTC	1 cut(s)	518
Eco47I	GGWCC	3 cut(s)	406, 1100, 1109
Eco47III	AGCGCT	1 cut(s)	810
Eco81I	CCTNAGG	3 cut(s)	657, 681, 1202
Eco88I	CYCGRG	1 cut(s)	872
EcoNI	CCTNNNNNAGG	1 cut(s)	1053
EcoO109I	RGGNCCY	1 cut(s)	1109
EcoRI	GAATTC	1 cut(s)	671
EcoRII	CCWGG	1 cut(s)	402
FaeI	CATG	3 cut(s)	174, 614, 724
FaiI	YATR	7 cut(s)	172, 303, 369, 612, 716, 722, 1245
FaqI	GGGAC	1 cut(s)	889
FatI	CATG	3 cut(s)	170, 610, 720
Fnu4HI	GCNGC	4 cut(s)	156, 891, 1065, 1194
FokI	GGATG	5 cut(s)	391, 797, 842, 1054, 1196
Fsp4HI	GCNGC	4 cut(s)	156, 891, 1065, 1194
FspBI	CTAG	1 cut(s)	317
GlaI	GCGC	1 cut(s)	810
GluI	GCNGC	4 cut(s)	156, 891, 1065, 1194
GsuI	CTGGAG	1 cut(s)	681
HaeII	RGCGCY	1 cut(s)	812
HapII	CCGG	1 cut(s)	873
HgaI	GACGC	3 cut(s)	426, 951, 962
HhaI	GCGC	1 cut(s)	811
Hin1II	CATG	3 cut(s)	174, 614, 724
Hin6I	GCGC	1 cut(s)	809
HinP1I	GCGC	1 cut(s)	809
HincII	GTYRAC	2 cut(s)	45, 853
HindII	GTYRAC	2 cut(s)	45, 853
HinfI	GANTC	2 cut(s)	23, 355
HpaII	CCGG	1 cut(s)	873
HphI	GGTGA	8 cut(s)	446, 542, 608, 616, 959, 1000, 1146, 1153
Hpy166II	GTNNAC	4 cut(s)	45, 409, 853, 974
Hpy188I	TCNGA	4 cut(s)	416, 460, 1036, 1120
Hpy188III	TCNNGA	8 cut(s)	87, 317, 359, 656, 698, 882, 1175, 1201
Hpy8I	GTNNAC	4 cut(s)	45, 409, 853, 974
HpyAV	CCTTC	6 cut(s)	542, 586, 820, 919, 979, 1174
HpyCH4III	ACNGT	2 cut(s)	860, 971
HpyF10VI	GCNNNNNNNGC	5 cut(s)	199, 263, 808, 896, 1193
HpyF3I	CTNAG	5 cut(s)	571, 657, 681, 1119, 1202
Hsp92II	CATG	3 cut(s)	174, 614, 724
HspAI	GCGC	1 cut(s)	809
Kzo9I	GATC	3 cut(s)	884, 1171, 1236
LmnI	GCTCC	3 cut(s)	607, 697, 1024
Lsp1109I	GCAGC	4 cut(s)	142, 877, 1051, 1205
LweI	GCATC	4 cut(s)	820, 1076, 1134, 1174
MabI	ACCWGGT	1 cut(s)	402
MaeI	CTAG	1 cut(s)	317
MaeIII	GTNAC	1 cut(s)	1152
MalI	GATC	3 cut(s)	886, 1173, 1238
MboI	GATC	3 cut(s)	884, 1171, 1236
MflI	RGATCY	1 cut(s)	884
MhlI	GDGCHC	1 cut(s)	976
MlyI	GAGTC	1 cut(s)	349
MmeI	TCCRAC	1 cut(s)	990
MspI	CCGG	1 cut(s)	873
MspR9I	CCNGG	3 cut(s)	404, 873, 874
MvaI	CCWGG	1 cut(s)	404
MvnI	CGCG	1 cut(s)	1170
MwoI	GCNNNNNNNGC	5 cut(s)	199, 263, 808, 896, 1193
NciI	CCSGG	2 cut(s)	873, 874
NdeII	GATC	3 cut(s)	884, 1171, 1236
NlaIII	CATG	3 cut(s)	174, 614, 724
NlaIV	GGNNCC	3 cut(s)	687, 846, 1026
NmuCI	GTSAC	1 cut(s)	1152
NspV	TTCGAA	1 cut(s)	675
PfeI	GAWTC	1 cut(s)	23
PflFI	GACNNNGTC	1 cut(s)	510
PflMI	CCANNNNNTGG	1 cut(s)	1097
PkrI	GCNGC	4 cut(s)	157, 892, 1066, 1195
PleI	GAGTC	1 cut(s)	349
PpsI	GAGTC	1 cut(s)	349
PpuMI	RGGWCCY	1 cut(s)	1109
PshAI	GACNNNNGTC	1 cut(s)	858
PshBI	ATTAAT	1 cut(s)	651
Psp5II	RGGWCCY	1 cut(s)	1109
Psp6I	CCWGG	1 cut(s)	402
PspGI	CCWGG	1 cut(s)	402
PspN4I	GGNNCC	3 cut(s)	687, 846, 1026
PspPI	GGNCC	3 cut(s)	406, 1100, 1109
PspPPI	RGGWCCY	1 cut(s)	1109
PstNI	CAGNNNCTG	1 cut(s)	1112
PsuI	RGATCY	1 cut(s)	884
PsyI	GACNNNGTC	1 cut(s)	510
RsaI	GTAC	3 cut(s)	758, 777, 1060
RsaNI	GTAC	3 cut(s)	757, 776, 1059
SatI	GCNGC	4 cut(s)	156, 891, 1065, 1194
Sau3AI	GATC	3 cut(s)	884, 1171, 1236
Sau96I	GGNCC	3 cut(s)	406, 1100, 1109
SchI	GAGTC	1 cut(s)	349
ScrFI	CCNGG	3 cut(s)	404, 873, 874
SduI	GDGCHC	1 cut(s)	976
SexAI	ACCWGGT	1 cut(s)	402
SfaNI	GCATC	4 cut(s)	820, 1076, 1134, 1174
SfcI	CTRYAG	1 cut(s)	1104
SfuI	TTCGAA	1 cut(s)	675
SinI	GGWCC	3 cut(s)	406, 1100, 1109
SmaI	CCCGGG	1 cut(s)	874
SmlI	CTYRAG	3 cut(s)	357, 804, 1175
SmoI	CTYRAG	3 cut(s)	357, 804, 1175
SsiI	CCGC	2 cut(s)	200, 326
SspI	AATATT	1 cut(s)	621
SspMI	CTAG	1 cut(s)	317
StyD4I	CCNGG	3 cut(s)	402, 871, 872
TaaI	ACNGT	2 cut(s)	860, 971
TaqI	TCGA	3 cut(s)	98, 675, 1073
TatI	WGTACW	1 cut(s)	775
TfiI	GAWTC	1 cut(s)	23
TscAI	CASTG	2 cut(s)	592, 976
TseFI	GTSAC	1 cut(s)	1152
TseI	GCWGC	4 cut(s)	155, 890, 1064, 1193
Tsp45I	GTSAC	1 cut(s)	1152
TspDTI	ATGAA	7 cut(s)	353, 384, 398, 561, 573, 627, 651
TspMI	CCCGGG	1 cut(s)	872
TspRI	CASTG	2 cut(s)	592, 976
Tth111I	GACNNNGTC	1 cut(s)	510
Van91I	CCANNNNNTGG	1 cut(s)	1097
VneI	GTGCAC	1 cut(s)	972
VpaK11BI	GGWCC	3 cut(s)	406, 1100, 1109
VspI	ATTAAT	1 cut(s)	651
XagI	CCTNNNNNAGG	1 cut(s)	1053
XapI	RAATTY	5 cut(s)	64, 102, 207, 451, 671
XbaI	TCTAGA	1 cut(s)	316
XmaI	CCCGGG	1 cut(s)	872
XspI	CTAG	1 cut(s)	317

Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.