Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr6

Orthogroup ID

OG0001612

Physical Location & Seq

Genomic Coordinates Reverse (-)

59930138 .. 59931182

Gene Structure 1045 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000030352

Sequence Viewer

CDS Protein Promoter (2k)

Length: 912 bp

ATGGGGTTTTCACCATTCTTCCCAAACCGTCTATTTCCTCCTGTCAAAAACCCTAACAAGCGTAGTGCTTCTCCACCACCAAGTAAGAAGCAAAAGGTAGCTGATGATGAGATCGACACAGATCAAGAAGGCATTGAGCAACTCCGCGACGTCGTTTCTGTTAGTGGAGTCAATCTTGTGGAAGAGCAAGAGCGCATGCTGTTGCTTTCGGGGCCCAAGAAGCAGCAAGCATCTCGAAAACTTGTGTTTCAAGAAAACCAAGAAGGGCATGTTTTGCAGAAGATTCCCCTGCAAAAAAAGTTGGCGGGAATCATGGGGAGACAGTCAAAGCAGCGGGTTGATTGTGAAAAATCGAGACAACACACTATTTCTACATCTGATGTGAAGCAAGAAATTATGATTCTCAACAAGAAAGCTAGGGAAGAATTGCAGGGAACGGCTCAGAAGCTTAATGAAGCTAAGGTTAGCACTAATGGATTTGAGGGTGTTAAGGACAAACATGACGATGGAGACGACAAAATGAGGAGAAGTACAGCAGCAGCAAATGTTGCTGCCCTTGCTGCTCTTGGAGGACATGACATATTGGCGAAATGGCAACTTAGGGCGGATCAGCTGGCCCGGGAGAAGAGTCGAGGTAAAGATGTAAATCACAAGGCTACATCCACTACTGGAAGAACAATGAATGGCCATGTAGAAGCGGAGAAAAGGGGCGGTGTAGAAGCTTTGGTGTCTGCAGCTGGAAGTGCTGTCAGAAAGTTTAGGAGGAATTGCCAAGTTATGATGATGCCTCAAACAAAGGTGGCTAGTACTCGTAGTATATCTGTCAAGGATGTGATTGCTGTTCTGGAAAAGGAACCTCAGATGTCCAAGTCTACTCTGATATATTTGCTAACGAACACTGCTAGCCGGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000428 GO:0001650 GO:0003674 GO:0003676 GO:0003677 GO:0003712 GO:0003713 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005667 GO:0005669 GO:0005730 GO:0005911 GO:0006139 GO:0006351 GO:0006352 GO:0006355 GO:0006357 GO:0006366 GO:0006367 GO:0006725 GO:0006807 GO:0008134 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009506 GO:0009889 GO:0009891 GO:0009893 GO:0009966 GO:0009987 GO:0010467 GO:0010468 GO:0010556 GO:0010557 GO:0010604 GO:0010628 GO:0010646 GO:0016070 GO:0016591 GO:0018130 GO:0019219 GO:0019222 GO:0019438 GO:0023051 GO:0030054 GO:0030880 GO:0031323 GO:0031325 GO:0031326 GO:0031328 GO:0031974 GO:0031981 GO:0032774 GO:0032991 GO:0034641 GO:0034645 GO:0034654 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044271 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044451 GO:0044452 GO:0044464 GO:0044798 GO:0045893 GO:0045935 GO:0045944 GO:0046483 GO:0048518 GO:0048522 GO:0048583 GO:0050789 GO:0050794 GO:0051059 GO:0051171 GO:0051173 GO:0051252 GO:0051254 GO:0055029 GO:0055044 GO:0060255 GO:0061695 GO:0065007 GO:0070013 GO:0071704 GO:0080090 GO:0090304 GO:0090575 GO:0097159 GO:0097659 GO:0140110 GO:1901360 GO:1901362 GO:1901363 GO:1901576 GO:1901796 GO:1902494 GO:1902531 GO:1902680 GO:1903506 GO:1903508 GO:1990234 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

ko03022 ko05016 ko05168 map03022 map05016 map05168

Pfam Domains

Protein Families

RST TAF4

Protein Analysis

304

Amino Acids

33.52

Weight (kDa)

9.84

Isoelectric Point (pI)

51.4

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
TAF4	PF05236	48 - 108	1.2e-07	Transcription initiation factor TFIID component TAF4 family
TAF4	PF05236	108 - 295	6e-17	Transcription initiation factor TFIID component TAF4 family

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

Font Size (px)

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0001612)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_7g02790
rosa_laevigata	RLG00000028661 RLG00000030349 RLG00000030352 RLG00000030356 RLG00000030371 RLG00000030378 RLG00000030380 RLG00000030384 RLG00000030386 RLG00000030388
rosa_multiflora	Rmu_sc0000749.1_g000030 Rmu_sc0000749.1_g000053 Rmu_sc0001932.1_g000014 Rmu_sc0001932.1_g000030 Rmu_sc0002132.1_g000050 Rmu_sc0002263.1_g000033 Rmu_sc0004185.1_g000003
rosa_roxburghii	Rroxscaffold_4G00327000 Rroxscaffold_4G00327020 Rroxscaffold_4G00327130 Rroxscaffold_4G00327210
rosa_rugosa	Rorug01G0035600 Rorug01G0035800 Rorug06G0044400
rosa_samantha	Rh1AG048700 Rh1AG048800 Rh1AG048900 Rh1AG050900 Rh1AG051400 Rh1AG051700 Rh1AG051800 Rh1AG052300 Rh1AG053000 Rh1AG053100 Rh1AG053900 Rh1BG046300 Rh1CG018200 Rh1CG052600 Rh1CG052700 Rh1CG052900 Rh1CG053300 Rh1CG053400 Rh2AG524800
rosa_wichuraiana	Rw1G004420 Rw1G004460 Rw1G004520 Rw1G004600 Rw1G004650 Rw1G004690

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AatII	GACGTC	1 cut(s)	153
AccI	GTMKAC	1 cut(s)	872
AccII	CGCG	1 cut(s)	147
AciI	CCGC	6 cut(s)	145, 305, 334, 605, 698, 711
AclWI	GGATC	1 cut(s)	615
AcoI	YGGCCR	1 cut(s)	685
AcyI	GRCGYC	1 cut(s)	150
AfaI	GTAC	2 cut(s)	532, 808
AgsI	TTSAA	1 cut(s)	251
AluBI	AGCT	7 cut(s)	101, 416, 448, 458, 613, 722, 737
AluI	AGCT	7 cut(s)	101, 416, 448, 458, 613, 722, 737
Alw26I	GTCTC	3 cut(s)	313, 349, 504
AlwI	GGATC	1 cut(s)	615
Ama87I	CYCGRG	1 cut(s)	618
AoxI	GGCC	3 cut(s)	212, 615, 685
ApaI	GGGCCC	1 cut(s)	216
ApeKI	GCWGC	7 cut(s)	223, 331, 536, 539, 551, 560, 734
AspLEI	GCGC	1 cut(s)	195
AspS9I	GGNCC	3 cut(s)	212, 213, 616
AsuC2I	CCSGG	2 cut(s)	619, 620
AsuHPI	GGTGA	1 cut(s)	3
AsuNHI	GCTAGC	1 cut(s)	902
AvaI	CYCGRG	1 cut(s)	618
BaeGI	GKGCMC	1 cut(s)	216
BalI	TGGCCA	1 cut(s)	687
BanII	GRGCYC	1 cut(s)	216
BbvI	GCAGC	7 cut(s)	235, 343, 538, 547, 548, 551, 746
BccI	CCATC	1 cut(s)	500
BceAI	ACGGC	1 cut(s)	453
BcgI	CGANNNNNNTGC	2 cut(s)	215, 249
BcnI	CCSGG	2 cut(s)	619, 620
BcoDI	GTCTC	3 cut(s)	313, 349, 504
BfaI	CTAG	3 cut(s)	417, 804, 903
BfmI	CTRYAG	1 cut(s)	732
BisI	GCNGC	7 cut(s)	224, 332, 537, 540, 552, 561, 735
BlsI	GCNGC	7 cut(s)	225, 333, 538, 541, 553, 562, 736
BmcAI	AGTACT	1 cut(s)	808
Bme1390I	CCNGG	2 cut(s)	619, 620
BmeT110I	CYCGRG	1 cut(s)	618
BmgT120I	GGNCC	3 cut(s)	212, 213, 616
BmiI	GGNNCC	3 cut(s)	213, 214, 855
BmrFI	CCNGG	2 cut(s)	619, 620
BmsI	GCATC	2 cut(s)	239, 774
BmtI	GCTAGC	1 cut(s)	906
Bpu10I	CCTNAGC	1 cut(s)	459
BpuMI	CCSGG	2 cut(s)	619, 620
BsaBI	GATNNNNATC	1 cut(s)	645
BsaHI	GRCGYC	1 cut(s)	150
BsaJI	CCNNGG	1 cut(s)	618
Bse118I	RCCGGY	1 cut(s)	906
Bse1I	ACTGG	1 cut(s)	673
Bse8I	GATNNNNATC	1 cut(s)	645
BseDI	CCNNGG	1 cut(s)	618
BseGI	GGATG	2 cut(s)	659, 835
BseJI	GATNNNNATC	1 cut(s)	645
BseMII	CTCAG	2 cut(s)	455, 872
BseNI	ACTGG	1 cut(s)	673
BseRI	GAGGAG	1 cut(s)	538
BseSI	GKGCMC	1 cut(s)	216
BseXI	GCAGC	7 cut(s)	235, 343, 538, 547, 548, 551, 746
Bsh1236I	CGCG	1 cut(s)	147
BshFI	GGCC	3 cut(s)	214, 617, 687
BsiHKCI	CYCGRG	1 cut(s)	618
BsiSI	CCGG	2 cut(s)	619, 907
BsmAI	GTCTC	3 cut(s)	313, 349, 504
BsmBI	CGTCTC	1 cut(s)	504
BsnI	GGCC	3 cut(s)	214, 617, 687
BsoBI	CYCGRG	1 cut(s)	618
Bsp120I	GGGCCC	1 cut(s)	212
Bsp1286I	GDGCHC	1 cut(s)	216
Bsp143I	GATC	3 cut(s)	111, 121, 607
BspACI	CCGC	6 cut(s)	145, 305, 334, 605, 698, 711
BspANI	GGCC	3 cut(s)	214, 617, 687
BspCNI	CTCAG	2 cut(s)	454, 871
BspFNI	CGCG	1 cut(s)	147
BspLI	GGNNCC	3 cut(s)	213, 214, 855
BspMAI	CTGCAG	1 cut(s)	736
BspOI	GCTAGC	1 cut(s)	906
BspPI	GGATC	1 cut(s)	615
BspQI	GCTCTTC	1 cut(s)	177
BsrFI	RCCGGY	1 cut(s)	906
BsrI	ACTGG	1 cut(s)	673
BssAI	RCCGGY	1 cut(s)	906
BssECI	CCNNGG	1 cut(s)	618
BssMI	GATC	3 cut(s)	111, 121, 607
BssNI	GRCGYC	1 cut(s)	150
Bst4CI	ACNGT	2 cut(s)	29, 324
Bst6I	CTCTTC	2 cut(s)	177, 620
BstACI	GRCGYC	1 cut(s)	150
BstAPI	GCANNNNNTGC	2 cut(s)	274, 548
BstC8I	GCNNGC	4 cut(s)	197, 228, 615, 904
BstDEI	CTNAG	4 cut(s)	441, 459, 599, 858
BstF5I	GGATG	2 cut(s)	659, 835
BstFNI	CGCG	1 cut(s)	147
BstHHI	GCGC	1 cut(s)	195
BstKTI	GATC	3 cut(s)	114, 124, 610
BstMAI	GTCTC	3 cut(s)	313, 349, 504
BstMBI	GATC	3 cut(s)	111, 121, 607
BstMWI	GCNNNNNNNGC	7 cut(s)	211, 220, 274, 548, 557, 560, 743
BstNSI	RCATGY	2 cut(s)	199, 272
BstSCI	CCNGG	2 cut(s)	617, 618
BstSFI	CTRYAG	1 cut(s)	732
BstSLI	GKGCMC	1 cut(s)	216
BstUI	CGCG	1 cut(s)	147
BstV1I	GCAGC	7 cut(s)	235, 343, 538, 547, 548, 551, 746
BsuRI	GGCC	3 cut(s)	214, 617, 687
BtsCI	GGATG	2 cut(s)	659, 835
BtsI	GCAGTG	1 cut(s)	897
BtsIMutI	CAGTG	1 cut(s)	897
Cac8I	GCNNGC	4 cut(s)	197, 228, 615, 904
CfoI	GCGC	1 cut(s)	195
Cfr10I	RCCGGY	1 cut(s)	906
Cfr13I	GGNCC	3 cut(s)	212, 213, 616
Cfr9I	CCCGGG	1 cut(s)	618
Csp6I	GTAC	2 cut(s)	531, 807
CviAII	CATG	6 cut(s)	196, 269, 313, 500, 575, 689
CviQI	GTAC	2 cut(s)	531, 807
DdeI	CTNAG	4 cut(s)	441, 459, 599, 858
DpnI	GATC	3 cut(s)	113, 123, 609
DpnII	GATC	3 cut(s)	111, 121, 607
EaeI	YGGCCR	1 cut(s)	685
Eam1104I	CTCTTC	2 cut(s)	177, 620
EarI	CTCTTC	2 cut(s)	177, 620
EciI	GGCGGA	1 cut(s)	620
Eco24I	GRGCYC	1 cut(s)	216
Eco88I	CYCGRG	1 cut(s)	618
EcoO109I	RGGNCCY	1 cut(s)	212
EcoT38I	GRGCYC	1 cut(s)	216
Esp3I	CGTCTC	1 cut(s)	504
FaeI	CATG	6 cut(s)	199, 272, 316, 503, 578, 692
FatI	CATG	6 cut(s)	195, 268, 312, 499, 574, 688
FauI	CCCGC	2 cut(s)	298, 327
FblI	GTMKAC	1 cut(s)	872
Fnu4HI	GCNGC	7 cut(s)	224, 332, 537, 540, 552, 561, 735
FokI	GGATG	2 cut(s)	646, 842
FriOI	GRGCYC	1 cut(s)	216
Fsp4HI	GCNGC	7 cut(s)	224, 332, 537, 540, 552, 561, 735
FspBI	CTAG	3 cut(s)	417, 804, 903
GlaI	GCGC	1 cut(s)	194
GluI	GCNGC	7 cut(s)	224, 332, 537, 540, 552, 561, 735
HaeIII	GGCC	3 cut(s)	214, 617, 687
HapII	CCGG	2 cut(s)	619, 907
HhaI	GCGC	1 cut(s)	195
Hin1I	GRCGYC	1 cut(s)	150
Hin1II	CATG	6 cut(s)	199, 272, 316, 503, 578, 692
Hin6I	GCGC	1 cut(s)	193
HinP1I	GCGC	1 cut(s)	193
HindIII	AAGCTT	2 cut(s)	446, 720
HinfI	GANTC	5 cut(s)	168, 283, 309, 400, 628
HpaII	CCGG	2 cut(s)	619, 907
HphI	GGTGA	1 cut(s)	3
Hpy166II	GTNNAC	1 cut(s)	873
Hpy188I	TCNGA	5 cut(s)	379, 444, 752, 861, 879
Hpy188III	TCNNGA	5 cut(s)	125, 234, 251, 354, 845
Hpy8I	GTNNAC	1 cut(s)	873
Hpy99I	CGWCG	2 cut(s)	152, 155
HpyAV	CCTTC	2 cut(s)	122, 257
HpyCH4III	ACNGT	2 cut(s)	29, 324
HpyCH4IV	ACGT	1 cut(s)	150
HpyCH4V	TGCA	4 cut(s)	277, 292, 430, 734
HpyF10VI	GCNNNNNNNGC	7 cut(s)	211, 220, 274, 548, 557, 560, 743
HpyF3I	CTNAG	4 cut(s)	441, 459, 599, 858
HpySE526I	ACGT	1 cut(s)	150
Hsp92I	GRCGYC	1 cut(s)	150
Hsp92II	CATG	6 cut(s)	199, 272, 316, 503, 578, 692
HspAI	GCGC	1 cut(s)	193
Kzo9I	GATC	3 cut(s)	111, 121, 607
LguI	GCTCTTC	1 cut(s)	177
LpnPI	CCDG	8 cut(s)	54, 302, 416, 599, 632, 654, 723, 830
Lsp1109I	GCAGC	7 cut(s)	235, 343, 538, 547, 548, 551, 746
LweI	GCATC	2 cut(s)	239, 774
MaeI	CTAG	3 cut(s)	417, 804, 903
MaeII	ACGT	1 cut(s)	150
MalI	GATC	3 cut(s)	113, 123, 609
MboI	GATC	3 cut(s)	111, 121, 607
MboII	GAAGA	6 cut(s)	10, 194, 292, 434, 637, 684
MhlI	GDGCHC	1 cut(s)	216
MlsI	TGGCCA	1 cut(s)	687
MluCI	AATT	3 cut(s)	393, 425, 766
MluNI	TGGCCA	1 cut(s)	687
MlyI	GAGTC	2 cut(s)	177, 637
MnlI	CCTC	8 cut(s)	48, 475, 516, 563, 626, 756, 798, 867
Mox20I	TGGCCA	1 cut(s)	687
MscI	TGGCCA	1 cut(s)	687
MseI	TTAA	2 cut(s)	450, 489
MslI	CAYNNNNRTG	1 cut(s)	504
Msp20I	TGGCCA	1 cut(s)	687
MspA1I	CMGCKG	3 cut(s)	334, 613, 737
MspI	CCGG	2 cut(s)	619, 907
MspR9I	CCNGG	2 cut(s)	619, 620
MvnI	CGCG	1 cut(s)	147
MwoI	GCNNNNNNNGC	7 cut(s)	211, 220, 274, 548, 557, 560, 743
NciI	CCSGG	2 cut(s)	619, 620
NdeII	GATC	3 cut(s)	111, 121, 607
NheI	GCTAGC	1 cut(s)	902
NlaIII	CATG	6 cut(s)	199, 272, 316, 503, 578, 692
NlaIV	GGNNCC	3 cut(s)	213, 214, 855
NspI	RCATGY	2 cut(s)	199, 272
PaeI	GCATGC	1 cut(s)	199
PciSI	GCTCTTC	1 cut(s)	177
PcsI	WCGNNNNNNNCGW	1 cut(s)	510
PfeI	GAWTC	3 cut(s)	283, 309, 400
PkrI	GCNGC	7 cut(s)	225, 333, 538, 541, 553, 562, 736
PleI	GAGTC	2 cut(s)	176, 636
PpsI	GAGTC	2 cut(s)	176, 636
PspN4I	GGNNCC	3 cut(s)	213, 214, 855
PspOMI	GGGCCC	1 cut(s)	212
PspPI	GGNCC	3 cut(s)	212, 213, 616
PstI	CTGCAG	1 cut(s)	736
PvuII	CAGCTG	2 cut(s)	613, 737
RsaI	GTAC	2 cut(s)	532, 808
RsaNI	GTAC	2 cut(s)	531, 807
RseI	CAYNNNNRTG	1 cut(s)	504
SapI	GCTCTTC	1 cut(s)	177
SaqAI	TTAA	2 cut(s)	450, 489
SatI	GCNGC	7 cut(s)	224, 332, 537, 540, 552, 561, 735
Sau3AI	GATC	3 cut(s)	111, 121, 607
Sau96I	GGNCC	3 cut(s)	212, 213, 616
ScaI	AGTACT	1 cut(s)	808
SchI	GAGTC	2 cut(s)	177, 637
ScrFI	CCNGG	2 cut(s)	619, 620
SduI	GDGCHC	1 cut(s)	216
SfaNI	GCATC	2 cut(s)	239, 774
SfcI	CTRYAG	1 cut(s)	732
SmaI	CCCGGG	1 cut(s)	620
SmiMI	CAYNNNNRTG	1 cut(s)	504
SphI	GCATGC	1 cut(s)	199
Sse9I	AATT	3 cut(s)	393, 425, 766
SsiI	CCGC	6 cut(s)	145, 305, 334, 605, 698, 711
SspMI	CTAG	3 cut(s)	417, 804, 903
StyD4I	CCNGG	2 cut(s)	617, 618
TaaI	ACNGT	2 cut(s)	29, 324
TaiI	ACGT	1 cut(s)	153
TaqI	TCGA	4 cut(s)	114, 235, 353, 631
TasI	AATT	3 cut(s)	393, 425, 766
TatI	WGTACW	2 cut(s)	530, 806
TfiI	GAWTC	3 cut(s)	283, 309, 400
Tru1I	TTAA	2 cut(s)	450, 489
Tru9I	TTAA	2 cut(s)	450, 489
TscAI	CASTG	1 cut(s)	904
TseI	GCWGC	7 cut(s)	223, 331, 536, 539, 551, 560, 734
TspDTI	ATGAA	2 cut(s)	468, 695
TspMI	CCCGGG	1 cut(s)	618
TspRI	CASTG	1 cut(s)	904
XceI	RCATGY	2 cut(s)	199, 272
XmaI	CCCGGG	1 cut(s)	618
XmiI	GTMKAC	1 cut(s)	872
XspI	CTAG	3 cut(s)	417, 804, 903
ZraI	GACGTC	1 cut(s)	151
ZrmI	AGTACT	1 cut(s)	808

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