Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000003

Orthogroup ID

OG0005143

Physical Location & Seq

Genomic Coordinates Forward (+)

51902496 .. 51906221

Gene Structure 3726 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_3G00257560.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 867 bp

ATGATAGATTCAAGAAGCAGCAAGAGAAGTGCCAGTCGACCTTTGACGAGCATTGCCTCTAAAAAGGCTGCAGCAAACCCCAGAGCTGTTCCCGTGGCAGCTGCGAGGGCTCCTGCTCCACCTATCAAATTTTCAAATGATACAGAGAGACTCCAACACATTAATAGCATAAGGAAAGGTCCGGTTGGAGCGCAGATCAAGCGTGTTATAGACCTGCTTCTAGAGTACTCCCCACCTGTAGGGACAAGGCAGGCCTTTACTCCAGAGCTAATTAATGAAGCATGTTATGTTGATGTGAATGCCAACAAAGCTGTCTTTGACAGTCTGAGGAATAACCCAAAAGTTCACTATGATGGGAAGCGCTTTTCTTATAAGTCCAAGCATGCCCTGAAGGACAAAAATCAACTCCGGTCCTTAATACGGAAATTTTCAGAGGGCATACCTGTCATTGATCTGAAGGATTCATACCCAACTGTGATGGAGGATTTGCAGGCTTTGAAAGCTGCGGGTGACATATGGCTACTTTCGAACTTCGATTCACAAGAGGACATTGCTTATCCAAATGACCCCAGGTTGCCTTCTACTAAGGTGGATGATGAGCTTAAACTTTTCTTCAGGGGTATTGAACTGCCTCGTGATATGCTGGACATAGAGAGGGATCTTCAGAAGAATGGTATGAAGCCGGCCACAGACACTGCAAAGAGGAGGGCCGTGGCCCAGAGTCAAGGCATTCAAGCCAAATCCAAGCCCAAGAAGAAGAAGAATGAGATCAGCAAGAGGACCAAGTTGACCAATGCCCATCTTCCAGAGCTTTTCAAGGATTTGAAAGGGCTAGCTGAAGCCATTACTCCAATGGCAATACACTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000428 GO:0000988 GO:0000990 GO:0000991 GO:0003674 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005667 GO:0005673 GO:0006139 GO:0006351 GO:0006352 GO:0006355 GO:0006357 GO:0006366 GO:0006367 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009889 GO:0009987 GO:0010467 GO:0010468 GO:0010556 GO:0016070 GO:0016591 GO:0018130 GO:0019219 GO:0019222 GO:0019438 GO:0030880 GO:0031323 GO:0031326 GO:0031974 GO:0031981 GO:0032774 GO:0032991 GO:0034641 GO:0034645 GO:0034654 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044271 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044451 GO:0044464 GO:0044798 GO:0046483 GO:0050789 GO:0050794 GO:0051171 GO:0051252 GO:0055029 GO:0060255 GO:0061695 GO:0065007 GO:0070013 GO:0071704 GO:0080090 GO:0090304 GO:0090575 GO:0097659 GO:0140110 GO:1901360 GO:1901362 GO:1901576 GO:1902494 GO:1903506 GO:1990234 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

ko03022 ko05169 ko05203 map03022 map05169 map05203

Pfam Domains

Protein Families

TFIIE_beta

Protein Analysis

288

Amino Acids

32.17

Weight (kDa)

9.83

Isoelectric Point (pI)

51.9

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
TFA2_Winged_2	PF18121	131 - 188	4.8e-17	TFA2 Winged helix domain 2

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

Font Size (px)

Line Width

Align Labels (Cladogram)

Image

Tree File

Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0005143)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G20330
fragaria_vesca	FvH4_3g33500 FvH4_5g01870
malus_domestica	MD06G1076900.v1.1 MD14G1098300.v1.1
prunus_persica	Prupe.5G094900_v2.0.a1 Prupe.5G094900_v2.0.a1 Prupe.5G094900_v2.0.a1
pyrus_communis	pycom06g07450 pycom14g09650
rosa_chinensis	RchiOBHm_Chr5g0060921 RchiOBHm_Chr7g0198651
rosa_laevigata	RLG00000003851 RLG00000035413
rosa_multiflora	Rmu_sc0000420.1_g000016 Rmu_sc0009374.1_g000001
rosa_roxburghii	Rroxscaffold_1G00019720 Rroxscaffold_3G00257560
rosa_rugosa	Rorug05G0334900 Rorug05G0335000 Rorug07G0048900
rosa_samantha	Rh5AG397900 Rh5BG410500 Rh5CG435700 Rh5DG425100 Rh7AG172500 Rh7BG176000 Rh7CG181900
rosa_wichuraiana	Rw5G037520 Rw7G015140

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	372
Acc36I	ACCTGC	1 cut(s)	222
AccI	GTMKAC	1 cut(s)	37
AciI	CCGC	1 cut(s)	506
AclWI	GGATC	1 cut(s)	666
AcoI	YGGCCR	1 cut(s)	684
AcsI	RAATTY	2 cut(s)	128, 425
AcuI	CTGAAG	5 cut(s)	410, 476, 598, 647, 858
AfaI	GTAC	1 cut(s)	227
AfeI	AGCGCT	1 cut(s)	362
AfiI	CCNNNNNNNGG	2 cut(s)	239, 420
AgsI	TTSAA	7 cut(s)	12, 135, 499, 626, 734, 817, 826
AjnI	CCWGG	1 cut(s)	569
AluBI	AGCT	8 cut(s)	86, 101, 268, 311, 503, 601, 811, 836
AluI	AGCT	8 cut(s)	86, 101, 268, 311, 503, 601, 811, 836
Alw26I	GTCTC	1 cut(s)	142
AlwI	GGATC	1 cut(s)	666
AlwNI	CAGNNNCTG	1 cut(s)	695
Aor51HI	AGCGCT	1 cut(s)	362
AoxI	GGCC	4 cut(s)	252, 684, 708, 714
ApeKI	GCWGC	6 cut(s)	18, 68, 71, 98, 101, 503
ApoI	RAATTY	2 cut(s)	128, 425
AseI	ATTAAT	2 cut(s)	162, 273
AspLEI	GCGC	2 cut(s)	193, 363
AspS9I	GGNCC	5 cut(s)	179, 411, 708, 715, 780
AsuHPI	GGTGA	1 cut(s)	521
AsuII	TTCGAA	1 cut(s)	527
AsuNHI	GCTAGC	1 cut(s)	832
AvaII	GGWCC	3 cut(s)	179, 411, 780
BanII	GRGCYC	1 cut(s)	112
BarI	GAAGNNNNNNTAC	2 cut(s)	449, 481
BauI	CACGAG	1 cut(s)	633
BbvI	GCAGC	6 cut(s)	30, 55, 83, 88, 110, 490
BccI	CCATC	3 cut(s)	347, 472, 807
BceAI	ACGGC	1 cut(s)	695
BciT130I	CCWGG	1 cut(s)	571
BcoDI	GTCTC	1 cut(s)	142
BfaI	CTAG	2 cut(s)	221, 833
BfmI	CTRYAG	2 cut(s)	69, 237
BfoI	RGCGCY	1 cut(s)	364
BfuAI	ACCTGC	1 cut(s)	222
BisI	GCNGC	6 cut(s)	19, 69, 72, 99, 102, 504
BlsI	GCNGC	6 cut(s)	20, 70, 73, 100, 103, 505
BmcAI	AGTACT	1 cut(s)	227
Bme1390I	CCNGG	1 cut(s)	571
Bme18I	GGWCC	3 cut(s)	179, 411, 780
BmgT120I	GGNCC	5 cut(s)	179, 411, 708, 715, 780
BmiI	GGNNCC	1 cut(s)	111
BmrFI	CCNGG	1 cut(s)	571
BmtI	GCTAGC	1 cut(s)	836
BpmI	CTGGAG	1 cut(s)	246
Bpu14I	TTCGAA	1 cut(s)	527
BsaJI	CCNNGG	3 cut(s)	93, 569, 711
BsaWI	WCCGGW	2 cut(s)	181, 408
Bsc4I	CCNNNNNNNGG	2 cut(s)	239, 420
Bse118I	RCCGGY	1 cut(s)	682
Bse1I	ACTGG	1 cut(s)	33
Bse3DI	GCAATG	2 cut(s)	51, 549
BseBI	CCWGG	1 cut(s)	571
BseDI	CCNNGG	3 cut(s)	93, 569, 711
BseGI	GGATG	1 cut(s)	598
BseLI	CCNNNNNNNGG	2 cut(s)	239, 420
BseMI	GCAATG	2 cut(s)	51, 549
BseMII	CTCAG	1 cut(s)	317
BseNI	ACTGG	1 cut(s)	33
BseRI	GAGGAG	1 cut(s)	718
BseXI	GCAGC	6 cut(s)	30, 55, 83, 88, 110, 490
BshFI	GGCC	4 cut(s)	254, 686, 710, 716
BsiSI	CCGG	3 cut(s)	182, 409, 683
BslFI	GGGAC	1 cut(s)	256
BslI	CCNNNNNNNGG	2 cut(s)	239, 420
BsmAI	GTCTC	1 cut(s)	142
BsmFI	GGGAC	1 cut(s)	256
BsmI	GAATGC	2 cut(s)	304, 729
BsnI	GGCC	4 cut(s)	254, 686, 710, 716
Bsp119I	TTCGAA	1 cut(s)	527
Bsp1286I	GDGCHC	1 cut(s)	112
Bsp143I	GATC	4 cut(s)	195, 451, 658, 768
BspACI	CCGC	1 cut(s)	506
BspANI	GGCC	4 cut(s)	254, 686, 710, 716
BspCNI	CTCAG	1 cut(s)	318
BspLI	GGNNCC	1 cut(s)	111
BspMAI	CTGCAG	1 cut(s)	73
BspMI	ACCTGC	1 cut(s)	222
BspOI	GCTAGC	1 cut(s)	836
BspPI	GGATC	1 cut(s)	666
BspT104I	TTCGAA	1 cut(s)	527
BsrDI	GCAATG	2 cut(s)	51, 549
BsrFI	RCCGGY	1 cut(s)	682
BsrI	ACTGG	1 cut(s)	33
BssAI	RCCGGY	1 cut(s)	682
BssECI	CCNNGG	3 cut(s)	93, 569, 711
BssMI	GATC	4 cut(s)	195, 451, 658, 768
BssSI	CACGAG	1 cut(s)	633
Bst2BI	CACGAG	1 cut(s)	633
Bst2UI	CCWGG	1 cut(s)	571
Bst4CI	ACNGT	2 cut(s)	323, 475
BstBI	TTCGAA	1 cut(s)	527
BstC8I	GCNNGC	5 cut(s)	252, 384, 492, 684, 834
BstDEI	CTNAG	2 cut(s)	326, 585
BstDSI	CCRYGG	2 cut(s)	93, 711
BstF5I	GGATG	1 cut(s)	598
BstH2I	RGCGCY	1 cut(s)	364
BstHHI	GCGC	2 cut(s)	193, 363
BstKTI	GATC	4 cut(s)	198, 454, 661, 771
BstMAI	GTCTC	1 cut(s)	142
BstMBI	GATC	4 cut(s)	195, 451, 658, 768
BstMWI	GCNNNNNNNGC	4 cut(s)	107, 199, 308, 500
BstNI	CCWGG	1 cut(s)	571
BstNSI	RCATGY	2 cut(s)	285, 386
BstSCI	CCNGG	1 cut(s)	569
BstSFI	CTRYAG	2 cut(s)	69, 237
BstV1I	GCAGC	6 cut(s)	30, 55, 83, 88, 110, 490
BstX2I	RGATCY	1 cut(s)	658
BstYI	RGATCY	1 cut(s)	658
BsuRI	GGCC	4 cut(s)	254, 686, 710, 716
BtgI	CCRYGG	2 cut(s)	93, 711
BtsCI	GGATG	1 cut(s)	598
BtsI	GCAGTG	1 cut(s)	693
BtsIMutI	CAGTG	2 cut(s)	693, 862
BveI	ACCTGC	1 cut(s)	222
Cac8I	GCNNGC	5 cut(s)	252, 384, 492, 684, 834
CaiI	CAGNNNCTG	1 cut(s)	695
CfoI	GCGC	2 cut(s)	193, 363
Cfr10I	RCCGGY	1 cut(s)	682
Cfr13I	GGNCC	5 cut(s)	179, 411, 708, 715, 780
Csp6I	GTAC	1 cut(s)	226
CviAII	CATG	2 cut(s)	282, 383
CviQI	GTAC	1 cut(s)	226
DdeI	CTNAG	2 cut(s)	326, 585
DpnI	GATC	4 cut(s)	197, 453, 660, 770
DpnII	GATC	4 cut(s)	195, 451, 658, 768
EaeI	YGGCCR	1 cut(s)	684
Eco147I	AGGCCT	1 cut(s)	254
Eco24I	GRGCYC	1 cut(s)	112
Eco47I	GGWCC	3 cut(s)	179, 411, 780
Eco47III	AGCGCT	1 cut(s)	362
Eco57I	CTGAAG	5 cut(s)	410, 476, 598, 647, 858
EcoRII	CCWGG	1 cut(s)	569
EcoT38I	GRGCYC	1 cut(s)	112
FaeI	CATG	2 cut(s)	285, 386
FaqI	GGGAC	1 cut(s)	256
FatI	CATG	2 cut(s)	281, 382
FauI	CCCGC	1 cut(s)	499
FauNDI	CATATG	1 cut(s)	515
FblI	GTMKAC	1 cut(s)	37
Fnu4HI	GCNGC	6 cut(s)	19, 69, 72, 99, 102, 504
FokI	GGATG	1 cut(s)	605
FriOI	GRGCYC	1 cut(s)	112
Fsp4HI	GCNGC	6 cut(s)	19, 69, 72, 99, 102, 504
FspBI	CTAG	2 cut(s)	221, 833
GlaI	GCGC	2 cut(s)	192, 362
GluI	GCNGC	6 cut(s)	19, 69, 72, 99, 102, 504
GsuI	CTGGAG	1 cut(s)	246
HaeII	RGCGCY	1 cut(s)	364
HaeIII	GGCC	4 cut(s)	254, 686, 710, 716
HapII	CCGG	3 cut(s)	182, 409, 683
HhaI	GCGC	2 cut(s)	193, 363
Hin1II	CATG	2 cut(s)	285, 386
Hin6I	GCGC	2 cut(s)	191, 361
HinP1I	GCGC	2 cut(s)	191, 361
HincII	GTYRAC	2 cut(s)	38, 789
HindII	GTYRAC	2 cut(s)	38, 789
HinfI	GANTC	5 cut(s)	8, 150, 461, 536, 721
HpaII	CCGG	3 cut(s)	182, 409, 683
HphI	GGTGA	1 cut(s)	521
Hpy166II	GTNNAC	3 cut(s)	38, 346, 789
Hpy188I	TCNGA	4 cut(s)	327, 433, 456, 666
Hpy188III	TCNNGA	5 cut(s)	12, 221, 263, 635, 806
Hpy8I	GTNNAC	3 cut(s)	38, 346, 789
HpyAV	CCTTC	3 cut(s)	385, 451, 588
HpyCH4III	ACNGT	2 cut(s)	323, 475
HpyCH4V	TGCA	3 cut(s)	71, 490, 698
HpyF10VI	GCNNNNNNNGC	4 cut(s)	107, 199, 308, 500
HpyF3I	CTNAG	2 cut(s)	326, 585
Hsp92II	CATG	2 cut(s)	285, 386
HspAI	GCGC	2 cut(s)	191, 361
KroI	GCCGGC	1 cut(s)	682
KroNI	GCCGGC	1 cut(s)	684
Kzo9I	GATC	4 cut(s)	195, 451, 658, 768
LmnI	GCTCC	3 cut(s)	115, 121, 188
Lsp1109I	GCAGC	6 cut(s)	30, 55, 83, 88, 110, 490
MaeI	CTAG	2 cut(s)	221, 833
MaeIII	GTNAC	1 cut(s)	509
MalI	GATC	4 cut(s)	197, 453, 660, 770
MboI	GATC	4 cut(s)	195, 451, 658, 768
MboII	GAAGA	7 cut(s)	604, 653, 679, 766, 769, 772, 794
MflI	RGATCY	1 cut(s)	658
MhlI	GDGCHC	1 cut(s)	112
MluCI	AATT	3 cut(s)	128, 270, 425
MlyI	GAGTC	2 cut(s)	144, 730
MmeI	TCCRAC	2 cut(s)	166, 178
MroNI	GCCGGC	1 cut(s)	682
MseI	TTAA	4 cut(s)	162, 273, 416, 603
MslI	CAYNNNNRTG	1 cut(s)	351
MspA1I	CMGCKG	1 cut(s)	101
MspI	CCGG	3 cut(s)	182, 409, 683
MspR9I	CCNGG	1 cut(s)	571
Mva1269I	GAATGC	2 cut(s)	304, 729
MvaI	CCWGG	1 cut(s)	571
MwoI	GCNNNNNNNGC	4 cut(s)	107, 199, 308, 500
NaeI	GCCGGC	1 cut(s)	684
NdeI	CATATG	1 cut(s)	515
NdeII	GATC	4 cut(s)	195, 451, 658, 768
NgoMIV	GCCGGC	1 cut(s)	682
NheI	GCTAGC	1 cut(s)	832
NlaIII	CATG	2 cut(s)	285, 386
NlaIV	GGNNCC	1 cut(s)	111
NmuCI	GTSAC	1 cut(s)	509
NspI	RCATGY	2 cut(s)	285, 386
NspV	TTCGAA	1 cut(s)	527
PaeI	GCATGC	1 cut(s)	386
PceI	AGGCCT	1 cut(s)	254
PctI	GAATGC	2 cut(s)	304, 729
PdiI	GCCGGC	1 cut(s)	684
PfeI	GAWTC	3 cut(s)	8, 461, 536
PkrI	GCNGC	6 cut(s)	20, 70, 73, 100, 103, 505
PleI	GAGTC	2 cut(s)	144, 729
PpsI	GAGTC	2 cut(s)	144, 729
PshBI	ATTAAT	2 cut(s)	162, 273
PsiI	TTATAA	1 cut(s)	372
Psp6I	CCWGG	1 cut(s)	569
PspGI	CCWGG	1 cut(s)	569
PspN4I	GGNNCC	1 cut(s)	111
PspPI	GGNCC	5 cut(s)	179, 411, 708, 715, 780
PstI	CTGCAG	1 cut(s)	73
PstNI	CAGNNNCTG	1 cut(s)	695
PsuI	RGATCY	1 cut(s)	658
PvuII	CAGCTG	1 cut(s)	101
RsaI	GTAC	1 cut(s)	227
RsaNI	GTAC	1 cut(s)	226
RseI	CAYNNNNRTG	1 cut(s)	351
SalI	GTCGAC	1 cut(s)	36
SaqAI	TTAA	4 cut(s)	162, 273, 416, 603
SatI	GCNGC	6 cut(s)	19, 69, 72, 99, 102, 504
Sau3AI	GATC	4 cut(s)	195, 451, 658, 768
Sau96I	GGNCC	5 cut(s)	179, 411, 708, 715, 780
ScaI	AGTACT	1 cut(s)	227
SchI	GAGTC	2 cut(s)	144, 730
ScrFI	CCNGG	1 cut(s)	571
SduI	GDGCHC	1 cut(s)	112
SfcI	CTRYAG	2 cut(s)	69, 237
SfuI	TTCGAA	1 cut(s)	527
SinI	GGWCC	3 cut(s)	179, 411, 780
SmiMI	CAYNNNNRTG	1 cut(s)	351
SphI	GCATGC	1 cut(s)	386
Sse9I	AATT	3 cut(s)	128, 270, 425
SseBI	AGGCCT	1 cut(s)	254
SsiI	CCGC	1 cut(s)	506
SspMI	CTAG	2 cut(s)	221, 833
StuI	AGGCCT	1 cut(s)	254
StyD4I	CCNGG	1 cut(s)	569
TaaI	ACNGT	2 cut(s)	323, 475
TaqI	TCGA	3 cut(s)	37, 527, 534
TasI	AATT	3 cut(s)	128, 270, 425
TatI	WGTACW	1 cut(s)	225
TfiI	GAWTC	3 cut(s)	8, 461, 536
Tru1I	TTAA	4 cut(s)	162, 273, 416, 603
Tru9I	TTAA	4 cut(s)	162, 273, 416, 603
TscAI	CASTG	1 cut(s)	700
TseFI	GTSAC	1 cut(s)	509
TseI	GCWGC	6 cut(s)	18, 68, 71, 98, 101, 503
Tsp45I	GTSAC	1 cut(s)	509
TspDTI	ATGAA	3 cut(s)	291, 453, 692
TspGWI	ACGGA	1 cut(s)	436
TspRI	CASTG	1 cut(s)	700
VpaK11BI	GGWCC	3 cut(s)	179, 411, 780
VspI	ATTAAT	2 cut(s)	162, 273
XapI	RAATTY	2 cut(s)	128, 425
XbaI	TCTAGA	1 cut(s)	220
XceI	RCATGY	2 cut(s)	285, 386
XcmI	CCANNNNNNNNNTGG	1 cut(s)	850
XmiI	GTMKAC	1 cut(s)	37
XspI	CTAG	2 cut(s)	221, 833
ZrmI	AGTACT	1 cut(s)	227

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