Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000001

Orthogroup ID

OG0000573

Physical Location & Seq

Genomic Coordinates Forward (+)

62273618 .. 62274136

Gene Structure 519 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_1G00043630.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 393 bp

ATGAGGACGAAGGTGAGGAGGATCTATGACATTGCGAATGTATTGTCGTCGGTGAATTTGATTGAGAAGACTCATACGGCGGATACAGGGAAGCCGGCGTACAGGTGGTTGGGTCTGAATGGGAGAAGAGATGGTTTGAACTTGAATTCGGAGCCGAATTCGGAGCAGGCTAAGAAGAGGAGCTTTGGGACAGATCTGACGAATGCGAGTATGCCGGTTCCAAGAGCTAGGAAGGGTGTTGACGTCAACAAGGTTTGCTGGGAGAGTCTGGGGGCTTATTATCGGCCTCAGTATCAGAACCAAGAGATGAAGGAGCTGTTTTCGCATTATAGGGAAGCGTGGATGTTGTGGAACTCTCAAGTTGCTGAGAAGAATCCAATTCAGAGTTCTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003677 GO:0003700 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006139 GO:0006259 GO:0006260 GO:0006261 GO:0006275 GO:0006355 GO:0006725 GO:0006807 GO:0007049 GO:0008150 GO:0008152 GO:0008156 GO:0009058 GO:0009059 GO:0009889 GO:0009890 GO:0009892 GO:0009987 GO:0010468 GO:0010556 GO:0010558 GO:0010564 GO:0010605 GO:0010948 GO:0019219 GO:0019222 GO:0022402 GO:0031323 GO:0031324 GO:0031326 GO:0031327 GO:0032875 GO:0032876 GO:0034641 GO:0034645 GO:0042023 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044424 GO:0044464 GO:0044786 GO:0045786 GO:0045934 GO:0046483 GO:0048519 GO:0048523 GO:0050789 GO:0050794 GO:0051052 GO:0051053 GO:0051171 GO:0051172 GO:0051252 GO:0051726 GO:0060255 GO:0065007 GO:0071704 GO:0080090 GO:0090304 GO:0090329 GO:0097159 GO:0140110 GO:1901360 GO:1901363 GO:1901576 GO:1903506 GO:2000104 GO:2000112 GO:2000113 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

E2F_TDP

Protein Analysis

130

Amino Acids

15.01

Weight (kDa)

9.71

Isoelectric Point (pI)

57.21

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
WHD_E2F_TDP	PF02319	2 - 38	7.5e-11	E2F/DP family winged-helix DNA-binding domain

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

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Publication-ready

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Orthologous Genes (Group: OG0000573)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G48160 AT3G48160
fragaria_vesca	FvH4_3g21790 FvH4_5g16330 FvH4_5g16330 FvH4_5g16330 FvH4_5g16330 FvH4_5g16330 FvH4_5g16330 FvH4_5g16330 FvH4_5g16330 FvH4_5g16330 FvH4_5g16330 FvH4_5g16330 FvH4_5g16330 FvH4_5g16330
malus_domestica	MD06G1181700.v1.1 MD14G1187600.v1.1
prunus_persica	Prupe.5G180000_v2.0.a1 Prupe.5G180000_v2.0.a1 Prupe.5G180000_v2.0.a1 Prupe.5G180000_v2.0.a1
pyrus_communis	pycom06g16070 pycom14g15550
rosa_chinensis	RchiOBHm_Chr2g0100091 RchiOBHm_Chr2g0131211 RchiOBHm_Chr2g0131231 RchiOBHm_Chr2g0155761 RchiOBHm_Chr5g0037341 RchiOBHm_Chr6g0286771 RchiOBHm_Chr7g0179801
rosa_laevigata	RLG00000005323 RLG00000033775
rosa_multiflora	Rmu_co8405049.1_g000002 Rmu_sc0003547.1_g000004 Rmu_sc0004156.1_g000008 Rmu_sc0007546.1_g000012 Rmu_sc0026307.1_g000001 Rmu_sc0032585.1_g000001 Rmu_ssc0000019.1_g000022
rosa_roxburghii	Rroxscaffold_1G00027620 Rroxscaffold_1G00027630 Rroxscaffold_1G00043630 Rroxscaffold_2G00107640 Rroxscaffold_3G00273460 Rroxscaffold_5G00347960 Rroxscaffold_5G00350580 Rroxscaffold_5G00366890 Rroxscaffold_6G00391730 Rroxscaffold_6G00392580 Rroxscaffold_7G00170270 Rroxscaffold_7G00170280
rosa_rugosa	Rorug02G0499800 Rorug04G0099000 Rorug04G0116000 Rorug05G0129300 Rorug05G0164200 Rorug06G0428300 Rorug06G0428400
rosa_samantha	Rh1DG306200 Rh2AG348600 Rh2CG139500 Rh2CG334400 Rh2CG334500 Rh2CG334700 Rh2DG139800 Rh2DG373800 Rh5BG255900 Rh5CG289000 Rh5DG264300 Rh5DG449300 Rh6AG295400 Rh6BG299400 Rh6CG299300 Rh6DG291200 Rh7AG028200 Rh7BG027100 Rh7BG173900 Rh7CG029000 Rh7DG028500
rosa_wichuraiana	Rw5G023500 Rw7G002240

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AatII	GACGTC	1 cut(s)	246
AciI	CCGC	1 cut(s)	80
AclWI	GGATC	1 cut(s)	29
AcsI	RAATTY	3 cut(s)	55, 145, 157
AcyI	GRCGYC	1 cut(s)	243
AfaI	GTAC	1 cut(s)	101
AgsI	TTSAA	2 cut(s)	139, 145
AjuI	GAANNNNNNNTTGG	1 cut(s)	370
AluBI	AGCT	3 cut(s)	183, 227, 316
AluI	AGCT	3 cut(s)	183, 227, 316
AlwI	GGATC	1 cut(s)	29
AoxI	GGCC	1 cut(s)	284
ApoI	RAATTY	3 cut(s)	55, 145, 157
ArsI	GACNNNNNNTTYG	2 cut(s)	29, 61
AsuHPI	GGTGA	2 cut(s)	25, 64
BarI	GAAGNNNNNNTAC	2 cut(s)	83, 115
BbsI	GAAGAC	1 cut(s)	74
BccI	CCATC	1 cut(s)	125
BceAI	ACGGC	1 cut(s)	93
BciVI	GTATCC	1 cut(s)	76
BfaI	CTAG	1 cut(s)	228
BfuI	GTATCC	1 cut(s)	76
BglII	AGATCT	1 cut(s)	193
BmiI	GGNNCC	2 cut(s)	153, 219
BpiI	GAAGAC	1 cut(s)	74
BpuEI	CTTGAG	1 cut(s)	342
BsaHI	GRCGYC	1 cut(s)	243
Bse118I	RCCGGY	2 cut(s)	94, 214
Bse3DI	GCAATG	1 cut(s)	30
BseGI	GGATG	1 cut(s)	348
BseMI	GCAATG	1 cut(s)	30
BseMII	CTCAG	2 cut(s)	302, 357
BseRI	GAGGAG	2 cut(s)	31, 193
BseYI	CCCAGC	1 cut(s)	258
BshFI	GGCC	1 cut(s)	286
BsiSI	CCGG	2 cut(s)	95, 215
BslFI	GGGAC	1 cut(s)	202
BsmFI	GGGAC	1 cut(s)	202
BsmI	GAATGC	1 cut(s)	208
BsnI	GGCC	1 cut(s)	286
Bsp143I	GATC	2 cut(s)	21, 193
BspACI	CCGC	1 cut(s)	80
BspANI	GGCC	1 cut(s)	286
BspCNI	CTCAG	2 cut(s)	301, 358
BspLI	GGNNCC	2 cut(s)	153, 219
BspPI	GGATC	1 cut(s)	29
BsrDI	GCAATG	1 cut(s)	30
BsrFI	RCCGGY	2 cut(s)	94, 214
BssAI	RCCGGY	2 cut(s)	94, 214
BssMI	GATC	2 cut(s)	21, 193
BssNI	GRCGYC	1 cut(s)	243
Bst6I	CTCTTC	2 cut(s)	121, 170
BstACI	GRCGYC	1 cut(s)	243
BstC8I	GCNNGC	2 cut(s)	96, 168
BstDEI	CTNAG	3 cut(s)	171, 288, 366
BstF5I	GGATG	1 cut(s)	348
BstKTI	GATC	2 cut(s)	24, 196
BstMBI	GATC	2 cut(s)	21, 193
BstMWI	GCNNNNNNNGC	1 cut(s)	322
BstV2I	GAAGAC	1 cut(s)	74
BstX2I	RGATCY	2 cut(s)	21, 193
BstYI	RGATCY	2 cut(s)	21, 193
BsuI	GTATCC	1 cut(s)	76
BsuRI	GGCC	1 cut(s)	286
BtsCI	GGATG	1 cut(s)	348
Cac8I	GCNNGC	2 cut(s)	96, 168
Cfr10I	RCCGGY	2 cut(s)	94, 214
Csp6I	GTAC	1 cut(s)	100
CviJI	RGCY	8 cut(s)	94, 154, 170, 183, 227, 275, 286, 316
CviKI_1	RGCY	8 cut(s)	94, 154, 170, 183, 227, 275, 286, 316
CviQI	GTAC	1 cut(s)	100
DdeI	CTNAG	3 cut(s)	171, 288, 366
DpnI	GATC	2 cut(s)	23, 195
DpnII	GATC	2 cut(s)	21, 193
Eam1104I	CTCTTC	2 cut(s)	121, 170
EarI	CTCTTC	2 cut(s)	121, 170
EciI	GGCGGA	1 cut(s)	95
EcoRI	GAATTC	2 cut(s)	145, 157
FaiI	YATR	4 cut(s)	27, 75, 212, 330
FalI	AAGNNNNNCTT	2 cut(s)	167, 199
FaqI	GGGAC	1 cut(s)	202
FokI	GGATG	1 cut(s)	355
FspBI	CTAG	1 cut(s)	228
GsaI	CCCAGC	1 cut(s)	262
HaeIII	GGCC	1 cut(s)	286
HapII	CCGG	2 cut(s)	95, 215
Hin1I	GRCGYC	1 cut(s)	243
HincII	GTYRAC	2 cut(s)	241, 247
HindII	GTYRAC	2 cut(s)	241, 247
HinfI	GANTC	3 cut(s)	70, 265, 373
HpaII	CCGG	2 cut(s)	95, 215
HphI	GGTGA	2 cut(s)	25, 64
Hpy166II	GTNNAC	2 cut(s)	241, 247
Hpy188I	TCNGA	6 cut(s)	117, 151, 163, 198, 297, 384
Hpy188III	TCNNGA	1 cut(s)	390
Hpy8I	GTNNAC	2 cut(s)	241, 247
Hpy99I	CGWCG	1 cut(s)	52
HpyAV	CCTTC	3 cut(s)	4, 226, 304
HpyCH4IV	ACGT	1 cut(s)	243
HpyF10VI	GCNNNNNNNGC	1 cut(s)	322
HpyF3I	CTNAG	3 cut(s)	171, 288, 366
HpySE526I	ACGT	1 cut(s)	243
Hsp92I	GRCGYC	1 cut(s)	243
KroI	GCCGGC	1 cut(s)	94
KroNI	GCCGGC	1 cut(s)	96
Kzo9I	GATC	2 cut(s)	21, 193
LmnI	GCTCC	4 cut(s)	151, 163, 180, 313
LpnPI	CCDG	7 cut(s)	72, 88, 108, 152, 228, 244, 254
MaeI	CTAG	1 cut(s)	228
MaeII	ACGT	1 cut(s)	243
MalI	GATC	2 cut(s)	23, 195
MboI	GATC	2 cut(s)	21, 193
MboII	GAAGA	4 cut(s)	79, 138, 187, 382
MflI	RGATCY	2 cut(s)	21, 193
MluCI	AATT	4 cut(s)	55, 145, 157, 378
MlyI	GAGTC	2 cut(s)	64, 274
MnlI	CCTC	4 cut(s)	9, 12, 171, 297
MroNI	GCCGGC	1 cut(s)	94
MspI	CCGG	2 cut(s)	95, 215
Mva1269I	GAATGC	1 cut(s)	208
MwoI	GCNNNNNNNGC	1 cut(s)	322
NaeI	GCCGGC	1 cut(s)	96
NdeII	GATC	2 cut(s)	21, 193
NgoMIV	GCCGGC	1 cut(s)	94
NlaIV	GGNNCC	2 cut(s)	153, 219
PctI	GAATGC	1 cut(s)	208
PdiI	GCCGGC	1 cut(s)	96
PfeI	GAWTC	1 cut(s)	373
PleI	GAGTC	2 cut(s)	64, 273
PpsI	GAGTC	2 cut(s)	64, 273
PspFI	CCCAGC	1 cut(s)	258
PspN4I	GGNNCC	2 cut(s)	153, 219
PsuI	RGATCY	2 cut(s)	21, 193
RsaI	GTAC	1 cut(s)	101
RsaNI	GTAC	1 cut(s)	100
Sau3AI	GATC	2 cut(s)	21, 193
SchI	GAGTC	2 cut(s)	64, 274
SetI	ASST	7 cut(s)	15, 107, 185, 229, 246, 255, 318
SmlI	CTYRAG	1 cut(s)	357
SmoI	CTYRAG	1 cut(s)	357
Sse9I	AATT	4 cut(s)	55, 145, 157, 378
SsiI	CCGC	1 cut(s)	80
SspMI	CTAG	1 cut(s)	228
TaiI	ACGT	1 cut(s)	246
TasI	AATT	4 cut(s)	55, 145, 157, 378
TfiI	GAWTC	1 cut(s)	373
TspDTI	ATGAA	1 cut(s)	323
XapI	RAATTY	3 cut(s)	55, 145, 157
XspI	CTAG	1 cut(s)	228
ZraI	GACGTC	1 cut(s)	244

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