Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5C

Orthogroup ID

OG0000573

Physical Location & Seq

Genomic Coordinates Reverse (-)

31648550 .. 31649068

Gene Structure 519 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5CG289000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 519 bp

ATGAGGACAAAGGTGAGGAGGATCTATGACATTGCGAATGTGTTGTCGTCGGTGAATTTGATTGAGAAGACTCATACGGCGGATACAGGGAAGCCGGCGTACAGGTGGTTGGGGCTGAATGGGAGAAGAGATGATTTGAATTTGAATTCGGAGCCGAATTCGGAGCAGGCTAAGAAGAGGAGCTTTGGGACAGATCTGACGAATGCGAGTAGTAAGAGGAGCAAGGTTGTGGAGAAGAGAGTTCAAGATCAGGGTGAGGTTGAGAACTGCAATTCGGATGGCGGTGGTGGGGCGAAGGAGAGTTCGAAGAGCTACCAGTTTGGTCCTTTCGCTCCGGTGGCGGTTCCAAGAGCTAGGAAGGGTGTTGACGTCAACAAGGTTTGCTGGGAGAGTCTGGGGGCTTATTATCGGCCTCAGTATCAGAACCAAGCGATGAAGGAGCTGTTTTCGCATTATAGGGAAGCGTGGATGTTGTGGAACTCTCAAGTTGCTGAGAAGAATCCAATTCAGAGTTCTTGA

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

172

Amino Acids

19.42

Weight (kDa)

9.54

Isoelectric Point (pI)

55.19

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
WHD_E2F_TDP	PF02319	2 - 38	1.2e-10	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

Tree File

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Publication-ready

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

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)	372
AciI	CCGC	3 cut(s)	80, 282, 341
AclWI	GGATC	1 cut(s)	29
AcsI	RAATTY	4 cut(s)	55, 139, 145, 157
AcyI	GRCGYC	1 cut(s)	369
AfaI	GTAC	1 cut(s)	101
AgsI	TTSAA	3 cut(s)	139, 145, 245
AjuI	GAANNNNNNNTTGG	1 cut(s)	496
AluBI	AGCT	4 cut(s)	183, 312, 353, 442
AluI	AGCT	4 cut(s)	183, 312, 353, 442
AlwI	GGATC	1 cut(s)	29
AoxI	GGCC	1 cut(s)	410
ApoI	RAATTY	4 cut(s)	55, 139, 145, 157
ArsI	GACNNNNNNTTYG	2 cut(s)	29, 61
AspS9I	GGNCC	1 cut(s)	323
AsuHPI	GGTGA	3 cut(s)	25, 64, 266
AsuII	TTCGAA	1 cut(s)	305
AvaII	GGWCC	1 cut(s)	323
BarI	GAAGNNNNNNTAC	2 cut(s)	83, 115
BbsI	GAAGAC	1 cut(s)	74
BccI	CCATC	1 cut(s)	272
BceAI	ACGGC	1 cut(s)	93
BciVI	GTATCC	1 cut(s)	76
BfaI	CTAG	1 cut(s)	354
BfuI	GTATCC	1 cut(s)	76
BglII	AGATCT	1 cut(s)	193
Bme18I	GGWCC	1 cut(s)	323
BmgT120I	GGNCC	1 cut(s)	323
BmiI	GGNNCC	2 cut(s)	153, 345
BpiI	GAAGAC	1 cut(s)	74
Bpu14I	TTCGAA	1 cut(s)	305
BpuEI	CTTGAG	1 cut(s)	468
BsaHI	GRCGYC	1 cut(s)	369
BsaWI	WCCGGW	1 cut(s)	334
Bse118I	RCCGGY	1 cut(s)	94
Bse1I	ACTGG	1 cut(s)	316
Bse3DI	GCAATG	1 cut(s)	30
BseGI	GGATG	2 cut(s)	283, 474
BseMI	GCAATG	1 cut(s)	30
BseMII	CTCAG	2 cut(s)	428, 483
BseNI	ACTGG	1 cut(s)	316
BseRI	GAGGAG	3 cut(s)	31, 193, 232
BseYI	CCCAGC	1 cut(s)	384
BshFI	GGCC	1 cut(s)	412
BsiSI	CCGG	2 cut(s)	95, 335
BslFI	GGGAC	1 cut(s)	202
BsmFI	GGGAC	1 cut(s)	202
BsmI	GAATGC	1 cut(s)	208
BsnI	GGCC	1 cut(s)	412
Bsp119I	TTCGAA	1 cut(s)	305
Bsp143I	GATC	3 cut(s)	21, 193, 247
BspACI	CCGC	3 cut(s)	80, 282, 341
BspANI	GGCC	1 cut(s)	412
BspCNI	CTCAG	2 cut(s)	427, 484
BspLI	GGNNCC	2 cut(s)	153, 345
BspPI	GGATC	1 cut(s)	29
BspQI	GCTCTTC	1 cut(s)	302
BspT104I	TTCGAA	1 cut(s)	305
BsrDI	GCAATG	1 cut(s)	30
BsrFI	RCCGGY	1 cut(s)	94
BsrI	ACTGG	1 cut(s)	316
BssAI	RCCGGY	1 cut(s)	94
BssMI	GATC	3 cut(s)	21, 193, 247
BssNI	GRCGYC	1 cut(s)	369
Bst6I	CTCTTC	4 cut(s)	121, 170, 230, 302
BstACI	GRCGYC	1 cut(s)	369
BstBI	TTCGAA	1 cut(s)	305
BstC8I	GCNNGC	2 cut(s)	96, 168
BstDEI	CTNAG	3 cut(s)	171, 414, 492
BstF5I	GGATG	2 cut(s)	283, 474
BstKTI	GATC	3 cut(s)	24, 196, 250
BstMBI	GATC	3 cut(s)	21, 193, 247
BstMWI	GCNNNNNNNGC	2 cut(s)	338, 448
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)	412
BtgZI	GCGATG	1 cut(s)	446
BtsCI	GGATG	2 cut(s)	283, 474
Cac8I	GCNNGC	2 cut(s)	96, 168
Cfr10I	RCCGGY	1 cut(s)	94
Cfr13I	GGNCC	1 cut(s)	323
Csp6I	GTAC	1 cut(s)	100
CviQI	GTAC	1 cut(s)	100
DdeI	CTNAG	3 cut(s)	171, 414, 492
DpnI	GATC	3 cut(s)	23, 195, 249
DpnII	GATC	3 cut(s)	21, 193, 247
Eam1104I	CTCTTC	4 cut(s)	121, 170, 230, 302
EarI	CTCTTC	4 cut(s)	121, 170, 230, 302
EciI	GGCGGA	1 cut(s)	95
Eco47I	GGWCC	1 cut(s)	323
EcoRI	GAATTC	2 cut(s)	145, 157
FaiI	YATR	3 cut(s)	27, 75, 456
FalI	AAGNNNNNCTT	2 cut(s)	167, 199
FaqI	GGGAC	1 cut(s)	202
FokI	GGATG	2 cut(s)	290, 481
FspBI	CTAG	1 cut(s)	354
GsaI	CCCAGC	1 cut(s)	388
HaeIII	GGCC	1 cut(s)	412
HapII	CCGG	2 cut(s)	95, 335
Hin1I	GRCGYC	1 cut(s)	369
HincII	GTYRAC	2 cut(s)	367, 373
HindII	GTYRAC	2 cut(s)	367, 373
HinfI	GANTC	3 cut(s)	70, 391, 499
HpaII	CCGG	2 cut(s)	95, 335
HphI	GGTGA	3 cut(s)	25, 64, 266
Hpy166II	GTNNAC	2 cut(s)	367, 373
Hpy188I	TCNGA	6 cut(s)	151, 163, 198, 277, 423, 510
Hpy188III	TCNNGA	2 cut(s)	245, 516
Hpy8I	GTNNAC	2 cut(s)	367, 373
Hpy99I	CGWCG	1 cut(s)	52
HpyAV	CCTTC	3 cut(s)	289, 352, 430
HpyCH4IV	ACGT	1 cut(s)	369
HpyCH4V	TGCA	1 cut(s)	270
HpyF10VI	GCNNNNNNNGC	2 cut(s)	338, 448
HpyF3I	CTNAG	3 cut(s)	171, 414, 492
HpySE526I	ACGT	1 cut(s)	369
Hsp92I	GRCGYC	1 cut(s)	369
KroI	GCCGGC	1 cut(s)	94
KroNI	GCCGGC	1 cut(s)	96
Kzo9I	GATC	3 cut(s)	21, 193, 247
LguI	GCTCTTC	1 cut(s)	302
LmnI	GCTCC	6 cut(s)	151, 163, 180, 219, 337, 439
LpnPI	CCDG	9 cut(s)	72, 88, 108, 152, 236, 329, 348, 370, 380
MaeI	CTAG	1 cut(s)	354
MaeII	ACGT	1 cut(s)	369
MalI	GATC	3 cut(s)	23, 195, 249
MboI	GATC	3 cut(s)	21, 193, 247
MboII	GAAGA	6 cut(s)	79, 138, 187, 247, 319, 508
MflI	RGATCY	2 cut(s)	21, 193
MluCI	AATT	6 cut(s)	55, 139, 145, 157, 271, 504
MlyI	GAGTC	2 cut(s)	64, 400
MnlI	CCTC	6 cut(s)	9, 12, 171, 210, 250, 423
MroNI	GCCGGC	1 cut(s)	94
MspI	CCGG	2 cut(s)	95, 335
Mva1269I	GAATGC	1 cut(s)	208
MwoI	GCNNNNNNNGC	2 cut(s)	338, 448
NaeI	GCCGGC	1 cut(s)	96
NdeII	GATC	3 cut(s)	21, 193, 247
NgoMIV	GCCGGC	1 cut(s)	94
NlaIV	GGNNCC	2 cut(s)	153, 345
NspV	TTCGAA	1 cut(s)	305
PciSI	GCTCTTC	1 cut(s)	302
PctI	GAATGC	1 cut(s)	208
PdiI	GCCGGC	1 cut(s)	96
PfeI	GAWTC	1 cut(s)	499
PleI	GAGTC	2 cut(s)	64, 399
PpsI	GAGTC	2 cut(s)	64, 399
PspFI	CCCAGC	1 cut(s)	384
PspN4I	GGNNCC	2 cut(s)	153, 345
PspPI	GGNCC	1 cut(s)	323
PsuI	RGATCY	2 cut(s)	21, 193
RsaI	GTAC	1 cut(s)	101
RsaNI	GTAC	1 cut(s)	100
SapI	GCTCTTC	1 cut(s)	302
Sau3AI	GATC	3 cut(s)	21, 193, 247
Sau96I	GGNCC	1 cut(s)	323
SchI	GAGTC	2 cut(s)	64, 400
SfuI	TTCGAA	1 cut(s)	305
SinI	GGWCC	1 cut(s)	323
SmlI	CTYRAG	1 cut(s)	483
SmoI	CTYRAG	1 cut(s)	483
Sse9I	AATT	6 cut(s)	55, 139, 145, 157, 271, 504
SsiI	CCGC	3 cut(s)	80, 282, 341
SspMI	CTAG	1 cut(s)	354
TaiI	ACGT	1 cut(s)	372
TaqI	TCGA	1 cut(s)	305
TasI	AATT	6 cut(s)	55, 139, 145, 157, 271, 504
TfiI	GAWTC	1 cut(s)	499
TspDTI	ATGAA	1 cut(s)	449
VpaK11BI	GGWCC	1 cut(s)	323
XapI	RAATTY	4 cut(s)	55, 139, 145, 157
XspI	CTAG	1 cut(s)	354
ZraI	GACGTC	1 cut(s)	370

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