Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3D

Orthogroup ID

OG0002117

Physical Location & Seq

Genomic Coordinates Reverse (-)

34321569 .. 34322510

Gene Structure 942 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3DG318100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 450 bp

ATGCTTACAAAGAAGGGTTTTTTGAAGAGGAAGCAGTTGTTTGTGCACCTCCAAGTGACTGACATCTCACTCTGGACAAGATCAGAGAGTTTTGATGCAGGACTTCAAGTTCCTCAATCTGCTGTGACATCGTATTTCAAAGAGCAATCTTCTGGTAAGTGGGAACTCCAATTACCAGAGGACACTGTCAGTAGAGAATCTCATCGTTGGTCTATAGGCTTTGTGACGTCCACTGGTTTTGTTCGAGGGAGCAAGAAGACAGTGGCACAAGCTTTTTGTGAGGCAGTACTACTTGCTCATATTAGAGGGGAACAATGGGATATGATGCCAGTTAAACGGAGACGGAAGGAAATATATGTTCTCGTGAGGAATTTGAGATCCTCAGCATATAGACTAGCTCTTGCCACTATCGTCCTGGAAGATCAGGAAGAAGACGTTGAATTTCTGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000171 GO:0000172 GO:0000966 GO:0001682 GO:0003674 GO:0003824 GO:0004518 GO:0004519 GO:0004521 GO:0004526 GO:0004540 GO:0004549 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005655 GO:0005730 GO:0005732 GO:0006139 GO:0006396 GO:0006399 GO:0006401 GO:0006725 GO:0006807 GO:0008033 GO:0008150 GO:0008152 GO:0009056 GO:0009057 GO:0009987 GO:0010467 GO:0016070 GO:0016078 GO:0016787 GO:0016788 GO:0016891 GO:0016893 GO:0019439 GO:0030677 GO:0030681 GO:0031974 GO:0031981 GO:0032991 GO:0034470 GO:0034471 GO:0034641 GO:0034655 GO:0034660 GO:0034661 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0044237 GO:0044238 GO:0044248 GO:0044260 GO:0044265 GO:0044270 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044452 GO:0044464 GO:0046483 GO:0046700 GO:0070013 GO:0071704 GO:0090304 GO:0090305 GO:0090501 GO:0090502 GO:0099116 GO:0140098 GO:0140101 GO:1901360 GO:1901361 GO:1901575 GO:1902494 GO:1902555 GO:1905348 GO:1990904

KEGG Pathways

Metabolic & Signaling

ko03008 ko03013 map03008 map03013

Pfam Domains

Protein Families

POP1 POPLD

Protein Analysis

149

Amino Acids

17.22

Weight (kDa)

9.33

Isoelectric Point (pI)

69.22

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
POP1_C	PF22770	47 - 138	2.7e-10	POP1 C-terminal domain

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: OG0002117)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G47300 AT2G47300 AT2G47300
fragaria_vesca	FvH4_1g27070
malus_domestica	MD17G1273000.v1.1 MD17G1275500.v1.1 MD17G1275600.v1.1 MD17G1275700.v1.1 MD17G1277400.v1.1
prunus_persica	Prupe.3G010600_v2.0.a1 Prupe.3G010600_v2.0.a1 Prupe.3G010600_v2.0.a1
pyrus_communis	pycom09g19200 pycom17g27430 pycom17g27440 pycom17g27500
rosa_chinensis	RchiOBHm_Chr3g0487391 RchiOBHm_Chr3g0487761
rosa_laevigata	RLG00000023008
rosa_multiflora	Rmu_co8087646.1_g000001 Rmu_sc0001955.1_g000003 Rmu_sc0003620.1_g000002 Rmu_sc0008132.1_g000008 Rmu_sc0009101.1_g000013 Rmu_sc0021127.1_g000002
rosa_roxburghii	Rroxscaffold_5G00333670 Rroxscaffold_6G00394510 Rroxscaffold_6G00394520 Rroxscaffold_6G00394820 Rroxscaffold_6G00394830
rosa_rugosa	Rorug03G0233600
rosa_samantha	Rh3AG281700 Rh3BG317300 Rh3BG321000 Rh3CG315400 Rh3DG313300 Rh3DG318100 Rh5DG285200
rosa_wichuraiana	Rw1G008590 Rw2G029580 Rw3G024940 Rw5G013600 Rw5G015220 Rw7G032520

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AatII	GACGTC	1 cut(s)	230
AclWI	GGATC	1 cut(s)	372
AcsI	RAATTY	2 cut(s)	370, 440
AcyI	GRCGYC	1 cut(s)	227
AfaI	GTAC	1 cut(s)	288
AgsI	TTSAA	4 cut(s)	25, 107, 139, 440
AjnI	CCWGG	1 cut(s)	414
AloI	GAACNNNNNNTCC	2 cut(s)	93, 125
AluBI	AGCT	2 cut(s)	272, 398
AluI	AGCT	2 cut(s)	272, 398
Alw21I	GWGCWC	1 cut(s)	48
Alw26I	GTCTC	1 cut(s)	334
Alw44I	GTGCAC	1 cut(s)	44
AlwI	GGATC	1 cut(s)	372
ApaLI	GTGCAC	1 cut(s)	44
ApoI	RAATTY	2 cut(s)	370, 440
BaeGI	GKGCMC	1 cut(s)	48
BauI	CACGAG	1 cut(s)	362
BbsI	GAAGAC	2 cut(s)	263, 438
Bbv12I	GWGCWC	1 cut(s)	48
BbvCI	CCTCAGC	1 cut(s)	382
BciT130I	CCWGG	1 cut(s)	416
BcoDI	GTCTC	1 cut(s)	334
BfaI	CTAG	1 cut(s)	395
BfmI	CTRYAG	1 cut(s)	213
BmcAI	AGTACT	1 cut(s)	288
Bme1390I	CCNGG	1 cut(s)	416
BmrFI	CCNGG	1 cut(s)	416
BmsI	GCATC	2 cut(s)	85, 315
BpiI	GAAGAC	2 cut(s)	263, 438
Bpu10I	CCTNAGC	1 cut(s)	382
BsaHI	GRCGYC	1 cut(s)	227
Bse1I	ACTGG	2 cut(s)	238, 329
BseBI	CCWGG	1 cut(s)	416
BseMII	CTCAG	1 cut(s)	396
BseNI	ACTGG	2 cut(s)	238, 329
BseSI	GKGCMC	1 cut(s)	48
BsiHKAI	GWGCWC	1 cut(s)	48
BsmAI	GTCTC	1 cut(s)	334
BsmBI	CGTCTC	1 cut(s)	334
Bsp1286I	GDGCHC	1 cut(s)	48
Bsp143I	GATC	3 cut(s)	80, 377, 421
BspCNI	CTCAG	1 cut(s)	395
BspPI	GGATC	1 cut(s)	372
BsrI	ACTGG	2 cut(s)	238, 329
BssMI	GATC	3 cut(s)	80, 377, 421
BssNI	GRCGYC	1 cut(s)	227
BssSI	CACGAG	1 cut(s)	362
Bst2BI	CACGAG	1 cut(s)	362
Bst2UI	CCWGG	1 cut(s)	416
Bst4CI	ACNGT	2 cut(s)	187, 262
Bst6I	CTCTTC	1 cut(s)	20
BstACI	GRCGYC	1 cut(s)	227
BstDEI	CTNAG	1 cut(s)	382
BstKTI	GATC	3 cut(s)	83, 380, 424
BstMAI	GTCTC	1 cut(s)	334
BstMBI	GATC	3 cut(s)	80, 377, 421
BstNI	CCWGG	1 cut(s)	416
BstSCI	CCNGG	1 cut(s)	414
BstSFI	CTRYAG	1 cut(s)	213
BstSLI	GKGCMC	1 cut(s)	48
BstV2I	GAAGAC	2 cut(s)	263, 438
BstX2I	RGATCY	1 cut(s)	377
BstYI	RGATCY	1 cut(s)	377
BtsIMutI	CAGTG	3 cut(s)	183, 231, 267
Csp6I	GTAC	1 cut(s)	287
CspCI	CAANNNNNGTGG	2 cut(s)	220, 255
CviJI	RGCY	3 cut(s)	219, 272, 398
CviKI_1	RGCY	3 cut(s)	219, 272, 398
CviQI	GTAC	1 cut(s)	287
DdeI	CTNAG	1 cut(s)	382
DpnI	GATC	3 cut(s)	82, 379, 423
DpnII	GATC	3 cut(s)	80, 377, 421
Eam1104I	CTCTTC	1 cut(s)	20
EarI	CTCTTC	1 cut(s)	20
EcoRII	CCWGG	1 cut(s)	414
Esp3I	CGTCTC	1 cut(s)	334
FaiI	YATR	7 cut(s)	215, 300, 323, 355, 357, 388, 390
FspBI	CTAG	1 cut(s)	395
Hin1I	GRCGYC	1 cut(s)	227
HindIII	AAGCTT	1 cut(s)	270
HinfI	GANTC	1 cut(s)	197
Hpy166II	GTNNAC	2 cut(s)	46, 231
Hpy188I	TCNGA	1 cut(s)	85
Hpy188III	TCNNGA	3 cut(s)	73, 364, 425
Hpy8I	GTNNAC	2 cut(s)	46, 231
HpyAV	CCTTC	2 cut(s)	7, 340
HpyCH4III	ACNGT	2 cut(s)	187, 262
HpyCH4IV	ACGT	2 cut(s)	227, 435
HpyCH4V	TGCA	2 cut(s)	46, 98
HpyF3I	CTNAG	1 cut(s)	382
HpySE526I	ACGT	2 cut(s)	227, 435
Hsp92I	GRCGYC	1 cut(s)	227
Kzo9I	GATC	3 cut(s)	80, 377, 421
LmnI	GCTCC	1 cut(s)	249
LpnPI	CCDG	9 cut(s)	58, 84, 138, 189, 219, 342, 401, 410, 428
LweI	GCATC	2 cut(s)	85, 315
MaeI	CTAG	1 cut(s)	395
MaeII	ACGT	2 cut(s)	227, 435
MaeIII	GTNAC	3 cut(s)	55, 124, 223
MalI	GATC	3 cut(s)	82, 379, 423
MboI	GATC	3 cut(s)	80, 377, 421
MboII	GAAGA	6 cut(s)	37, 141, 268, 431, 440, 443
MflI	RGATCY	1 cut(s)	377
MhlI	GDGCHC	1 cut(s)	48
MluCI	AATT	3 cut(s)	170, 370, 440
MnlI	CCTC	9 cut(s)	21, 59, 123, 172, 239, 274, 299, 360, 391
MseI	TTAA	1 cut(s)	333
MspR9I	CCNGG	1 cut(s)	416
MvaI	CCWGG	1 cut(s)	416
NdeII	GATC	3 cut(s)	80, 377, 421
NmuCI	GTSAC	3 cut(s)	55, 124, 223
PfeI	GAWTC	1 cut(s)	197
PflFI	GACNNNGTC	1 cut(s)	185
PfoI	TCCNGGA	1 cut(s)	414
Psp6I	CCWGG	1 cut(s)	414
PspGI	CCWGG	1 cut(s)	414
PsrI	GAACNNNNNNTAC	2 cut(s)	156, 188
PsuI	RGATCY	1 cut(s)	377
PsyI	GACNNNGTC	1 cut(s)	185
RsaI	GTAC	1 cut(s)	288
RsaNI	GTAC	1 cut(s)	287
SaqAI	TTAA	1 cut(s)	333
Sau3AI	GATC	3 cut(s)	80, 377, 421
ScaI	AGTACT	1 cut(s)	288
ScrFI	CCNGG	1 cut(s)	416
SduI	GDGCHC	1 cut(s)	48
SetI	ASST	5 cut(s)	51, 230, 274, 400, 438
SfaNI	GCATC	2 cut(s)	85, 315
SfcI	CTRYAG	1 cut(s)	213
Sse9I	AATT	3 cut(s)	170, 370, 440
SspMI	CTAG	1 cut(s)	395
StyD4I	CCNGG	1 cut(s)	414
TaaI	ACNGT	2 cut(s)	187, 262
TaiI	ACGT	2 cut(s)	230, 438
TaqI	TCGA	1 cut(s)	244
TasI	AATT	3 cut(s)	170, 370, 440
TatI	WGTACW	1 cut(s)	286
TfiI	GAWTC	1 cut(s)	197
Tru1I	TTAA	1 cut(s)	333
Tru9I	TTAA	1 cut(s)	333
TscAI	CASTG	3 cut(s)	190, 238, 267
TseFI	GTSAC	3 cut(s)	55, 124, 223
Tsp45I	GTSAC	3 cut(s)	55, 124, 223
TspGWI	ACGGA	2 cut(s)	352, 358
TspRI	CASTG	3 cut(s)	190, 238, 267
Tth111I	GACNNNGTC	1 cut(s)	185
VneI	GTGCAC	1 cut(s)	44
XapI	RAATTY	2 cut(s)	370, 440
XcmI	CCANNNNNNNNNTGG	1 cut(s)	412
XspI	CTAG	1 cut(s)	395
ZraI	GACGTC	1 cut(s)	228
ZrmI	AGTACT	1 cut(s)	288

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