Basic Information

Type: gene

Biological Identity

Species

rosa_wichuraiana

Chromosome

Contig00549

Orthogroup ID

OG0009169

Physical Location & Seq

Genomic Coordinates Reverse (-)

206538 .. 207693

Gene Structure 1156 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rw0G012410.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 492 bp

ATGTACTCCGTATCAAATCTAATTTACTTAATAGTTGCAATGCCGTTGGGGAAGTACGACTGCGAATACTGCGACAAGCAATTCCAAGACACTCCATACGGTCGGAGACGCCATCTTCAGAGCCTCCAACACCTCCGAGCCAAAGCTCAATGGTACGACTCTTTCAAAGATCCTAATGATGCTTATGCACAAAGCTTGGGAAGAGGGGTCTGCAACCGCTTTATCAAAACGGGGTTTTGCCAATATGGGGATGCTTGTAAGTATTTTCACCCCAAGAACAATCAGCAGAATACAATGACTCAAGGGGCATCAGGTGTAACTGATAATAGTCAGTCTTCAACTTTTCAAGGGAATCAAACGGCTGCAGGCAGCTCTTTGCCGGATGTGGTGGTTAGAGATAACATGGGAATGTCATGGGGAAATCTACCTCCATCGCTAATGCCTCCTCCGGAGGGTGGATATCCTCCGCTTCCTTTTGTGGACTGGGGATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005681 GO:0005689 GO:0032991 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:1990904

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

zf-CCCH zf-U1

Protein Analysis

163

Amino Acids

18.25

Weight (kDa)

7.61

Isoelectric Point (pI)

56.78

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-U1	PF06220	18 - 52	2.4e-06	U1 zinc finger
zf-CCCH	PF00642	69 - 92	7e-06	Zinc finger C-x8-C-x5-C-x3-H type (and similar)

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: OG0009169)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G26749 AT5G26749
fragaria_vesca	FvH4_6g08160 FvH4_6g08160 FvH4_6g08160 FvH4_6g08160
malus_domestica	MD12G1202300.v1.1
prunus_persica	Prupe.6G307100_v2.0.a1
pyrus_communis	pycom12g18890
rosa_chinensis	RchiOBHm_Chr3g0458031
rosa_laevigata	RLG00000025178
rosa_multiflora	Rmu_sc0000384.1_g000012
rosa_roxburghii	Rroxscaffold_6G00421340
rosa_rugosa	Rorug03G0024400 Rorug03G0024400 Rorug03G0024500
rosa_samantha	Rh3AG084900 Rh3BG087700 Rh3CG088200 Rh3DG088600
rosa_wichuraiana	Rw0G012410 Rw3G007230

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccIII	TCCGGA	1 cut(s)	448
AciI	CCGC	2 cut(s)	217, 467
AclWI	GGATC	1 cut(s)	164
AcuI	CTGAAG	1 cut(s)	101
AcyI	GRCGYC	1 cut(s)	109
AfaI	GTAC	3 cut(s)	5, 56, 155
AfiI	CCNNNNNNNGG	3 cut(s)	247, 452, 455
AgsI	TTSAA	3 cut(s)	166, 339, 347
AluBI	AGCT	3 cut(s)	146, 195, 372
AluI	AGCT	3 cut(s)	146, 195, 372
Alw26I	GTCTC	1 cut(s)	100
AlwI	GGATC	1 cut(s)	164
Aor13HI	TCCGGA	1 cut(s)	448
ApeKI	GCWGC	2 cut(s)	362, 369
AsuHPI	GGTGA	1 cut(s)	260
BbsI	GAAGAC	1 cut(s)	327
BbvI	GCAGC	2 cut(s)	349, 381
BccI	CCATC	2 cut(s)	120, 439
BceAI	ACGGC	2 cut(s)	28, 375
BcoDI	GTCTC	1 cut(s)	100
BfmI	CTRYAG	1 cut(s)	363
BisI	GCNGC	2 cut(s)	363, 370
BlsI	GCNGC	2 cut(s)	364, 371
BmsI	GCATC	3 cut(s)	169, 241, 317
BpiI	GAAGAC	1 cut(s)	327
BpuEI	CTTGAG	1 cut(s)	285
BsaHI	GRCGYC	1 cut(s)	109
BsaWI	WCCGGW	1 cut(s)	448
Bsc4I	CCNNNNNNNGG	3 cut(s)	247, 452, 455
Bse1I	ACTGG	1 cut(s)	488
Bse3DI	GCAATG	1 cut(s)	45
BseAI	TCCGGA	1 cut(s)	448
BseGI	GGATG	2 cut(s)	256, 388
BseLI	CCNNNNNNNGG	3 cut(s)	247, 452, 455
BseMI	GCAATG	1 cut(s)	45
BseNI	ACTGG	1 cut(s)	488
BseRI	GAGGAG	1 cut(s)	435
BseXI	GCAGC	2 cut(s)	349, 381
Bsh1285I	CGRYCG	1 cut(s)	103
BsiEI	CGRYCG	1 cut(s)	103
BsiSI	CCGG	2 cut(s)	380, 449
BslI	CCNNNNNNNGG	3 cut(s)	247, 452, 455
BsmAI	GTCTC	1 cut(s)	100
BsmBI	CGTCTC	1 cut(s)	100
Bsp13I	TCCGGA	1 cut(s)	448
Bsp143I	GATC	1 cut(s)	169
BspACI	CCGC	2 cut(s)	217, 467
BspEI	TCCGGA	1 cut(s)	448
BspMAI	CTGCAG	1 cut(s)	367
BspPI	GGATC	1 cut(s)	164
BsrDI	GCAATG	1 cut(s)	45
BsrI	ACTGG	1 cut(s)	488
BssMI	GATC	1 cut(s)	169
BssNI	GRCGYC	1 cut(s)	109
Bst4CI	ACNGT	1 cut(s)	101
Bst6I	CTCTTC	1 cut(s)	196
BstACI	GRCGYC	1 cut(s)	109
BstC8I	GCNNGC	1 cut(s)	367
BstF5I	GGATG	2 cut(s)	256, 388
BstKTI	GATC	1 cut(s)	172
BstMAI	GTCTC	1 cut(s)	100
BstMBI	GATC	1 cut(s)	169
BstMCI	CGRYCG	1 cut(s)	103
BstMWI	GCNNNNNNNGC	1 cut(s)	69
BstSFI	CTRYAG	1 cut(s)	363
BstV1I	GCAGC	2 cut(s)	349, 381
BstV2I	GAAGAC	1 cut(s)	327
BstX2I	RGATCY	1 cut(s)	169
BstYI	RGATCY	1 cut(s)	169
BtgZI	GCGATG	1 cut(s)	417
BtsCI	GGATG	2 cut(s)	256, 388
Cac8I	GCNNGC	1 cut(s)	367
CseI	GACGC	1 cut(s)	117
Csp6I	GTAC	3 cut(s)	4, 55, 154
CviAII	CATG	2 cut(s)	403, 414
CviJI	RGCY	6 cut(s)	123, 140, 146, 195, 362, 372
CviKI_1	RGCY	6 cut(s)	123, 140, 146, 195, 362, 372
CviQI	GTAC	3 cut(s)	4, 55, 154
DpnI	GATC	1 cut(s)	171
DpnII	GATC	1 cut(s)	169
Eam1104I	CTCTTC	1 cut(s)	196
EarI	CTCTTC	1 cut(s)	196
Eco32I	GATATC	1 cut(s)	461
Eco57I	CTGAAG	1 cut(s)	101
EcoRV	GATATC	1 cut(s)	461
Esp3I	CGTCTC	1 cut(s)	100
FaeI	CATG	2 cut(s)	406, 417
FaiI	YATR	5 cut(s)	97, 186, 246, 404, 415
FatI	CATG	2 cut(s)	402, 413
Fnu4HI	GCNGC	2 cut(s)	363, 370
FokI	GGATG	2 cut(s)	263, 395
Fsp4HI	GCNGC	2 cut(s)	363, 370
GluI	GCNGC	2 cut(s)	363, 370
HapII	CCGG	2 cut(s)	380, 449
HgaI	GACGC	1 cut(s)	117
Hin1I	GRCGYC	1 cut(s)	109
Hin1II	CATG	2 cut(s)	406, 417
HindIII	AAGCTT	1 cut(s)	193
HinfI	GANTC	3 cut(s)	158, 298, 352
HpaII	CCGG	2 cut(s)	380, 449
HphI	GGTGA	1 cut(s)	260
Hpy166II	GTNNAC	1 cut(s)	481
Hpy188I	TCNGA	3 cut(s)	105, 120, 137
Hpy188III	TCNNGA	1 cut(s)	449
Hpy8I	GTNNAC	1 cut(s)	481
HpyCH4III	ACNGT	1 cut(s)	101
HpyCH4V	TGCA	4 cut(s)	38, 188, 213, 365
HpyF10VI	GCNNNNNNNGC	1 cut(s)	69
Hsp92I	GRCGYC	1 cut(s)	109
Hsp92II	CATG	2 cut(s)	406, 417
Kpn2I	TCCGGA	1 cut(s)	448
Kzo9I	GATC	1 cut(s)	169
LpnPI	CCDG	5 cut(s)	297, 351, 393, 462, 469
Lsp1109I	GCAGC	2 cut(s)	349, 381
LweI	GCATC	3 cut(s)	169, 241, 317
MaeIII	GTNAC	1 cut(s)	316
MalI	GATC	1 cut(s)	171
MboI	GATC	1 cut(s)	169
MboII	GAAGA	3 cut(s)	107, 213, 327
MflI	RGATCY	1 cut(s)	169
MluCI	AATT	2 cut(s)	21, 80
MlyI	GAGTC	2 cut(s)	152, 292
MmeI	TCCRAC	2 cut(s)	83, 151
MnlI	CCTC	8 cut(s)	134, 143, 197, 438, 445, 453, 456, 474
MroI	TCCGGA	1 cut(s)	448
MseI	TTAA	1 cut(s)	29
MslI	CAYNNNNRTG	1 cut(s)	407
MspI	CCGG	2 cut(s)	380, 449
MwoI	GCNNNNNNNGC	1 cut(s)	69
NdeII	GATC	1 cut(s)	169
NlaIII	CATG	2 cut(s)	406, 417
PfeI	GAWTC	1 cut(s)	352
PkrI	GCNGC	2 cut(s)	364, 371
PleI	GAGTC	2 cut(s)	152, 292
PpsI	GAGTC	2 cut(s)	152, 292
PstI	CTGCAG	1 cut(s)	367
PsuI	RGATCY	1 cut(s)	169
RsaI	GTAC	3 cut(s)	5, 56, 155
RsaNI	GTAC	3 cut(s)	4, 55, 154
RseI	CAYNNNNRTG	1 cut(s)	407
SaqAI	TTAA	1 cut(s)	29
SatI	GCNGC	2 cut(s)	363, 370
Sau3AI	GATC	1 cut(s)	169
SchI	GAGTC	2 cut(s)	152, 292
SetI	ASST	6 cut(s)	135, 148, 197, 316, 374, 430
SfaNI	GCATC	3 cut(s)	169, 241, 317
SfcI	CTRYAG	1 cut(s)	363
SmiMI	CAYNNNNRTG	1 cut(s)	407
SmlI	CTYRAG	1 cut(s)	300
SmoI	CTYRAG	1 cut(s)	300
Sse9I	AATT	2 cut(s)	21, 80
SsiI	CCGC	2 cut(s)	217, 467
TaaI	ACNGT	1 cut(s)	101
TasI	AATT	2 cut(s)	21, 80
TatI	WGTACW	1 cut(s)	3
TfiI	GAWTC	1 cut(s)	352
Tru1I	TTAA	1 cut(s)	29
Tru9I	TTAA	1 cut(s)	29
TseI	GCWGC	2 cut(s)	362, 369

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