Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3C

Orthogroup ID

OG0003424

Physical Location & Seq

Genomic Coordinates Reverse (-)

27338366 .. 27338972

Gene Structure 607 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3CG275300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 258 bp

ATGTCGTTTCGCAAGACCGCTTGGCAATTGGTTTTCAATTTCGGCCGAATTATGTGTTTTTGGAATTTTAAGATGCCGGACACTGCAGGAAAGGTCCGCATGCCCCCAGACAATCGGGTACACATTAGTGTTGCCCTTCAAATTCATGGTATATGGCAGAGTACAATTGGGTATGATCCCTATGCACCTCTACTGCATTTGTCAAACTCAAAACCAGATGCTGAGAATGCATATGCTAGCTACCAAGCCCTTCTCTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005737 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044464

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

zf-CCHC_3

Protein Analysis

85

Amino Acids

9.77

Weight (kDa)

9.3

Isoelectric Point (pI)

43.36

Instability Index

Protein Domains (Pfam)

No Pfam domains detected for this protein.

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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Align Labels (Cladogram)

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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: OG0003424)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G28910 AT2G28910 AT2G28910
fragaria_vesca	FvH4_3g36111 FvH4_3g36111
malus_domestica	MD03G1093300.v1.1 MD11G1107700.v1.1 MD11G1108100.v1.1
prunus_persica	Prupe.6G077300_v2.0.a1
pyrus_communis	pycom03g07480 pycom11g08930
rosa_chinensis	RchiOBHm_Chr5g0064541 RchiOBHm_Chr5g0064551 RchiOBHm_Chr5g0064811 RchiOBHm_Chr5g0064841
rosa_laevigata	RLG00000001342 RLG00000035732 RLG00000035734 RLG00000035736
rosa_roxburghii	Rroxscaffold_1G00016450 Rroxscaffold_1G00016480 Rroxscaffold_6G00399790 Rroxscaffold_6G00400120
rosa_rugosa	Rorug05G0366000 Rorug05G0366100 Rorug05G0366500
rosa_samantha	Rh3CG275300 Rh3DG272600 Rh5AG424000 Rh5BG439400 Rh5CG462000 Rh5CG462100 Rh5DG452700 Rh5DG452900
rosa_wichuraiana	Rw5G039860 Rw5G039880

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	2 cut(s)	18, 97
AclWI	GGATC	1 cut(s)	170
AcoI	YGGCCR	1 cut(s)	43
AcsI	RAATTY	2 cut(s)	64, 141
AfaI	GTAC	2 cut(s)	120, 163
AgsI	TTSAA	2 cut(s)	37, 140
AleI	CACNNNNGTG	1 cut(s)	126
AluBI	AGCT	1 cut(s)	240
AluI	AGCT	1 cut(s)	240
AlwI	GGATC	1 cut(s)	170
AlwNI	CAGNNNCTG	1 cut(s)	221
AoxI	GGCC	1 cut(s)	43
ApoI	RAATTY	2 cut(s)	64, 141
AspS9I	GGNCC	1 cut(s)	94
AsuNHI	GCTAGC	1 cut(s)	236
AvaII	GGWCC	1 cut(s)	94
BfaI	CTAG	1 cut(s)	237
BfmI	CTRYAG	1 cut(s)	84
Bme18I	GGWCC	1 cut(s)	94
BmgT120I	GGNCC	1 cut(s)	94
BmsI	GCATC	2 cut(s)	63, 208
BmtI	GCTAGC	1 cut(s)	240
BseMII	CTCAG	1 cut(s)	213
BseX3I	CGGCCG	1 cut(s)	43
Bsh1285I	CGRYCG	1 cut(s)	46
BshFI	GGCC	1 cut(s)	45
BsiEI	CGRYCG	1 cut(s)	46
BsiSI	CCGG	1 cut(s)	77
BsmI	GAATGC	1 cut(s)	232
BsnI	GGCC	1 cut(s)	45
Bsp143I	GATC	1 cut(s)	175
BspACI	CCGC	2 cut(s)	18, 97
BspANI	GGCC	1 cut(s)	45
BspCNI	CTCAG	1 cut(s)	214
BspMAI	CTGCAG	1 cut(s)	88
BspOI	GCTAGC	1 cut(s)	240
BspPI	GGATC	1 cut(s)	170
BssMI	GATC	1 cut(s)	175
BstC8I	GCNNGC	2 cut(s)	101, 238
BstDEI	CTNAG	1 cut(s)	222
BstKTI	GATC	1 cut(s)	178
BstMBI	GATC	1 cut(s)	175
BstMCI	CGRYCG	1 cut(s)	46
BstMWI	GCNNNNNNNGC	1 cut(s)	227
BstNSI	RCATGY	1 cut(s)	103
BstSFI	CTRYAG	1 cut(s)	84
BstZI	CGGCCG	1 cut(s)	43
BsuRI	GGCC	1 cut(s)	45
BtsI	GCAGTG	1 cut(s)	81
BtsIMutI	CAGTG	1 cut(s)	81
Cac8I	GCNNGC	2 cut(s)	101, 238
CaiI	CAGNNNCTG	1 cut(s)	221
Cfr13I	GGNCC	1 cut(s)	94
Csp6I	GTAC	2 cut(s)	119, 162
CviAII	CATG	2 cut(s)	100, 146
CviJI	RGCY	3 cut(s)	45, 240, 248
CviKI_1	RGCY	3 cut(s)	45, 240, 248
CviQI	GTAC	2 cut(s)	119, 162
DdeI	CTNAG	1 cut(s)	222
DpnI	GATC	1 cut(s)	177
DpnII	GATC	1 cut(s)	175
EaeI	YGGCCR	1 cut(s)	43
EagI	CGGCCG	1 cut(s)	43
EclXI	CGGCCG	1 cut(s)	43
Eco47I	GGWCC	1 cut(s)	94
Eco52I	CGGCCG	1 cut(s)	43
EcoT22I	ATGCAT	1 cut(s)	232
FaeI	CATG	2 cut(s)	103, 149
FaiI	YATR	9 cut(s)	53, 101, 147, 152, 154, 174, 183, 232, 234
FatI	CATG	2 cut(s)	99, 145
FauNDI	CATATG	1 cut(s)	232
FspBI	CTAG	1 cut(s)	237
HaeIII	GGCC	1 cut(s)	45
HapII	CCGG	1 cut(s)	77
Hin1II	CATG	2 cut(s)	103, 149
HpaII	CCGG	1 cut(s)	77
Hpy166II	GTNNAC	1 cut(s)	121
Hpy8I	GTNNAC	1 cut(s)	121
HpyAV	CCTTC	1 cut(s)	146
HpyCH4V	TGCA	4 cut(s)	86, 185, 196, 230
HpyF10VI	GCNNNNNNNGC	1 cut(s)	227
HpyF3I	CTNAG	1 cut(s)	222
Hsp92II	CATG	2 cut(s)	103, 149
Kzo9I	GATC	1 cut(s)	175
LpnPI	CCDG	4 cut(s)	72, 90, 120, 228
LweI	GCATC	2 cut(s)	63, 208
MaeI	CTAG	1 cut(s)	237
MalI	GATC	1 cut(s)	177
MboI	GATC	1 cut(s)	175
MfeI	CAATTG	2 cut(s)	26, 165
MluCI	AATT	6 cut(s)	26, 37, 48, 64, 141, 165
MnlI	CCTC	1 cut(s)	198
Mph1103I	ATGCAT	1 cut(s)	232
MseI	TTAA	1 cut(s)	69
MslI	CAYNNNNRTG	1 cut(s)	126
MspI	CCGG	1 cut(s)	77
MunI	CAATTG	2 cut(s)	26, 165
Mva1269I	GAATGC	1 cut(s)	232
MwoI	GCNNNNNNNGC	1 cut(s)	227
NdeI	CATATG	1 cut(s)	232
NdeII	GATC	1 cut(s)	175
NheI	GCTAGC	1 cut(s)	236
NlaIII	CATG	2 cut(s)	103, 149
NsiI	ATGCAT	1 cut(s)	232
NspI	RCATGY	1 cut(s)	103
OliI	CACNNNNGTG	1 cut(s)	126
PaeI	GCATGC	1 cut(s)	103
PctI	GAATGC	1 cut(s)	232
PspPI	GGNCC	1 cut(s)	94
PstI	CTGCAG	1 cut(s)	88
PstNI	CAGNNNCTG	1 cut(s)	221
RsaI	GTAC	2 cut(s)	120, 163
RsaNI	GTAC	2 cut(s)	119, 162
RseI	CAYNNNNRTG	1 cut(s)	126
SaqAI	TTAA	1 cut(s)	69
Sau3AI	GATC	1 cut(s)	175
Sau96I	GGNCC	1 cut(s)	94
SetI	ASST	3 cut(s)	96, 190, 242
SfaNI	GCATC	2 cut(s)	63, 208
SfcI	CTRYAG	1 cut(s)	84
SinI	GGWCC	1 cut(s)	94
SmiMI	CAYNNNNRTG	1 cut(s)	126
SphI	GCATGC	1 cut(s)	103
Sse9I	AATT	6 cut(s)	26, 37, 48, 64, 141, 165
SsiI	CCGC	2 cut(s)	18, 97
SspMI	CTAG	1 cut(s)	237
TasI	AATT	6 cut(s)	26, 37, 48, 64, 141, 165
TatI	WGTACW	1 cut(s)	161
Tru1I	TTAA	1 cut(s)	69
Tru9I	TTAA	1 cut(s)	69
TscAI	CASTG	1 cut(s)	88
TspDTI	ATGAA	1 cut(s)	134
TspRI	CASTG	1 cut(s)	88
VpaK11BI	GGWCC	1 cut(s)	94
XapI	RAATTY	2 cut(s)	64, 141
XceI	RCATGY	1 cut(s)	103
XspI	CTAG	1 cut(s)	237
Zsp2I	ATGCAT	1 cut(s)	232

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