Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5D

Orthogroup ID

OG0001141

Physical Location & Seq

Genomic Coordinates Reverse (-)

35248408 .. 35249844

Gene Structure 1437 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5DG284900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 393 bp

ATGTCTTCAGGGAAGCTAATGTGGTCGCAGATCATTTTGCTAGCTCAGGACGTGTACAAGGATACTCTCAAAGTTGTATTTGGTTTAACAATGTTCCTACGGATTCTCCAAAACTTTTCCACCAGAATCTTTTGCAAGATGAAACCCCGATCGAACGAGAAAATTACCACCGTGGCCCCACTCCGCCTGCCGGAAATGAAAGAATCGGTGGACGCCGTGGAGCGGATCCTAGACTATGATTTCAAGAACAAGAGGCTTCTACAGGAAGCTCTCATCCACCCCTCCTGCCGAACAAGCGACGCCGTTTCTTATCAGCGGCTCGCGTTCCTCGGCGACACCGTTCTTGACCTCGCTGTGAGTAAAGACCTCTTCCTTGCTTACCCTTGTAATTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003723 GO:0003824 GO:0004518 GO:0004519 GO:0004521 GO:0004525 GO:0004540 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005737 GO:0006139 GO:0006396 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009892 GO:0009987 GO:0010033 GO:0010467 GO:0010468 GO:0010605 GO:0010608 GO:0010629 GO:0014070 GO:0016070 GO:0016246 GO:0016441 GO:0016442 GO:0016458 GO:0016787 GO:0016788 GO:0016891 GO:0016893 GO:0019222 GO:0030422 GO:0031047 GO:0031050 GO:0031332 GO:0032296 GO:0032991 GO:0034641 GO:0035194 GO:0040029 GO:0042221 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043331 GO:0044237 GO:0044238 GO:0044424 GO:0044464 GO:0046483 GO:0048519 GO:0050789 GO:0050896 GO:0051716 GO:0060255 GO:0065007 GO:0070887 GO:0070918 GO:0071310 GO:0071359 GO:0071407 GO:0071704 GO:0090304 GO:0090305 GO:0090501 GO:0090502 GO:0097159 GO:0140098 GO:1901360 GO:1901363 GO:1901698 GO:1901699 GO:1990904

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

DND1_DSRM Ribonuclease_3 dsrm

Protein Analysis

130

Amino Acids

14.94

Weight (kDa)

9.05

Isoelectric Point (pI)

43.19

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Ribonucleas_3_3	PF14622	83 - 124	1.3e-06	Ribonuclease-III-like

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: OG0001141)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G20420
fragaria_vesca	FvH4_3g23250
malus_domestica	MD03G1196200.v1.1 MD11G1212500.v1.1
prunus_persica	Prupe.4G219200_v2.0.a1 Prupe.4G219200_v2.0.a1 Prupe.4G219400_v2.0.a1 Prupe.4G219400_v2.0.a1
pyrus_communis	pycom03g14830 pycom11g18750
rosa_chinensis	RchiOBHm_Chr5g0040511 RchiOBHm_Chr5g0040931 RchiOBHm_Chr5g0040941
rosa_laevigata	RLG00000033986 RLG00000034014 RLG00000034016 RLG00000034026
rosa_multiflora	Rmu_co8051550.1_g000001 Rmu_co8392905.1_g000001 Rmu_sc0002475.1_g000019 Rmu_sc0002848.1_g000007 Rmu_sc0006651.1_g000007 Rmu_sc0006651.1_g000008 Rmu_sc0008620.1_g000001
rosa_roxburghii	Rroxscaffold_1G00039580 Rroxscaffold_1G00039750 Rroxscaffold_1G00039760 Rroxscaffold_1G00040130 Rroxscaffold_1G00040850
rosa_rugosa	Rorug02G0350900 Rorug02G0350900 Rorug02G0351000 Rorug05G0185500 Rorug05G0188700 Rorug05G0188900 Rorug05G0188900
rosa_samantha	Rh2AG398700 Rh2BG409100 Rh2CG385500 Rh2CG540800 Rh2DG418900 Rh5AG272400 Rh5AG274300 Rh5AG274400 Rh5AG344200 Rh5BG276400 Rh5BG279300 Rh5BG279400 Rh5CG308900 Rh5CG311400 Rh5CG311600 Rh5DG284900 Rh5DG287500
rosa_wichuraiana	Rw2G032480 Rw5G025510 Rw5G025770 Rw5G025780 Rw5G025790

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccBSI	CCGCTC	1 cut(s)	223
AccII	CGCG	1 cut(s)	323
AciI	CCGC	3 cut(s)	184, 223, 316
AclWI	GGATC	2 cut(s)	220, 233
AcyI	GRCGYC	2 cut(s)	213, 300
AfaI	GTAC	1 cut(s)	56
AfiI	CCNNNNNNNGG	2 cut(s)	190, 222
AflIII	ACRYGT	1 cut(s)	51
AgsI	TTSAA	1 cut(s)	244
AjiI	CACGTC	1 cut(s)	52
AluBI	AGCT	3 cut(s)	16, 44, 269
AluI	AGCT	3 cut(s)	16, 44, 269
AlwI	GGATC	2 cut(s)	220, 233
AoxI	GGCC	1 cut(s)	174
AspS9I	GGNCC	1 cut(s)	175
AsuNHI	GCTAGC	1 cut(s)	40
BamHI	GGATCC	1 cut(s)	225
BceAI	ACGGC	2 cut(s)	200, 287
BciVI	GTATCC	1 cut(s)	55
BfaI	CTAG	2 cut(s)	41, 230
BfmI	CTRYAG	1 cut(s)	260
BfuI	GTATCC	1 cut(s)	55
BisI	GCNGC	1 cut(s)	317
BlsI	GCNGC	1 cut(s)	318
BmgBI	CACGTC	1 cut(s)	52
BmgT120I	GGNCC	1 cut(s)	175
BmiI	GGNNCC	2 cut(s)	177, 227
BmtI	GCTAGC	1 cut(s)	44
Bpu10I	CCTNAGC	1 cut(s)	45
BsaHI	GRCGYC	2 cut(s)	213, 300
BsaJI	CCNNGG	3 cut(s)	171, 216, 328
BsaXI	ACNNNNNCTCC	2 cut(s)	90, 120
Bsc4I	CCNNNNNNNGG	2 cut(s)	190, 222
BseDI	CCNNGG	3 cut(s)	171, 216, 328
BseGI	GGATG	1 cut(s)	273
BseLI	CCNNNNNNNGG	2 cut(s)	190, 222
BseMII	CTCAG	1 cut(s)	59
Bsh1236I	CGCG	1 cut(s)	323
Bsh1285I	CGRYCG	1 cut(s)	152
BshFI	GGCC	1 cut(s)	176
BsiEI	CGRYCG	1 cut(s)	152
BsiSI	CCGG	1 cut(s)	191
BslI	CCNNNNNNNGG	2 cut(s)	190, 222
BsnI	GGCC	1 cut(s)	176
Bsp1407I	TGTACA	1 cut(s)	54
Bsp143I	GATC	3 cut(s)	30, 149, 225
BspACI	CCGC	3 cut(s)	184, 223, 316
BspANI	GGCC	1 cut(s)	176
BspCNI	CTCAG	1 cut(s)	58
BspFNI	CGCG	1 cut(s)	323
BspLI	GGNNCC	2 cut(s)	177, 227
BspOI	GCTAGC	1 cut(s)	44
BspPI	GGATC	2 cut(s)	220, 233
BsrBI	CCGCTC	1 cut(s)	223
BsrGI	TGTACA	1 cut(s)	54
BssECI	CCNNGG	3 cut(s)	171, 216, 328
BssMI	GATC	3 cut(s)	30, 149, 225
BssNI	GRCGYC	2 cut(s)	213, 300
Bst4CI	ACNGT	2 cut(s)	172, 340
Bst6I	CTCTTC	1 cut(s)	374
BstACI	GRCGYC	2 cut(s)	213, 300
BstAUI	TGTACA	1 cut(s)	54
BstC8I	GCNNGC	3 cut(s)	42, 188, 321
BstDEI	CTNAG	1 cut(s)	45
BstDSI	CCRYGG	2 cut(s)	171, 216
BstF5I	GGATG	1 cut(s)	273
BstFNI	CGCG	1 cut(s)	323
BstKTI	GATC	3 cut(s)	33, 152, 228
BstMBI	GATC	3 cut(s)	30, 149, 225
BstMCI	CGRYCG	1 cut(s)	152
BstMWI	GCNNNNNNNGC	1 cut(s)	294
BstSFI	CTRYAG	1 cut(s)	260
BstUI	CGCG	1 cut(s)	323
BstX2I	RGATCY	1 cut(s)	225
BstYI	RGATCY	1 cut(s)	225
BsuI	GTATCC	1 cut(s)	55
BsuRI	GGCC	1 cut(s)	176
BtgI	CCRYGG	2 cut(s)	171, 216
BtrI	CACGTC	1 cut(s)	52
BtsCI	GGATG	1 cut(s)	273
Cac8I	GCNNGC	3 cut(s)	42, 188, 321
Cfr13I	GGNCC	1 cut(s)	175
CseI	GACGC	2 cut(s)	221, 308
Csp6I	GTAC	1 cut(s)	55
CviJI	RGCY	6 cut(s)	16, 44, 176, 256, 269, 319
CviKI_1	RGCY	6 cut(s)	16, 44, 176, 256, 269, 319
CviQI	GTAC	1 cut(s)	55
DdeI	CTNAG	1 cut(s)	45
DpnI	GATC	3 cut(s)	32, 151, 227
DpnII	GATC	3 cut(s)	30, 149, 225
Eam1104I	CTCTTC	1 cut(s)	374
EarI	CTCTTC	1 cut(s)	374
EciI	GGCGGA	1 cut(s)	173
FaiI	YATR	1 cut(s)	237
Fnu4HI	GCNGC	1 cut(s)	317
FokI	GGATG	1 cut(s)	260
Fsp4HI	GCNGC	1 cut(s)	317
FspBI	CTAG	2 cut(s)	41, 230
GluI	GCNGC	1 cut(s)	317
HaeIII	GGCC	1 cut(s)	176
HapII	CCGG	1 cut(s)	191
HgaI	GACGC	2 cut(s)	221, 308
Hin1I	GRCGYC	2 cut(s)	213, 300
HinfI	GANTC	3 cut(s)	103, 126, 203
HpaII	CCGG	1 cut(s)	191
Hpy166II	GTNNAC	2 cut(s)	55, 211
Hpy188III	TCNNGA	3 cut(s)	47, 244, 344
Hpy8I	GTNNAC	2 cut(s)	55, 211
Hpy99I	CGWCG	1 cut(s)	302
HpyCH4III	ACNGT	2 cut(s)	172, 340
HpyCH4IV	ACGT	1 cut(s)	51
HpyCH4V	TGCA	1 cut(s)	135
HpyF10VI	GCNNNNNNNGC	1 cut(s)	294
HpyF3I	CTNAG	1 cut(s)	45
HpySE526I	ACGT	1 cut(s)	51
Hsp92I	GRCGYC	2 cut(s)	213, 300
Kzo9I	GATC	3 cut(s)	30, 149, 225
LmnI	GCTCC	1 cut(s)	220
LpnPI	CCDG	6 cut(s)	32, 136, 200, 204, 248, 298
MaeI	CTAG	2 cut(s)	41, 230
MaeII	ACGT	1 cut(s)	51
MalI	GATC	3 cut(s)	32, 151, 227
MbiI	CCGCTC	1 cut(s)	223
MboI	GATC	3 cut(s)	30, 149, 225
MboII	GAAGA	1 cut(s)	361
MflI	RGATCY	1 cut(s)	225
MluCI	AATT	2 cut(s)	162, 388
MnlI	CCTC	5 cut(s)	246, 292, 338, 359, 377
MseI	TTAA	1 cut(s)	86
MspA1I	CMGCKG	1 cut(s)	316
MspI	CCGG	1 cut(s)	191
MvnI	CGCG	1 cut(s)	323
MwoI	GCNNNNNNNGC	1 cut(s)	294
NdeII	GATC	3 cut(s)	30, 149, 225
NheI	GCTAGC	1 cut(s)	40
NlaIV	GGNNCC	2 cut(s)	177, 227
NmeAIII	GCCGAG	1 cut(s)	309
PcsI	WCGNNNNNNNCGW	1 cut(s)	336
PfeI	GAWTC	3 cut(s)	103, 126, 203
PkrI	GCNGC	1 cut(s)	318
Ple19I	CGATCG	1 cut(s)	152
PspN4I	GGNNCC	2 cut(s)	177, 227
PspPI	GGNCC	1 cut(s)	175
PsuI	RGATCY	1 cut(s)	225
PvuI	CGATCG	1 cut(s)	152
RsaI	GTAC	1 cut(s)	56
RsaNI	GTAC	1 cut(s)	55
SaqAI	TTAA	1 cut(s)	86
SatI	GCNGC	1 cut(s)	317
Sau3AI	GATC	3 cut(s)	30, 149, 225
Sau96I	GGNCC	1 cut(s)	175
SetI	ASST	6 cut(s)	18, 46, 54, 271, 351, 369
SfcI	CTRYAG	1 cut(s)	260
Sse9I	AATT	2 cut(s)	162, 388
SsiI	CCGC	3 cut(s)	184, 223, 316
SspMI	CTAG	2 cut(s)	41, 230
TaaI	ACNGT	2 cut(s)	172, 340
TaiI	ACGT	1 cut(s)	54
TaqI	TCGA	1 cut(s)	152
TasI	AATT	2 cut(s)	162, 388
TatI	WGTACW	1 cut(s)	54
TauI	GCSGC	1 cut(s)	319
TfiI	GAWTC	3 cut(s)	103, 126, 203
Tru1I	TTAA	1 cut(s)	86
Tru9I	TTAA	1 cut(s)	86
TspDTI	ATGAA	2 cut(s)	155, 212
TspGWI	ACGGA	1 cut(s)	115
XspI	CTAG	2 cut(s)	41, 230

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