Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4D

Orthogroup ID

OG0000589

Physical Location & Seq

Genomic Coordinates Reverse (-)

1830145 .. 1830402

Gene Structure 258 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4DG011500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 258 bp

ATGGGTGTATTGTTTATTGGGAATTCTTTGATTCACTTCTATGCAGAACGTGGGGACTTGGATTATGCCCGGAAGCTGTTTGATCAAATACTTGAGAGAACTAGTTTGATTTGTGGTTATGGTAAGAGGAATATGCCAAAGGCGGCTGATTCTTTGTTTTTCGAGATGGTGGCTACCGGGATTAAACCCAATTCGGCGACAATGGTGTGTGTCATTTCTGCTTGCGCAAAGTTGAAGGATGTTGCTTTGAGTGAGAGG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003723 GO:0003824 GO:0004518 GO:0004519 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0006139 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009451 GO:0009987 GO:0016070 GO:0016787 GO:0016788 GO:0034641 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043412 GO:0044237 GO:0044238 GO:0044424 GO:0044464 GO:0046483 GO:0071704 GO:0090304 GO:0090305 GO:0097159 GO:1901360 GO:1901363

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

DYW_deaminase PPR PPR_2

Protein Analysis

86

Amino Acids

9.52

Weight (kDa)

8.52

Isoelectric Point (pI)

29.41

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PPR_2	PF13041	34 - 77	1.4e-09	PPR repeat family

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Publication-ready

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Orthologous Genes (Group: OG0000589)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G22690 AT3G22690 AT3G22690
fragaria_vesca	FvH4_4g12100 FvH4_4g12100 FvH4_4g12100
malus_domestica	MD07G1198500.v1.1 MD12G1181700.v1.1
prunus_persica	Prupe.1G018800_v2.0.a1
pyrus_communis	pycom07g16490
rosa_chinensis	RchiOBHm_Chr1g0328851 RchiOBHm_Chr1g0329061 RchiOBHm_Chr1g0329101 RchiOBHm_Chr1g0329141 RchiOBHm_Chr2g0124781 RchiOBHm_Chr3g0482411 RchiOBHm_Chr3g0482461 RchiOBHm_Chr4g0386511 RchiOBHm_Chr4g0386531 RchiOBHm_Chr4g0386651 RchiOBHm_Chr4g0386671 RchiOBHm_Chr4g0386751 RchiOBHm_Chr4g0386781 RchiOBHm_Chr4g0386861 RchiOBHm_Chr4g0386891 RchiOBHm_Chr4g0386911 RchiOBHm_Chr4g0386991 RchiOBHm_Chr4g0387041 RchiOBHm_Chr4g0387171 RchiOBHm_Chr4g0387241 RchiOBHm_Chr4g0387301 RchiOBHm_Chr4g0387341 RchiOBHm_Chr4g0387441 RchiOBHm_Chr4g0388061 RchiOBHm_Chr4g0389241 RchiOBHm_Chr4g0389361
rosa_laevigata	RLG00000010137 RLG00000010138 RLG00000010145 RLG00000010146 RLG00000018820 RLG00000023352 RLG00000029915
rosa_multiflora	Rmu_co8009444.1_g000001 Rmu_co8455349.1_g000001 Rmu_sc0001375.1_g000001 Rmu_sc0001942.1_g000049 Rmu_sc0001942.1_g000077 Rmu_sc0002939.1_g000001 Rmu_sc0003413.1_g000068 Rmu_sc0003413.1_g000075 Rmu_sc0006571.1_g000008 Rmu_sc0006571.1_g000013 Rmu_sc0006571.1_g000016 Rmu_sc0006648.1_g000004 Rmu_sc0008380.1_g000005 Rmu_sc0009161.1_g000006 Rmu_sc0009161.1_g000007 Rmu_sc0010272.1_g000019 Rmu_sc0011657.1_g000016 Rmu_sc0028698.1_g000001
rosa_roxburghii	Rroxscaffold_2G00119680 Rroxscaffold_2G00119690 Rroxscaffold_5G00334120
rosa_rugosa	Rorug02G0252500 Rorug02G0252500 Rorug03G0196200 Rorug03G0307500 Rorug03G0307800 Rorug03G0308200 Rorug03G0308400 Rorug03G0365200.1 Rorug07G0142900
rosa_samantha	Rh2AG312000 Rh2BG320300 Rh2CG300300 Rh4DG011500 Rh4DG020300
rosa_wichuraiana	Rw2G025200 Rw3G022270 Rw4G001010

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc16I	TGCGCA	1 cut(s)	226
AciI	CCGC	1 cut(s)	143
AcsI	RAATTY	1 cut(s)	22
AgsI	TTSAA	1 cut(s)	235
AhlI	ACTAGT	1 cut(s)	101
AluBI	AGCT	1 cut(s)	76
AluI	AGCT	1 cut(s)	76
ApoI	RAATTY	1 cut(s)	22
AspLEI	GCGC	1 cut(s)	227
AsuC2I	CCSGG	2 cut(s)	70, 178
BccI	CCATC	1 cut(s)	160
BclI	TGATCA	1 cut(s)	82
BcnI	CCSGG	2 cut(s)	70, 178
BcuI	ACTAGT	1 cut(s)	101
BfaI	CTAG	1 cut(s)	102
BisI	GCNGC	1 cut(s)	144
BlsI	GCNGC	1 cut(s)	145
Bme1390I	CCNGG	2 cut(s)	70, 178
BmrFI	CCNGG	2 cut(s)	70, 178
BpuEI	CTTGAG	1 cut(s)	113
BpuMI	CCSGG	2 cut(s)	70, 178
BseGI	GGATG	1 cut(s)	244
BsiSI	CCGG	2 cut(s)	70, 177
BslFI	GGGAC	1 cut(s)	68
BsmFI	GGGAC	1 cut(s)	68
Bsp143I	GATC	1 cut(s)	82
BspACI	CCGC	1 cut(s)	143
BssMI	GATC	1 cut(s)	82
BstC8I	GCNNGC	1 cut(s)	223
BstF5I	GGATG	1 cut(s)	244
BstHHI	GCGC	1 cut(s)	227
BstKTI	GATC	1 cut(s)	85
BstMBI	GATC	1 cut(s)	82
BstSCI	CCNGG	2 cut(s)	68, 176
BtsCI	GGATG	1 cut(s)	244
Cac8I	GCNNGC	1 cut(s)	223
CfoI	GCGC	1 cut(s)	227
CviJI	RGCY	3 cut(s)	76, 146, 173
CviKI_1	RGCY	3 cut(s)	76, 146, 173
DpnI	GATC	1 cut(s)	84
DpnII	GATC	1 cut(s)	82
EcoRI	GAATTC	1 cut(s)	22
FaiI	YATR	4 cut(s)	42, 66, 120, 134
FaqI	GGGAC	1 cut(s)	68
FbaI	TGATCA	1 cut(s)	82
Fnu4HI	GCNGC	1 cut(s)	144
FokI	GGATG	1 cut(s)	251
Fsp4HI	GCNGC	1 cut(s)	144
FspBI	CTAG	1 cut(s)	102
FspI	TGCGCA	1 cut(s)	226
GlaI	GCGC	1 cut(s)	226
GluI	GCNGC	1 cut(s)	144
HapII	CCGG	2 cut(s)	70, 177
HhaI	GCGC	1 cut(s)	227
Hin6I	GCGC	1 cut(s)	225
HinP1I	GCGC	1 cut(s)	225
HinfI	GANTC	2 cut(s)	31, 149
HpaII	CCGG	2 cut(s)	70, 177
Hpy188III	TCNNGA	1 cut(s)	163
HpyAV	CCTTC	1 cut(s)	229
HpyCH4IV	ACGT	1 cut(s)	49
HpyCH4V	TGCA	1 cut(s)	44
HpySE526I	ACGT	1 cut(s)	49
HspAI	GCGC	1 cut(s)	225
Ksp22I	TGATCA	1 cut(s)	82
Kzo9I	GATC	1 cut(s)	82
LpnPI	CCDG	2 cut(s)	83, 190
MaeI	CTAG	1 cut(s)	102
MaeII	ACGT	1 cut(s)	49
MalI	GATC	1 cut(s)	84
MboI	GATC	1 cut(s)	82
MluCI	AATT	2 cut(s)	22, 190
MnlI	CCTC	2 cut(s)	120, 249
MseI	TTAA	1 cut(s)	183
MslI	CAYNNNNRTG	1 cut(s)	39
MspI	CCGG	2 cut(s)	70, 177
MspR9I	CCNGG	2 cut(s)	70, 178
NciI	CCSGG	2 cut(s)	70, 178
NdeII	GATC	1 cut(s)	82
NsbI	TGCGCA	1 cut(s)	226
PfeI	GAWTC	2 cut(s)	31, 149
PkrI	GCNGC	1 cut(s)	145
RseI	CAYNNNNRTG	1 cut(s)	39
SaqAI	TTAA	1 cut(s)	183
SatI	GCNGC	1 cut(s)	144
Sau3AI	GATC	1 cut(s)	82
ScrFI	CCNGG	2 cut(s)	70, 178
SetI	ASST	2 cut(s)	52, 78
SmiMI	CAYNNNNRTG	1 cut(s)	39
SmlI	CTYRAG	1 cut(s)	92
SmoI	CTYRAG	1 cut(s)	92
SpeI	ACTAGT	1 cut(s)	101
Sse9I	AATT	2 cut(s)	22, 190
SsiI	CCGC	1 cut(s)	143
SspMI	CTAG	1 cut(s)	102
StyD4I	CCNGG	2 cut(s)	68, 176
TaiI	ACGT	1 cut(s)	52
TaqI	TCGA	1 cut(s)	162
TasI	AATT	2 cut(s)	22, 190
TauI	GCSGC	1 cut(s)	146
TfiI	GAWTC	2 cut(s)	31, 149
Tru1I	TTAA	1 cut(s)	183
Tru9I	TTAA	1 cut(s)	183
XapI	RAATTY	1 cut(s)	22
XspI	CTAG	1 cut(s)	102

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