Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5D

Orthogroup ID

OG0003805

Physical Location & Seq

Genomic Coordinates Reverse (-)

3104877 .. 3105325

Gene Structure 449 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5DG041800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 372 bp

ATGTGGGGTCAAATGGTGGAGAAGAATGTTGTTCCTGATATTAGGAGCTACAATGCTAAGTTGCTGGGATTCGCTTTGGAGAAGAGGAGTGAAGAAGGGGCTCAATTAGTTGAAGAGTTGAGGACTAAGCGGTGGTATGGTGAAATAGAGAAGAGTAGTTGTGCTCTGGATAAATGGACTGTCGAGACGCTTGTTCCCTTCGTTTGTGAGATGGGTGATGTGGAGTATGCTTTTGAGCTCTGCAAGGACATTTTCCAAAGGCGCCGCCTTGTGGGTGCAGCATTGTTGCAACCTGTGGTGGATGGTCTGGTCAAGGCCTCCATGATTGAGGAGGCAAATGAACTAGTCAACCTTAGGAACACTAATTCCTAA

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:0005737 GO:0005739 GO:0006139 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009451 GO:0009987 GO:0016020 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:0044444 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

PPR PPR_2 PPR_3

Protein Analysis

123

Amino Acids

14.06

Weight (kDa)

4.98

Isoelectric Point (pI)

64.52

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)

Image

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Publication-ready

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Orthologous Genes (Group: OG0003805)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G55890 AT3G13160
fragaria_vesca	FvH4_3g03043 FvH4_3g03070 FvH4_3g03080 FvH4_3g03160
malus_domestica	MD05G1334700.v1.1
prunus_persica	Prupe.4G030500_v2.0.a1
pyrus_communis	pycom05g30630 pycom10g26130
rosa_chinensis	RchiOBHm_Chr5g0004741 RchiOBHm_Chr5g0004781
rosa_laevigata	RLG00000030227 RLG00000030229 RLG00000031256 RLG00000031258 RLG00000031259 RLG00000031261
rosa_multiflora	Rmu_co8370515.1_g000001 Rmu_sc0002210.1_g000010 Rmu_sc0002210.1_g000016 Rmu_sc0008308.1_g000003 Rmu_sc0008308.1_g000014 Rmu_sc0010871.1_g000008 Rmu_sc0010871.1_g000027
rosa_roxburghii	Rroxscaffold_1G00070810 Rroxscaffold_1G00070830
rosa_samantha	Rh5BG041400 Rh5CG044900 Rh5CG045300 Rh5DG041300 Rh5DG041500 Rh5DG041800
rosa_wichuraiana	Rw5G004020

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	261
AciI	CCGC	2 cut(s)	130, 265
AcyI	GRCGYC	1 cut(s)	262
AfiI	CCNNNNNNNGG	1 cut(s)	271
AgsI	TTSAA	1 cut(s)	113
AhlI	ACTAGT	1 cut(s)	343
AloI	GAACNNNNNNTCC	1 cut(s)	350
AluBI	AGCT	2 cut(s)	48, 238
AluI	AGCT	2 cut(s)	48, 238
Alw21I	GWGCWC	2 cut(s)	166, 240
Alw26I	GTCTC	1 cut(s)	179
AoxI	GGCC	1 cut(s)	315
ApeKI	GCWGC	1 cut(s)	278
AspLEI	GCGC	1 cut(s)	264
AsuHPI	GGTGA	2 cut(s)	152, 227
AxyI	CCTNAGG	1 cut(s)	353
BanI	GGYRCC	1 cut(s)	261
BanII	GRGCYC	2 cut(s)	103, 240
Bbv12I	GWGCWC	2 cut(s)	166, 240
BbvI	GCAGC	1 cut(s)	290
BccI	CCATC	2 cut(s)	205, 296
BcoDI	GTCTC	1 cut(s)	179
BcuI	ACTAGT	1 cut(s)	343
BfaI	CTAG	1 cut(s)	344
BfoI	RGCGCY	1 cut(s)	265
BisI	GCNGC	2 cut(s)	265, 279
BlsI	GCNGC	2 cut(s)	266, 280
BmiI	GGNNCC	1 cut(s)	263
BsaHI	GRCGYC	1 cut(s)	262
Bsc4I	CCNNNNNNNGG	1 cut(s)	271
Bse21I	CCTNAGG	1 cut(s)	353
BseGI	GGATG	1 cut(s)	307
BseLI	CCNNNNNNNGG	1 cut(s)	271
BseRI	GAGGAG	2 cut(s)	100, 344
BseXI	GCAGC	1 cut(s)	290
BseYI	CCCAGC	1 cut(s)	64
BsgI	GTGCAG	1 cut(s)	297
BshFI	GGCC	1 cut(s)	317
BshNI	GGYRCC	1 cut(s)	261
BsiHKAI	GWGCWC	2 cut(s)	166, 240
BslI	CCNNNNNNNGG	1 cut(s)	271
BsmAI	GTCTC	1 cut(s)	179
BsmBI	CGTCTC	1 cut(s)	179
BsnI	GGCC	1 cut(s)	317
Bsp1286I	GDGCHC	3 cut(s)	103, 166, 240
BspACI	CCGC	2 cut(s)	130, 265
BspANI	GGCC	1 cut(s)	317
BspLI	GGNNCC	1 cut(s)	263
BspT107I	GGYRCC	1 cut(s)	261
BssNI	GRCGYC	1 cut(s)	262
Bst4CI	ACNGT	1 cut(s)	181
Bst6I	CTCTTC	3 cut(s)	77, 108, 146
BstACI	GRCGYC	1 cut(s)	262
BstDEI	CTNAG	3 cut(s)	57, 126, 353
BstF5I	GGATG	1 cut(s)	307
BstH2I	RGCGCY	1 cut(s)	265
BstHHI	GCGC	1 cut(s)	264
BstMAI	GTCTC	1 cut(s)	179
BstV1I	GCAGC	1 cut(s)	290
Bsu36I	CCTNAGG	1 cut(s)	353
BsuRI	GGCC	1 cut(s)	317
BtsCI	GGATG	1 cut(s)	307
CfoI	GCGC	1 cut(s)	264
CseI	GACGC	1 cut(s)	196
CviAII	CATG	1 cut(s)	322
CviJI	RGCY	4 cut(s)	48, 101, 238, 317
CviKI_1	RGCY	4 cut(s)	48, 101, 238, 317
DdeI	CTNAG	3 cut(s)	57, 126, 353
DinI	GGCGCC	1 cut(s)	263
Eam1104I	CTCTTC	3 cut(s)	77, 108, 146
EarI	CTCTTC	3 cut(s)	77, 108, 146
Ecl136II	GAGCTC	1 cut(s)	238
Eco147I	AGGCCT	1 cut(s)	317
Eco24I	GRGCYC	2 cut(s)	103, 240
Eco53kI	GAGCTC	1 cut(s)	238
Eco81I	CCTNAGG	1 cut(s)	353
EcoICRI	GAGCTC	1 cut(s)	238
EcoT38I	GRGCYC	2 cut(s)	103, 240
EgeI	GGCGCC	1 cut(s)	263
EheI	GGCGCC	1 cut(s)	263
Esp3I	CGTCTC	1 cut(s)	179
FaeI	CATG	1 cut(s)	325
FaiI	YATR	3 cut(s)	138, 228, 323
FatI	CATG	1 cut(s)	321
Fnu4HI	GCNGC	2 cut(s)	265, 279
FokI	GGATG	1 cut(s)	314
FriOI	GRGCYC	2 cut(s)	103, 240
Fsp4HI	GCNGC	2 cut(s)	265, 279
FspBI	CTAG	1 cut(s)	344
GlaI	GCGC	1 cut(s)	263
GluI	GCNGC	2 cut(s)	265, 279
GsaI	CCCAGC	1 cut(s)	68
HaeII	RGCGCY	1 cut(s)	265
HaeIII	GGCC	1 cut(s)	317
HgaI	GACGC	1 cut(s)	196
HhaI	GCGC	1 cut(s)	264
Hin1I	GRCGYC	1 cut(s)	262
Hin1II	CATG	1 cut(s)	325
Hin6I	GCGC	1 cut(s)	262
HinP1I	GCGC	1 cut(s)	262
HincII	GTYRAC	1 cut(s)	349
HindII	GTYRAC	1 cut(s)	349
HinfI	GANTC	1 cut(s)	69
HphI	GGTGA	2 cut(s)	152, 227
Hpy166II	GTNNAC	1 cut(s)	349
Hpy188III	TCNNGA	3 cut(s)	35, 167, 184
Hpy8I	GTNNAC	1 cut(s)	349
HpyAV	CCTTC	2 cut(s)	89, 208
HpyCH4III	ACNGT	1 cut(s)	181
HpyCH4V	TGCA	3 cut(s)	243, 278, 289
HpyF3I	CTNAG	3 cut(s)	57, 126, 353
Hsp92I	GRCGYC	1 cut(s)	262
Hsp92II	CATG	1 cut(s)	325
HspAI	GCGC	1 cut(s)	262
KasI	GGCGCC	1 cut(s)	261
LmnI	GCTCC	1 cut(s)	45
LpnPI	CCDG	5 cut(s)	48, 50, 152, 293, 306
Lsp1109I	GCAGC	1 cut(s)	290
MaeI	CTAG	1 cut(s)	344
MboII	GAAGA	5 cut(s)	34, 94, 104, 125, 163
MhlI	GDGCHC	3 cut(s)	103, 166, 240
MluCI	AATT	2 cut(s)	104, 364
Mly113I	GGCGCC	1 cut(s)	262
MnlI	CCTC	5 cut(s)	78, 114, 322, 325, 328
NarI	GGCGCC	1 cut(s)	262
NlaIII	CATG	1 cut(s)	325
NlaIV	GGNNCC	1 cut(s)	263
PceI	AGGCCT	1 cut(s)	317
PfeI	GAWTC	1 cut(s)	69
PkrI	GCNGC	2 cut(s)	266, 280
PluTI	GGCGCC	1 cut(s)	265
Psp124BI	GAGCTC	1 cut(s)	240
PspFI	CCCAGC	1 cut(s)	64
PspN4I	GGNNCC	1 cut(s)	263
SacI	GAGCTC	1 cut(s)	240
SatI	GCNGC	2 cut(s)	265, 279
SduI	GDGCHC	3 cut(s)	103, 166, 240
SetI	ASST	4 cut(s)	50, 240, 295, 354
SfoI	GGCGCC	1 cut(s)	263
SpeI	ACTAGT	1 cut(s)	343
Sse9I	AATT	2 cut(s)	104, 364
SseBI	AGGCCT	1 cut(s)	317
SsiI	CCGC	2 cut(s)	130, 265
SspDI	GGCGCC	1 cut(s)	261
SspMI	CTAG	1 cut(s)	344
SstI	GAGCTC	1 cut(s)	240
StuI	AGGCCT	1 cut(s)	317
TaaI	ACNGT	1 cut(s)	181
TaqI	TCGA	1 cut(s)	183
TasI	AATT	2 cut(s)	104, 364
TauI	GCSGC	1 cut(s)	267
TfiI	GAWTC	1 cut(s)	69
TseI	GCWGC	1 cut(s)	278
TspDTI	ATGAA	1 cut(s)	354
XspI	CTAG	1 cut(s)	344

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