Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5D

Orthogroup ID

OG0001829

Physical Location & Seq

Genomic Coordinates Forward (+)

78521246 .. 78521467

Gene Structure 222 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5DG501100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 222 bp

ATGAGCCTCGGCATCCCTCACTCGATCCTCGACGACCACCCGAAAATCGATCTGGCCATCGACAGCGCCGACCCCAATCTGGATTTGGTCAAGGGCAGCGGCGGCGCGTTGTTAAAGGAGAAGATGGTGGAGGCCGCGTCGGAGAAGTTCGTGGTGGTCGCCGACGAGACAAAATTGGTGACGGGGCTGGGAGGAAGCGGGCTGGCAATGAGTTGTTCTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005975 GO:0006950 GO:0006952 GO:0008150 GO:0008152 GO:0009058 GO:0009507 GO:0009526 GO:0009532 GO:0009534 GO:0009535 GO:0009536 GO:0009570 GO:0009579 GO:0009605 GO:0009607 GO:0009617 GO:0009719 GO:0009725 GO:0009735 GO:0009941 GO:0009987 GO:0010033 GO:0015977 GO:0015979 GO:0016020 GO:0016051 GO:0019253 GO:0019685 GO:0031967 GO:0031975 GO:0031976 GO:0031984 GO:0034357 GO:0042221 GO:0042651 GO:0042742 GO:0043207 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044434 GO:0044435 GO:0044436 GO:0044444 GO:0044446 GO:0044464 GO:0050896 GO:0051704 GO:0051707 GO:0055035 GO:0071704 GO:0098542 GO:1901576

KEGG Pathways

Metabolic & Signaling

ko00030 ko00710 ko01100 ko01110 ko01120 ko01130 ko01200 ko01230 map00030 map00710 map01100 map01110 map01120 map01130 map01200 map01230

Pfam Domains

Protein Families

Rib_5-P_isom_A

Protein Analysis

73

Amino Acids

7.46

Weight (kDa)

4.64

Isoelectric Point (pI)

29.32

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Rib_5-P_isom_A	PF06026	2 - 67	1.7e-19	Ribose 5-phosphate isomerase A (phosphoriboisomerase A)

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Orthologous Genes (Group: OG0001829)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G04790
fragaria_vesca	FvH4_6g03160
malus_domestica	MD04G1222500.v1.1 MD12G1238600.v1.1
prunus_persica	Prupe.6G341500_v2.0.a1
pyrus_communis	pycom04g19680 pycom12g21930
rosa_chinensis	RchiOBHm_Chr3g0451421
rosa_laevigata	RLG00000007161 RLG00000007952 RLG00000016309 RLG00000017186 RLG00000025661 RLG00000034591 RLG00000035184 RLG00000035331
rosa_multiflora	Rmu_sc0000212.1_g000012 Rmu_sc0000578.1_g000020 Rmu_sc0002575.1_g000002 Rmu_sc0003216.1_g000009 Rmu_sc0004058.1_g000023 Rmu_sc0021369.1_g000003 Rmu_ssc0000421.1_g000073
rosa_roxburghii	Rroxscaffold_164G00436510 Rroxscaffold_1G00008300 Rroxscaffold_1G00041190 Rroxscaffold_2G00115660 Rroxscaffold_2G00144830 Rroxscaffold_4G00295890 Rroxscaffold_6G00428830
rosa_rugosa	Rorug02G0633700.1 Rorug05G0038600 Rorug06G0042600
rosa_samantha	Rh3AG036700 Rh3BG037300 Rh3CG035900 Rh3DG036800 Rh3DG372600 Rh4CG172100 Rh4CG229700 Rh5CG197600 Rh5DG501000 Rh5DG501100 Rh5DG501200 Rh6AG133400
rosa_wichuraiana	Rw3G002710 Rw4G018610

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccII	CGCG	2 cut(s)	107, 137
AciI	CCGC	4 cut(s)	99, 102, 135, 198
AclWI	GGATC	1 cut(s)	19
AcoI	YGGCCR	1 cut(s)	54
AfiI	CCNNNNNNNGG	1 cut(s)	79
Alw26I	GTCTC	1 cut(s)	161
AlwI	GGATC	1 cut(s)	19
AoxI	GGCC	2 cut(s)	54, 132
ApeKI	GCWGC	1 cut(s)	96
AspLEI	GCGC	2 cut(s)	68, 107
AsuHPI	GGTGA	1 cut(s)	190
BalI	TGGCCA	1 cut(s)	56
BbvI	GCAGC	1 cut(s)	108
BccI	CCATC	2 cut(s)	65, 118
BcoDI	GTCTC	1 cut(s)	161
BfoI	RGCGCY	1 cut(s)	69
BisI	GCNGC	4 cut(s)	97, 100, 103, 135
BlsI	GCNGC	4 cut(s)	98, 101, 104, 136
BmsI	GCATC	1 cut(s)	21
Bsa29I	ATCGAT	1 cut(s)	48
BsaJI	CCNNGG	1 cut(s)	7
BsaXI	ACNNNNNCTCC	2 cut(s)	122, 152
Bsc4I	CCNNNNNNNGG	1 cut(s)	79
Bse3DI	GCAATG	1 cut(s)	213
BseCI	ATCGAT	1 cut(s)	48
BseDI	CCNNGG	1 cut(s)	7
BseGI	GGATG	1 cut(s)	12
BseLI	CCNNNNNNNGG	1 cut(s)	79
BseMI	GCAATG	1 cut(s)	213
BseXI	GCAGC	1 cut(s)	108
BseYI	CCCAGC	1 cut(s)	187
Bsh1236I	CGCG	2 cut(s)	107, 137
BshFI	GGCC	2 cut(s)	56, 134
BshVI	ATCGAT	1 cut(s)	48
BslI	CCNNNNNNNGG	1 cut(s)	79
BsmAI	GTCTC	1 cut(s)	161
BsnI	GGCC	2 cut(s)	56, 134
Bsp143I	GATC	2 cut(s)	24, 49
BspACI	CCGC	4 cut(s)	99, 102, 135, 198
BspANI	GGCC	2 cut(s)	56, 134
BspDI	ATCGAT	1 cut(s)	48
BspFNI	CGCG	2 cut(s)	107, 137
BspPI	GGATC	1 cut(s)	19
BsrDI	GCAATG	1 cut(s)	213
BssECI	CCNNGG	1 cut(s)	7
BssMI	GATC	2 cut(s)	24, 49
BstC8I	GCNNGC	2 cut(s)	200, 204
BstF5I	GGATG	1 cut(s)	12
BstFNI	CGCG	2 cut(s)	107, 137
BstH2I	RGCGCY	1 cut(s)	69
BstHHI	GCGC	2 cut(s)	68, 107
BstKTI	GATC	2 cut(s)	27, 52
BstMAI	GTCTC	1 cut(s)	161
BstMBI	GATC	2 cut(s)	24, 49
BstMWI	GCNNNNNNNGC	1 cut(s)	102
BstUI	CGCG	2 cut(s)	107, 137
BstV1I	GCAGC	1 cut(s)	108
Bsu15I	ATCGAT	1 cut(s)	48
BsuRI	GGCC	2 cut(s)	56, 134
BsuTUI	ATCGAT	1 cut(s)	48
BtsCI	GGATG	1 cut(s)	12
Cac8I	GCNNGC	2 cut(s)	200, 204
CfoI	GCGC	2 cut(s)	68, 107
ClaI	ATCGAT	1 cut(s)	48
CseI	GACGC	1 cut(s)	126
CviJI	RGCY	5 cut(s)	6, 56, 134, 187, 202
CviKI_1	RGCY	5 cut(s)	6, 56, 134, 187, 202
DpnI	GATC	2 cut(s)	26, 51
DpnII	GATC	2 cut(s)	24, 49
EaeI	YGGCCR	1 cut(s)	54
FauI	CCCGC	1 cut(s)	191
Fnu4HI	GCNGC	4 cut(s)	97, 100, 103, 135
Fsp4HI	GCNGC	4 cut(s)	97, 100, 103, 135
GlaI	GCGC	2 cut(s)	67, 106
GluI	GCNGC	4 cut(s)	97, 100, 103, 135
GsaI	CCCAGC	1 cut(s)	191
HaeII	RGCGCY	1 cut(s)	69
HaeIII	GGCC	2 cut(s)	56, 134
HgaI	GACGC	1 cut(s)	126
HhaI	GCGC	2 cut(s)	68, 107
Hin6I	GCGC	2 cut(s)	66, 105
HinP1I	GCGC	2 cut(s)	66, 105
HphI	GGTGA	1 cut(s)	190
Hpy188I	TCNGA	1 cut(s)	142
Hpy188III	TCNNGA	2 cut(s)	80, 219
Hpy99I	CGWCG	3 cut(s)	35, 142, 167
HpyF10VI	GCNNNNNNNGC	1 cut(s)	102
HspAI	GCGC	2 cut(s)	66, 105
Kzo9I	GATC	2 cut(s)	24, 49
LpnPI	CCDG	4 cut(s)	38, 65, 173, 188
Lsp1109I	GCAGC	1 cut(s)	108
LweI	GCATC	1 cut(s)	21
MaeIII	GTNAC	1 cut(s)	178
MalI	GATC	2 cut(s)	26, 51
MboI	GATC	2 cut(s)	24, 49
MboII	GAAGA	1 cut(s)	133
MlsI	TGGCCA	1 cut(s)	56
MluCI	AATT	1 cut(s)	173
MluNI	TGGCCA	1 cut(s)	56
MmeI	TCCRAC	1 cut(s)	120
MnlI	CCTC	5 cut(s)	17, 27, 38, 124, 185
Mox20I	TGGCCA	1 cut(s)	56
MscI	TGGCCA	1 cut(s)	56
MseI	TTAA	1 cut(s)	113
Msp20I	TGGCCA	1 cut(s)	56
MspA1I	CMGCKG	1 cut(s)	99
MvnI	CGCG	2 cut(s)	107, 137
MwoI	GCNNNNNNNGC	1 cut(s)	102
NdeII	GATC	2 cut(s)	24, 49
NmuCI	GTSAC	1 cut(s)	178
PcsI	WCGNNNNNNNCGW	1 cut(s)	66
PkrI	GCNGC	4 cut(s)	98, 101, 104, 136
PspFI	CCCAGC	1 cut(s)	187
SaqAI	TTAA	1 cut(s)	113
SatI	GCNGC	4 cut(s)	97, 100, 103, 135
Sau3AI	GATC	2 cut(s)	24, 49
SfaNI	GCATC	1 cut(s)	21
Sse9I	AATT	1 cut(s)	173
SsiI	CCGC	4 cut(s)	99, 102, 135, 198
TaqI	TCGA	4 cut(s)	23, 30, 48, 60
TasI	AATT	1 cut(s)	173
TauI	GCSGC	3 cut(s)	102, 105, 137
Tru1I	TTAA	1 cut(s)	113
Tru9I	TTAA	1 cut(s)	113
TseFI	GTSAC	1 cut(s)	178
TseI	GCWGC	1 cut(s)	96
Tsp45I	GTSAC	1 cut(s)	178
XcmI	CCANNNNNNNNNTGG	1 cut(s)	82

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