Rh3DG140000

May be involved in both secretory and endocytic intracellular trafficking in the endosomal prevacuolar compartments

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr3D
OG0011985
Physical Location & Seq
Forward (+)
11959276 .. 11962672
3397 bp
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UTR
Exon/CDS
Intron
Rh3DG140000.1

Sequence Viewer

Length: 282 bp
ATGAGACCTCCTCTTACGCCTGTAATTCGTGGACGTCCTTCAGCCAAGAGAGCAATATTCATATGTGGTCGGCCTCGTTGGGTGTTTGTCTTGATATTCTCTTCTGTGAGTTTCATCCTGTGGCTTGTTTCCTGTGGTCTCTTAATTGTCTCATGGGCACTCTCCTTCGGACTTCTTGCCACTTTACTGCATGCAAGCTTCAGGACACCCAACTTGAAAGCACGTCTGAACACATTCCGCGAGGAATTTCGTCAAGTTTGGCGCAACTATAGTGAGCTGTAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005783 GO:0006810 GO:0008150 GO:0012505 GO:0016192 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044444 GO:0044464 GO:0051179 GO:0051234
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
C1_2 PRA1

Protein Analysis

93

Amino Acids

10.79

Weight (kDa)

11.77

Isoelectric Point (pI)

45.19

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PRA1 PF03208 27 - 76 1.1e-09 PRA1 family protein
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Orthologous Genes (Group: OG0011985)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G11397 AT5G02040 AT5G02040 AT5G05987
fragaria_vesca FvH4_6g12950
malus_domestica MD04G1136600.v1.1 MD12G1150900.v1.1
prunus_persica Prupe.6G262800_v2.0.a1 Prupe.6G262800_v2.0.a1
rosa_chinensis RchiOBHm_Chr3g0465061
rosa_laevigata RLG00000024659
rosa_multiflora Rmu_sc0004362.1_g000018
rosa_roxburghii Rroxscaffold_6G00415290
rosa_rugosa Rorug03G0075000
rosa_samantha Rh3BG138500 Rh3CG140900 Rh3CG149200 Rh3DG140000
rosa_wichuraiana Rw3G011330

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AatII GACGTC 1 cut(s) 37
AccII CGCG 1 cut(s) 240
AciI CCGC 1 cut(s) 238
AcsI RAATTY 1 cut(s) 245
AcuI CTGAAG 2 cut(s) 24, 184
AcyI GRCGYC 1 cut(s) 34
AgsI TTSAA 1 cut(s) 217
AjiI CACGTC 1 cut(s) 224
AluBI AGCT 2 cut(s) 198, 277
AluI AGCT 2 cut(s) 198, 277
Alw26I GTCTC 2 cut(s) 143, 154
AoxI GGCC 1 cut(s) 71
ApoI RAATTY 1 cut(s) 245
Asp700I GAANNNNTTC 1 cut(s) 233
AspLEI GCGC 1 cut(s) 264
BaeGI GKGCMC 1 cut(s) 160
BcoDI GTCTC 2 cut(s) 143, 154
BfmI CTRYAG 1 cut(s) 268
BmgBI CACGTC 1 cut(s) 224
BplI GAGNNNNNCTC 1 cut(s) 27
BsaHI GRCGYC 1 cut(s) 34
BsaI GGTCTC 1 cut(s) 143
BseGI GGATG 1 cut(s) 114
BseSI GKGCMC 1 cut(s) 160
Bsh1236I CGCG 1 cut(s) 240
BshFI GGCC 1 cut(s) 73
BsmAI GTCTC 2 cut(s) 143, 154
BsnI GGCC 1 cut(s) 73
Bso31I GGTCTC 1 cut(s) 143
Bsp1286I GDGCHC 1 cut(s) 160
BspACI CCGC 1 cut(s) 238
BspANI GGCC 1 cut(s) 73
BspFNI CGCG 1 cut(s) 240
BspTNI GGTCTC 1 cut(s) 143
BssNI GRCGYC 1 cut(s) 34
Bst6I CTCTTC 1 cut(s) 106
BstACI GRCGYC 1 cut(s) 34
BstC8I GCNNGC 2 cut(s) 192, 196
BstF5I GGATG 1 cut(s) 114
BstFNI CGCG 1 cut(s) 240
BstHHI GCGC 1 cut(s) 264
BstMAI GTCTC 2 cut(s) 143, 154
BstMWI GCNNNNNNNGC 1 cut(s) 50
BstNSI RCATGY 1 cut(s) 194
BstSFI CTRYAG 1 cut(s) 268
BstSLI GKGCMC 1 cut(s) 160
BstUI CGCG 1 cut(s) 240
BsuRI GGCC 1 cut(s) 73
BtrI CACGTC 1 cut(s) 224
BtsCI GGATG 1 cut(s) 114
Cac8I GCNNGC 2 cut(s) 192, 196
CfoI GCGC 1 cut(s) 264
CviAII CATG 2 cut(s) 153, 191
CviJI RGCY 5 cut(s) 44, 73, 124, 198, 277
CviKI_1 RGCY 5 cut(s) 44, 73, 124, 198, 277
Eam1104I CTCTTC 1 cut(s) 106
EarI CTCTTC 1 cut(s) 106
Eco31I GGTCTC 1 cut(s) 143
Eco57I CTGAAG 2 cut(s) 24, 184
FaeI CATG 2 cut(s) 156, 194
FaiI YATR 5 cut(s) 62, 64, 154, 192, 270
FatI CATG 2 cut(s) 152, 190
FauNDI CATATG 1 cut(s) 62
FokI GGATG 1 cut(s) 101
GlaI GCGC 1 cut(s) 263
HaeIII GGCC 1 cut(s) 73
HhaI GCGC 1 cut(s) 264
Hin1I GRCGYC 1 cut(s) 34
Hin1II CATG 2 cut(s) 156, 194
Hin6I GCGC 1 cut(s) 262
HinP1I GCGC 1 cut(s) 262
HindIII AAGCTT 1 cut(s) 196
Hpy166II GTNNAC 1 cut(s) 32
Hpy188I TCNGA 2 cut(s) 170, 228
Hpy188III TCNNGA 2 cut(s) 91, 202
Hpy8I GTNNAC 1 cut(s) 32
HpyAV CCTTC 2 cut(s) 48, 175
HpyCH4IV ACGT 2 cut(s) 34, 223
HpyCH4V TGCA 2 cut(s) 190, 194
HpyF10VI GCNNNNNNNGC 1 cut(s) 50
HpySE526I ACGT 2 cut(s) 34, 223
Hsp92I GRCGYC 1 cut(s) 34
Hsp92II CATG 2 cut(s) 156, 194
HspAI GCGC 1 cut(s) 262
LpnPI CCDG 4 cut(s) 33, 131, 145, 187
MaeII ACGT 2 cut(s) 34, 223
MboII GAAGA 1 cut(s) 93
MhlI GDGCHC 1 cut(s) 160
MluCI AATT 3 cut(s) 24, 144, 245
MnlI CCTC 4 cut(s) 18, 21, 84, 235
MroXI GAANNNNTTC 1 cut(s) 233
MseI TTAA 1 cut(s) 143
MvnI CGCG 1 cut(s) 240
MwoI GCNNNNNNNGC 1 cut(s) 50
NdeI CATATG 1 cut(s) 62
NlaIII CATG 2 cut(s) 156, 194
NspI RCATGY 1 cut(s) 194
PaeI GCATGC 1 cut(s) 194
PdmI GAANNNNTTC 1 cut(s) 233
SaqAI TTAA 1 cut(s) 143
SduI GDGCHC 1 cut(s) 160
SetI ASST 5 cut(s) 10, 37, 200, 226, 279
SfcI CTRYAG 1 cut(s) 268
SphI GCATGC 1 cut(s) 194
Sse9I AATT 3 cut(s) 24, 144, 245
SsiI CCGC 1 cut(s) 238
SspI AATATT 1 cut(s) 57
TaiI ACGT 2 cut(s) 37, 226
TasI AATT 3 cut(s) 24, 144, 245
Tru1I TTAA 1 cut(s) 143
Tru9I TTAA 1 cut(s) 143
TspDTI ATGAA 2 cut(s) 49, 103
XapI RAATTY 1 cut(s) 245
XceI RCATGY 1 cut(s) 194
XmnI GAANNNNTTC 1 cut(s) 233
ZraI GACGTC 1 cut(s) 35
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.