Rh4BG153900

Vacuolar protein sorting-associated protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr4B
OG0000415
Physical Location & Seq
Forward (+)
27711853 .. 27712901
1049 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh4BG153900.1

Sequence Viewer

Length: 399 bp
ATGTTGATGACGCTGAAATTAGAGAAATTGAGAAAGATTTGGATCCAAAAAGTAATTCTTCTGTGGAGGTTACTTGCACATGCAAATGTGGAATCTGTAAAATCGAAGGAAGCGGCTGAACAGAGGATGCTCCAGAAGAAAAGCTGGTTTTCATTTAGATGGCGTACACCTGATGAATCTGCTGATGATACTTCTGAGGGATCACAGTCACCAGAAGAAAGACTGACTAAAGAGGAGTGGCAAGCAATTAATAAGTTACTAAGTTACCAGCCAGATGAAACATTGGCATCTCACTCAGGAAAGGACATGCCGAATATGATCCGGTTTATGGTAACTGTGTCTGTTGAAACATGTGTGTATAAGGTTAATCCAATGCCTATGAAAGCCATAAGCGTGTAG
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
C2 Chorein_N Pex24p SHR-BD VPS13 VPS13_C VPS13_mid_rpt Vps62

Protein Analysis

132

Amino Acids

15.4

Weight (kDa)

9.04

Isoelectric Point (pI)

38.13

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
Loading...
Style Settings
Image
Tree File
Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0000415)

Species Orthologous Gene IDs
fragaria_vesca FvH4_2g17790 FvH4_2g20000 FvH4_5g06730 FvH4_5g06800 FvH4_5g06820 FvH4_6g04440 FvH4_6g04540 FvH4_6g34210
malus_domestica MD10G1023300.v1.1 MD14G1198500.v1.1
prunus_persica Prupe.2G100600_v2.0.a1 Prupe.8G205400_v2.0.a1 Prupe.8G205500_v2.0.a1
rosa_chinensis RchiOBHm_Chr1g0321451 RchiOBHm_Chr2g0160021 RchiOBHm_Chr4g0407711 RchiOBHm_Chr4g0407721 RchiOBHm_Chr4g0407751 RchiOBHm_Chr4g0407761 RchiOBHm_Chr6g0282811 RchiOBHm_Chr6g0285651 RchiOBHm_Chr6g0285661 RchiOBHm_Chr6g0285691 RchiOBHm_Chr6g0285701 RchiOBHm_Chr7g0191701
rosa_laevigata RLG00000001989 RLG00000003825 RLG00000004431 RLG00000012616 RLG00000012797 RLG00000012866 RLG00000015356 RLG00000021192 RLG00000025443
rosa_multiflora Rmu_sc0000600.1_g000050 Rmu_sc0000600.1_g000051 Rmu_sc0000600.1_g000053 Rmu_sc0000600.1_g000054 Rmu_sc0001123.1_g000019 Rmu_sc0001123.1_g000023 Rmu_sc0001521.1_g000015 Rmu_sc0002023.1_g000017
rosa_roxburghii Rroxscaffold_157G00438540 Rroxscaffold_2G00090090 Rroxscaffold_3G00263620 Rroxscaffold_7G00182850 Rroxscaffold_7G00185190 Rroxscaffold_7G00186010 Rroxscaffold_7G00215810
rosa_rugosa Rorug02G0479800 Rorug03G0030400 Rorug03G0077500 Rorug04G0221600 Rorug06G0006300 Rorug06G0157700 Rorug06G0176400 Rorug06G0511100 Rorug07G0052100 Rorug07G0220500
rosa_samantha Rh2AG546400 Rh2BG559800 Rh2CG529800 Rh2DG568400 Rh2DG568500 Rh3BG143100 Rh3DG144300 Rh4AG146200 Rh4AG146300 Rh4BG153900 Rh4CG152800 Rh6AG024300 Rh6AG262900 Rh6AG270400 Rh6AG288000 Rh6BG265800 Rh6BG272000 Rh6BG289500 Rh6CG016700 Rh6CG265100 Rh6CG272600 Rh6CG272700 Rh6CG290500 Rh6CG290700 Rh6DG017800 Rh6DG257600 Rh6DG265800 Rh6DG283200 Rh7AG119900 Rh7AG120400 Rh7BG122400 Rh7BG178300 Rh7CG125000 Rh7CG125100 Rh7DG123200 Rh7DG123500 Rh7DG123600
rosa_wichuraiana Rw4G011890 Rw4G011910 Rw4G011920

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AciI CCGC 1 cut(s) 113
AclWI GGATC 4 cut(s) 37, 50, 208, 313
AfaI GTAC 1 cut(s) 166
AfiI CCNNNNNNNGG 1 cut(s) 328
AflIII ACRYGT 1 cut(s) 350
AgsI TTSAA 1 cut(s) 347
AjuI GAANNNNNNNTTGG 2 cut(s) 39, 71
AluBI AGCT 1 cut(s) 144
AluI AGCT 1 cut(s) 144
AlwI GGATC 4 cut(s) 37, 50, 208, 313
AseI ATTAAT 1 cut(s) 249
AsuHPI GGTGA 1 cut(s) 201
BamHI GGATCC 1 cut(s) 42
BccI CCATC 1 cut(s) 153
BisI GCNGC 1 cut(s) 114
BlsI GCNGC 1 cut(s) 115
BmiI GGNNCC 1 cut(s) 44
BmsI GCATC 2 cut(s) 117, 296
BpmI CTGGAG 1 cut(s) 116
BsaBI GATNNNNATC 1 cut(s) 41
BsaWI WCCGGW 1 cut(s) 321
Bsc4I CCNNNNNNNGG 1 cut(s) 328
Bse8I GATNNNNATC 1 cut(s) 41
BseGI GGATG 1 cut(s) 132
BseJI GATNNNNATC 1 cut(s) 41
BseLI CCNNNNNNNGG 1 cut(s) 328
BseMII CTCAG 2 cut(s) 186, 309
BseRI GAGGAG 1 cut(s) 248
BsiSI CCGG 1 cut(s) 322
BslI CCNNNNNNNGG 1 cut(s) 328
Bsp143I GATC 3 cut(s) 42, 200, 318
BspACI CCGC 1 cut(s) 113
BspCNI CTCAG 2 cut(s) 187, 308
BspLI GGNNCC 1 cut(s) 44
BspPI GGATC 4 cut(s) 37, 50, 208, 313
BssMI GATC 3 cut(s) 42, 200, 318
Bst4CI ACNGT 2 cut(s) 207, 337
BstC8I GCNNGC 1 cut(s) 243
BstDEI CTNAG 3 cut(s) 195, 260, 295
BstF5I GGATG 1 cut(s) 132
BstKTI GATC 3 cut(s) 45, 203, 321
BstMBI GATC 3 cut(s) 42, 200, 318
BstNSI RCATGY 3 cut(s) 83, 310, 354
BstX2I RGATCY 1 cut(s) 42
BstYI RGATCY 1 cut(s) 42
BtsCI GGATG 1 cut(s) 132
Cac8I GCNNGC 1 cut(s) 243
CseI GACGC 1 cut(s) 19
Csp6I GTAC 1 cut(s) 165
CviAII CATG 3 cut(s) 80, 307, 351
CviJI RGCY 4 cut(s) 116, 144, 271, 386
CviKI_1 RGCY 4 cut(s) 116, 144, 271, 386
CviQI GTAC 1 cut(s) 165
DdeI CTNAG 3 cut(s) 195, 260, 295
DpnI GATC 3 cut(s) 44, 202, 320
DpnII GATC 3 cut(s) 42, 200, 318
FaeI CATG 3 cut(s) 83, 310, 354
FaiI YATR 8 cut(s) 81, 308, 317, 329, 352, 360, 380, 389
FalI AAGNNNNNCTT 2 cut(s) 42, 74
FatI CATG 3 cut(s) 79, 306, 350
Fnu4HI GCNGC 1 cut(s) 114
FokI GGATG 1 cut(s) 139
Fsp4HI GCNGC 1 cut(s) 114
GluI GCNGC 1 cut(s) 114
GsuI CTGGAG 1 cut(s) 116
HapII CCGG 1 cut(s) 322
HgaI GACGC 1 cut(s) 19
Hin1II CATG 3 cut(s) 83, 310, 354
HinfI GANTC 2 cut(s) 92, 176
HpaII CCGG 1 cut(s) 322
HphI GGTGA 1 cut(s) 201
Hpy166II GTNNAC 1 cut(s) 167
Hpy188I TCNGA 1 cut(s) 196
Hpy188III TCNNGA 2 cut(s) 133, 297
Hpy8I GTNNAC 1 cut(s) 167
HpyAV CCTTC 1 cut(s) 100
HpyCH4III ACNGT 2 cut(s) 207, 337
HpyCH4V TGCA 2 cut(s) 77, 83
HpyF3I CTNAG 3 cut(s) 195, 260, 295
Hsp92II CATG 3 cut(s) 83, 310, 354
Kzo9I GATC 3 cut(s) 42, 200, 318
LmnI GCTCC 1 cut(s) 135
LpnPI CCDG 8 cut(s) 130, 146, 183, 225, 281, 282, 285, 335
LweI GCATC 2 cut(s) 117, 296
MaeIII GTNAC 5 cut(s) 69, 207, 255, 263, 331
MalI GATC 3 cut(s) 44, 202, 320
MboI GATC 3 cut(s) 42, 200, 318
MboII GAAGA 3 cut(s) 50, 148, 227
MflI RGATCY 1 cut(s) 42
MluCI AATT 4 cut(s) 17, 26, 54, 246
MnlI CCTC 4 cut(s) 60, 117, 190, 226
MseI TTAA 2 cut(s) 249, 366
MslI CAYNNNNRTG 3 cut(s) 84, 157, 392
MspI CCGG 1 cut(s) 322
NdeII GATC 3 cut(s) 42, 200, 318
NlaIII CATG 3 cut(s) 83, 310, 354
NlaIV GGNNCC 1 cut(s) 44
NmuCI GTSAC 1 cut(s) 207
NspI RCATGY 3 cut(s) 83, 310, 354
PciI ACATGT 1 cut(s) 350
PfeI GAWTC 2 cut(s) 92, 176
PkrI GCNGC 1 cut(s) 115
PscI ACATGT 1 cut(s) 350
PshBI ATTAAT 1 cut(s) 249
PspN4I GGNNCC 1 cut(s) 44
PsuI RGATCY 1 cut(s) 42
RsaI GTAC 1 cut(s) 166
RsaNI GTAC 1 cut(s) 165
RseI CAYNNNNRTG 3 cut(s) 84, 157, 392
SaqAI TTAA 2 cut(s) 249, 366
SatI GCNGC 1 cut(s) 114
Sau3AI GATC 3 cut(s) 42, 200, 318
SetI ASST 4 cut(s) 71, 146, 172, 366
SfaNI GCATC 2 cut(s) 117, 296
SmiMI CAYNNNNRTG 3 cut(s) 84, 157, 392
Sse9I AATT 4 cut(s) 17, 26, 54, 246
SsiI CCGC 1 cut(s) 113
TaaI ACNGT 2 cut(s) 207, 337
TaqI TCGA 1 cut(s) 104
TasI AATT 4 cut(s) 17, 26, 54, 246
TauI GCSGC 1 cut(s) 116
TfiI GAWTC 2 cut(s) 92, 176
Tru1I TTAA 2 cut(s) 249, 366
Tru9I TTAA 2 cut(s) 249, 366
TseFI GTSAC 1 cut(s) 207
Tsp45I GTSAC 1 cut(s) 207
TspDTI ATGAA 4 cut(s) 141, 189, 291, 395
VspI ATTAAT 1 cut(s) 249
XceI RCATGY 3 cut(s) 83, 310, 354
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.