Rh4DG129400

Regulator of Vps4 activity in the MVB pathway

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr4D
OG0000328
Physical Location & Seq
Reverse (-)
21478406 .. 21483052
4647 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh4DG129400.1

Sequence Viewer

Length: 252 bp
ATGAGCTTTCAGCTAAATAGAACAGAGATGCAGGATATCAATATAGGAAAGCACAATATAAACAATGGTACAGTTGCAAAAAGCAAATCTGATATAAAGAGCATATATGTGAGGCTAGGGGCGATTAAGAAGAAGAGGAATGCTGTGCTGAAGTATCTGAAGAATAATGTTGCTGATCTTCTCAAGATTGGCCTTGATATTAATGTATATGGAACGGAAAGAAGAGAAGTACAGACCAGTGGAGAGGCGTAG
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko04144 map04144
Pfam Domains
Protein Families
Ist1

Protein Analysis

83

Amino Acids

9.33

Weight (kDa)

9.93

Isoelectric Point (pI)

31.08

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
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Publication-ready
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Orthologous Genes (Group: OG0000328)

Species Orthologous Gene IDs
fragaria_vesca FvH4_2g13832 FvH4_3g26701 FvH4_4g14350 FvH4_7g17370
malus_domestica MD12G1077900.v1.1 MD14G1070200.v1.1
prunus_persica Prupe.2G073100_v2.0.a1 Prupe.2G186800_v2.0.a1 Prupe.2G186800_v2.0.a1 Prupe.2G186800_v2.0.a1
rosa_chinensis RchiOBHm_Chr1g0365191 RchiOBHm_Chr2g0105141 RchiOBHm_Chr2g0120431 RchiOBHm_Chr2g0139381 RchiOBHm_Chr3g0494421 RchiOBHm_Chr6g0248181 RchiOBHm_Chr7g0235571
rosa_laevigata RLG00000005158 RLG00000008937 RLG00000013742 RLG00000015899 RLG00000019885 RLG00000024515 RLG00000024516 RLG00000028740 RLG00000030656 RLG00000030662 RLG00000032758 RLG00000035668 RLG00000036717 RLG00000036718
rosa_multiflora Rmu_sc0000252.1_g000016 Rmu_sc0001386.1_g000020 Rmu_sc0002271.1_g000010 Rmu_sc0003833.1_g000002 Rmu_sc0004718.1_g000004 Rmu_sc0006031.1_g000006 Rmu_sc0006598.1_g000013 Rmu_sc0007472.1_g000023 Rmu_sc0009313.1_g000012
rosa_roxburghii Rroxscaffold_2G00103830 Rroxscaffold_2G00109880 Rroxscaffold_3G00225910 Rroxscaffold_3G00271600 Rroxscaffold_3G00274560 Rroxscaffold_4G00299580 Rroxscaffold_5G00352530 Rroxscaffold_5G00379280 Rroxscaffold_7G00177320
rosa_rugosa Rorug01G0027200 Rorug01G0032100 Rorug02G0050600 Rorug02G0054800 Rorug04G0083300 Rorug05G0115200 Rorug07G0006800
rosa_samantha Rh1CG086700 Rh1DG093300 Rh1DG217000 Rh2AG120200 Rh2AG227900 Rh2AG254000 Rh2AG434200 Rh2AG469200 Rh2BG159500 Rh2CG419900 Rh2CG455200 Rh2DG320100 Rh2DG603500 Rh3CG319900 Rh3DG300800 Rh3DG319200 Rh4AG199400 Rh4BG329100 Rh4BG329200 Rh4CG110800 Rh4DG042000 Rh4DG129400 Rh4DG187700 Rh4DG231900 Rh5AG038800 Rh5AG107300 Rh5AG303600 Rh5AG386500 Rh5AG454200 Rh5CG041800 Rh5CG534800 Rh5DG076400 Rh5DG109800 Rh5DG123600 Rh6AG164400 Rh6BG035100 Rh6BG036000 Rh6BG041000 Rh6BG215500 Rh6CG173900 Rh6CG174000 Rh6DG020300 Rh6DG166300 Rh6DG320000 Rh6DG509700 Rh7AG059500 Rh7AG291700 Rh7BG404300 Rh7DG402000
rosa_wichuraiana Rw1G000890 Rw1G020020 Rw3G005730 Rw4G011330 Rw4G026960 Rw5G014010 Rw6G002230 Rw7G038480

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AcuI CTGAAG 2 cut(s) 170, 179
AfaI GTAC 2 cut(s) 70, 231
AluBI AGCT 2 cut(s) 6, 13
AluI AGCT 2 cut(s) 6, 13
AoxI GGCC 1 cut(s) 190
AseI ATTAAT 1 cut(s) 201
BfaI CTAG 1 cut(s) 116
BmsI GCATC 1 cut(s) 18
BpuEI CTTGAG 1 cut(s) 167
Bse1I ACTGG 1 cut(s) 237
BseNI ACTGG 1 cut(s) 237
BshFI GGCC 1 cut(s) 192
BsmI GAATGC 1 cut(s) 145
BsnI GGCC 1 cut(s) 192
Bsp143I GATC 1 cut(s) 175
BspANI GGCC 1 cut(s) 192
BsrI ACTGG 1 cut(s) 237
BssMI GATC 1 cut(s) 175
Bst4CI ACNGT 1 cut(s) 73
Bst6I CTCTTC 2 cut(s) 128, 217
BstKTI GATC 1 cut(s) 178
BstMBI GATC 1 cut(s) 175
BsuRI GGCC 1 cut(s) 192
BtsIMutI CAGTG 1 cut(s) 244
Csp6I GTAC 2 cut(s) 69, 230
CviJI RGCY 4 cut(s) 6, 13, 115, 192
CviKI_1 RGCY 4 cut(s) 6, 13, 115, 192
CviQI GTAC 2 cut(s) 69, 230
DpnI GATC 1 cut(s) 177
DpnII GATC 1 cut(s) 175
Eam1104I CTCTTC 2 cut(s) 128, 217
EarI CTCTTC 2 cut(s) 128, 217
Eco32I GATATC 1 cut(s) 37
Eco57I CTGAAG 2 cut(s) 170, 179
EcoRV GATATC 1 cut(s) 37
FaiI YATR 8 cut(s) 44, 59, 95, 104, 106, 108, 208, 210
FspBI CTAG 1 cut(s) 116
HaeIII GGCC 1 cut(s) 192
Hpy188I TCNGA 2 cut(s) 91, 159
Hpy188III TCNNGA 1 cut(s) 184
HpyCH4III ACNGT 1 cut(s) 73
HpyCH4V TGCA 2 cut(s) 31, 77
Kzo9I GATC 1 cut(s) 175
LpnPI CCDG 1 cut(s) 17
LweI GCATC 1 cut(s) 18
MaeI CTAG 1 cut(s) 116
MalI GATC 1 cut(s) 177
MboI GATC 1 cut(s) 175
MboII GAAGA 5 cut(s) 142, 145, 170, 172, 234
MnlI CCTC 3 cut(s) 105, 129, 238
MseI TTAA 2 cut(s) 126, 201
MslI CAYNNNNRTG 1 cut(s) 107
Mva1269I GAATGC 1 cut(s) 145
NdeII GATC 1 cut(s) 175
PctI GAATGC 1 cut(s) 145
PshBI ATTAAT 1 cut(s) 201
RsaI GTAC 2 cut(s) 70, 231
RsaNI GTAC 2 cut(s) 69, 230
RseI CAYNNNNRTG 1 cut(s) 107
SaqAI TTAA 2 cut(s) 126, 201
Sau3AI GATC 1 cut(s) 175
SetI ASST 2 cut(s) 8, 15
SfaNI GCATC 1 cut(s) 18
SgeI CNNG 4 cut(s) 44, 128, 196, 206
SmiMI CAYNNNNRTG 1 cut(s) 107
SmlI CTYRAG 1 cut(s) 182
SmoI CTYRAG 1 cut(s) 182
SspMI CTAG 1 cut(s) 116
TaaI ACNGT 1 cut(s) 73
TatI WGTACW 1 cut(s) 229
Tru1I TTAA 2 cut(s) 126, 201
Tru9I TTAA 2 cut(s) 126, 201
TscAI CASTG 1 cut(s) 244
TspGWI ACGGA 1 cut(s) 230
TspRI CASTG 1 cut(s) 244
VspI ATTAAT 1 cut(s) 201
XspI CTAG 1 cut(s) 116
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.