Rh5CG270600

Regulator of Vps4 activity in the MVB pathway

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5C
OG0017928
Physical Location & Seq
Forward (+)
29122205 .. 29123244
1040 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5CG270600.1

Sequence Viewer

Length: 852 bp
ATGTTTCAGAGTGTTGCAGCAGACTTATTTTACATTTTCAAATGTTGCAGTGCCTTACAAGACTTGCCTAGTGATGTTGGTGAAGCGATGGCAAGTTTGATTTATGCTGCCTCAAGATGTGGTGAACTGCCAGATCTACCCCGAATACGTTGCCTGTTCAAAGAGAGATATGGATCAGAATTTGACATTACCAGCGCTGAACTGCGGCATGGGAATCTTGTGAATCCTCAGTTGAAAGAGAAGCTAGGCATAACTCGGATTCCAGACGAGGTGAAACAAGAGCTGATAGGAGATATAGTTACCAAGGGCAATATCCGTCTGGCCCTCCAGGATGTCCAAGACACGATACACCAGAACTATAGCTTCCCAGACAATTTCAAGTATGAGCAGAAAGCTGATGGGATTCAAATACAAGTTCCAAAATCGGAGATGGGGAGGAAACCTGTTGGGATATTTTGTTCTTTGTCAAAAGGTAAACTTTCGGTGGCCACTGCATTCCCTTCTTATATTGGCTCAAATAATGGTTCAGGTAGCTCAGGCCCTATGACTGATTTAGCCAGAAAAGGCTCAAATGGGAAAAGAGATGGTTCCAAGATGGTGATGAGTCACCATTCTTTCAATACTTCAGTTGATGAAGTCAAAATGCCAAACGGAAGCTCTCCTTACTCCAGCCATGTCCACCCCAAGTTTCCGGAATATGATGATGTGGTGGCCAAACTTCGCCGTCTCAAGGCAGAACATAGTAGGCGTAAGACCTTTGCATTTTCTGACATTTTCGAGGAGGATGTAGCAATGGGATATCTCAAATACGTTAGGTCAAAAGTGAAGTTTAGGTTGGAGTCGGGTGAATGA
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

283

Amino Acids

31.56

Weight (kDa)

8.66

Isoelectric Point (pI)

38.87

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Ist1 PF03398 19 - 105 3.2e-17 Regulator of Vps4 activity in the MVB pathway
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: OG0017928)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G15490
fragaria_vesca FvH4_3g20621
malus_domestica MD03G1223500.v1.1
prunus_persica Prupe.4G186000_v2.0.a1 Prupe.4G186000_v2.0.a1
rosa_laevigata RLG00000033564
rosa_multiflora Rmu_sc0002460.1_g000083
rosa_roxburghii Rroxscaffold_1G00045670
rosa_samantha Rh5BG240200 Rh5CG270600 Rh5DG248400

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccIII TCCGGA 1 cut(s) 691
AciI CCGC 1 cut(s) 205
AclWI GGATC 1 cut(s) 181
AcoI YGGCCR 2 cut(s) 486, 711
AcsI RAATTY 1 cut(s) 179
AcuI CTGAAG 1 cut(s) 609
AfeI AGCGCT 1 cut(s) 196
AfiI CCNNNNNNNGG 1 cut(s) 730
AgsI TTSAA 6 cut(s) 40, 160, 235, 379, 407, 619
AjnI CCWGG 1 cut(s) 327
AjuI GAANNNNNNNTTGG 2 cut(s) 818, 850
AloI GAACNNNNNNTCC 2 cut(s) 442, 474
AluBI AGCT 6 cut(s) 244, 283, 363, 395, 534, 657
AluI AGCT 6 cut(s) 244, 283, 363, 395, 534, 657
Alw26I GTCTC 1 cut(s) 731
AlwI GGATC 1 cut(s) 181
Aor13HI TCCGGA 1 cut(s) 691
Aor51HI AGCGCT 1 cut(s) 196
AoxI GGCC 4 cut(s) 321, 486, 538, 711
ApeKI GCWGC 2 cut(s) 17, 107
ApoI RAATTY 1 cut(s) 179
AspLEI GCGC 1 cut(s) 197
AspS9I GGNCC 2 cut(s) 322, 539
AsuHPI GGTGA 5 cut(s) 92, 134, 283, 599, 610
BalI TGGCCA 2 cut(s) 488, 713
BbvI GCAGC 2 cut(s) 29, 94
BccI CCATC 5 cut(s) 82, 392, 424, 578, 589
BceAI ACGGC 1 cut(s) 708
BcgI CGANNNNNNTGC 2 cut(s) 132, 166
BciT130I CCWGG 1 cut(s) 329
BcoDI GTCTC 1 cut(s) 731
BfaI CTAG 2 cut(s) 69, 245
BfmI CTRYAG 1 cut(s) 358
BfoI RGCGCY 1 cut(s) 198
BglII AGATCT 1 cut(s) 133
BisI GCNGC 3 cut(s) 18, 108, 206
BlsI GCNGC 3 cut(s) 19, 109, 207
Bme1390I CCNGG 1 cut(s) 329
BmgT120I GGNCC 2 cut(s) 322, 539
BmiI GGNNCC 1 cut(s) 589
BmrFI CCNGG 1 cut(s) 329
BpmI CTGGAG 2 cut(s) 311, 652
Bpu10I CCTNAGC 1 cut(s) 535
BpuEI CTTGAG 2 cut(s) 97, 713
BsaBI GATNNNNATC 1 cut(s) 172
BsaJI CCNNGG 1 cut(s) 303
BsaWI WCCGGW 1 cut(s) 691
BsaXI ACNNNNNCTCC 2 cut(s) 282, 312
Bsc4I CCNNNNNNNGG 1 cut(s) 730
Bse3DI GCAATG 1 cut(s) 798
Bse8I GATNNNNATC 1 cut(s) 172
BseAI TCCGGA 1 cut(s) 691
BseBI CCWGG 1 cut(s) 329
BseDI CCNNGG 1 cut(s) 303
BseGI GGATG 2 cut(s) 337, 790
BseJI GATNNNNATC 1 cut(s) 172
BseLI CCNNNNNNNGG 1 cut(s) 730
BseMI GCAATG 1 cut(s) 798
BseMII CTCAG 2 cut(s) 242, 549
BseRI GAGGAG 1 cut(s) 794
BseXI GCAGC 2 cut(s) 29, 94
BshFI GGCC 4 cut(s) 323, 488, 540, 713
BsiSI CCGG 1 cut(s) 692
BslI CCNNNNNNNGG 1 cut(s) 730
BsmAI GTCTC 1 cut(s) 731
BsmBI CGTCTC 1 cut(s) 731
BsmI GAATGC 1 cut(s) 494
BsnI GGCC 4 cut(s) 323, 488, 540, 713
Bsp13I TCCGGA 1 cut(s) 691
Bsp143I GATC 2 cut(s) 133, 173
BspACI CCGC 1 cut(s) 205
BspANI GGCC 4 cut(s) 323, 488, 540, 713
BspCNI CTCAG 2 cut(s) 241, 548
BspEI TCCGGA 1 cut(s) 691
BspLI GGNNCC 1 cut(s) 589
BspPI GGATC 1 cut(s) 181
BsrDI GCAATG 1 cut(s) 798
BssECI CCNNGG 1 cut(s) 303
BssMI GATC 2 cut(s) 133, 173
BssT1I CCWWGG 1 cut(s) 303
Bst2UI CCWGG 1 cut(s) 329
BstDEI CTNAG 2 cut(s) 228, 535
BstF5I GGATG 2 cut(s) 337, 790
BstH2I RGCGCY 1 cut(s) 198
BstHHI GCGC 1 cut(s) 197
BstKTI GATC 2 cut(s) 136, 176
BstMAI GTCTC 1 cut(s) 731
BstMBI GATC 2 cut(s) 133, 173
BstNI CCWGG 1 cut(s) 329
BstSCI CCNGG 1 cut(s) 327
BstSFI CTRYAG 1 cut(s) 358
BstV1I GCAGC 2 cut(s) 29, 94
BstX2I RGATCY 1 cut(s) 133
BstYI RGATCY 1 cut(s) 133
BsuRI GGCC 4 cut(s) 323, 488, 540, 713
BtgZI GCGATG 1 cut(s) 101
BtsCI GGATG 2 cut(s) 337, 790
BtsI GCAGTG 2 cut(s) 55, 489
BtsIMutI CAGTG 2 cut(s) 55, 489
CfoI GCGC 1 cut(s) 197
Cfr13I GGNCC 2 cut(s) 322, 539
CviAII CATG 2 cut(s) 209, 674
DdeI CTNAG 2 cut(s) 228, 535
DpnI GATC 2 cut(s) 135, 175
DpnII GATC 2 cut(s) 133, 173
EaeI YGGCCR 2 cut(s) 486, 711
Eco130I CCWWGG 1 cut(s) 303
Eco32I GATATC 1 cut(s) 800
Eco47III AGCGCT 1 cut(s) 196
Eco57I CTGAAG 1 cut(s) 609
EcoO109I RGGNCCY 1 cut(s) 539
EcoRII CCWGG 1 cut(s) 327
EcoRV GATATC 1 cut(s) 800
EcoT14I CCWWGG 1 cut(s) 303
ErhI CCWWGG 1 cut(s) 303
Esp3I CGTCTC 1 cut(s) 731
FaeI CATG 2 cut(s) 212, 677
FalI AAGNNNNNCTT 4 cut(s) 462, 494, 646, 678
FatI CATG 2 cut(s) 208, 673
Fnu4HI GCNGC 3 cut(s) 18, 108, 206
FokI GGATG 2 cut(s) 344, 797
Fsp4HI GCNGC 3 cut(s) 18, 108, 206
FspBI CTAG 2 cut(s) 69, 245
GlaI GCGC 1 cut(s) 196
GluI GCNGC 3 cut(s) 18, 108, 206
GsuI CTGGAG 2 cut(s) 311, 652
HaeII RGCGCY 1 cut(s) 198
HaeIII GGCC 4 cut(s) 323, 488, 540, 713
HapII CCGG 1 cut(s) 692
HhaI GCGC 1 cut(s) 197
Hin1II CATG 2 cut(s) 212, 677
Hin6I GCGC 1 cut(s) 195
HinP1I GCGC 1 cut(s) 195
HinfI GANTC 6 cut(s) 214, 223, 259, 403, 604, 839
HpaII CCGG 1 cut(s) 692
HphI GGTGA 5 cut(s) 92, 134, 283, 599, 610
Hpy166II GTNNAC 3 cut(s) 125, 476, 679
Hpy188I TCNGA 5 cut(s) 9, 178, 258, 427, 769
Hpy188III TCNNGA 3 cut(s) 114, 263, 692
Hpy8I GTNNAC 3 cut(s) 125, 476, 679
HpyAV CCTTC 1 cut(s) 510
HpyCH4IV ACGT 2 cut(s) 148, 810
HpyCH4V TGCA 4 cut(s) 17, 48, 494, 761
HpyF3I CTNAG 2 cut(s) 228, 535
HpySE526I ACGT 2 cut(s) 148, 810
Hsp92II CATG 2 cut(s) 212, 677
HspAI GCGC 1 cut(s) 195
Kpn2I TCCGGA 1 cut(s) 691
Kzo9I GATC 2 cut(s) 133, 173
Lsp1109I GCAGC 2 cut(s) 29, 94
MaeI CTAG 2 cut(s) 69, 245
MaeII ACGT 2 cut(s) 148, 810
MaeIII GTNAC 2 cut(s) 298, 605
MalI GATC 2 cut(s) 135, 175
MboI GATC 2 cut(s) 133, 173
MflI RGATCY 1 cut(s) 133
MlsI TGGCCA 2 cut(s) 488, 713
MluCI AATT 2 cut(s) 179, 373
MluNI TGGCCA 2 cut(s) 488, 713
MlyI GAGTC 2 cut(s) 613, 848
MmeI TCCRAC 1 cut(s) 816
MnlI CCTC 7 cut(s) 121, 237, 262, 335, 429, 772, 775
Mox20I TGGCCA 2 cut(s) 488, 713
MroI TCCGGA 1 cut(s) 691
MscI TGGCCA 2 cut(s) 488, 713
Msp20I TGGCCA 2 cut(s) 488, 713
MspI CCGG 1 cut(s) 692
MspR9I CCNGG 1 cut(s) 329
Mva1269I GAATGC 1 cut(s) 494
MvaI CCWGG 1 cut(s) 329
NdeII GATC 2 cut(s) 133, 173
NlaIII CATG 2 cut(s) 212, 677
NlaIV GGNNCC 1 cut(s) 589
NmuCI GTSAC 1 cut(s) 605
PctI GAATGC 1 cut(s) 494
PfeI GAWTC 4 cut(s) 214, 223, 259, 403
PfoI TCCNGGA 1 cut(s) 327
PkrI GCNGC 3 cut(s) 19, 109, 207
PleI GAGTC 2 cut(s) 612, 847
PpsI GAGTC 2 cut(s) 612, 847
Psp6I CCWGG 1 cut(s) 327
PspGI CCWGG 1 cut(s) 327
PspN4I GGNNCC 1 cut(s) 589
PspPI GGNCC 2 cut(s) 322, 539
PsuI RGATCY 1 cut(s) 133
SatI GCNGC 3 cut(s) 18, 108, 206
Sau3AI GATC 2 cut(s) 133, 173
Sau96I GGNCC 2 cut(s) 322, 539
SchI GAGTC 2 cut(s) 613, 848
ScrFI CCNGG 1 cut(s) 329
SfcI CTRYAG 1 cut(s) 358
SmlI CTYRAG 2 cut(s) 112, 728
SmoI CTYRAG 2 cut(s) 112, 728
Sse9I AATT 2 cut(s) 179, 373
SsiI CCGC 1 cut(s) 205
SspMI CTAG 2 cut(s) 69, 245
StyD4I CCNGG 1 cut(s) 327
StyI CCWWGG 1 cut(s) 303
TaiI ACGT 2 cut(s) 151, 813
TaqI TCGA 1 cut(s) 777
TasI AATT 2 cut(s) 179, 373
TauI GCSGC 1 cut(s) 208
TfiI GAWTC 4 cut(s) 214, 223, 259, 403
TscAI CASTG 2 cut(s) 55, 496
TseFI GTSAC 1 cut(s) 605
TseI GCWGC 2 cut(s) 17, 107
Tsp45I GTSAC 1 cut(s) 605
TspDTI ATGAA 1 cut(s) 648
TspGWI ACGGA 2 cut(s) 305, 666
TspRI CASTG 2 cut(s) 55, 496
XapI RAATTY 1 cut(s) 179
XspI CTAG 2 cut(s) 69, 245
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.