Rh5DG248400

Regulator of Vps4 activity in the MVB pathway

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5D
OG0017928
Physical Location & Seq
Forward (+)
28492489 .. 28494440
1952 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5DG248400.1

Sequence Viewer

Length: 990 bp
ATGGTCAAAAGCATAGTTGAGCGACTTCAGTGTCATTTGATCATCCAAAAGAATAGGAGGCCTATCATAAGGCAGGAACGTACCGATATCGGTCAGCTCCTCCAAATTGGGCAGCTAGAACAAGCTCGAGATAGGATACCTTTCGACATTAAACCCAACCGAGACTTGCCTAGTGATGTTGGTGAAGCGATGGCAAGTTTGATTTATGCTGCCTCAAGATGTGGTGAACTGCCAGATCTACCCCGAATACGTTGCCTATTCAAAGAGAGATATGGATCAGAATTTGACAGTACCAGAGCTGAACTGCGGCATGGGAATCTTGTGAATCCTCAGTTGAAAGAGAAGCTAGGCATAACTCGGATTCCAGACGAGGTGAAACAAGAGCTGATAGGAGATATAGTTACCAAGGGCAATATCCGTCTGGCCCTCCAGGATGTCCAAGACACGATACACCAGAAATGTAATTTGGTGAAATGTATGGCCCTGCAGAACTATAGCTTCCCAGACAAAAGTTTCAAGTATGAGCAGAAAGCTGATGGGATTCAAATACAAGTTCCAAAATCGGAGATGGGGAGGAAACCTGATGGGATATTTTGTTCTTTGTCAAAAGGTAAACTTTCGGTGGCCACTGCATTCCCTTCTTATATTGGCTCAGATAATGGTTCAGGTAGCTCAGGCCCTATGACTGATTTAGCCAGAAAAGGCTCAAATGGGAAAAGAGATGGTTCCAAGATGGTGATGAGTCACCATTCTTTCAATACTTCAGTTGATGAAGTCAAAATGCCAAACGGAAGCTCTCCTTACTCCAGCCATGTCCACCCCAAGCTTCCGGAATATGATGATGTGATGGCCAAACTTCGCCATCTCAAGGCAGAACATAGTAGGCCTAAGACCTTTGCATTTTCTGACATTTTCGAGGAGGATGTAGCAATGGGATATCTCAAATACGTTAGGTCAAAAGTGAAGTTTAGGTTGGAGTCGGGTGAATGA
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

329

Amino Acids

37.07

Weight (kDa)

9.14

Isoelectric Point (pI)

38.59

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Ist1 PF03398 50 - 139 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
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Publication-ready
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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)
AasI GACNNNNNNGTC 1 cut(s) 30
AccIII TCCGGA 1 cut(s) 829
AciI CCGC 1 cut(s) 307
AclWI GGATC 1 cut(s) 283
AcoI YGGCCR 2 cut(s) 624, 849
AcsI RAATTY 1 cut(s) 281
AcuI CTGAAG 2 cut(s) 11, 747
AfaI GTAC 2 cut(s) 82, 292
AfiI CCNNNNNNNGG 1 cut(s) 868
AgsI TTSAA 5 cut(s) 262, 337, 517, 545, 757
AjnI CCWGG 1 cut(s) 429
AjuI GAANNNNNNNTTGG 4 cut(s) 449, 481, 956, 988
AloI GAACNNNNNNTCC 2 cut(s) 580, 612
Alw26I GTCTC 1 cut(s) 156
AlwI GGATC 1 cut(s) 283
Ama87I CYCGRG 1 cut(s) 126
Aor13HI TCCGGA 1 cut(s) 829
AoxI GGCC 7 cut(s) 59, 423, 480, 624, 676, 849, 884
ApeKI GCWGC 2 cut(s) 112, 209
ApoI RAATTY 1 cut(s) 281
AspS9I GGNCC 3 cut(s) 424, 481, 677
AsuHPI GGTGA 6 cut(s) 194, 236, 385, 481, 737, 748
AvaI CYCGRG 1 cut(s) 126
BalI TGGCCA 2 cut(s) 626, 851
BbvI GCAGC 2 cut(s) 124, 196
BccI CCATC 8 cut(s) 184, 530, 562, 578, 716, 727, 841, 870
BcgI CGANNNNNNTGC 2 cut(s) 234, 268
BciT130I CCWGG 1 cut(s) 431
BciVI GTATCC 1 cut(s) 129
BclI TGATCA 1 cut(s) 39
BcoDI GTCTC 1 cut(s) 156
BfaI CTAG 3 cut(s) 116, 171, 347
BfmI CTRYAG 2 cut(s) 485, 493
BfuI GTATCC 1 cut(s) 129
BglII AGATCT 1 cut(s) 235
BisI GCNGC 3 cut(s) 113, 210, 308
BlsI GCNGC 3 cut(s) 114, 211, 309
Bme1390I CCNGG 1 cut(s) 431
BmeT110I CYCGRG 1 cut(s) 126
BmgT120I GGNCC 3 cut(s) 424, 481, 677
BmiI GGNNCC 1 cut(s) 727
BmrFI CCNGG 1 cut(s) 431
BpmI CTGGAG 2 cut(s) 413, 790
Bpu10I CCTNAGC 1 cut(s) 673
BpuEI CTTGAG 2 cut(s) 199, 851
BsaBI GATNNNNATC 1 cut(s) 274
BsaJI CCNNGG 1 cut(s) 405
BsaWI WCCGGW 1 cut(s) 829
BsaXI ACNNNNNCTCC 2 cut(s) 384, 414
Bsc4I CCNNNNNNNGG 1 cut(s) 868
Bse3DI GCAATG 1 cut(s) 936
Bse8I GATNNNNATC 1 cut(s) 274
BseAI TCCGGA 1 cut(s) 829
BseBI CCWGG 1 cut(s) 431
BseDI CCNNGG 1 cut(s) 405
BseGI GGATG 3 cut(s) 42, 439, 928
BseJI GATNNNNATC 1 cut(s) 274
BseLI CCNNNNNNNGG 1 cut(s) 868
BseMI GCAATG 1 cut(s) 936
BseMII CTCAG 3 cut(s) 344, 666, 687
BseRI GAGGAG 2 cut(s) 89, 932
BseXI GCAGC 2 cut(s) 124, 196
BshFI GGCC 7 cut(s) 61, 425, 482, 626, 678, 851, 886
BsiHKCI CYCGRG 1 cut(s) 126
BsiSI CCGG 1 cut(s) 830
BslI CCNNNNNNNGG 1 cut(s) 868
BsmAI GTCTC 1 cut(s) 156
BsmI GAATGC 1 cut(s) 632
BsnI GGCC 7 cut(s) 61, 425, 482, 626, 678, 851, 886
BsoBI CYCGRG 1 cut(s) 126
Bsp13I TCCGGA 1 cut(s) 829
Bsp143I GATC 3 cut(s) 39, 235, 275
BspACI CCGC 1 cut(s) 307
BspANI GGCC 7 cut(s) 61, 425, 482, 626, 678, 851, 886
BspCNI CTCAG 3 cut(s) 343, 665, 686
BspEI TCCGGA 1 cut(s) 829
BspLI GGNNCC 1 cut(s) 727
BspMAI CTGCAG 1 cut(s) 489
BspPI GGATC 1 cut(s) 283
BsrDI GCAATG 1 cut(s) 936
BssECI CCNNGG 1 cut(s) 405
BssMI GATC 3 cut(s) 39, 235, 275
BssT1I CCWWGG 1 cut(s) 405
Bst2UI CCWGG 1 cut(s) 431
Bst4CI ACNGT 1 cut(s) 290
BstDEI CTNAG 4 cut(s) 330, 652, 673, 888
BstF5I GGATG 3 cut(s) 42, 439, 928
BstKTI GATC 3 cut(s) 42, 238, 278
BstMAI GTCTC 1 cut(s) 156
BstMBI GATC 3 cut(s) 39, 235, 275
BstNI CCWGG 1 cut(s) 431
BstSCI CCNGG 1 cut(s) 429
BstSFI CTRYAG 2 cut(s) 485, 493
BstV1I GCAGC 2 cut(s) 124, 196
BstX2I RGATCY 1 cut(s) 235
BstYI RGATCY 1 cut(s) 235
BsuI GTATCC 1 cut(s) 129
BsuRI GGCC 7 cut(s) 61, 425, 482, 626, 678, 851, 886
BtgZI GCGATG 1 cut(s) 203
BtsCI GGATG 3 cut(s) 42, 439, 928
BtsI GCAGTG 1 cut(s) 627
BtsIMutI CAGTG 2 cut(s) 35, 627
Cfr13I GGNCC 3 cut(s) 424, 481, 677
Csp6I GTAC 2 cut(s) 81, 291
CviAII CATG 2 cut(s) 311, 812
CviQI GTAC 2 cut(s) 81, 291
DdeI CTNAG 4 cut(s) 330, 652, 673, 888
DpnI GATC 3 cut(s) 41, 237, 277
DpnII GATC 3 cut(s) 39, 235, 275
DrdI GACNNNNNNGTC 1 cut(s) 30
DseDI GACNNNNNNGTC 1 cut(s) 30
EaeI YGGCCR 2 cut(s) 624, 849
Eco130I CCWWGG 1 cut(s) 405
Eco147I AGGCCT 2 cut(s) 61, 886
Eco32I GATATC 2 cut(s) 88, 938
Eco57I CTGAAG 2 cut(s) 11, 747
Eco88I CYCGRG 1 cut(s) 126
EcoO109I RGGNCCY 1 cut(s) 677
EcoRII CCWGG 1 cut(s) 429
EcoRV GATATC 2 cut(s) 88, 938
EcoT14I CCWWGG 1 cut(s) 405
ErhI CCWWGG 1 cut(s) 405
FaeI CATG 2 cut(s) 314, 815
FalI AAGNNNNNCTT 4 cut(s) 600, 632, 784, 816
FatI CATG 2 cut(s) 310, 811
FbaI TGATCA 1 cut(s) 39
Fnu4HI GCNGC 3 cut(s) 113, 210, 308
FokI GGATG 3 cut(s) 29, 446, 935
Fsp4HI GCNGC 3 cut(s) 113, 210, 308
FspBI CTAG 3 cut(s) 116, 171, 347
GluI GCNGC 3 cut(s) 113, 210, 308
GsuI CTGGAG 2 cut(s) 413, 790
HaeIII GGCC 7 cut(s) 61, 425, 482, 626, 678, 851, 886
HapII CCGG 1 cut(s) 830
Hin1II CATG 2 cut(s) 314, 815
HindIII AAGCTT 1 cut(s) 824
HinfI GANTC 6 cut(s) 316, 325, 361, 541, 742, 977
HpaII CCGG 1 cut(s) 830
HphI GGTGA 6 cut(s) 194, 236, 385, 481, 737, 748
Hpy166II GTNNAC 3 cut(s) 227, 614, 817
Hpy188I TCNGA 5 cut(s) 280, 360, 565, 655, 907
Hpy188III TCNNGA 4 cut(s) 128, 216, 365, 830
Hpy8I GTNNAC 3 cut(s) 227, 614, 817
HpyAV CCTTC 1 cut(s) 648
HpyCH4III ACNGT 1 cut(s) 290
HpyCH4IV ACGT 3 cut(s) 79, 250, 948
HpyCH4V TGCA 3 cut(s) 487, 632, 899
HpyF3I CTNAG 4 cut(s) 330, 652, 673, 888
HpySE526I ACGT 3 cut(s) 79, 250, 948
Hsp92II CATG 2 cut(s) 314, 815
Kpn2I TCCGGA 1 cut(s) 829
Ksp22I TGATCA 1 cut(s) 39
Kzo9I GATC 3 cut(s) 39, 235, 275
LmnI GCTCC 1 cut(s) 102
Lsp1109I GCAGC 2 cut(s) 124, 196
MaeI CTAG 3 cut(s) 116, 171, 347
MaeII ACGT 3 cut(s) 79, 250, 948
MaeIII GTNAC 2 cut(s) 400, 743
MalI GATC 3 cut(s) 41, 237, 277
MboI GATC 3 cut(s) 39, 235, 275
MflI RGATCY 1 cut(s) 235
MlsI TGGCCA 2 cut(s) 626, 851
MluCI AATT 3 cut(s) 105, 281, 463
MluNI TGGCCA 2 cut(s) 626, 851
MlyI GAGTC 2 cut(s) 751, 986
MmeI TCCRAC 1 cut(s) 954
MnlI CCTC 9 cut(s) 51, 110, 223, 339, 364, 437, 567, 910, 913
Mox20I TGGCCA 2 cut(s) 626, 851
MroI TCCGGA 1 cut(s) 829
MscI TGGCCA 2 cut(s) 626, 851
MseI TTAA 1 cut(s) 150
Msp20I TGGCCA 2 cut(s) 626, 851
MspI CCGG 1 cut(s) 830
MspR9I CCNGG 1 cut(s) 431
Mva1269I GAATGC 1 cut(s) 632
MvaI CCWGG 1 cut(s) 431
NdeII GATC 3 cut(s) 39, 235, 275
NlaIII CATG 2 cut(s) 314, 815
NlaIV GGNNCC 1 cut(s) 727
NmuCI GTSAC 1 cut(s) 743
PaeR7I CTCGAG 1 cut(s) 126
PceI AGGCCT 2 cut(s) 61, 886
PctI GAATGC 1 cut(s) 632
PfeI GAWTC 4 cut(s) 316, 325, 361, 541
PfoI TCCNGGA 1 cut(s) 429
PkrI GCNGC 3 cut(s) 114, 211, 309
PleI GAGTC 2 cut(s) 750, 985
PpsI GAGTC 2 cut(s) 750, 985
Psp6I CCWGG 1 cut(s) 429
PspGI CCWGG 1 cut(s) 429
PspN4I GGNNCC 1 cut(s) 727
PspPI GGNCC 3 cut(s) 424, 481, 677
PstI CTGCAG 1 cut(s) 489
PsuI RGATCY 1 cut(s) 235
RsaI GTAC 2 cut(s) 82, 292
RsaNI GTAC 2 cut(s) 81, 291
SaqAI TTAA 1 cut(s) 150
SatI GCNGC 3 cut(s) 113, 210, 308
Sau3AI GATC 3 cut(s) 39, 235, 275
Sau96I GGNCC 3 cut(s) 424, 481, 677
SchI GAGTC 2 cut(s) 751, 986
ScrFI CCNGG 1 cut(s) 431
SfcI CTRYAG 2 cut(s) 485, 493
Sfr274I CTCGAG 1 cut(s) 126
SlaI CTCGAG 1 cut(s) 126
SmlI CTYRAG 3 cut(s) 126, 214, 866
SmoI CTYRAG 3 cut(s) 126, 214, 866
Sse9I AATT 3 cut(s) 105, 281, 463
SseBI AGGCCT 2 cut(s) 61, 886
SsiI CCGC 1 cut(s) 307
SspMI CTAG 3 cut(s) 116, 171, 347
StuI AGGCCT 2 cut(s) 61, 886
StyD4I CCNGG 1 cut(s) 429
StyI CCWWGG 1 cut(s) 405
TaaI ACNGT 1 cut(s) 290
TaiI ACGT 3 cut(s) 82, 253, 951
TaqI TCGA 3 cut(s) 127, 144, 915
TaqII GACCGA 1 cut(s) 80
TasI AATT 3 cut(s) 105, 281, 463
TauI GCSGC 1 cut(s) 310
TfiI GAWTC 4 cut(s) 316, 325, 361, 541
Tru1I TTAA 1 cut(s) 150
Tru9I TTAA 1 cut(s) 150
TscAI CASTG 2 cut(s) 35, 634
TseFI GTSAC 1 cut(s) 743
TseI GCWGC 2 cut(s) 112, 209
Tsp45I GTSAC 1 cut(s) 743
TspDTI ATGAA 1 cut(s) 786
TspGWI ACGGA 2 cut(s) 407, 804
TspRI CASTG 2 cut(s) 35, 634
XapI RAATTY 1 cut(s) 281
XhoI CTCGAG 1 cut(s) 126
XspI CTAG 3 cut(s) 116, 171, 347
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.