Rorug06G0071300

Regulator of Vps4 activity in the MVB pathway

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000006
OG0009241
Physical Location & Seq
Forward (+)
9485476 .. 9486117
642 bp
Loading structure...
UTR
Exon/CDS
Intron
Rorug06G0071300.1

Sequence Viewer

Length: 642 bp
ATGGAACCACAAACCCGGCAACCAACCGAGGATAGAGGAAGCAACAAAGCAGCCAGGTGTAGTGCTAACATGTTTTGCGGGCGGAGCGGTACCAGGTGGACTCCTACTACAGATCAGATAAGAATCCTCAAGGAGCTTTACTACAACAAGGGAGTTAGGAACCCAACCGTAGAGCAGATTCAGAGGATCTGCCTCCAGCTGAAACGGTACGGAAAGATCGAGGGCAAGAACGTCTTTTATTGGTTCCAGAACCTTAAGGCTCGGGAGAAAATGCGAGAGAAGAGGTTCACTTCGGATGTTCATATGCCCACGCAAAGATCAGGGCTTGTTGGTAATGGTCATGGTACTAATTGGAAACCTGAGGATCAATATATCAACTTCGGATCTTCTACATCTGCTTCTGCTTCTTCTGCTGGTGTGATGATTGCTGTTAACGGGCAGATGGGGAACTATGGTGGTTATGGATCTATGAACATGGAGATTGAAACCCTTCCTCTGTTCCCCATGCATGGTGAGGACATCTTTGGCAACATGAAGACTACTTCTGATGGAGGTGGCGGTCACGGTGGTGGCTCTCACATTTCCCTTGAGCTCAGCCTTTCCAGCGAGGGCAAAGCTGGAAAAAGTTTCCGGAGCCGCTGA
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

213

Amino Acids

23.59

Weight (kDa)

9.59

Isoelectric Point (pI)

45.38

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Homeodomain PF00046 31 - 90 6.6e-11 Homeodomain
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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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc65I GGTACC 1 cut(s) 89
AccB1I GGYRCC 1 cut(s) 89
AccBSI CCGCTC 1 cut(s) 87
AccIII TCCGGA 1 cut(s) 630
AciI CCGC 5 cut(s) 78, 82, 87, 558, 637
AclWI GGATC 4 cut(s) 194, 372, 391, 472
AfaI GTAC 3 cut(s) 91, 209, 346
AfiI CCNNNNNNNGG 1 cut(s) 509
AflII CTTAAG 1 cut(s) 254
AflIII ACRYGT 1 cut(s) 69
AgsI TTSAA 1 cut(s) 485
AjnI CCWGG 2 cut(s) 53, 92
AleI CACNNNNGTG 1 cut(s) 567
AluBI AGCT 4 cut(s) 136, 199, 592, 617
AluI AGCT 4 cut(s) 136, 199, 592, 617
Alw21I GWGCWC 1 cut(s) 594
AlwI GGATC 4 cut(s) 194, 372, 391, 472
Ama87I CYCGRG 1 cut(s) 261
Aor13HI TCCGGA 1 cut(s) 630
ApeKI GCWGC 1 cut(s) 50
Asp700I GAANNNNTTC 2 cut(s) 284, 489
Asp718I GGTACC 1 cut(s) 89
AsuC2I CCSGG 1 cut(s) 16
AsuHPI GGTGA 1 cut(s) 524
AvaI CYCGRG 1 cut(s) 261
AxyI CCTNAGG 1 cut(s) 360
BanI GGYRCC 1 cut(s) 89
BanII GRGCYC 1 cut(s) 594
BbsI GAAGAC 1 cut(s) 542
Bbv12I GWGCWC 1 cut(s) 594
BbvI GCAGC 1 cut(s) 62
BccI CCATC 2 cut(s) 436, 542
BciT130I CCWGG 2 cut(s) 55, 94
BcnI CCSGG 1 cut(s) 16
BfmI CTRYAG 1 cut(s) 108
BfrI CTTAAG 1 cut(s) 254
BisI GCNGC 2 cut(s) 51, 637
BlpI GCTNAGC 1 cut(s) 593
BlsI GCNGC 2 cut(s) 52, 638
Bme1390I CCNGG 3 cut(s) 16, 55, 94
BmeT110I CYCGRG 1 cut(s) 261
BmiI GGNNCC 5 cut(s) 6, 91, 161, 245, 635
BmrFI CCNGG 3 cut(s) 16, 55, 94
BpiI GAAGAC 1 cut(s) 542
BpmI CTGGAG 1 cut(s) 179
Bpu1102I GCTNAGC 1 cut(s) 593
BpuEI CTTGAG 2 cut(s) 113, 608
BpuMI CCSGG 1 cut(s) 16
BsaBI GATNNNNATC 1 cut(s) 122
BsaJI CCNNGG 1 cut(s) 27
BsaWI WCCGGW 1 cut(s) 630
Bsc4I CCNNNNNNNGG 1 cut(s) 509
Bse21I CCTNAGG 1 cut(s) 360
Bse8I GATNNNNATC 1 cut(s) 122
BseAI TCCGGA 1 cut(s) 630
BseBI CCWGG 2 cut(s) 55, 94
BseDI CCNNGG 1 cut(s) 27
BseGI GGATG 1 cut(s) 301
BseJI GATNNNNATC 1 cut(s) 122
BseLI CCNNNNNNNGG 1 cut(s) 509
BseMII CTCAG 2 cut(s) 351, 607
BseXI GCAGC 1 cut(s) 62
BshNI GGYRCC 1 cut(s) 89
BsiHKAI GWGCWC 1 cut(s) 594
BsiHKCI CYCGRG 1 cut(s) 261
BsiSI CCGG 2 cut(s) 16, 631
BslI CCNNNNNNNGG 1 cut(s) 509
BsoBI CYCGRG 1 cut(s) 261
Bsp1286I GDGCHC 1 cut(s) 594
Bsp13I TCCGGA 1 cut(s) 630
Bsp143I GATC 7 cut(s) 112, 186, 216, 317, 364, 383, 464
Bsp1720I GCTNAGC 1 cut(s) 593
BspACI CCGC 5 cut(s) 78, 82, 87, 558, 637
BspCNI CTCAG 2 cut(s) 352, 606
BspEI TCCGGA 1 cut(s) 630
BspLI GGNNCC 5 cut(s) 6, 91, 161, 245, 635
BspPI GGATC 4 cut(s) 194, 372, 391, 472
BspT107I GGYRCC 1 cut(s) 89
BspTI CTTAAG 1 cut(s) 254
BsrBI CCGCTC 1 cut(s) 87
BssECI CCNNGG 1 cut(s) 27
BssMI GATC 7 cut(s) 112, 186, 216, 317, 364, 383, 464
Bst2UI CCWGG 2 cut(s) 55, 94
Bst4CI ACNGT 3 cut(s) 169, 207, 566
Bst6I CTCTTC 1 cut(s) 275
BstAFI CTTAAG 1 cut(s) 254
BstC8I GCNNGC 1 cut(s) 80
BstDEI CTNAG 2 cut(s) 360, 593
BstF5I GGATG 1 cut(s) 301
BstKTI GATC 7 cut(s) 115, 189, 219, 320, 367, 386, 467
BstMBI GATC 7 cut(s) 112, 186, 216, 317, 364, 383, 464
BstMWI GCNNNNNNNGC 3 cut(s) 84, 410, 603
BstNI CCWGG 2 cut(s) 55, 94
BstNSI RCATGY 1 cut(s) 73
BstSCI CCNGG 3 cut(s) 14, 53, 92
BstSFI CTRYAG 1 cut(s) 108
BstV1I GCAGC 1 cut(s) 62
BstV2I GAAGAC 1 cut(s) 542
BstX2I RGATCY 3 cut(s) 186, 383, 464
BstYI RGATCY 3 cut(s) 186, 383, 464
Bsu36I CCTNAGG 1 cut(s) 360
BtsCI GGATG 1 cut(s) 301
Cac8I GCNNGC 1 cut(s) 80
CsiI ACCWGGT 1 cut(s) 92
Csp6I GTAC 3 cut(s) 90, 208, 345
CviAII CATG 6 cut(s) 70, 341, 475, 505, 509, 532
CviQI GTAC 3 cut(s) 90, 208, 345
DdeI CTNAG 2 cut(s) 360, 593
DpnI GATC 7 cut(s) 114, 188, 218, 319, 366, 385, 466
DpnII GATC 7 cut(s) 112, 186, 216, 317, 364, 383, 464
Eam1104I CTCTTC 1 cut(s) 275
EarI CTCTTC 1 cut(s) 275
EciI GGCGGA 1 cut(s) 97
Ecl136II GAGCTC 1 cut(s) 592
Eco24I GRGCYC 1 cut(s) 594
Eco53kI GAGCTC 1 cut(s) 592
Eco81I CCTNAGG 1 cut(s) 360
Eco88I CYCGRG 1 cut(s) 261
EcoICRI GAGCTC 1 cut(s) 592
EcoRII CCWGG 2 cut(s) 53, 92
EcoT22I ATGCAT 1 cut(s) 510
EcoT38I GRGCYC 1 cut(s) 594
FaeI CATG 6 cut(s) 73, 344, 478, 508, 512, 535
FalI AAGNNNNNCTT 2 cut(s) 218, 250
FatI CATG 6 cut(s) 69, 340, 474, 504, 508, 531
FauI CCCGC 1 cut(s) 71
FauNDI CATATG 1 cut(s) 303
Fnu4HI GCNGC 2 cut(s) 51, 637
FokI GGATG 1 cut(s) 308
FriOI GRGCYC 1 cut(s) 594
Fsp4HI GCNGC 2 cut(s) 51, 637
GluI GCNGC 2 cut(s) 51, 637
GsuI CTGGAG 1 cut(s) 179
HapII CCGG 2 cut(s) 16, 631
Hin1II CATG 6 cut(s) 73, 344, 478, 508, 512, 535
HincII GTYRAC 1 cut(s) 433
HindII GTYRAC 1 cut(s) 433
HinfI GANTC 3 cut(s) 100, 123, 178
HpaI GTTAAC 1 cut(s) 433
HpaII CCGG 2 cut(s) 16, 631
HphI GGTGA 1 cut(s) 524
Hpy166II GTNNAC 3 cut(s) 99, 288, 433
Hpy188I TCNGA 5 cut(s) 117, 183, 295, 383, 547
Hpy188III TCNNGA 3 cut(s) 247, 263, 631
Hpy8I GTNNAC 3 cut(s) 99, 288, 433
HpyAV CCTTC 1 cut(s) 500
HpyCH4III ACNGT 3 cut(s) 169, 207, 566
HpyCH4IV ACGT 1 cut(s) 231
HpyCH4V TGCA 1 cut(s) 508
HpyF10VI GCNNNNNNNGC 3 cut(s) 84, 410, 603
HpyF3I CTNAG 2 cut(s) 360, 593
HpySE526I ACGT 1 cut(s) 231
Hsp92II CATG 6 cut(s) 73, 344, 478, 508, 512, 535
Kpn2I TCCGGA 1 cut(s) 630
KpnI GGTACC 1 cut(s) 93
KspAI GTTAAC 1 cut(s) 433
Kzo9I GATC 7 cut(s) 112, 186, 216, 317, 364, 383, 464
LmnI GCTCC 3 cut(s) 84, 133, 633
Lsp1109I GCAGC 1 cut(s) 62
MabI ACCWGGT 1 cut(s) 92
MaeII ACGT 1 cut(s) 231
MaeIII GTNAC 1 cut(s) 560
MalI GATC 7 cut(s) 114, 188, 218, 319, 366, 385, 466
MbiI CCGCTC 1 cut(s) 87
MboI GATC 7 cut(s) 112, 186, 216, 317, 364, 383, 464
MboII GAAGA 4 cut(s) 292, 378, 399, 547
MflI RGATCY 3 cut(s) 186, 383, 464
MhlI GDGCHC 1 cut(s) 594
MluCI AATT 1 cut(s) 349
MlyI GAGTC 1 cut(s) 94
Mph1103I ATGCAT 1 cut(s) 510
MroI TCCGGA 1 cut(s) 630
MroXI GAANNNNTTC 2 cut(s) 284, 489
MseI TTAA 2 cut(s) 255, 432
MslI CAYNNNNRTG 1 cut(s) 567
MspA1I CMGCKG 2 cut(s) 199, 639
MspCI CTTAAG 1 cut(s) 254
MspI CCGG 2 cut(s) 16, 631
MspR9I CCNGG 3 cut(s) 16, 55, 94
MvaI CCWGG 2 cut(s) 55, 94
MwoI GCNNNNNNNGC 3 cut(s) 84, 410, 603
NciI CCSGG 1 cut(s) 16
NdeI CATATG 1 cut(s) 303
NdeII GATC 7 cut(s) 112, 186, 216, 317, 364, 383, 464
NlaIII CATG 6 cut(s) 73, 344, 478, 508, 512, 535
NlaIV GGNNCC 5 cut(s) 6, 91, 161, 245, 635
NmuCI GTSAC 1 cut(s) 560
NsiI ATGCAT 1 cut(s) 510
NspI RCATGY 1 cut(s) 73
OliI CACNNNNGTG 1 cut(s) 567
PciI ACATGT 1 cut(s) 69
PcsI WCGNNNNNNNCGW 1 cut(s) 216
PdmI GAANNNNTTC 2 cut(s) 284, 489
PfeI GAWTC 2 cut(s) 123, 178
PkrI GCNGC 2 cut(s) 52, 638
PleI GAGTC 1 cut(s) 94
PpsI GAGTC 1 cut(s) 94
PscI ACATGT 1 cut(s) 69
Psp124BI GAGCTC 1 cut(s) 594
Psp6I CCWGG 2 cut(s) 53, 92
PspGI CCWGG 2 cut(s) 53, 92
PspN4I GGNNCC 5 cut(s) 6, 91, 161, 245, 635
PsuI RGATCY 3 cut(s) 186, 383, 464
PvuII CAGCTG 1 cut(s) 199
RsaI GTAC 3 cut(s) 91, 209, 346
RsaNI GTAC 3 cut(s) 90, 208, 345
RseI CAYNNNNRTG 1 cut(s) 567
SacI GAGCTC 1 cut(s) 594
SaqAI TTAA 2 cut(s) 255, 432
SatI GCNGC 2 cut(s) 51, 637
Sau3AI GATC 7 cut(s) 112, 186, 216, 317, 364, 383, 464
SchI GAGTC 1 cut(s) 94
ScrFI CCNGG 3 cut(s) 16, 55, 94
SduI GDGCHC 1 cut(s) 594
SexAI ACCWGGT 1 cut(s) 92
SfcI CTRYAG 1 cut(s) 108
SmiMI CAYNNNNRTG 1 cut(s) 567
SmlI CTYRAG 3 cut(s) 128, 254, 587
SmoI CTYRAG 3 cut(s) 128, 254, 587
Sse9I AATT 1 cut(s) 349
SsiI CCGC 5 cut(s) 78, 82, 87, 558, 637
SstI GAGCTC 1 cut(s) 594
StyD4I CCNGG 3 cut(s) 14, 53, 92
TaaI ACNGT 3 cut(s) 169, 207, 566
TaiI ACGT 1 cut(s) 234
TaqI TCGA 1 cut(s) 219
TasI AATT 1 cut(s) 349
TauI GCSGC 1 cut(s) 639
TfiI GAWTC 2 cut(s) 123, 178
Tru1I TTAA 2 cut(s) 255, 432
Tru9I TTAA 2 cut(s) 255, 432
TseFI GTSAC 1 cut(s) 560
TseI GCWGC 1 cut(s) 50
Tsp45I GTSAC 1 cut(s) 560
TspDTI ATGAA 3 cut(s) 290, 485, 548
TspGWI ACGGA 1 cut(s) 225
Vha464I CTTAAG 1 cut(s) 254
XceI RCATGY 1 cut(s) 73
XmnI GAANNNNTTC 2 cut(s) 284, 489
Zsp2I ATGCAT 1 cut(s) 510
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.