Rh6DG320000

Regulator of Vps4 activity in the MVB pathway

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr6D
OG0000328
Physical Location & Seq
Reverse (-)
52358464 .. 52361598
3135 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh6DG320000.1

Sequence Viewer

Length: 555 bp
ATGAGCACCGATCAAGGCTCGGATATTGATCATTGGGTGAAGCAGAAGACAAGTGCTTTAGCTTTGAATACCTTTGAGCAAAAAGAAAATGCTCAGCTTCTTATGCTGTTGATAAGCATGGAATTGGAAAGATCAATTTCTCTGTTGACAGTCGGTGCTTTTTTTTTTACAATCAGCAAATCTGATATAAAGAGCATAAAGGTGAGGCTAGGGGCGATTAAGAAGAAGAGGAACGCTGTGCTGAAGTATTTGAAGAATAATGTTGCTGATCTTCTCAAGATTGGCCTTGATATTAATGTATATGGAAGGGTGGAGCTGGGAGCAGCACAGCAGGTCAAAAAGGCATGCCTGGTTTTATCAAGGTTTGAAGGAATCCCTACAAAGAAGTTAAATGCAATGATCAAAGAACTACACATTTGGAAAATAGGCTCCCCTTTTGTCTGCTCATTGACAAGACTGAGCGTTATTTCACCAAGATCAGAAGGAGAAATAGGTAAACCGGAGCAAACAAAAGATGAAGAAATTAAGAAATTTCAGAGTCAAAAGACCCACTGA
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

184

Amino Acids

20.67

Weight (kDa)

9.7

Isoelectric Point (pI)

33.81

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)
Acc36I ACCTGC 1 cut(s) 322
AcsI RAATTY 1 cut(s) 530
AcuI CTGAAG 1 cut(s) 263
AgsI TTSAA 3 cut(s) 67, 253, 368
AjnI CCWGG 1 cut(s) 348
AluBI AGCT 3 cut(s) 62, 97, 316
AluI AGCT 3 cut(s) 62, 97, 316
Alw21I GWGCWC 1 cut(s) 8
AoxI GGCC 1 cut(s) 283
ApeKI GCWGC 1 cut(s) 323
ApoI RAATTY 1 cut(s) 530
AseI ATTAAT 1 cut(s) 294
AsuHPI GGTGA 3 cut(s) 49, 214, 462
BbsI GAAGAC 1 cut(s) 53
Bbv12I GWGCWC 1 cut(s) 8
BbvI GCAGC 1 cut(s) 335
BciT130I CCWGG 1 cut(s) 350
BclI TGATCA 2 cut(s) 28, 399
BfaI CTAG 1 cut(s) 209
BfuAI ACCTGC 1 cut(s) 322
BisI GCNGC 1 cut(s) 324
BlpI GCTNAGC 1 cut(s) 93
BlsI GCNGC 1 cut(s) 325
Bme1390I CCNGG 1 cut(s) 350
BmiI GGNNCC 1 cut(s) 430
BmrFI CCNGG 1 cut(s) 350
BpiI GAAGAC 1 cut(s) 53
Bpu1102I GCTNAGC 1 cut(s) 93
BpuEI CTTGAG 1 cut(s) 260
BsaBI GATNNNNATC 1 cut(s) 27
BsaWI WCCGGW 1 cut(s) 499
Bse3DI GCAATG 1 cut(s) 402
Bse8I GATNNNNATC 1 cut(s) 27
BseBI CCWGG 1 cut(s) 350
BseJI GATNNNNATC 1 cut(s) 27
BseMI GCAATG 1 cut(s) 402
BseMII CTCAG 2 cut(s) 107, 449
BseXI GCAGC 1 cut(s) 335
BseYI CCCAGC 1 cut(s) 316
BshFI GGCC 1 cut(s) 285
BsiHKAI GWGCWC 1 cut(s) 8
BsiSI CCGG 1 cut(s) 500
BsnI GGCC 1 cut(s) 285
Bsp1286I GDGCHC 1 cut(s) 8
Bsp143I GATC 6 cut(s) 10, 28, 131, 268, 399, 476
Bsp1720I GCTNAGC 1 cut(s) 93
BspANI GGCC 1 cut(s) 285
BspCNI CTCAG 2 cut(s) 106, 450
BspLI GGNNCC 1 cut(s) 430
BspMI ACCTGC 1 cut(s) 322
BsrDI GCAATG 1 cut(s) 402
BssMI GATC 6 cut(s) 10, 28, 131, 268, 399, 476
Bst2UI CCWGG 1 cut(s) 350
Bst4CI ACNGT 1 cut(s) 151
Bst6I CTCTTC 1 cut(s) 221
BstC8I GCNNGC 1 cut(s) 346
BstDEI CTNAG 2 cut(s) 93, 458
BstKTI GATC 6 cut(s) 13, 31, 134, 271, 402, 479
BstMBI GATC 6 cut(s) 10, 28, 131, 268, 399, 476
BstMWI GCNNNNNNNGC 1 cut(s) 103
BstNI CCWGG 1 cut(s) 350
BstNSI RCATGY 1 cut(s) 348
BstSCI CCNGG 1 cut(s) 348
BstV1I GCAGC 1 cut(s) 335
BstV2I GAAGAC 1 cut(s) 53
BsuRI GGCC 1 cut(s) 285
BtsIMutI CAGTG 1 cut(s) 550
BveI ACCTGC 1 cut(s) 322
Cac8I GCNNGC 1 cut(s) 346
CviAII CATG 2 cut(s) 118, 345
CviJI RGCY 7 cut(s) 18, 62, 97, 208, 285, 316, 429
CviKI_1 RGCY 7 cut(s) 18, 62, 97, 208, 285, 316, 429
DdeI CTNAG 2 cut(s) 93, 458
DpnI GATC 6 cut(s) 12, 30, 133, 270, 401, 478
DpnII GATC 6 cut(s) 10, 28, 131, 268, 399, 476
Eam1104I CTCTTC 1 cut(s) 221
EarI CTCTTC 1 cut(s) 221
Eco57I CTGAAG 1 cut(s) 263
EcoRII CCWGG 1 cut(s) 348
FaeI CATG 2 cut(s) 121, 348
FaiI YATR 7 cut(s) 104, 119, 188, 197, 301, 303, 346
FatI CATG 2 cut(s) 117, 344
FbaI TGATCA 2 cut(s) 28, 399
Fnu4HI GCNGC 1 cut(s) 324
Fsp4HI GCNGC 1 cut(s) 324
FspBI CTAG 1 cut(s) 209
GluI GCNGC 1 cut(s) 324
GsaI CCCAGC 1 cut(s) 320
HaeIII GGCC 1 cut(s) 285
HapII CCGG 1 cut(s) 500
Hin1II CATG 2 cut(s) 121, 348
HincII GTYRAC 1 cut(s) 147
HindII GTYRAC 1 cut(s) 147
HinfI GANTC 2 cut(s) 372, 538
HpaII CCGG 1 cut(s) 500
HphI GGTGA 3 cut(s) 49, 214, 462
Hpy166II GTNNAC 2 cut(s) 147, 497
Hpy188I TCNGA 4 cut(s) 22, 184, 481, 537
Hpy188III TCNNGA 1 cut(s) 277
Hpy8I GTNNAC 2 cut(s) 147, 497
HpyAV CCTTC 3 cut(s) 300, 362, 476
HpyCH4III ACNGT 1 cut(s) 151
HpyCH4V TGCA 1 cut(s) 395
HpyF10VI GCNNNNNNNGC 1 cut(s) 103
HpyF3I CTNAG 2 cut(s) 93, 458
Hsp92II CATG 2 cut(s) 121, 348
Ksp22I TGATCA 2 cut(s) 28, 399
Kzo9I GATC 6 cut(s) 10, 28, 131, 268, 399, 476
LmnI GCTCC 4 cut(s) 313, 320, 434, 502
LpnPI CCDG 5 cut(s) 302, 317, 335, 362, 513
Lsp1109I GCAGC 1 cut(s) 335
MaeI CTAG 1 cut(s) 209
MalI GATC 6 cut(s) 12, 30, 133, 270, 401, 478
MboI GATC 6 cut(s) 10, 28, 131, 268, 399, 476
MboII GAAGA 6 cut(s) 58, 235, 238, 263, 265, 530
MhlI GDGCHC 1 cut(s) 8
MluCI AATT 4 cut(s) 122, 135, 522, 530
MlyI GAGTC 1 cut(s) 547
MnlI CCTC 2 cut(s) 198, 222
MseI TTAA 4 cut(s) 219, 294, 389, 525
MslI CAYNNNNRTG 1 cut(s) 200
MspI CCGG 1 cut(s) 500
MspR9I CCNGG 1 cut(s) 350
MvaI CCWGG 1 cut(s) 350
MwoI GCNNNNNNNGC 1 cut(s) 103
NdeII GATC 6 cut(s) 10, 28, 131, 268, 399, 476
NlaIII CATG 2 cut(s) 121, 348
NlaIV GGNNCC 1 cut(s) 430
NspI RCATGY 1 cut(s) 348
PaeI GCATGC 1 cut(s) 348
PfeI GAWTC 1 cut(s) 372
PkrI GCNGC 1 cut(s) 325
PleI GAGTC 1 cut(s) 546
PpsI GAGTC 1 cut(s) 546
PshBI ATTAAT 1 cut(s) 294
Psp6I CCWGG 1 cut(s) 348
PspFI CCCAGC 1 cut(s) 316
PspGI CCWGG 1 cut(s) 348
PspN4I GGNNCC 1 cut(s) 430
RseI CAYNNNNRTG 1 cut(s) 200
SaqAI TTAA 4 cut(s) 219, 294, 389, 525
SatI GCNGC 1 cut(s) 324
Sau3AI GATC 6 cut(s) 10, 28, 131, 268, 399, 476
SchI GAGTC 1 cut(s) 547
ScrFI CCNGG 1 cut(s) 350
SduI GDGCHC 1 cut(s) 8
SetI ASST 8 cut(s) 64, 74, 99, 204, 318, 336, 365, 496
SmiMI CAYNNNNRTG 1 cut(s) 200
SmlI CTYRAG 1 cut(s) 275
SmoI CTYRAG 1 cut(s) 275
SphI GCATGC 1 cut(s) 348
Sse9I AATT 4 cut(s) 122, 135, 522, 530
SspMI CTAG 1 cut(s) 209
StyD4I CCNGG 1 cut(s) 348
TaaI ACNGT 1 cut(s) 151
TasI AATT 4 cut(s) 122, 135, 522, 530
TfiI GAWTC 1 cut(s) 372
Tru1I TTAA 4 cut(s) 219, 294, 389, 525
Tru9I TTAA 4 cut(s) 219, 294, 389, 525
TseI GCWGC 1 cut(s) 323
TspDTI ATGAA 1 cut(s) 531
VspI ATTAAT 1 cut(s) 294
XapI RAATTY 1 cut(s) 530
XceI RCATGY 1 cut(s) 348
XspI CTAG 1 cut(s) 209
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.