Rroxscaffold_1G00034000

Regulator of Vps4 activity in the MVB pathway

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000001
OG0000640
Physical Location & Seq
Forward (+)
49152977 .. 49198321
45345 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_1G00034000.1

Sequence Viewer

Length: 939 bp
ATGCGAGGTTGTAGCCCGCCCGGCGGTGTACCCAAAATAAGCAGAGTTGCGGAAACCAGAGAAAATGGTGCTAAATTGGAGCAAATTGGAGTTTCGGACAAAATGACGAAATTGTCAATGCGGCAAATGATCGATGGAATGGTTGAGATTGGTTGTGCCTTGTTTGGCTCGGGGATTGACATATCAATTCCATACCCCGATGATAGGCCATATCCTTTTGTGGCTTTACTTATTACATCAAGGAGAAAATTACAAGCACAAGGAGTACAAGAAGGAGTTCTTAATTCAAGGTGCTTCAAGGTGGAGGAAACACACACAAGGAGAGATCAAGGAGAGGAACTTTGGTGGTTCACTTGGATCGGATTAAAATCACGCTCCAAGGGCCTGGGATCGGTTTGGCTCGGCTCGGTAACATGCCTATACCGATACCGATACCGATTTTATAGTCGGCTCGGTTCGGTTCGGTACACCGGAAAATCAACTGCCATACCGATTAGGCCCGAATCCAATCGGTTCGGTACCAATCGAATGATAAATCGGTTTTCTCGTAAATGGTTTCCAACACCAAGGTTTCCAAGAATCACCGAATACTTCCACAAAAATTTTCCAAGTGGCCATGGGCGAAATTATTTGACATTGCCACAACAAAAGTCTCTTCCTAATATACGTTGTGACATTGCCAAGCTTCTTGAGACCGGCCGAGAAGCTCCAACTCGGATTCGGGTAGAACATATTATTAGAGAAGAGAATATAATGGCAGCTCGGGAGGTCATCGAGCTATTTGCTGAGCTTATTTCTATTTGCAAGCCCAATGAGCTCAAAGAGGAAGAAGTCCAGGTCCAAGTCCAACAAAACAAATCAGGCCCAAAGCCAATGGCCATCTCTGCACCTAGTCCATTGATATCTCTCCGAAATTCCATCTCTTCTTCGTCTTTCTAG
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

312

Amino Acids

35.59

Weight (kDa)

9.9

Isoelectric Point (pI)

45.54

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Ist1 PF03398 215 - 266 6.1e-10 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: OG0000640)

Species Orthologous Gene IDs
rosa_chinensis RchiOBHm_Chr1g0331021 RchiOBHm_Chr1g0335951 RchiOBHm_Chr1g0338001 RchiOBHm_Chr6g0276241 RchiOBHm_Chr6g0297731 RchiOBHm_Chr7g0188211 RchiOBHm_Chr7g0217921 RchiOBHm_Chr7g0238211
rosa_laevigata RLG00000007457 RLG00000015447 RLG00000019185 RLG00000032916 RLG00000034538
rosa_multiflora Rmu_sc0000923.1_g000008 Rmu_sc0002931.1_g000001 Rmu_sc0006850.1_g000014
rosa_roxburghii Rroxscaffold_1G00021360 Rroxscaffold_1G00022610 Rroxscaffold_1G00022620 Rroxscaffold_1G00025730 Rroxscaffold_1G00029440 Rroxscaffold_1G00029610 Rroxscaffold_1G00032940 Rroxscaffold_1G00034000 Rroxscaffold_2G00087130 Rroxscaffold_2G00093110 Rroxscaffold_2G00097280 Rroxscaffold_2G00121440 Rroxscaffold_3G00225890 Rroxscaffold_3G00238130 Rroxscaffold_3G00241910 Rroxscaffold_3G00267280 Rroxscaffold_4G00295970 Rroxscaffold_4G00299040 Rroxscaffold_4G00303830 Rroxscaffold_4G00305880 Rroxscaffold_5G00335820 Rroxscaffold_5G00343740 Rroxscaffold_5G00346800 Rroxscaffold_5G00348110 Rroxscaffold_5G00371220 Rroxscaffold_5G00383470 Rroxscaffold_5G00387630 Rroxscaffold_6G00388100 Rroxscaffold_6G00395960 Rroxscaffold_6G00397500 Rroxscaffold_6G00405550 Rroxscaffold_7G00195020 Rroxscaffold_7G00217460
rosa_rugosa Rorug02G0515900 Rorug06G0038100.1
rosa_samantha Rh1CG171700 Rh2AG250300 Rh2AG481200 Rh2CG103900 Rh2CG467500 Rh2DG121800 Rh2DG258400 Rh3AG000900 Rh3CG000600 Rh3DG000800 Rh4DG164800 Rh5AG157100 Rh5AG476500 Rh5AG519300 Rh5DG192000 Rh5DG243900 Rh6CG399800 Rh6DG207500 Rh6DG458300 Rh6DG458400 Rh7AG314100 Rh7AG466900 Rh7DG095400
rosa_wichuraiana Rw5G004310 Rw5G049380 Rw6G000590 Rw6G025650

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AasI GACNNNNNNGTC 1 cut(s) 112
Acc65I GGTACC 1 cut(s) 518
AccB1I GGYRCC 1 cut(s) 518
AciI CCGC 4 cut(s) 17, 24, 50, 121
AclWI GGATC 2 cut(s) 365, 397
AcoI YGGCCR 3 cut(s) 613, 697, 876
AcsI RAATTY 2 cut(s) 601, 913
AfaI GTAC 4 cut(s) 30, 267, 467, 520
AfiI CCNNNNNNNGG 3 cut(s) 23, 204, 391
AgsI TTSAA 2 cut(s) 288, 298
AjnI CCWGG 2 cut(s) 384, 834
AluBI AGCT 6 cut(s) 685, 707, 761, 778, 790, 817
AluI AGCT 6 cut(s) 685, 707, 761, 778, 790, 817
Alw21I GWGCWC 1 cut(s) 819
Alw26I GTCTC 2 cut(s) 657, 686
AlwI GGATC 2 cut(s) 365, 397
Ama87I CYCGRG 2 cut(s) 169, 762
AoxI GGCC 7 cut(s) 206, 382, 497, 613, 697, 862, 876
ApeKI GCWGC 1 cut(s) 758
ApoI RAATTY 2 cut(s) 601, 913
Asp700I GAANNNNTTC 1 cut(s) 276
Asp718I GGTACC 1 cut(s) 518
AspS9I GGNCC 4 cut(s) 382, 498, 838, 863
AsuC2I CCSGG 1 cut(s) 21
AsuHPI GGTGA 1 cut(s) 574
AvaI CYCGRG 2 cut(s) 169, 762
AvaII GGWCC 1 cut(s) 838
BalI TGGCCA 2 cut(s) 615, 878
BanI GGYRCC 1 cut(s) 518
BanII GRGCYC 1 cut(s) 819
Bbv12I GWGCWC 1 cut(s) 819
BbvI GCAGC 1 cut(s) 770
BccI CCATC 3 cut(s) 128, 887, 926
BcgI CGANNNNNNTGC 2 cut(s) 764, 798
BciT130I CCWGG 2 cut(s) 386, 836
BcnI CCSGG 1 cut(s) 21
BcoDI GTCTC 2 cut(s) 657, 686
BfaI CTAG 2 cut(s) 891, 937
BglI GCCNNNNNGGC 1 cut(s) 21
BisI GCNGC 2 cut(s) 122, 759
BlpI GCTNAGC 1 cut(s) 786
BlsI GCNGC 2 cut(s) 123, 760
Bme1390I CCNGG 3 cut(s) 21, 386, 836
Bme18I GGWCC 1 cut(s) 838
BmeT110I CYCGRG 2 cut(s) 169, 762
BmgT120I GGNCC 4 cut(s) 382, 498, 838, 863
BmiI GGNNCC 1 cut(s) 520
BmrFI CCNGG 3 cut(s) 21, 386, 836
Bpu1102I GCTNAGC 1 cut(s) 786
BpuEI CTTGAG 1 cut(s) 710
BpuMI CCSGG 1 cut(s) 21
Bsa29I ATCGAT 1 cut(s) 132
BsaBI GATNNNNATC 1 cut(s) 367
BsaI GGTCTC 1 cut(s) 686
BsaJI CCNNGG 4 cut(s) 378, 385, 566, 616
BsaWI WCCGGW 1 cut(s) 470
Bsc4I CCNNNNNNNGG 3 cut(s) 23, 204, 391
Bse118I RCCGGY 1 cut(s) 695
Bse3DI GCAATG 2 cut(s) 635, 675
Bse8I GATNNNNATC 1 cut(s) 367
BseBI CCWGG 2 cut(s) 386, 836
BseCI ATCGAT 1 cut(s) 132
BseDI CCNNGG 4 cut(s) 378, 385, 566, 616
BseJI GATNNNNATC 1 cut(s) 367
BseLI CCNNNNNNNGG 3 cut(s) 23, 204, 391
BseMI GCAATG 2 cut(s) 635, 675
BseMII CTCAG 1 cut(s) 777
BseX3I CGGCCG 1 cut(s) 697
BseXI GCAGC 1 cut(s) 770
BsgI GTGCAG 1 cut(s) 870
Bsh1285I CGRYCG 1 cut(s) 700
BshFI GGCC 7 cut(s) 208, 384, 499, 615, 699, 864, 878
BshNI GGYRCC 1 cut(s) 518
BshVI ATCGAT 1 cut(s) 132
BsiEI CGRYCG 1 cut(s) 700
BsiHKAI GWGCWC 1 cut(s) 819
BsiHKCI CYCGRG 2 cut(s) 169, 762
BsiSI CCGG 3 cut(s) 21, 471, 696
BslI CCNNNNNNNGG 3 cut(s) 23, 204, 391
BsmAI GTCTC 2 cut(s) 657, 686
BsnI GGCC 7 cut(s) 208, 384, 499, 615, 699, 864, 878
Bso31I GGTCTC 1 cut(s) 686
BsoBI CYCGRG 2 cut(s) 169, 762
Bsp1286I GDGCHC 1 cut(s) 819
Bsp143I GATC 4 cut(s) 129, 325, 357, 389
Bsp1720I GCTNAGC 1 cut(s) 786
Bsp19I CCATGG 1 cut(s) 616
BspACI CCGC 4 cut(s) 17, 24, 50, 121
BspANI GGCC 7 cut(s) 208, 384, 499, 615, 699, 864, 878
BspCNI CTCAG 1 cut(s) 778
BspDI ATCGAT 1 cut(s) 132
BspLI GGNNCC 1 cut(s) 520
BspPI GGATC 2 cut(s) 365, 397
BspT107I GGYRCC 1 cut(s) 518
BspTNI GGTCTC 1 cut(s) 686
BsrDI GCAATG 2 cut(s) 635, 675
BsrFI RCCGGY 1 cut(s) 695
BssAI RCCGGY 1 cut(s) 695
BssECI CCNNGG 4 cut(s) 378, 385, 566, 616
BssMI GATC 4 cut(s) 129, 325, 357, 389
BssT1I CCWWGG 3 cut(s) 378, 566, 616
Bst2UI CCWGG 2 cut(s) 386, 836
Bst6I CTCTTC 3 cut(s) 660, 738, 928
BstC8I GCNNGC 2 cut(s) 17, 806
BstDEI CTNAG 1 cut(s) 786
BstDSI CCRYGG 1 cut(s) 616
BstKTI GATC 4 cut(s) 132, 328, 360, 392
BstMAI GTCTC 2 cut(s) 657, 686
BstMBI GATC 4 cut(s) 129, 325, 357, 389
BstMCI CGRYCG 1 cut(s) 700
BstMWI GCNNNNNNNGC 4 cut(s) 21, 381, 814, 884
BstNI CCWGG 2 cut(s) 386, 836
BstNSI RCATGY 1 cut(s) 417
BstSCI CCNGG 3 cut(s) 19, 384, 834
BstV1I GCAGC 1 cut(s) 770
BstXI CCANNNNNNTGG 1 cut(s) 385
BstZI CGGCCG 1 cut(s) 697
Bsu15I ATCGAT 1 cut(s) 132
BsuRI GGCC 7 cut(s) 208, 384, 499, 615, 699, 864, 878
BsuTUI ATCGAT 1 cut(s) 132
BtgI CCRYGG 1 cut(s) 616
Cac8I GCNNGC 2 cut(s) 17, 806
Cfr10I RCCGGY 1 cut(s) 695
Cfr13I GGNCC 4 cut(s) 382, 498, 838, 863
ClaI ATCGAT 1 cut(s) 132
Csp6I GTAC 4 cut(s) 29, 266, 466, 519
CviAII CATG 2 cut(s) 414, 617
CviQI GTAC 4 cut(s) 29, 266, 466, 519
DdeI CTNAG 1 cut(s) 786
DpnI GATC 4 cut(s) 131, 327, 359, 391
DpnII GATC 4 cut(s) 129, 325, 357, 389
DrdI GACNNNNNNGTC 1 cut(s) 112
DseDI GACNNNNNNGTC 1 cut(s) 112
EaeI YGGCCR 3 cut(s) 613, 697, 876
EagI CGGCCG 1 cut(s) 697
Eam1104I CTCTTC 3 cut(s) 660, 738, 928
EarI CTCTTC 3 cut(s) 660, 738, 928
Ecl136II GAGCTC 1 cut(s) 817
EclXI CGGCCG 1 cut(s) 697
Eco130I CCWWGG 3 cut(s) 378, 566, 616
Eco24I GRGCYC 1 cut(s) 819
Eco31I GGTCTC 1 cut(s) 686
Eco32I GATATC 1 cut(s) 903
Eco47I GGWCC 1 cut(s) 838
Eco52I CGGCCG 1 cut(s) 697
Eco53kI GAGCTC 1 cut(s) 817
Eco88I CYCGRG 2 cut(s) 169, 762
EcoICRI GAGCTC 1 cut(s) 817
EcoO109I RGGNCCY 1 cut(s) 382
EcoRII CCWGG 2 cut(s) 384, 834
EcoRV GATATC 1 cut(s) 903
EcoT14I CCWWGG 3 cut(s) 378, 566, 616
EcoT38I GRGCYC 1 cut(s) 819
ErhI CCWWGG 3 cut(s) 378, 566, 616
FaeI CATG 2 cut(s) 417, 620
FalI AAGNNNNNCTT 2 cut(s) 264, 296
FatI CATG 2 cut(s) 413, 616
FauI CCCGC 1 cut(s) 24
Fnu4HI GCNGC 2 cut(s) 122, 759
FriOI GRGCYC 1 cut(s) 819
Fsp4HI GCNGC 2 cut(s) 122, 759
FspBI CTAG 2 cut(s) 891, 937
GluI GCNGC 2 cut(s) 122, 759
HaeIII GGCC 7 cut(s) 208, 384, 499, 615, 699, 864, 878
HapII CCGG 3 cut(s) 21, 471, 696
Hin1II CATG 2 cut(s) 417, 620
HindIII AAGCTT 1 cut(s) 683
HinfI GANTC 3 cut(s) 503, 579, 718
HpaII CCGG 3 cut(s) 21, 471, 696
HphI GGTGA 1 cut(s) 574
Hpy166II GTNNAC 3 cut(s) 29, 351, 468
Hpy188I TCNGA 4 cut(s) 97, 362, 717, 911
Hpy188III TCNNGA 2 cut(s) 689, 764
Hpy8I GTNNAC 3 cut(s) 29, 351, 468
HpyAV CCTTC 1 cut(s) 266
HpyCH4IV ACGT 1 cut(s) 667
HpyCH4V TGCA 2 cut(s) 804, 887
HpyF10VI GCNNNNNNNGC 4 cut(s) 21, 381, 814, 884
HpyF3I CTNAG 1 cut(s) 786
HpySE526I ACGT 1 cut(s) 667
Hsp92II CATG 2 cut(s) 417, 620
KpnI GGTACC 1 cut(s) 522
Kzo9I GATC 4 cut(s) 129, 325, 357, 389
LmnI GCTCC 3 cut(s) 79, 380, 712
LpnPI CCDG 9 cut(s) 34, 70, 371, 398, 484, 709, 821, 846, 848
Lsp1109I GCAGC 1 cut(s) 770
MaeI CTAG 2 cut(s) 891, 937
MaeII ACGT 1 cut(s) 667
MaeIII GTNAC 2 cut(s) 409, 671
MalI GATC 4 cut(s) 131, 327, 359, 391
MboI GATC 4 cut(s) 129, 325, 357, 389
MboII GAAGA 5 cut(s) 647, 755, 839, 915, 918
MhlI GDGCHC 1 cut(s) 819
MlsI TGGCCA 2 cut(s) 615, 878
MluCI AATT 9 cut(s) 74, 84, 110, 186, 248, 283, 601, 625, 913
MluNI TGGCCA 2 cut(s) 615, 878
MmeI TCCRAC 3 cut(s) 584, 734, 871
MnlI CCTC 4 cut(s) 298, 328, 760, 817
Mox20I TGGCCA 2 cut(s) 615, 878
MroXI GAANNNNTTC 1 cut(s) 276
MscI TGGCCA 2 cut(s) 615, 878
MseI TTAA 2 cut(s) 282, 365
Msp20I TGGCCA 2 cut(s) 615, 878
MspI CCGG 3 cut(s) 21, 471, 696
MspR9I CCNGG 3 cut(s) 21, 386, 836
MvaI CCWGG 2 cut(s) 386, 836
MwoI GCNNNNNNNGC 4 cut(s) 21, 381, 814, 884
NciI CCSGG 1 cut(s) 21
NcoI CCATGG 1 cut(s) 616
NdeII GATC 4 cut(s) 129, 325, 357, 389
NlaIII CATG 2 cut(s) 417, 620
NlaIV GGNNCC 1 cut(s) 520
NmeAIII GCCGAG 2 cut(s) 381, 725
NmuCI GTSAC 1 cut(s) 671
NspI RCATGY 1 cut(s) 417
PcsI WCGNNNNNNNCGW 1 cut(s) 544
PdmI GAANNNNTTC 1 cut(s) 276
PfeI GAWTC 3 cut(s) 503, 579, 718
PkrI GCNGC 2 cut(s) 123, 760
Psp124BI GAGCTC 1 cut(s) 819
Psp6I CCWGG 2 cut(s) 384, 834
PspGI CCWGG 2 cut(s) 384, 834
PspN4I GGNNCC 1 cut(s) 520
PspPI GGNCC 4 cut(s) 382, 498, 838, 863
RsaI GTAC 4 cut(s) 30, 267, 467, 520
RsaNI GTAC 4 cut(s) 29, 266, 466, 519
SacI GAGCTC 1 cut(s) 819
SaqAI TTAA 2 cut(s) 282, 365
SatI GCNGC 2 cut(s) 122, 759
Sau3AI GATC 4 cut(s) 129, 325, 357, 389
Sau96I GGNCC 4 cut(s) 382, 498, 838, 863
ScrFI CCNGG 3 cut(s) 21, 386, 836
SduI GDGCHC 1 cut(s) 819
SinI GGWCC 1 cut(s) 838
SmlI CTYRAG 1 cut(s) 689
SmoI CTYRAG 1 cut(s) 689
Sse9I AATT 9 cut(s) 74, 84, 110, 186, 248, 283, 601, 625, 913
SsiI CCGC 4 cut(s) 17, 24, 50, 121
SspMI CTAG 2 cut(s) 891, 937
SstI GAGCTC 1 cut(s) 819
StyD4I CCNGG 3 cut(s) 19, 384, 834
StyI CCWWGG 3 cut(s) 378, 566, 616
TaiI ACGT 1 cut(s) 670
TaqI TCGA 3 cut(s) 132, 526, 774
TasI AATT 9 cut(s) 74, 84, 110, 186, 248, 283, 601, 625, 913
TatI WGTACW 1 cut(s) 265
TauI GCSGC 1 cut(s) 124
TfiI GAWTC 3 cut(s) 503, 579, 718
Tru1I TTAA 2 cut(s) 282, 365
Tru9I TTAA 2 cut(s) 282, 365
TseFI GTSAC 1 cut(s) 671
TseI GCWGC 1 cut(s) 758
Tsp45I GTSAC 1 cut(s) 671
VpaK11BI GGWCC 1 cut(s) 838
XapI RAATTY 2 cut(s) 601, 913
XceI RCATGY 1 cut(s) 417
XmnI GAANNNNTTC 1 cut(s) 276
XspI CTAG 2 cut(s) 891, 937
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.