Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3D

Orthogroup ID

OG0007468

Physical Location & Seq

Genomic Coordinates Reverse (-)

20342444 .. 20349356

Gene Structure 6913 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3DG218700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1107 bp

ATGAGCAAGCAAAGTCAAGTCGGAGTCCAAATCCTATCTTTACCTACAAACTTCCCAGAGTACCAAGGGCCCGAGAAGATTGTTATTCGACGTTATAGTGATTTTGTTTGGCTGCGAGATCGTCTTTTTGAAAAGTACAAAGGAATCTTTATTCCTCCTATCCCAGAAAAGAGTGCTGTAGAAAAATTTCGTTTCAGTGCTGAGTTCATTGAGATGAGACGCCAAGCATTGGATGTATTTGTTAATCGTATAGCTTCGCATCATGAGCTTCAACAAAGTGAAGATCTTAGAACATTCCTGCAGGCAGATGAAGAGACAATGGAGAGGTTAAGGTTTCATGAGACTGGTATCTTCAAGAAGAAGCCTTCAGATTTGATGCAAATATTCAAGGATGTACAATCCAAAGTGAGTGATGTTGTCCTCGGGAAGGAAAAGCCAGTCGAAGAGTCAAATCCTGAATATGAGAAGCTGAAACACTACATCTTCGAGCTTGAAAACCATTTGGCCGAAGCTCAGAAGCATGCATACCGTCTTGTAAAGAGGCACCGAGAGCTGGGACAGTCTCTATCAGATTTCGGGAAAGCAGCCAAGCTTCTCGGAGCTTGTGAAGGTAATGCTCTTGGGAAGGCGTTTTCCGAGCTTGGGGCAAAGTCAGAGGCATTATCATTTAAGCTGCAAAAAGAGGCCCACCAGCTGTTAATGAATTTTGAAGAACCCTTGAAAGATTATGTTCGGGCTGTTCAATCTGTTAAGGCCACCATAGCTGAGAGAGCAAATGCCTTCAGGCAACAGTGTGAACTTGCTGAAACAATGAAGTTGAAGGAGATAAATCTTGACAAACTCATGCTAACCAGATCAGACAAGGTGGGAGAAGCTGAGCTCGAGTACAAGGAGTTGAAGGCTGACAGTGAGGAAGCGACCAGACGATTTGAAACAATAGTGCGACTGATGAATGAAGAGATTGTCCGCTTTCAGGAAGAAAAGACAATAGATATGGGAGTTGCTTTCCACGAATTTGCCAAAGGGCAGGCACGCCTGGCAAATAGTATTGCAGATGCGTGGCGAAGTCTCCTGCCTAAACTCGAAAGTTGTTCACCTGCTCAGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000139 GO:0003674 GO:0005488 GO:0005543 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005768 GO:0005770 GO:0005771 GO:0005794 GO:0005802 GO:0005829 GO:0006605 GO:0006623 GO:0006810 GO:0006886 GO:0006892 GO:0006896 GO:0006897 GO:0006996 GO:0007034 GO:0007041 GO:0007275 GO:0008104 GO:0008150 GO:0008289 GO:0008333 GO:0009605 GO:0009606 GO:0009628 GO:0009629 GO:0009630 GO:0009958 GO:0009987 GO:0010008 GO:0010252 GO:0012505 GO:0015031 GO:0015833 GO:0016020 GO:0016043 GO:0016050 GO:0016192 GO:0019898 GO:0022622 GO:0030904 GO:0031090 GO:0031410 GO:0031902 GO:0031982 GO:0031984 GO:0032501 GO:0032502 GO:0032588 GO:0032991 GO:0033036 GO:0033365 GO:0034613 GO:0035091 GO:0042592 GO:0042886 GO:0043167 GO:0043168 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044422 GO:0044424 GO:0044425 GO:0044431 GO:0044433 GO:0044440 GO:0044444 GO:0044446 GO:0044464 GO:0045184 GO:0046907 GO:0048193 GO:0048364 GO:0048731 GO:0048856 GO:0048878 GO:0050896 GO:0051179 GO:0051234 GO:0051641 GO:0051649 GO:0065007 GO:0065008 GO:0070727 GO:0071702 GO:0071705 GO:0071840 GO:0072594 GO:0072665 GO:0072666 GO:0097708 GO:0098588 GO:0098657 GO:0098791 GO:0098796 GO:0098805 GO:0099402

KEGG Pathways

Metabolic & Signaling

ko04144 map04144

Pfam Domains

Protein Families

PX Vps5

Protein Analysis

368

Amino Acids

42.55

Weight (kDa)

6.55

Isoelectric Point (pI)

43.26

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PX	PF00787	24 - 102	2.2e-22	PX domain
Vps5	PF09325	132 - 359	1.6e-24	Vps5 C terminal like

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0007468)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G06140
fragaria_vesca	FvH4_6g19390 FvH4_6g19390 FvH4_6g19390
malus_domestica	MD12G1029600.v1.1 MD14G1029900.v1.1
prunus_persica	Prupe.7G102200_v2.0.a1 Prupe.7G102200_v2.0.a1 Prupe.7G102200_v2.0.a1
pyrus_communis	pycom12g02800 pycom14g02770
rosa_chinensis	RchiOBHm_Chr3g0474681
rosa_laevigata	RLG00000023902
rosa_multiflora	Rmu_sc0001126.1_g000005
rosa_roxburghii	Rroxscaffold_6G00406980
rosa_rugosa	Rorug03G0142300.1 Rorug03G0142400 Rorug03G0142500.1 Rorug03G0142600 Rorug03G0142700
rosa_samantha	Rh3AG192900 Rh3BG222800 Rh3CG217600 Rh3DG218700
rosa_wichuraiana	Rw3G017590

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	543
AccB7I	CCANNNNNTGG	1 cut(s)	229
AciI	CCGC	1 cut(s)	967
AcoI	YGGCCR	1 cut(s)	504
AcsI	RAATTY	3 cut(s)	185, 703, 1013
AcuI	CTGAAG	2 cut(s)	351, 766
AcyI	GRCGYC	1 cut(s)	220
AfaI	GTAC	4 cut(s)	62, 137, 396, 887
AfiI	CCNNNNNNNGG	5 cut(s)	229, 427, 553, 642, 973
AjnI	CCWGG	1 cut(s)	1035
Alw21I	GWGCWC	1 cut(s)	882
Alw26I	GTCTC	5 cut(s)	211, 308, 335, 567, 1073
Ama87I	CYCGRG	3 cut(s)	71, 422, 881
AoxI	GGCC	4 cut(s)	68, 504, 684, 753
ApaI	GGGCCC	1 cut(s)	72
ApeKI	GCWGC	3 cut(s)	112, 584, 673
ApoI	RAATTY	3 cut(s)	185, 703, 1013
Asp700I	GAANNNNTTC	1 cut(s)	186
AspS9I	GGNCC	3 cut(s)	68, 69, 685
AsuHPI	GGTGA	1 cut(s)	1086
AvaI	CYCGRG	3 cut(s)	71, 422, 881
BaeGI	GKGCMC	1 cut(s)	72
BanI	GGYRCC	1 cut(s)	543
BanII	GRGCYC	2 cut(s)	72, 882
BarI	GAAGNNNNNNTAC	2 cut(s)	509, 541
Bbv12I	GWGCWC	1 cut(s)	882
BbvI	GCAGC	3 cut(s)	99, 596, 660
BciT130I	CCWGG	1 cut(s)	1037
BcoDI	GTCTC	5 cut(s)	211, 308, 335, 567, 1073
BfmI	CTRYAG	2 cut(s)	177, 299
BglII	AGATCT	1 cut(s)	283
BisI	GCNGC	3 cut(s)	113, 585, 674
BlpI	GCTNAGC	1 cut(s)	876
BlsI	GCNGC	3 cut(s)	114, 586, 675
Bme1390I	CCNGG	1 cut(s)	1037
BmeT110I	CYCGRG	3 cut(s)	71, 422, 881
BmgT120I	GGNCC	3 cut(s)	68, 69, 685
BmiI	GGNNCC	2 cut(s)	70, 545
BmrFI	CCNGG	1 cut(s)	1037
BmsI	GCATC	3 cut(s)	268, 366, 1045
Bpu1102I	GCTNAGC	1 cut(s)	876
BsaHI	GRCGYC	1 cut(s)	220
BsaJI	CCNNGG	2 cut(s)	64, 421
Bsc4I	CCNNNNNNNGG	5 cut(s)	229, 427, 553, 642, 973
Bse1I	ACTGG	2 cut(s)	349, 437
BseBI	CCWGG	1 cut(s)	1037
BseDI	CCNNGG	2 cut(s)	64, 421
BseGI	GGATG	2 cut(s)	238, 397
BseLI	CCNNNNNNNGG	5 cut(s)	229, 427, 553, 642, 973
BseMII	CTCAG	4 cut(s)	192, 527, 756, 867
BseNI	ACTGG	2 cut(s)	349, 437
BseSI	GKGCMC	1 cut(s)	72
BseXI	GCAGC	3 cut(s)	99, 596, 660
BseYI	CCCAGC	1 cut(s)	553
BshFI	GGCC	4 cut(s)	70, 506, 686, 755
BshNI	GGYRCC	1 cut(s)	543
BsiHKAI	GWGCWC	1 cut(s)	882
BsiHKCI	CYCGRG	3 cut(s)	71, 422, 881
BslFI	GGGAC	1 cut(s)	570
BslI	CCNNNNNNNGG	5 cut(s)	229, 427, 553, 642, 973
BsmAI	GTCTC	5 cut(s)	211, 308, 335, 567, 1073
BsmBI	CGTCTC	1 cut(s)	211
BsmFI	GGGAC	1 cut(s)	570
BsnI	GGCC	4 cut(s)	70, 506, 686, 755
BsoBI	CYCGRG	3 cut(s)	71, 422, 881
Bsp120I	GGGCCC	1 cut(s)	68
Bsp1286I	GDGCHC	2 cut(s)	72, 882
Bsp1407I	TGTACA	1 cut(s)	394
Bsp143I	GATC	3 cut(s)	118, 283, 854
Bsp1720I	GCTNAGC	1 cut(s)	876
BspACI	CCGC	1 cut(s)	967
BspANI	GGCC	4 cut(s)	70, 506, 686, 755
BspCNI	CTCAG	4 cut(s)	193, 526, 757, 868
BspHI	TCATGA	2 cut(s)	262, 337
BspLI	GGNNCC	2 cut(s)	70, 545
BspMAI	CTGCAG	1 cut(s)	303
BspT107I	GGYRCC	1 cut(s)	543
BsrGI	TGTACA	1 cut(s)	394
BsrI	ACTGG	2 cut(s)	349, 437
BssECI	CCNNGG	2 cut(s)	64, 421
BssMI	GATC	3 cut(s)	118, 283, 854
BssNI	GRCGYC	1 cut(s)	220
BssT1I	CCWWGG	1 cut(s)	64
Bst2UI	CCWGG	1 cut(s)	1037
Bst4CI	ACNGT	4 cut(s)	530, 561, 792, 908
Bst6I	CTCTTC	3 cut(s)	306, 438, 951
BstACI	GRCGYC	1 cut(s)	220
BstAUI	TGTACA	1 cut(s)	394
BstC8I	GCNNGC	5 cut(s)	8, 303, 522, 1029, 1033
BstDEI	CTNAG	6 cut(s)	201, 287, 513, 765, 876, 1101
BstENI	CCTNNNNNAGG	1 cut(s)	425
BstF5I	GGATG	2 cut(s)	238, 397
BstKTI	GATC	3 cut(s)	121, 286, 857
BstMAI	GTCTC	5 cut(s)	211, 308, 335, 567, 1073
BstMBI	GATC	3 cut(s)	118, 283, 854
BstMWI	GCNNNNNNNGC	5 cut(s)	265, 550, 761, 770, 1037
BstNI	CCWGG	1 cut(s)	1037
BstNSI	RCATGY	1 cut(s)	524
BstSCI	CCNGG	1 cut(s)	1035
BstSFI	CTRYAG	2 cut(s)	177, 299
BstSLI	GKGCMC	1 cut(s)	72
BstV1I	GCAGC	3 cut(s)	99, 596, 660
BstX2I	RGATCY	1 cut(s)	283
BstYI	RGATCY	1 cut(s)	283
BsuRI	GGCC	4 cut(s)	70, 506, 686, 755
BtsCI	GGATG	2 cut(s)	238, 397
BtsIMutI	CAGTG	3 cut(s)	202, 797, 913
Cac8I	GCNNGC	5 cut(s)	8, 303, 522, 1029, 1033
CciI	TCATGA	2 cut(s)	262, 337
Cfr13I	GGNCC	3 cut(s)	68, 69, 685
CseI	GACGC	1 cut(s)	228
Csp6I	GTAC	4 cut(s)	61, 136, 395, 886
CviAII	CATG	4 cut(s)	263, 338, 521, 844
CviQI	GTAC	4 cut(s)	61, 136, 395, 886
DdeI	CTNAG	6 cut(s)	201, 287, 513, 765, 876, 1101
DpnI	GATC	3 cut(s)	120, 285, 856
DpnII	GATC	3 cut(s)	118, 283, 854
EaeI	YGGCCR	1 cut(s)	504
Eam1104I	CTCTTC	3 cut(s)	306, 438, 951
EarI	CTCTTC	3 cut(s)	306, 438, 951
Ecl136II	GAGCTC	1 cut(s)	880
Eco130I	CCWWGG	1 cut(s)	64
Eco24I	GRGCYC	2 cut(s)	72, 882
Eco53kI	GAGCTC	1 cut(s)	880
Eco57I	CTGAAG	2 cut(s)	351, 766
Eco88I	CYCGRG	3 cut(s)	71, 422, 881
EcoICRI	GAGCTC	1 cut(s)	880
EcoNI	CCTNNNNNAGG	1 cut(s)	425
EcoO109I	RGGNCCY	1 cut(s)	68
EcoRII	CCWGG	1 cut(s)	1035
EcoT14I	CCWWGG	1 cut(s)	64
EcoT22I	ATGCAT	1 cut(s)	526
EcoT38I	GRGCYC	2 cut(s)	72, 882
ErhI	CCWWGG	1 cut(s)	64
Esp3I	CGTCTC	1 cut(s)	211
FaeI	CATG	4 cut(s)	266, 341, 524, 847
FaqI	GGGAC	1 cut(s)	570
FatI	CATG	4 cut(s)	262, 337, 520, 843
Fnu4HI	GCNGC	3 cut(s)	113, 585, 674
FokI	GGATG	2 cut(s)	245, 404
FriOI	GRGCYC	2 cut(s)	72, 882
Fsp4HI	GCNGC	3 cut(s)	113, 585, 674
GluI	GCNGC	3 cut(s)	113, 585, 674
GsaI	CCCAGC	1 cut(s)	557
HaeIII	GGCC	4 cut(s)	70, 506, 686, 755
HgaI	GACGC	1 cut(s)	228
Hin1I	GRCGYC	1 cut(s)	220
Hin1II	CATG	4 cut(s)	266, 341, 524, 847
HindIII	AAGCTT	1 cut(s)	590
HinfI	GANTC	3 cut(s)	24, 144, 446
HphI	GGTGA	1 cut(s)	1086
Hpy166II	GTNNAC	2 cut(s)	797, 1094
Hpy188I	TCNGA	8 cut(s)	23, 370, 516, 571, 599, 637, 655, 859
Hpy188III	TCNNGA	8 cut(s)	263, 338, 355, 424, 455, 577, 833, 974
Hpy8I	GTNNAC	2 cut(s)	797, 1094
Hpy99I	CGWCG	1 cut(s)	93
HpyAV	CCTTC	7 cut(s)	375, 421, 602, 619, 790, 814, 892
HpyCH4III	ACNGT	4 cut(s)	530, 561, 792, 908
HpyCH4IV	ACGT	1 cut(s)	91
HpyCH4V	TGCA	5 cut(s)	301, 379, 524, 676, 1052
HpyF10VI	GCNNNNNNNGC	5 cut(s)	265, 550, 761, 770, 1037
HpyF3I	CTNAG	6 cut(s)	201, 287, 513, 765, 876, 1101
HpySE526I	ACGT	1 cut(s)	91
Hsp92I	GRCGYC	1 cut(s)	220
Hsp92II	CATG	4 cut(s)	266, 341, 524, 847
Kzo9I	GATC	3 cut(s)	118, 283, 854
LmnI	GCTCC	1 cut(s)	599
Lsp1109I	GCAGC	3 cut(s)	99, 596, 660
LweI	GCATC	3 cut(s)	268, 366, 1045
MaeII	ACGT	1 cut(s)	91
MalI	GATC	3 cut(s)	120, 285, 856
MboI	GATC	3 cut(s)	118, 283, 854
MflI	RGATCY	1 cut(s)	283
MhlI	GDGCHC	2 cut(s)	72, 882
MluCI	AATT	3 cut(s)	185, 703, 1013
MlyI	GAGTC	2 cut(s)	33, 455
MnlI	CCTC	7 cut(s)	165, 318, 431, 534, 649, 676, 904
Mph1103I	ATGCAT	1 cut(s)	526
MroXI	GAANNNNTTC	1 cut(s)	186
MseI	TTAA	5 cut(s)	243, 329, 669, 698, 750
MslI	CAYNNNNRTG	1 cut(s)	212
MspA1I	CMGCKG	1 cut(s)	694
MspR9I	CCNGG	1 cut(s)	1037
MvaI	CCWGG	1 cut(s)	1037
MwoI	GCNNNNNNNGC	5 cut(s)	265, 550, 761, 770, 1037
NdeII	GATC	3 cut(s)	118, 283, 854
NlaIII	CATG	4 cut(s)	266, 341, 524, 847
NlaIV	GGNNCC	2 cut(s)	70, 545
NsiI	ATGCAT	1 cut(s)	526
NspI	RCATGY	1 cut(s)	524
PaeI	GCATGC	1 cut(s)	524
PaeR7I	CTCGAG	1 cut(s)	881
PagI	TCATGA	2 cut(s)	262, 337
PdmI	GAANNNNTTC	1 cut(s)	186
PfeI	GAWTC	1 cut(s)	144
PflMI	CCANNNNNTGG	1 cut(s)	229
PkrI	GCNGC	3 cut(s)	114, 586, 675
PleI	GAGTC	2 cut(s)	32, 454
PpsI	GAGTC	2 cut(s)	32, 454
Psp124BI	GAGCTC	1 cut(s)	882
Psp6I	CCWGG	1 cut(s)	1035
PspFI	CCCAGC	1 cut(s)	553
PspGI	CCWGG	1 cut(s)	1035
PspN4I	GGNNCC	2 cut(s)	70, 545
PspOMI	GGGCCC	1 cut(s)	68
PspPI	GGNCC	3 cut(s)	68, 69, 685
PspXI	VCTCGAGB	1 cut(s)	881
PstI	CTGCAG	1 cut(s)	303
PsuI	RGATCY	1 cut(s)	283
PvuII	CAGCTG	1 cut(s)	694
RsaI	GTAC	4 cut(s)	62, 137, 396, 887
RsaNI	GTAC	4 cut(s)	61, 136, 395, 886
RseI	CAYNNNNRTG	1 cut(s)	212
SacI	GAGCTC	1 cut(s)	882
SaqAI	TTAA	5 cut(s)	243, 329, 669, 698, 750
SatI	GCNGC	3 cut(s)	113, 585, 674
Sau3AI	GATC	3 cut(s)	118, 283, 854
Sau96I	GGNCC	3 cut(s)	68, 69, 685
SbfI	CCTGCAGG	1 cut(s)	303
SchI	GAGTC	2 cut(s)	33, 455
ScrFI	CCNGG	1 cut(s)	1037
SdaI	CCTGCAGG	1 cut(s)	303
SduI	GDGCHC	2 cut(s)	72, 882
SfaNI	GCATC	3 cut(s)	268, 366, 1045
SfcI	CTRYAG	2 cut(s)	177, 299
Sfr274I	CTCGAG	1 cut(s)	881
SlaI	CTCGAG	1 cut(s)	881
SmiMI	CAYNNNNRTG	1 cut(s)	212
SmlI	CTYRAG	1 cut(s)	881
SmoI	CTYRAG	1 cut(s)	881
SphI	GCATGC	1 cut(s)	524
Sse8387I	CCTGCAGG	1 cut(s)	303
Sse9I	AATT	3 cut(s)	185, 703, 1013
SsiI	CCGC	1 cut(s)	967
SspI	AATATT	1 cut(s)	384
SstI	GAGCTC	1 cut(s)	882
StyD4I	CCNGG	1 cut(s)	1035
StyI	CCWWGG	1 cut(s)	64
TaaI	ACNGT	4 cut(s)	530, 561, 792, 908
TaiI	ACGT	1 cut(s)	94
TaqI	TCGA	5 cut(s)	88, 441, 486, 882, 1083
TasI	AATT	3 cut(s)	185, 703, 1013
TatI	WGTACW	3 cut(s)	135, 394, 885
TfiI	GAWTC	1 cut(s)	144
Tru1I	TTAA	5 cut(s)	243, 329, 669, 698, 750
Tru9I	TTAA	5 cut(s)	243, 329, 669, 698, 750
TscAI	CASTG	3 cut(s)	202, 797, 913
TseI	GCWGC	3 cut(s)	112, 584, 673
TspDTI	ATGAA	7 cut(s)	196, 324, 326, 716, 827, 965, 969
TspRI	CASTG	3 cut(s)	202, 797, 913
Van91I	CCANNNNNTGG	1 cut(s)	229
XagI	CCTNNNNNAGG	1 cut(s)	425
XapI	RAATTY	3 cut(s)	185, 703, 1013
XceI	RCATGY	1 cut(s)	524
XhoI	CTCGAG	1 cut(s)	881
XmnI	GAANNNNTTC	1 cut(s)	186
Zsp2I	ATGCAT	1 cut(s)	526

Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.