Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr7B

Orthogroup ID

OG0005460

Physical Location & Seq

Genomic Coordinates Reverse (-)

54768359 .. 54772600

Gene Structure 4242 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh7BG461900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 762 bp

ATGGCCAACGTGGTTTACTTGTGTCGTACGTATACATCTGAAAGAGTTGCTGCAAAAGCCCCTCCGTTCCAAGGAAAAGCAATAGTCTTAGCTGATGTGTTACGAGAAAACACAGAAGCTGTTGTTGCAGCCTGTGATGCTGCCCAGGAAAGATGGGCAAAACTACTTGGGATGACAAAAATTAAGGCAGTTCTTGACCAAGAAGCATGGGTAGAAGTAGATGTTCCTGATGAATTCCTGTCTACATATGCTCCTGGAGCTGAAAAGAATAAGGCTGATGTTACAATTTCTGTGGCTCAGAACAGCCACAGCAATATGAAGGAGAGAGGAAAGTCAACTTCCAAAACCATTTTGTGCAAAGGTGTTGGTTTTCACATGATAATGGAATATGGTTATGGAAGATTCGAGATTTCCATATCTACTGTTCTTAACTCAGGCAAATTCATTTTTCTGAAAGTACCTGAGACAAGAAAGGCAATGTTGCCATCTGAAATTGATCAAGTAGCTCAGGGAGCTGGAATAGACCAGAAGATGCTGACCCACAGCCCAGTCAGTTTGCTTGATCACTTACCAAGGCAAGTGATTTTAATTTTTCATTCACAAATTCCAGAATCATTTTCACGCTTAGAGTTCAGCACACACCATAAGCCAAGTACAGATATTAAGGATGTCAAGAGCCAATTTCGGTCTATGCATTTCTCTTGCACAATTTTGATTGAGGACATTCATTCTGGATCAGCATTTGAGGTAATAATTGTCTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000139 GO:0000149 GO:0000938 GO:0001894 GO:0003674 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005737 GO:0005794 GO:0005802 GO:0006810 GO:0006892 GO:0006896 GO:0006996 GO:0007010 GO:0007034 GO:0007041 GO:0008150 GO:0009507 GO:0009536 GO:0009987 GO:0012505 GO:0016020 GO:0016043 GO:0016192 GO:0016197 GO:0016482 GO:0019905 GO:0031090 GO:0031410 GO:0031974 GO:0031981 GO:0031982 GO:0031984 GO:0032501 GO:0032588 GO:0032991 GO:0040008 GO:0042147 GO:0042592 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0044422 GO:0044424 GO:0044428 GO:0044431 GO:0044433 GO:0044444 GO:0044446 GO:0044464 GO:0045103 GO:0045104 GO:0046907 GO:0048193 GO:0048471 GO:0048871 GO:0048872 GO:0048873 GO:0050789 GO:0050879 GO:0050881 GO:0051179 GO:0051234 GO:0051641 GO:0051649 GO:0060052 GO:0060249 GO:0065007 GO:0065008 GO:0070013 GO:0071840 GO:0097708 GO:0098588 GO:0098791 GO:0099023

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Vps54

Protein Analysis

253

Amino Acids

28.09

Weight (kDa)

6.76

Isoelectric Point (pI)

39.78

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

Style Settings

Font Size (px)

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0005460)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G19490 AT4G19490
fragaria_vesca	FvH4_6g01010 FvH4_6g01010 FvH4_6g01010
malus_domestica	MD04G1237800.v1.1 MD12G1256000.v1.1
prunus_persica	Prupe.6G356900_v2.0.a1 Prupe.6G356900_v2.0.a1 Prupe.6G356900_v2.0.a1 Prupe.6G356900_v2.0.a1
pyrus_communis	pycom04g21100 pycom12g23480
rosa_chinensis	RchiOBHm_Chr3g0448451
rosa_laevigata	RLG00000000687 RLG00000025905
rosa_multiflora	Rmu_sc0003308.1_g000012 Rmu_sc0011979.1_g000005
rosa_roxburghii	Rroxscaffold_6G00426680
rosa_rugosa	Rorug02G0612500 Rorug02G0612600 Rorug02G0612600 Rorug07G0334800
rosa_samantha	Rh3AG012000 Rh3BG011800 Rh3CG011500 Rh3DG012200 Rh7BG461900
rosa_wichuraiana	Rw3G000930

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccI	GTMKAC	2 cut(s)	32, 242
AclWI	GGATC	1 cut(s)	742
AcoI	YGGCCR	1 cut(s)	3
AcsI	RAATTY	3 cut(s)	233, 440, 603
AfaI	GTAC	3 cut(s)	28, 459, 655
AfiI	CCNNNNNNNGG	1 cut(s)	71
AjnI	CCWGG	2 cut(s)	144, 253
AluBI	AGCT	5 cut(s)	92, 119, 260, 506, 515
AluI	AGCT	5 cut(s)	92, 119, 260, 506, 515
Alw26I	GTCTC	1 cut(s)	458
AlwI	GGATC	1 cut(s)	742
AlwNI	CAGNNNCTG	1 cut(s)	119
AoxI	GGCC	1 cut(s)	3
ApeKI	GCWGC	3 cut(s)	50, 128, 140
ApoI	RAATTY	3 cut(s)	233, 440, 603
BalI	TGGCCA	1 cut(s)	5
BbvI	GCAGC	3 cut(s)	37, 127, 140
BccI	CCATC	2 cut(s)	147, 493
BciT130I	CCWGG	2 cut(s)	146, 255
BclI	TGATCA	2 cut(s)	496, 562
BcoDI	GTCTC	1 cut(s)	458
BisI	GCNGC	3 cut(s)	51, 129, 141
BlsI	GCNGC	3 cut(s)	52, 130, 142
Bme1390I	CCNGG	2 cut(s)	146, 255
BmrFI	CCNGG	2 cut(s)	146, 255
BmrI	ACTGGG	1 cut(s)	542
BmsI	GCATC	2 cut(s)	127, 522
BmuI	ACTGGG	1 cut(s)	542
BpmI	CTGGAG	1 cut(s)	276
Bpu10I	CCTNAGC	1 cut(s)	507
BsaAI	YACGTR	1 cut(s)	30
BsaJI	CCNNGG	3 cut(s)	70, 144, 572
BsaXI	ACNNNNNCTCC	2 cut(s)	235, 265
Bsc4I	CCNNNNNNNGG	1 cut(s)	71
Bse1I	ACTGG	1 cut(s)	548
Bse3DI	GCAATG	1 cut(s)	483
BseBI	CCWGG	2 cut(s)	146, 255
BseDI	CCNNGG	3 cut(s)	70, 144, 572
BseGI	GGATG	2 cut(s)	177, 673
BseLI	CCNNNNNNNGG	1 cut(s)	71
BseMI	GCAATG	1 cut(s)	483
BseMII	CTCAG	4 cut(s)	311, 447, 453, 521
BseNI	ACTGG	1 cut(s)	548
BseXI	GCAGC	3 cut(s)	37, 127, 140
BshFI	GGCC	1 cut(s)	5
BsiWI	CGTACG	1 cut(s)	26
BslI	CCNNNNNNNGG	1 cut(s)	71
BsmAI	GTCTC	1 cut(s)	458
BsnI	GGCC	1 cut(s)	5
Bsp143I	GATC	3 cut(s)	496, 562, 734
BspANI	GGCC	1 cut(s)	5
BspCNI	CTCAG	4 cut(s)	310, 446, 454, 520
BspPI	GGATC	1 cut(s)	742
BsrDI	GCAATG	1 cut(s)	483
BsrI	ACTGG	1 cut(s)	548
BssECI	CCNNGG	3 cut(s)	70, 144, 572
BssMI	GATC	3 cut(s)	496, 562, 734
BssNAI	GTATAC	1 cut(s)	33
BssT1I	CCWWGG	2 cut(s)	70, 572
Bst1107I	GTATAC	1 cut(s)	33
Bst2UI	CCWGG	2 cut(s)	146, 255
Bst4CI	ACNGT	1 cut(s)	424
BstBAI	YACGTR	1 cut(s)	30
BstDEI	CTNAG	6 cut(s)	88, 297, 433, 462, 507, 625
BstF5I	GGATG	2 cut(s)	177, 673
BstKTI	GATC	3 cut(s)	499, 565, 737
BstMAI	GTCTC	1 cut(s)	458
BstMBI	GATC	3 cut(s)	496, 562, 734
BstMWI	GCNNNNNNNGC	5 cut(s)	56, 125, 137, 257, 512
BstNI	CCWGG	2 cut(s)	146, 255
BstSCI	CCNGG	2 cut(s)	144, 253
BstSNI	TACGTA	1 cut(s)	30
BstV1I	GCAGC	3 cut(s)	37, 127, 140
BstZ17I	GTATAC	1 cut(s)	33
BsuRI	GGCC	1 cut(s)	5
BtsCI	GGATG	2 cut(s)	177, 673
CaiI	CAGNNNCTG	1 cut(s)	119
Csp6I	GTAC	3 cut(s)	27, 458, 654
CspCI	CAANNNNNGTGG	2 cut(s)	273, 308
CviAII	CATG	2 cut(s)	207, 376
CviQI	GTAC	3 cut(s)	27, 458, 654
DdeI	CTNAG	6 cut(s)	88, 297, 433, 462, 507, 625
DpnI	GATC	3 cut(s)	498, 564, 736
DpnII	GATC	3 cut(s)	496, 562, 734
EaeI	YGGCCR	1 cut(s)	3
Eco105I	TACGTA	1 cut(s)	30
Eco130I	CCWWGG	2 cut(s)	70, 572
EcoRI	GAATTC	1 cut(s)	233
EcoRII	CCWGG	2 cut(s)	144, 253
EcoT14I	CCWWGG	2 cut(s)	70, 572
EcoT22I	ATGCAT	1 cut(s)	696
ErhI	CCWWGG	2 cut(s)	70, 572
FaeI	CATG	2 cut(s)	210, 379
FatI	CATG	2 cut(s)	206, 375
FauNDI	CATATG	1 cut(s)	247
FbaI	TGATCA	2 cut(s)	496, 562
FblI	GTMKAC	2 cut(s)	32, 242
Fnu4HI	GCNGC	3 cut(s)	51, 129, 141
FokI	GGATG	2 cut(s)	184, 680
Fsp4HI	GCNGC	3 cut(s)	51, 129, 141
GluI	GCNGC	3 cut(s)	51, 129, 141
GsuI	CTGGAG	1 cut(s)	276
HaeIII	GGCC	1 cut(s)	5
Hin1II	CATG	2 cut(s)	210, 379
HincII	GTYRAC	1 cut(s)	336
HindII	GTYRAC	1 cut(s)	336
HinfI	GANTC	2 cut(s)	402, 611
Hpy166II	GTNNAC	4 cut(s)	16, 33, 243, 336
Hpy188I	TCNGA	4 cut(s)	40, 300, 453, 490
Hpy188III	TCNNGA	6 cut(s)	194, 227, 406, 608, 673, 732
Hpy8I	GTNNAC	4 cut(s)	16, 33, 243, 336
HpyAV	CCTTC	1 cut(s)	313
HpyCH4III	ACNGT	1 cut(s)	424
HpyCH4IV	ACGT	2 cut(s)	9, 29
HpyCH4V	TGCA	5 cut(s)	53, 128, 357, 694, 705
HpyF10VI	GCNNNNNNNGC	5 cut(s)	56, 125, 137, 257, 512
HpyF3I	CTNAG	6 cut(s)	88, 297, 433, 462, 507, 625
HpySE526I	ACGT	2 cut(s)	9, 29
Hsp92II	CATG	2 cut(s)	210, 379
Ksp22I	TGATCA	2 cut(s)	496, 562
Kzo9I	GATC	3 cut(s)	496, 562, 734
LmnI	GCTCC	3 cut(s)	256, 257, 512
Lsp1109I	GCAGC	3 cut(s)	37, 127, 140
LweI	GCATC	2 cut(s)	127, 522
MaeII	ACGT	2 cut(s)	9, 29
MaeIII	GTNAC	2 cut(s)	99, 280
MalI	GATC	3 cut(s)	498, 564, 736
MboI	GATC	3 cut(s)	496, 562, 734
MboII	GAAGA	2 cut(s)	411, 541
MlsI	TGGCCA	1 cut(s)	5
MluNI	TGGCCA	1 cut(s)	5
MnlI	CCTC	4 cut(s)	72, 320, 712, 739
Mox20I	TGGCCA	1 cut(s)	5
Mph1103I	ATGCAT	1 cut(s)	696
MscI	TGGCCA	1 cut(s)	5
MseI	TTAA	4 cut(s)	183, 429, 587, 663
MslI	CAYNNNNRTG	1 cut(s)	380
Msp20I	TGGCCA	1 cut(s)	5
MspR9I	CCNGG	2 cut(s)	146, 255
MvaI	CCWGG	2 cut(s)	146, 255
MwoI	GCNNNNNNNGC	5 cut(s)	56, 125, 137, 257, 512
NdeI	CATATG	1 cut(s)	247
NdeII	GATC	3 cut(s)	496, 562, 734
NlaIII	CATG	2 cut(s)	210, 379
NsiI	ATGCAT	1 cut(s)	696
PfeI	GAWTC	2 cut(s)	402, 611
Pfl23II	CGTACG	1 cut(s)	26
PfoI	TCCNGGA	1 cut(s)	253
PkrI	GCNGC	3 cut(s)	52, 130, 142
Ppu21I	YACGTR	1 cut(s)	30
Psp6I	CCWGG	2 cut(s)	144, 253
PspGI	CCWGG	2 cut(s)	144, 253
PspLI	CGTACG	1 cut(s)	26
PstNI	CAGNNNCTG	1 cut(s)	119
RsaI	GTAC	3 cut(s)	28, 459, 655
RsaNI	GTAC	3 cut(s)	27, 458, 654
RseI	CAYNNNNRTG	1 cut(s)	380
SaqAI	TTAA	4 cut(s)	183, 429, 587, 663
SatI	GCNGC	3 cut(s)	51, 129, 141
Sau3AI	GATC	3 cut(s)	496, 562, 734
ScrFI	CCNGG	2 cut(s)	146, 255
SfaNI	GCATC	2 cut(s)	127, 522
SmiMI	CAYNNNNRTG	1 cut(s)	380
SnaBI	TACGTA	1 cut(s)	30
StyD4I	CCNGG	2 cut(s)	144, 253
StyI	CCWWGG	2 cut(s)	70, 572
TaaI	ACNGT	1 cut(s)	424
TaiI	ACGT	2 cut(s)	12, 32
TaqI	TCGA	1 cut(s)	405
TaqII	GACCGA	1 cut(s)	675
TatI	WGTACW	1 cut(s)	653
TfiI	GAWTC	2 cut(s)	402, 611
Tru1I	TTAA	4 cut(s)	183, 429, 587, 663
Tru9I	TTAA	4 cut(s)	183, 429, 587, 663
TseI	GCWGC	3 cut(s)	50, 128, 140
TspDTI	ATGAA	5 cut(s)	246, 332, 433, 584, 716
TspGWI	ACGGA	1 cut(s)	54
XapI	RAATTY	3 cut(s)	233, 440, 603
XmiI	GTMKAC	2 cut(s)	32, 242
Zsp2I	ATGCAT	1 cut(s)	696

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