Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1D

Orthogroup ID

OG0010556

Physical Location & Seq

Genomic Coordinates Reverse (-)

46308764 .. 46310461

Gene Structure 1698 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1DG248900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 528 bp

ATGGTGGAGCTTCACCTGGTGAAGGAGATCTCAGTCCGATCAAACTCCTTCTTCGAGGCTCAGAGCCAGTTGCAGGATTTGAATGTGAAGATCGTTGAGGGATGCAATCAGATTCGGGAGCTTAAGGAGACCATTTTGCTGTTGGATGTGGATTTGGTGGACTCTGCGAGGCAGATTCAGGAGGTCAATGTTACCAGGAGTAATTTGTTGGCTCTTCAACAGAAGCTGAGGCTGATTCTCTATGTCAATCAAGCTCTTTCGGTTCTCAAACTGCTTGTTGCCTCTGCAGATTGTGCTGGAGCTTTGGATGTCACAGACGACCTACAACATTTGCTGGTGTTTGTGTTGAATATAGATACTAGAAGATTATTCTCACTGTGTGTTTCTGATCCACCGTCTTCCCTGTCTTCCCTTAGTCCCAAAATCTTTTTGTACAGTCTTTCAATTACTCAATTGAGTTTTCTCTGTTTATCTAATGCCATACTGTTTGTGTTGAATAGAGATACCAGAAGATTATTCTCACTGTGA

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

175

Amino Acids

19.67

Weight (kDa)

5.65

Isoelectric Point (pI)

41.42

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

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0010556)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_4g15181 FvH4_4g15480 FvH4_5g17630
rosa_chinensis	RchiOBHm_Chr2g0113461
rosa_laevigata	RLG00000000521 RLG00000000923 RLG00000000924 RLG00000020750
rosa_multiflora	Rmu_co8349827.1_g000001 Rmu_sc0001954.1_g000005 Rmu_sc0007873.1_g000007 Rmu_sc0008698.1_g000012
rosa_roxburghii	Rroxscaffold_4G00301430 Rroxscaffold_4G00329220
rosa_samantha	Rh1BG222200 Rh1DG248900 Rh2CG246400 Rh3BG312200 Rh4AG022700
rosa_wichuraiana	Rw2G029940 Rw4G001600

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AclWI	GGATC	1 cut(s)	383
AdeI	CACNNNGTG	2 cut(s)	19, 380
AfaI	GTAC	1 cut(s)	434
AfiI	CCNNNNNNNGG	2 cut(s)	22, 73
AflII	CTTAAG	1 cut(s)	122
AgsI	TTSAA	5 cut(s)	82, 218, 349, 444, 496
AjnI	CCWGG	2 cut(s)	15, 194
AluBI	AGCT	5 cut(s)	10, 121, 226, 254, 302
AluI	AGCT	5 cut(s)	10, 121, 226, 254, 302
Alw26I	GTCTC	1 cut(s)	122
AlwI	GGATC	1 cut(s)	383
AlwNI	CAGNNNCTG	1 cut(s)	226
AsuHPI	GGTGA	2 cut(s)	5, 31
BbsI	GAAGAC	2 cut(s)	390, 399
BbvCI	CCTCAGC	1 cut(s)	227
BciT130I	CCWGG	2 cut(s)	17, 196
BcoDI	GTCTC	1 cut(s)	122
BfaI	CTAG	1 cut(s)	360
BfmI	CTRYAG	1 cut(s)	285
BfrI	CTTAAG	1 cut(s)	122
BglII	AGATCT	1 cut(s)	27
Bme1390I	CCNGG	2 cut(s)	17, 196
BmrFI	CCNGG	2 cut(s)	17, 196
BmsI	GCATC	1 cut(s)	92
BpiI	GAAGAC	2 cut(s)	390, 399
BpmI	CTGGAG	1 cut(s)	318
Bpu10I	CCTNAGC	1 cut(s)	227
BsaI	GGTCTC	1 cut(s)	122
Bsc4I	CCNNNNNNNGG	2 cut(s)	22, 73
Bse1I	ACTGG	1 cut(s)	67
BseBI	CCWGG	2 cut(s)	17, 196
BseGI	GGATG	3 cut(s)	107, 151, 313
BseLI	CCNNNNNNNGG	2 cut(s)	22, 73
BseMII	CTCAG	3 cut(s)	45, 74, 218
BseNI	ACTGG	1 cut(s)	67
BslFI	GGGAC	1 cut(s)	402
BslI	CCNNNNNNNGG	2 cut(s)	22, 73
BsmAI	GTCTC	1 cut(s)	122
BsmFI	GGGAC	1 cut(s)	402
Bso31I	GGTCTC	1 cut(s)	122
Bsp1407I	TGTACA	1 cut(s)	432
Bsp143I	GATC	4 cut(s)	27, 38, 90, 388
BspCNI	CTCAG	3 cut(s)	44, 73, 219
BspMAI	CTGCAG	1 cut(s)	289
BspPI	GGATC	1 cut(s)	383
BspQI	GCTCTTC	1 cut(s)	219
BspTI	CTTAAG	1 cut(s)	122
BspTNI	GGTCTC	1 cut(s)	122
BsrGI	TGTACA	1 cut(s)	432
BsrI	ACTGG	1 cut(s)	67
BssMI	GATC	4 cut(s)	27, 38, 90, 388
Bst2UI	CCWGG	2 cut(s)	17, 196
Bst4CI	ACNGT	5 cut(s)	378, 396, 437, 486, 525
Bst6I	CTCTTC	1 cut(s)	219
BstAFI	CTTAAG	1 cut(s)	122
BstAPI	GCANNNNNTGC	1 cut(s)	293
BstAUI	TGTACA	1 cut(s)	432
BstDEI	CTNAG	4 cut(s)	31, 60, 227, 413
BstENI	CCTNNNNNAGG	1 cut(s)	20
BstF5I	GGATG	3 cut(s)	107, 151, 313
BstKTI	GATC	4 cut(s)	30, 41, 93, 391
BstMAI	GTCTC	1 cut(s)	122
BstMBI	GATC	4 cut(s)	27, 38, 90, 388
BstMWI	GCNNNNNNNGC	1 cut(s)	293
BstNI	CCWGG	2 cut(s)	17, 196
BstSCI	CCNGG	2 cut(s)	15, 194
BstSFI	CTRYAG	1 cut(s)	285
BstV2I	GAAGAC	2 cut(s)	390, 399
BstX2I	RGATCY	1 cut(s)	27
BstYI	RGATCY	1 cut(s)	27
BtsCI	GGATG	3 cut(s)	107, 151, 313
BtsIMutI	CAGTG	2 cut(s)	374, 521
CaiI	CAGNNNCTG	1 cut(s)	226
CsiI	ACCWGGT	1 cut(s)	15
Csp6I	GTAC	1 cut(s)	433
CviJI	RGCY	9 cut(s)	10, 59, 66, 121, 212, 226, 232, 254, 302
CviKI_1	RGCY	9 cut(s)	10, 59, 66, 121, 212, 226, 232, 254, 302
CviQI	GTAC	1 cut(s)	433
DdeI	CTNAG	4 cut(s)	31, 60, 227, 413
DpnI	GATC	4 cut(s)	29, 40, 92, 390
DpnII	GATC	4 cut(s)	27, 38, 90, 388
DraIII	CACNNNGTG	2 cut(s)	19, 380
Eam1104I	CTCTTC	1 cut(s)	219
EarI	CTCTTC	1 cut(s)	219
Eco31I	GGTCTC	1 cut(s)	122
EcoNI	CCTNNNNNAGG	1 cut(s)	20
EcoRII	CCWGG	2 cut(s)	15, 194
FaiI	YATR	3 cut(s)	243, 353, 482
FaqI	GGGAC	1 cut(s)	402
FokI	GGATG	3 cut(s)	114, 158, 320
FspBI	CTAG	1 cut(s)	360
GsuI	CTGGAG	1 cut(s)	318
HinfI	GANTC	4 cut(s)	112, 161, 175, 235
HphI	GGTGA	2 cut(s)	5, 31
Hpy166II	GTNNAC	1 cut(s)	160
Hpy188I	TCNGA	4 cut(s)	38, 63, 111, 388
Hpy188III	TCNNGA	2 cut(s)	116, 179
Hpy8I	GTNNAC	1 cut(s)	160
HpyAV	CCTTC	2 cut(s)	16, 58
HpyCH4III	ACNGT	5 cut(s)	378, 396, 437, 486, 525
HpyCH4V	TGCA	3 cut(s)	73, 105, 287
HpyF10VI	GCNNNNNNNGC	1 cut(s)	293
HpyF3I	CTNAG	4 cut(s)	31, 60, 227, 413
Kzo9I	GATC	4 cut(s)	27, 38, 90, 388
LguI	GCTCTTC	1 cut(s)	219
LmnI	GCTCC	3 cut(s)	7, 118, 299
LweI	GCATC	1 cut(s)	92
MabI	ACCWGGT	1 cut(s)	15
MaeI	CTAG	1 cut(s)	360
MaeIII	GTNAC	2 cut(s)	190, 310
MalI	GATC	4 cut(s)	29, 40, 92, 390
MboI	GATC	4 cut(s)	27, 38, 90, 388
MboII	GAAGA	7 cut(s)	43, 100, 206, 375, 390, 399, 522
MfeI	CAATTG	1 cut(s)	452
MflI	RGATCY	1 cut(s)	27
MluCI	AATT	3 cut(s)	202, 444, 452
MlyI	GAGTC	1 cut(s)	155
MmeI	TCCRAC	1 cut(s)	123
MnlI	CCTC	6 cut(s)	49, 91, 162, 175, 222, 292
MseI	TTAA	1 cut(s)	123
MspCI	CTTAAG	1 cut(s)	122
MspR9I	CCNGG	2 cut(s)	17, 196
MunI	CAATTG	1 cut(s)	452
MvaI	CCWGG	2 cut(s)	17, 196
MwoI	GCNNNNNNNGC	1 cut(s)	293
NdeII	GATC	4 cut(s)	27, 38, 90, 388
NmuCI	GTSAC	1 cut(s)	310
PciSI	GCTCTTC	1 cut(s)	219
PfeI	GAWTC	3 cut(s)	112, 175, 235
PleI	GAGTC	1 cut(s)	155
PpsI	GAGTC	1 cut(s)	155
Psp6I	CCWGG	2 cut(s)	15, 194
PspGI	CCWGG	2 cut(s)	15, 194
PstI	CTGCAG	1 cut(s)	289
PstNI	CAGNNNCTG	1 cut(s)	226
PsuI	RGATCY	1 cut(s)	27
RsaI	GTAC	1 cut(s)	434
RsaNI	GTAC	1 cut(s)	433
SapI	GCTCTTC	1 cut(s)	219
SaqAI	TTAA	1 cut(s)	123
Sau3AI	GATC	4 cut(s)	27, 38, 90, 388
SchI	GAGTC	1 cut(s)	155
ScrFI	CCNGG	2 cut(s)	17, 196
SetI	ASST	8 cut(s)	12, 18, 123, 186, 228, 256, 304, 324
SexAI	ACCWGGT	1 cut(s)	15
SfaNI	GCATC	1 cut(s)	92
SfcI	CTRYAG	1 cut(s)	285
SmlI	CTYRAG	1 cut(s)	122
SmoI	CTYRAG	1 cut(s)	122
Sse9I	AATT	3 cut(s)	202, 444, 452
SspMI	CTAG	1 cut(s)	360
StyD4I	CCNGG	2 cut(s)	15, 194
TaaI	ACNGT	5 cut(s)	378, 396, 437, 486, 525
TaqI	TCGA	1 cut(s)	54
TasI	AATT	3 cut(s)	202, 444, 452
TatI	WGTACW	1 cut(s)	432
TfiI	GAWTC	3 cut(s)	112, 175, 235
Tru1I	TTAA	1 cut(s)	123
Tru9I	TTAA	1 cut(s)	123
TscAI	CASTG	2 cut(s)	381, 528
TseFI	GTSAC	1 cut(s)	310
Tsp45I	GTSAC	1 cut(s)	310
TspRI	CASTG	2 cut(s)	381, 528
Vha464I	CTTAAG	1 cut(s)	122
XagI	CCTNNNNNAGG	1 cut(s)	20
XcmI	CCANNNNNNNNNTGG	1 cut(s)	139
XspI	CTAG	1 cut(s)	360

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