Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000006

Orthogroup ID

OG0021481

Physical Location & Seq

Genomic Coordinates Forward (+)

47391890 .. 47394213

Gene Structure 2324 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_6G00426720.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 834 bp

ATGGAGCTGGGTGAGTTTCACTGTGAAGGAGACGAAGACGAGGAGTTGGAAATGATTTGTTGCAAGATTGAGAATTATACTGGTATGGGTGGTCTCCTTGTTCAAGGGATTGAGAACAGACCCAAAGGGAACATGGATATAGTGATCGACCAGGATCATGGTGATTTGCCAGCTATCGATCATGGTGATTTGCTAGCTATGTACCAAAAGTATGTGGTATTGCAGGTATCTGGTCTGAAGTCGATCACTTCTAAACACTTGGCCTTGGCAAGTCAAGTCATCAGTTTTACATATGCTATTATTCCTGAACTCAGGCAAATTCTTTTTCTGATAGTACCTGAGACAAGAAAGGCAATATTGCTATCTGAAATTGATCGAGTAGCTCAGGATTATAAGGTTCATAGAGATGAAATACATACAAAGCTGGTTCAGATCATGAGAGAAAGGTTATTGGTTCATCTACGTGGGTTGCCTCAAATTGTAGAGAGCTGGAATAGACCAGAAGATGCTGACCTACGGCCCAGTCAGTTTGCTCGATCGCTTACCAAGGAAGTTGGATACTTGCAAAGTGTTCTAACTCGAACTTTACATGAGGTCGATGTTCAAGCAATTTTCAGGCAAGTGATTATAATTTTTCATTCACAAATTTCAGAAGCATTTTCACGCTTAGAGATCAGCACACCACAAGCCAAGGTCAGGCTCTGTCGTGATGTTAAGCACATTCTTGGATGCATTCGATCTTTGCCTACTGATAAACTGAGTGAATCTGGTACGCCAAACTGGGGTCAACTAGATGAATTCTTGGTGCAGAGATTTGGTTCAGAAGCTAGTTGA

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

277

Amino Acids

31.51

Weight (kDa)

5.5

Isoelectric Point (pI)

42.42

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Vps54	PF07928	74 - 149	2.5e-22	Vps54-like 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: OG0021481)

Species	Orthologous Gene IDs
rosa_chinensis	RchiOBHm_Chr7g0240301
rosa_multiflora	Rmu_sc0007766.1_g000001
rosa_roxburghii	Rroxscaffold_3G00220230 Rroxscaffold_6G00426720
rosa_samantha	Rh1DG116500

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	2 cut(s)	393, 629
Acc36I	ACCTGC	1 cut(s)	214
AclWI	GGATC	1 cut(s)	162
AcsI	RAATTY	3 cut(s)	318, 645, 797
AcuI	CTGAAG	1 cut(s)	257
AfaI	GTAC	3 cut(s)	203, 336, 772
AfiI	CCNNNNNNNGG	2 cut(s)	696, 782
AgsI	TTSAA	2 cut(s)	104, 605
AjnI	CCWGG	1 cut(s)	150
AluBI	AGCT	7 cut(s)	7, 173, 197, 383, 424, 489, 827
AluI	AGCT	7 cut(s)	7, 173, 197, 383, 424, 489, 827
Alw26I	GTCTC	3 cut(s)	24, 98, 335
AlwI	GGATC	1 cut(s)	162
AlwNI	CAGNNNCTG	1 cut(s)	702
AoxI	GGCC	2 cut(s)	261, 518
ApoI	RAATTY	3 cut(s)	318, 645, 797
AspS9I	GGNCC	1 cut(s)	519
AsuHPI	GGTGA	3 cut(s)	23, 173, 197
AsuNHI	GCTAGC	1 cut(s)	193
BbsI	GAAGAC	1 cut(s)	42
BceAI	ACGGC	1 cut(s)	533
BciT130I	CCWGG	1 cut(s)	152
BciVI	GTATCC	1 cut(s)	551
BcoDI	GTCTC	3 cut(s)	24, 98, 335
BfaI	CTAG	3 cut(s)	194, 791, 828
BfuAI	ACCTGC	1 cut(s)	214
BfuI	GTATCC	1 cut(s)	551
Bme1390I	CCNGG	1 cut(s)	152
BmgT120I	GGNCC	1 cut(s)	519
BmrFI	CCNGG	1 cut(s)	152
BmrI	ACTGGG	2 cut(s)	516, 790
BmsI	GCATC	2 cut(s)	496, 719
BmtI	GCTAGC	1 cut(s)	197
BmuI	ACTGGG	2 cut(s)	516, 790
BpiI	GAAGAC	1 cut(s)	42
Bpu10I	CCTNAGC	1 cut(s)	384
Bsa29I	ATCGAT	1 cut(s)	177
BsaAI	YACGTR	1 cut(s)	464
BsaI	GGTCTC	1 cut(s)	98
BsaJI	CCNNGG	3 cut(s)	264, 546, 690
Bsc4I	CCNNNNNNNGG	2 cut(s)	696, 782
Bse1I	ACTGG	3 cut(s)	85, 522, 785
BseBI	CCWGG	1 cut(s)	152
BseCI	ATCGAT	1 cut(s)	177
BseDI	CCNNGG	3 cut(s)	264, 546, 690
BseGI	GGATG	1 cut(s)	734
BseLI	CCNNNNNNNGG	2 cut(s)	696, 782
BseMII	CTCAG	4 cut(s)	325, 330, 398, 749
BseNI	ACTGG	3 cut(s)	85, 522, 785
BseRI	GAGGAG	1 cut(s)	56
BseYI	CCCAGC	1 cut(s)	7
BsgI	GTGCAG	1 cut(s)	827
Bsh1285I	CGRYCG	1 cut(s)	539
BshFI	GGCC	2 cut(s)	263, 520
BshVI	ATCGAT	1 cut(s)	177
BsiEI	CGRYCG	1 cut(s)	539
BslI	CCNNNNNNNGG	2 cut(s)	696, 782
BsmAI	GTCTC	3 cut(s)	24, 98, 335
BsmBI	CGTCTC	1 cut(s)	24
BsmI	GAATGC	1 cut(s)	732
BsnI	GGCC	2 cut(s)	263, 520
Bso31I	GGTCTC	1 cut(s)	98
Bsp143I	GATC	9 cut(s)	144, 154, 178, 243, 373, 432, 536, 672, 737
BspANI	GGCC	2 cut(s)	263, 520
BspCNI	CTCAG	4 cut(s)	324, 331, 397, 750
BspDI	ATCGAT	1 cut(s)	177
BspHI	TCATGA	1 cut(s)	435
BspMI	ACCTGC	1 cut(s)	214
BspOI	GCTAGC	1 cut(s)	197
BspPI	GGATC	1 cut(s)	162
BspTNI	GGTCTC	1 cut(s)	98
BsrI	ACTGG	3 cut(s)	85, 522, 785
BssECI	CCNNGG	3 cut(s)	264, 546, 690
BssMI	GATC	9 cut(s)	144, 154, 178, 243, 373, 432, 536, 672, 737
BssT1I	CCWWGG	3 cut(s)	264, 546, 690
Bst2UI	CCWGG	1 cut(s)	152
Bst4CI	ACNGT	1 cut(s)	23
BstBAI	YACGTR	1 cut(s)	464
BstC8I	GCNNGC	2 cut(s)	171, 195
BstDEI	CTNAG	5 cut(s)	311, 339, 384, 667, 758
BstF5I	GGATG	1 cut(s)	734
BstKTI	GATC	9 cut(s)	147, 157, 181, 246, 376, 435, 539, 675, 740
BstMAI	GTCTC	3 cut(s)	24, 98, 335
BstMBI	GATC	9 cut(s)	144, 154, 178, 243, 373, 432, 536, 672, 737
BstMCI	CGRYCG	1 cut(s)	539
BstNI	CCWGG	1 cut(s)	152
BstSCI	CCNGG	1 cut(s)	150
BstV2I	GAAGAC	1 cut(s)	42
BstXI	CCANNNNNNTGG	1 cut(s)	158
Bsu15I	ATCGAT	1 cut(s)	177
BsuI	GTATCC	1 cut(s)	551
BsuRI	GGCC	2 cut(s)	263, 520
BsuTUI	ATCGAT	1 cut(s)	177
BtsCI	GGATG	1 cut(s)	734
BtsIMutI	CAGTG	1 cut(s)	19
BveI	ACCTGC	1 cut(s)	214
Cac8I	GCNNGC	2 cut(s)	171, 195
CaiI	CAGNNNCTG	1 cut(s)	702
CciI	TCATGA	1 cut(s)	435
Cfr13I	GGNCC	1 cut(s)	519
ClaI	ATCGAT	1 cut(s)	177
Csp6I	GTAC	3 cut(s)	202, 335, 771
CviAII	CATG	5 cut(s)	133, 158, 182, 436, 590
CviQI	GTAC	3 cut(s)	202, 335, 771
DdeI	CTNAG	5 cut(s)	311, 339, 384, 667, 758
DpnI	GATC	9 cut(s)	146, 156, 180, 245, 375, 434, 538, 674, 739
DpnII	GATC	9 cut(s)	144, 154, 178, 243, 373, 432, 536, 672, 737
Eco130I	CCWWGG	3 cut(s)	264, 546, 690
Eco31I	GGTCTC	1 cut(s)	98
Eco57I	CTGAAG	1 cut(s)	257
EcoRI	GAATTC	1 cut(s)	797
EcoRII	CCWGG	1 cut(s)	150
EcoT14I	CCWWGG	3 cut(s)	264, 546, 690
EcoT22I	ATGCAT	1 cut(s)	734
ErhI	CCWWGG	3 cut(s)	264, 546, 690
Esp3I	CGTCTC	1 cut(s)	24
FaeI	CATG	5 cut(s)	136, 161, 185, 439, 593
FatI	CATG	5 cut(s)	132, 157, 181, 435, 589
FauNDI	CATATG	1 cut(s)	292
FokI	GGATG	1 cut(s)	741
FspBI	CTAG	3 cut(s)	194, 791, 828
GsaI	CCCAGC	1 cut(s)	11
HaeIII	GGCC	2 cut(s)	263, 520
Hin1II	CATG	5 cut(s)	136, 161, 185, 439, 593
HincII	GTYRAC	1 cut(s)	788
HindII	GTYRAC	1 cut(s)	788
HinfI	GANTC	1 cut(s)	764
HphI	GGTGA	3 cut(s)	23, 173, 197
Hpy166II	GTNNAC	1 cut(s)	788
Hpy188I	TCNGA	6 cut(s)	237, 330, 367, 432, 652, 823
Hpy188III	TCNNGA	4 cut(s)	305, 386, 436, 707
Hpy8I	GTNNAC	1 cut(s)	788
HpyAV	CCTTC	1 cut(s)	20
HpyCH4III	ACNGT	1 cut(s)	23
HpyCH4IV	ACGT	1 cut(s)	463
HpyCH4V	TGCA	5 cut(s)	63, 223, 565, 732, 808
HpyF3I	CTNAG	5 cut(s)	311, 339, 384, 667, 758
HpySE526I	ACGT	1 cut(s)	463
Hsp92II	CATG	5 cut(s)	136, 161, 185, 439, 593
Kzo9I	GATC	9 cut(s)	144, 154, 178, 243, 373, 432, 536, 672, 737
LmnI	GCTCC	1 cut(s)	4
LweI	GCATC	2 cut(s)	496, 719
MaeI	CTAG	3 cut(s)	194, 791, 828
MaeII	ACGT	1 cut(s)	463
MalI	GATC	9 cut(s)	146, 156, 180, 245, 375, 434, 538, 674, 739
MboI	GATC	9 cut(s)	144, 154, 178, 243, 373, 432, 536, 672, 737
MboII	GAAGA	2 cut(s)	47, 515
MluCI	AATT	8 cut(s)	73, 318, 369, 477, 609, 630, 645, 797
MmeI	TCCRAC	2 cut(s)	27, 535
MnlI	CCTC	3 cut(s)	34, 483, 586
Mph1103I	ATGCAT	1 cut(s)	734
MseI	TTAA	1 cut(s)	714
MslI	CAYNNNNRTG	2 cut(s)	405, 462
MspR9I	CCNGG	1 cut(s)	152
Mva1269I	GAATGC	1 cut(s)	732
MvaI	CCWGG	1 cut(s)	152
NdeI	CATATG	1 cut(s)	292
NdeII	GATC	9 cut(s)	144, 154, 178, 243, 373, 432, 536, 672, 737
NheI	GCTAGC	1 cut(s)	193
NlaIII	CATG	5 cut(s)	136, 161, 185, 439, 593
NsiI	ATGCAT	1 cut(s)	734
PagI	TCATGA	1 cut(s)	435
PctI	GAATGC	1 cut(s)	732
PfeI	GAWTC	1 cut(s)	764
Ple19I	CGATCG	1 cut(s)	539
Ppu21I	YACGTR	1 cut(s)	464
PsiI	TTATAA	2 cut(s)	393, 629
Psp6I	CCWGG	1 cut(s)	150
PspFI	CCCAGC	1 cut(s)	7
PspGI	CCWGG	1 cut(s)	150
PspPI	GGNCC	1 cut(s)	519
PstNI	CAGNNNCTG	1 cut(s)	702
PvuI	CGATCG	1 cut(s)	539
RsaI	GTAC	3 cut(s)	203, 336, 772
RsaNI	GTAC	3 cut(s)	202, 335, 771
RseI	CAYNNNNRTG	2 cut(s)	405, 462
SaqAI	TTAA	1 cut(s)	714
Sau3AI	GATC	9 cut(s)	144, 154, 178, 243, 373, 432, 536, 672, 737
Sau96I	GGNCC	1 cut(s)	519
ScrFI	CCNGG	1 cut(s)	152
SfaNI	GCATC	2 cut(s)	496, 719
SmiMI	CAYNNNNRTG	2 cut(s)	405, 462
Sse9I	AATT	8 cut(s)	73, 318, 369, 477, 609, 630, 645, 797
SspI	AATATT	1 cut(s)	357
SspMI	CTAG	3 cut(s)	194, 791, 828
StyD4I	CCNGG	1 cut(s)	150
StyI	CCWWGG	3 cut(s)	264, 546, 690
TaaI	ACNGT	1 cut(s)	23
TaiI	ACGT	1 cut(s)	466
TaqI	TCGA	8 cut(s)	147, 177, 242, 376, 535, 580, 597, 736
TasI	AATT	8 cut(s)	73, 318, 369, 477, 609, 630, 645, 797
TfiI	GAWTC	1 cut(s)	764
Tru1I	TTAA	1 cut(s)	714
Tru9I	TTAA	1 cut(s)	714
TscAI	CASTG	1 cut(s)	26
TspDTI	ATGAA	5 cut(s)	389, 423, 446, 626, 810
TspRI	CASTG	1 cut(s)	26
XapI	RAATTY	3 cut(s)	318, 645, 797
XcmI	CCANNNNNNNNNTGG	1 cut(s)	130
XspI	CTAG	3 cut(s)	194, 791, 828
Zsp2I	ATGCAT	1 cut(s)	734

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