Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000004

Orthogroup ID

OG0010556

Physical Location & Seq

Genomic Coordinates Forward (+)

62471312 .. 62473925

Gene Structure 2614 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_4G00329220.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 729 bp

ATGATGATATGTGTTATGTCCATATTTGATCTTACAGTGTTGACCTCATCTTTATGCATAGAACAGTTTGCTATTCTACGTCCTCTCATGAGTCAGGTGAATCTTCACCTGGTGAAGGAGATCTCGGTCCGATCAAACTCCTTCTTCGAGGCTCAGAGTCAGTTACAGGATTTGAATGTGAAGATCGTTGAGGGATGCAATCGGATTCGGGAGCTTAAGGAGACCATTTTGCTGTTGGATGTGGATTTGGTGGACTCTGCGAGGCAGATTCAGGAGCTCAATGTTACCAGGAGTAATTTGTTGGCTCTTCAACAGAAGCTGAGGCTGATTCTCTATGTCAATCAAGCTCTTTCGGTTCTCAAACTGCTTGTTGCCTCTGCAGATTGTGCTGGAGCTTTGGATGTCACAGACGACCTACAACATTTGCTGGTGTTTGTGTTGAATATAGATACTAGAAGATTATTCTCACTGTGTGTTTCTGATCCACCGTCTTCCCTTAAGATACCAGAAGATTATTCTCACTGTGAGTTTCTGATCCACCTCCCAGGATATTGCCCAAGTATGTGGTTTTTGTACAACACGAAGACACCGCGGGATTGTAGTTTCCAGTATGGTAGCTTAGTTGATTTGGTAGATGGACATACATCAGTACTTTATCATAGGCTTCGGCTACTGGTTCCCAATGTATACATGAAGATTTGGTCTAAGCTTCAAAAGGATGGATATTAA

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

242

Amino Acids

27.64

Weight (kDa)

6.06

Isoelectric Point (pI)

41.68

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

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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)
AccI	GTMKAC	1 cut(s)	687
AccII	CGCG	1 cut(s)	592
AciI	CCGC	2 cut(s)	590, 592
AclWI	GGATC	2 cut(s)	476, 529
AdeI	CACNNNGTG	2 cut(s)	112, 473
AfaI	GTAC	2 cut(s)	575, 651
AfiI	CCNNNNNNNGG	1 cut(s)	115
AflII	CTTAAG	2 cut(s)	215, 497
AgsI	TTSAA	4 cut(s)	175, 311, 442, 713
AjnI	CCWGG	3 cut(s)	108, 287, 544
AluBI	AGCT	7 cut(s)	214, 277, 319, 347, 395, 618, 709
AluI	AGCT	7 cut(s)	214, 277, 319, 347, 395, 618, 709
Alw21I	GWGCWC	1 cut(s)	279
Alw26I	GTCTC	1 cut(s)	215
AlwI	GGATC	2 cut(s)	476, 529
AlwNI	CAGNNNCTG	1 cut(s)	319
AspS9I	GGNCC	1 cut(s)	127
AsuHPI	GGTGA	3 cut(s)	98, 109, 124
AvaII	GGWCC	1 cut(s)	127
BanII	GRGCYC	1 cut(s)	279
BbsI	GAAGAC	2 cut(s)	483, 590
Bbv12I	GWGCWC	1 cut(s)	279
BbvCI	CCTCAGC	1 cut(s)	320
BccI	CCATC	2 cut(s)	629, 713
BciT130I	CCWGG	3 cut(s)	110, 289, 546
BcoDI	GTCTC	1 cut(s)	215
BfaI	CTAG	1 cut(s)	453
BfmI	CTRYAG	1 cut(s)	378
BfrI	CTTAAG	2 cut(s)	215, 497
BglII	AGATCT	1 cut(s)	120
BmcAI	AGTACT	1 cut(s)	651
Bme1390I	CCNGG	3 cut(s)	110, 289, 546
Bme18I	GGWCC	1 cut(s)	127
BmgT120I	GGNCC	1 cut(s)	127
BmiI	GGNNCC	1 cut(s)	678
BmrFI	CCNGG	3 cut(s)	110, 289, 546
BmsI	GCATC	1 cut(s)	185
BpiI	GAAGAC	2 cut(s)	483, 590
BpmI	CTGGAG	1 cut(s)	411
Bpu10I	CCTNAGC	1 cut(s)	320
BsaI	GGTCTC	1 cut(s)	215
BsaJI	CCNNGG	2 cut(s)	544, 590
Bsc4I	CCNNNNNNNGG	1 cut(s)	115
Bse1I	ACTGG	2 cut(s)	607, 678
BseBI	CCWGG	3 cut(s)	110, 289, 546
BseDI	CCNNGG	2 cut(s)	544, 590
BseGI	GGATG	4 cut(s)	200, 244, 406, 724
BseLI	CCNNNNNNNGG	1 cut(s)	115
BseMII	CTCAG	2 cut(s)	167, 311
BseNI	ACTGG	2 cut(s)	607, 678
Bsh1236I	CGCG	1 cut(s)	592
BsiHKAI	GWGCWC	1 cut(s)	279
BslI	CCNNNNNNNGG	1 cut(s)	115
BsmAI	GTCTC	1 cut(s)	215
Bso31I	GGTCTC	1 cut(s)	215
Bsp1286I	GDGCHC	1 cut(s)	279
Bsp1407I	TGTACA	1 cut(s)	573
Bsp143I	GATC	6 cut(s)	28, 120, 131, 183, 481, 534
BspACI	CCGC	2 cut(s)	590, 592
BspCNI	CTCAG	2 cut(s)	166, 312
BspFNI	CGCG	1 cut(s)	592
BspHI	TCATGA	1 cut(s)	87
BspLI	GGNNCC	1 cut(s)	678
BspMAI	CTGCAG	1 cut(s)	382
BspPI	GGATC	2 cut(s)	476, 529
BspQI	GCTCTTC	1 cut(s)	312
BspTI	CTTAAG	2 cut(s)	215, 497
BspTNI	GGTCTC	1 cut(s)	215
BsrGI	TGTACA	1 cut(s)	573
BsrI	ACTGG	2 cut(s)	607, 678
BssECI	CCNNGG	2 cut(s)	544, 590
BssMI	GATC	6 cut(s)	28, 120, 131, 183, 481, 534
BssNAI	GTATAC	1 cut(s)	688
Bst1107I	GTATAC	1 cut(s)	688
Bst2UI	CCWGG	3 cut(s)	110, 289, 546
Bst4CI	ACNGT	5 cut(s)	37, 66, 471, 489, 524
Bst6I	CTCTTC	1 cut(s)	312
BstAFI	CTTAAG	2 cut(s)	215, 497
BstAPI	GCANNNNNTGC	1 cut(s)	386
BstAUI	TGTACA	1 cut(s)	573
BstDEI	CTNAG	4 cut(s)	153, 320, 619, 705
BstDSI	CCRYGG	1 cut(s)	590
BstENI	CCTNNNNNAGG	1 cut(s)	113
BstF5I	GGATG	4 cut(s)	200, 244, 406, 724
BstFNI	CGCG	1 cut(s)	592
BstKTI	GATC	6 cut(s)	31, 123, 134, 186, 484, 537
BstMAI	GTCTC	1 cut(s)	215
BstMBI	GATC	6 cut(s)	28, 120, 131, 183, 481, 534
BstMWI	GCNNNNNNNGC	1 cut(s)	386
BstNI	CCWGG	3 cut(s)	110, 289, 546
BstSCI	CCNGG	3 cut(s)	108, 287, 544
BstSFI	CTRYAG	1 cut(s)	378
BstUI	CGCG	1 cut(s)	592
BstV2I	GAAGAC	2 cut(s)	483, 590
BstX2I	RGATCY	1 cut(s)	120
BstXI	CCANNNNNNTGG	1 cut(s)	564
BstYI	RGATCY	1 cut(s)	120
BstZ17I	GTATAC	1 cut(s)	688
BtgI	CCRYGG	1 cut(s)	590
BtsCI	GGATG	4 cut(s)	200, 244, 406, 724
BtsIMutI	CAGTG	3 cut(s)	42, 467, 520
CaiI	CAGNNNCTG	1 cut(s)	319
CciI	TCATGA	1 cut(s)	87
Cfr13I	GGNCC	1 cut(s)	127
Cfr42I	CCGCGG	1 cut(s)	593
CpoI	CGGWCCG	1 cut(s)	127
CsiI	ACCWGGT	1 cut(s)	108
Csp6I	GTAC	2 cut(s)	574, 650
CspI	CGGWCCG	1 cut(s)	127
CviAII	CATG	2 cut(s)	88, 691
CviQI	GTAC	2 cut(s)	574, 650
DdeI	CTNAG	4 cut(s)	153, 320, 619, 705
DpnI	GATC	6 cut(s)	30, 122, 133, 185, 483, 536
DpnII	GATC	6 cut(s)	28, 120, 131, 183, 481, 534
DraIII	CACNNNGTG	2 cut(s)	112, 473
Eam1104I	CTCTTC	1 cut(s)	312
EarI	CTCTTC	1 cut(s)	312
Ecl136II	GAGCTC	1 cut(s)	277
Eco24I	GRGCYC	1 cut(s)	279
Eco31I	GGTCTC	1 cut(s)	215
Eco47I	GGWCC	1 cut(s)	127
Eco53kI	GAGCTC	1 cut(s)	277
EcoICRI	GAGCTC	1 cut(s)	277
EcoNI	CCTNNNNNAGG	1 cut(s)	113
EcoRII	CCWGG	3 cut(s)	108, 287, 544
EcoT22I	ATGCAT	1 cut(s)	59
EcoT38I	GRGCYC	1 cut(s)	279
FaeI	CATG	2 cut(s)	91, 694
FatI	CATG	2 cut(s)	87, 690
FauI	CCCGC	1 cut(s)	585
FblI	GTMKAC	1 cut(s)	687
FokI	GGATG	3 cut(s)	207, 251, 413
FriOI	GRGCYC	1 cut(s)	279
FspBI	CTAG	1 cut(s)	453
GsuI	CTGGAG	1 cut(s)	411
Hin1II	CATG	2 cut(s)	91, 694
HincII	GTYRAC	1 cut(s)	42
HindII	GTYRAC	1 cut(s)	42
HindIII	AAGCTT	1 cut(s)	707
HinfI	GANTC	7 cut(s)	91, 100, 157, 205, 254, 268, 328
HphI	GGTGA	3 cut(s)	98, 109, 124
Hpy166II	GTNNAC	3 cut(s)	42, 253, 688
Hpy188I	TCNGA	5 cut(s)	131, 156, 204, 481, 534
Hpy188III	TCNNGA	3 cut(s)	88, 209, 272
Hpy8I	GTNNAC	3 cut(s)	42, 253, 688
HpyAV	CCTTC	2 cut(s)	109, 151
HpyCH4III	ACNGT	5 cut(s)	37, 66, 471, 489, 524
HpyCH4IV	ACGT	1 cut(s)	79
HpyCH4V	TGCA	3 cut(s)	57, 198, 380
HpyF10VI	GCNNNNNNNGC	1 cut(s)	386
HpyF3I	CTNAG	4 cut(s)	153, 320, 619, 705
HpySE526I	ACGT	1 cut(s)	79
Hsp92II	CATG	2 cut(s)	91, 694
KspI	CCGCGG	1 cut(s)	593
Kzo9I	GATC	6 cut(s)	28, 120, 131, 183, 481, 534
LguI	GCTCTTC	1 cut(s)	312
LmnI	GCTCC	3 cut(s)	211, 274, 392
LweI	GCATC	1 cut(s)	185
MabI	ACCWGGT	1 cut(s)	108
MaeI	CTAG	1 cut(s)	453
MaeII	ACGT	1 cut(s)	79
MaeIII	GTNAC	3 cut(s)	162, 283, 403
MalI	GATC	6 cut(s)	30, 122, 133, 185, 483, 536
MboI	GATC	6 cut(s)	28, 120, 131, 183, 481, 534
MboII	GAAGA	9 cut(s)	95, 136, 193, 299, 468, 483, 521, 595, 706
MflI	RGATCY	1 cut(s)	120
MhlI	GDGCHC	1 cut(s)	279
MluCI	AATT	1 cut(s)	295
MlyI	GAGTC	3 cut(s)	100, 166, 248
MmeI	TCCRAC	1 cut(s)	216
MnlI	CCTC	8 cut(s)	55, 93, 142, 184, 255, 315, 385, 551
Mph1103I	ATGCAT	1 cut(s)	59
MseI	TTAA	3 cut(s)	216, 498, 727
MslI	CAYNNNNRTG	1 cut(s)	52
MspA1I	CMGCKG	1 cut(s)	592
MspCI	CTTAAG	2 cut(s)	215, 497
MspR9I	CCNGG	3 cut(s)	110, 289, 546
MvaI	CCWGG	3 cut(s)	110, 289, 546
MvnI	CGCG	1 cut(s)	592
MwoI	GCNNNNNNNGC	1 cut(s)	386
NdeII	GATC	6 cut(s)	28, 120, 131, 183, 481, 534
NlaIII	CATG	2 cut(s)	91, 694
NlaIV	GGNNCC	1 cut(s)	678
NmuCI	GTSAC	1 cut(s)	403
NsiI	ATGCAT	1 cut(s)	59
PagI	TCATGA	1 cut(s)	87
PciSI	GCTCTTC	1 cut(s)	312
PfeI	GAWTC	4 cut(s)	100, 205, 268, 328
PleI	GAGTC	3 cut(s)	99, 165, 248
PpsI	GAGTC	3 cut(s)	99, 165, 248
Psp124BI	GAGCTC	1 cut(s)	279
Psp6I	CCWGG	3 cut(s)	108, 287, 544
PspGI	CCWGG	3 cut(s)	108, 287, 544
PspN4I	GGNNCC	1 cut(s)	678
PspPI	GGNCC	1 cut(s)	127
PstI	CTGCAG	1 cut(s)	382
PstNI	CAGNNNCTG	1 cut(s)	319
PsuI	RGATCY	1 cut(s)	120
RsaI	GTAC	2 cut(s)	575, 651
RsaNI	GTAC	2 cut(s)	574, 650
RseI	CAYNNNNRTG	1 cut(s)	52
Rsr2I	CGGWCCG	1 cut(s)	127
RsrII	CGGWCCG	1 cut(s)	127
SacI	GAGCTC	1 cut(s)	279
SacII	CCGCGG	1 cut(s)	593
SapI	GCTCTTC	1 cut(s)	312
SaqAI	TTAA	3 cut(s)	216, 498, 727
Sau3AI	GATC	6 cut(s)	28, 120, 131, 183, 481, 534
Sau96I	GGNCC	1 cut(s)	127
ScaI	AGTACT	1 cut(s)	651
SchI	GAGTC	3 cut(s)	100, 166, 248
ScrFI	CCNGG	3 cut(s)	110, 289, 546
SduI	GDGCHC	1 cut(s)	279
SexAI	ACCWGGT	1 cut(s)	108
SfaNI	GCATC	1 cut(s)	185
SfcI	CTRYAG	1 cut(s)	378
Sfr303I	CCGCGG	1 cut(s)	593
SgrBI	CCGCGG	1 cut(s)	593
SinI	GGWCC	1 cut(s)	127
SmiMI	CAYNNNNRTG	1 cut(s)	52
SmlI	CTYRAG	2 cut(s)	215, 497
SmoI	CTYRAG	2 cut(s)	215, 497
Sse9I	AATT	1 cut(s)	295
SsiI	CCGC	2 cut(s)	590, 592
SspMI	CTAG	1 cut(s)	453
SstI	GAGCTC	1 cut(s)	279
StyD4I	CCNGG	3 cut(s)	108, 287, 544
TaaI	ACNGT	5 cut(s)	37, 66, 471, 489, 524
TaiI	ACGT	1 cut(s)	82
TaqI	TCGA	1 cut(s)	147
TaqII	GACCGA	1 cut(s)	115
TasI	AATT	1 cut(s)	295
TatI	WGTACW	2 cut(s)	573, 649
TfiI	GAWTC	4 cut(s)	100, 205, 268, 328
Tru1I	TTAA	3 cut(s)	216, 498, 727
Tru9I	TTAA	3 cut(s)	216, 498, 727
TscAI	CASTG	3 cut(s)	42, 474, 527
TseFI	GTSAC	1 cut(s)	403
Tsp45I	GTSAC	1 cut(s)	403
TspDTI	ATGAA	1 cut(s)	707
TspRI	CASTG	3 cut(s)	42, 474, 527
Vha464I	CTTAAG	2 cut(s)	215, 497
VpaK11BI	GGWCC	1 cut(s)	127
XagI	CCTNNNNNAGG	1 cut(s)	113
XcmI	CCANNNNNNNNNTGG	1 cut(s)	232
XmiI	GTMKAC	1 cut(s)	687
XspI	CTAG	1 cut(s)	453
ZrmI	AGTACT	1 cut(s)	651
Zsp2I	ATGCAT	1 cut(s)	59

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