Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000001

Orthogroup ID

OG0001879

Physical Location & Seq

Genomic Coordinates Forward (+)

86523235 .. 86523744

Gene Structure 510 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_1G00064710.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 510 bp

ATGTCATTAGAATCGGTAGCATCCTCCTCTAGCGGGCCCATGCTCTTGTCGTTACGGCTCGGATTCGAAGCCGGCCCGACCATTCATGCTAGTATGTTTCGAAGATCCTTGGGTGGCATTGGAGAGACTTGGCGTCCTTGCGGCTGCGCGAGCGAGCTTGCAATAGAGCTTATCGGTGTCTTTGAGGCGGAGGACGCTGCAGGGCTGCTTCAAGAGGAAGTCTTTGGATTTGGTGAGGAATTGGAAGTGGCGTCGATCTCGAACTTTACGAGTCCAACGAGTCCTTGTCGATGCTTTGAACTCCGGCCACGCCCGGTACAACAATCAACTCTTTTGCATATTGGATTTCCGAACCCGAACCCGATCCGGCTCGCTAACCTAGGGATCAAGGACCCGCCGCTATGTATGGTCGTGATCGAGCCGCGGTACATTATGTCTAACAATGTGGAGGTTACGCTTGCAATTTCGAAGCCTTGGGTTTTGCCGGTGGAGGAAGACGGTGTGCGGTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000323 GO:0000325 GO:0003674 GO:0003779 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005764 GO:0005765 GO:0005768 GO:0005773 GO:0005774 GO:0005856 GO:0006810 GO:0006906 GO:0006996 GO:0007033 GO:0008092 GO:0008150 GO:0009705 GO:0009987 GO:0012505 GO:0015629 GO:0016020 GO:0016043 GO:0016050 GO:0016192 GO:0016197 GO:0030897 GO:0031090 GO:0031338 GO:0031410 GO:0031982 GO:0032879 GO:0032889 GO:0032991 GO:0033043 GO:0033263 GO:0035542 GO:0042144 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043254 GO:0044087 GO:0044088 GO:0044422 GO:0044424 GO:0044425 GO:0044433 GO:0044437 GO:0044440 GO:0044444 GO:0044446 GO:0044464 GO:0045992 GO:0045995 GO:0046907 GO:0048284 GO:0048519 GO:0050789 GO:0050793 GO:0050794 GO:0051049 GO:0051093 GO:0051128 GO:0051179 GO:0051234 GO:0051239 GO:0051241 GO:0051469 GO:0051641 GO:0051649 GO:0060627 GO:0061024 GO:0061025 GO:0065007 GO:0071840 GO:0090174 GO:0097576 GO:0097708 GO:0098588 GO:0098796 GO:0098805 GO:0098852 GO:0099023 GO:2000026

KEGG Pathways

Metabolic & Signaling

ko04138 map04138

Pfam Domains

Protein Families

Vps16_C Vps16_N

Protein Analysis

169

Amino Acids

18.31

Weight (kDa)

4.76

Isoelectric Point (pI)

61.81

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

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Orthologous Genes (Group: OG0001879)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G16220 AT4G16230
fragaria_vesca	FvH4_4g19851 FvH4_4g19871 FvH4_4g19872 FvH4_4g19872 FvH4_4g19872
rosa_chinensis	RchiOBHm_Chr4g0425431 RchiOBHm_Chr4g0425441 RchiOBHm_Chr4g0425461 RchiOBHm_Chr4g0425491 RchiOBHm_Chr4g0425641
rosa_laevigata	RLG00000007351 RLG00000007369 RLG00000031471
rosa_multiflora	Rmu_sc0001900.1_g000024 Rmu_sc0001900.1_g000036 Rmu_sc0003958.1_g000016 Rmu_sc0004566.1_g000002
rosa_roxburghii	Rroxscaffold_1G00064710 Rroxscaffold_5G00367410 Rroxscaffold_5G00367420 Rroxscaffold_5G00367580 Rroxscaffold_6G00425630
rosa_rugosa	Rorug04G0202900 Rorug04G0203000 Rorug04G0203400 Rorug04G0204500 Rorug04G0204600
rosa_samantha	Rh3BG001300 Rh4AG260100 Rh4AG260200 Rh4AG261800 Rh4BG265900 Rh4BG266000 Rh4BG267800 Rh4CG277300 Rh4CG277500 Rh4CG278900 Rh4DG262100 Rh4DG262200 Rh4DG262500 Rh4DG263600
rosa_wichuraiana	Rw4G022530 Rw4G022540 Rw4G022630

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccII	CGCG	2 cut(s)	149, 424
AciI	CCGC	8 cut(s)	33, 141, 188, 395, 398, 422, 424, 505
AclWI	GGATC	3 cut(s)	99, 358, 392
AcoI	YGGCCR	1 cut(s)	305
AcyI	GRCGYC	2 cut(s)	133, 251
AfaI	GTAC	2 cut(s)	318, 428
AfiI	CCNNNNNNNGG	1 cut(s)	33
AgsI	TTSAA	2 cut(s)	212, 299
AhdI	GACNNNNNGTC	1 cut(s)	132
AluBI	AGCT	2 cut(s)	157, 169
AluI	AGCT	2 cut(s)	157, 169
Alw26I	GTCTC	1 cut(s)	119
AlwI	GGATC	3 cut(s)	99, 358, 392
AoxI	GGCC	3 cut(s)	35, 73, 305
ApaI	GGGCCC	1 cut(s)	39
ApeKI	GCWGC	3 cut(s)	144, 197, 205
AspA2I	CCTAGG	1 cut(s)	379
AspLEI	GCGC	1 cut(s)	149
AspS9I	GGNCC	4 cut(s)	35, 36, 74, 391
AsuC2I	CCSGG	1 cut(s)	314
AsuHPI	GGTGA	1 cut(s)	245
AsuII	TTCGAA	3 cut(s)	66, 100, 467
AvaII	GGWCC	1 cut(s)	391
AvrII	CCTAGG	1 cut(s)	379
BaeGI	GKGCMC	1 cut(s)	39
BanII	GRGCYC	1 cut(s)	39
BbsI	GAAGAC	1 cut(s)	501
BbvI	GCAGC	3 cut(s)	131, 184, 192
BceAI	ACGGC	1 cut(s)	71
BcnI	CCSGG	1 cut(s)	314
BcoDI	GTCTC	1 cut(s)	119
BfaI	CTAG	3 cut(s)	30, 90, 380
BfmI	CTRYAG	1 cut(s)	198
BisI	GCNGC	6 cut(s)	142, 145, 198, 206, 398, 422
BlnI	CCTAGG	1 cut(s)	379
BlsI	GCNGC	6 cut(s)	143, 146, 199, 207, 399, 423
Bme1390I	CCNGG	1 cut(s)	314
Bme18I	GGWCC	1 cut(s)	391
BmeRI	GACNNNNNGTC	1 cut(s)	132
BmgT120I	GGNCC	4 cut(s)	35, 36, 74, 391
BmiI	GGNNCC	2 cut(s)	37, 393
BmrFI	CCNGG	1 cut(s)	314
BmsI	GCATC	2 cut(s)	29, 281
BpiI	GAAGAC	1 cut(s)	501
Bpu14I	TTCGAA	3 cut(s)	66, 100, 467
BpuMI	CCSGG	1 cut(s)	314
BsaHI	GRCGYC	2 cut(s)	133, 251
BsaJI	CCNNGG	4 cut(s)	108, 379, 422, 473
Bsc4I	CCNNNNNNNGG	1 cut(s)	33
Bse118I	RCCGGY	2 cut(s)	71, 484
BseDI	CCNNGG	4 cut(s)	108, 379, 422, 473
BseGI	GGATG	1 cut(s)	20
BseLI	CCNNNNNNNGG	1 cut(s)	33
BseRI	GAGGAG	1 cut(s)	16
BseSI	GKGCMC	1 cut(s)	39
BseXI	GCAGC	3 cut(s)	131, 184, 192
Bsh1236I	CGCG	2 cut(s)	149, 424
BshFI	GGCC	3 cut(s)	37, 75, 307
BsiSI	CCGG	5 cut(s)	72, 304, 314, 367, 485
BslI	CCNNNNNNNGG	1 cut(s)	33
BsmAI	GTCTC	1 cut(s)	119
BsnI	GGCC	3 cut(s)	37, 75, 307
Bsp119I	TTCGAA	3 cut(s)	66, 100, 467
Bsp120I	GGGCCC	1 cut(s)	35
Bsp1286I	GDGCHC	1 cut(s)	39
Bsp143I	GATC	5 cut(s)	104, 255, 363, 384, 414
BspACI	CCGC	8 cut(s)	33, 141, 188, 395, 398, 422, 424, 505
BspANI	GGCC	3 cut(s)	37, 75, 307
BspFNI	CGCG	2 cut(s)	149, 424
BspLI	GGNNCC	2 cut(s)	37, 393
BspMAI	CTGCAG	1 cut(s)	202
BspPI	GGATC	3 cut(s)	99, 358, 392
BspT104I	TTCGAA	3 cut(s)	66, 100, 467
BsrFI	RCCGGY	2 cut(s)	71, 484
BssAI	RCCGGY	2 cut(s)	71, 484
BssECI	CCNNGG	4 cut(s)	108, 379, 422, 473
BssMI	GATC	5 cut(s)	104, 255, 363, 384, 414
BssNI	GRCGYC	2 cut(s)	133, 251
BssT1I	CCWWGG	3 cut(s)	108, 379, 473
Bst4CI	ACNGT	1 cut(s)	500
BstACI	GRCGYC	2 cut(s)	133, 251
BstBI	TTCGAA	3 cut(s)	66, 100, 467
BstC8I	GCNNGC	7 cut(s)	35, 73, 151, 155, 159, 372, 459
BstDSI	CCRYGG	1 cut(s)	422
BstF5I	GGATG	1 cut(s)	20
BstFNI	CGCG	2 cut(s)	149, 424
BstHHI	GCGC	1 cut(s)	149
BstKTI	GATC	5 cut(s)	107, 258, 366, 387, 417
BstMAI	GTCTC	1 cut(s)	119
BstMBI	GATC	5 cut(s)	104, 255, 363, 384, 414
BstMWI	GCNNNNNNNGC	2 cut(s)	150, 194
BstSCI	CCNGG	1 cut(s)	312
BstSFI	CTRYAG	1 cut(s)	198
BstSLI	GKGCMC	1 cut(s)	39
BstUI	CGCG	2 cut(s)	149, 424
BstV1I	GCAGC	3 cut(s)	131, 184, 192
BstV2I	GAAGAC	1 cut(s)	501
BstX2I	RGATCY	1 cut(s)	104
BstYI	RGATCY	1 cut(s)	104
BsuRI	GGCC	3 cut(s)	37, 75, 307
BtgI	CCRYGG	1 cut(s)	422
BtsCI	GGATG	1 cut(s)	20
Cac8I	GCNNGC	7 cut(s)	35, 73, 151, 155, 159, 372, 459
CfoI	GCGC	1 cut(s)	149
Cfr10I	RCCGGY	2 cut(s)	71, 484
Cfr13I	GGNCC	4 cut(s)	35, 36, 74, 391
Cfr42I	CCGCGG	1 cut(s)	425
CseI	GACGC	3 cut(s)	122, 203, 240
Csp6I	GTAC	2 cut(s)	317, 427
CviAII	CATG	2 cut(s)	40, 86
CviQI	GTAC	2 cut(s)	317, 427
DpnI	GATC	5 cut(s)	106, 257, 365, 386, 416
DpnII	GATC	5 cut(s)	104, 255, 363, 384, 414
DriI	GACNNNNNGTC	1 cut(s)	132
EaeI	YGGCCR	1 cut(s)	305
Eam1105I	GACNNNNNGTC	1 cut(s)	132
EciI	GGCGGA	1 cut(s)	203
Eco130I	CCWWGG	3 cut(s)	108, 379, 473
Eco24I	GRGCYC	1 cut(s)	39
Eco47I	GGWCC	1 cut(s)	391
EcoO109I	RGGNCCY	1 cut(s)	391
EcoT14I	CCWWGG	3 cut(s)	108, 379, 473
EcoT38I	GRGCYC	1 cut(s)	39
ErhI	CCWWGG	3 cut(s)	108, 379, 473
FaeI	CATG	2 cut(s)	43, 89
FaiI	YATR	7 cut(s)	41, 87, 95, 339, 403, 407, 434
FatI	CATG	2 cut(s)	39, 85
FauI	CCCGC	2 cut(s)	26, 402
Fnu4HI	GCNGC	6 cut(s)	142, 145, 198, 206, 398, 422
FokI	GGATG	1 cut(s)	7
FriOI	GRGCYC	1 cut(s)	39
Fsp4HI	GCNGC	6 cut(s)	142, 145, 198, 206, 398, 422
FspBI	CTAG	3 cut(s)	30, 90, 380
GlaI	GCGC	1 cut(s)	148
GluI	GCNGC	6 cut(s)	142, 145, 198, 206, 398, 422
HaeIII	GGCC	3 cut(s)	37, 75, 307
HapII	CCGG	5 cut(s)	72, 304, 314, 367, 485
HgaI	GACGC	3 cut(s)	122, 203, 240
HhaI	GCGC	1 cut(s)	149
Hin1I	GRCGYC	2 cut(s)	133, 251
Hin1II	CATG	2 cut(s)	43, 89
Hin6I	GCGC	1 cut(s)	147
HinP1I	GCGC	1 cut(s)	147
HinfI	GANTC	4 cut(s)	11, 63, 271, 280
HpaII	CCGG	5 cut(s)	72, 304, 314, 367, 485
HphI	GGTGA	1 cut(s)	245
Hpy188I	TCNGA	2 cut(s)	62, 351
Hpy188III	TCNNGA	3 cut(s)	212, 259, 412
Hpy99I	CGWCG	1 cut(s)	256
HpyCH4III	ACNGT	1 cut(s)	500
HpyCH4V	TGCA	4 cut(s)	161, 200, 337, 461
HpyF10VI	GCNNNNNNNGC	2 cut(s)	150, 194
Hsp92I	GRCGYC	2 cut(s)	133, 251
Hsp92II	CATG	2 cut(s)	43, 89
HspAI	GCGC	1 cut(s)	147
KroI	GCCGGC	1 cut(s)	71
KroNI	GCCGGC	1 cut(s)	73
KspI	CCGCGG	1 cut(s)	425
Kzo9I	GATC	5 cut(s)	104, 255, 363, 384, 414
LpnPI	CCDG	6 cut(s)	85, 186, 317, 327, 380, 498
Lsp1109I	GCAGC	3 cut(s)	131, 184, 192
LweI	GCATC	2 cut(s)	29, 281
MaeI	CTAG	3 cut(s)	30, 90, 380
MaeIII	GTNAC	2 cut(s)	51, 451
MalI	GATC	5 cut(s)	106, 257, 365, 386, 416
MboI	GATC	5 cut(s)	104, 255, 363, 384, 414
MboII	GAAGA	2 cut(s)	114, 506
MflI	RGATCY	1 cut(s)	104
MhlI	GDGCHC	1 cut(s)	39
MluCI	AATT	2 cut(s)	239, 462
MlyI	GAGTC	2 cut(s)	280, 289
MmeI	TCCRAC	1 cut(s)	299
MnlI	CCTC	8 cut(s)	34, 37, 178, 184, 208, 229, 442, 484
MroNI	GCCGGC	1 cut(s)	71
MspA1I	CMGCKG	1 cut(s)	424
MspI	CCGG	5 cut(s)	72, 304, 314, 367, 485
MspR9I	CCNGG	1 cut(s)	314
MvnI	CGCG	2 cut(s)	149, 424
MwoI	GCNNNNNNNGC	2 cut(s)	150, 194
NaeI	GCCGGC	1 cut(s)	73
NciI	CCSGG	1 cut(s)	314
NdeII	GATC	5 cut(s)	104, 255, 363, 384, 414
NgoMIV	GCCGGC	1 cut(s)	71
NlaIII	CATG	2 cut(s)	43, 89
NlaIV	GGNNCC	2 cut(s)	37, 393
NspV	TTCGAA	3 cut(s)	66, 100, 467
PcsI	WCGNNNNNNNCGW	2 cut(s)	266, 275
PdiI	GCCGGC	1 cut(s)	73
PfeI	GAWTC	2 cut(s)	11, 63
PkrI	GCNGC	6 cut(s)	143, 146, 199, 207, 399, 423
PleI	GAGTC	2 cut(s)	279, 288
PpsI	GAGTC	2 cut(s)	279, 288
PpuMI	RGGWCCY	1 cut(s)	391
Psp5II	RGGWCCY	1 cut(s)	391
PspN4I	GGNNCC	2 cut(s)	37, 393
PspOMI	GGGCCC	1 cut(s)	35
PspPI	GGNCC	4 cut(s)	35, 36, 74, 391
PspPPI	RGGWCCY	1 cut(s)	391
PstI	CTGCAG	1 cut(s)	202
PsuI	RGATCY	1 cut(s)	104
RsaI	GTAC	2 cut(s)	318, 428
RsaNI	GTAC	2 cut(s)	317, 427
SacII	CCGCGG	1 cut(s)	425
SatI	GCNGC	6 cut(s)	142, 145, 198, 206, 398, 422
Sau3AI	GATC	5 cut(s)	104, 255, 363, 384, 414
Sau96I	GGNCC	4 cut(s)	35, 36, 74, 391
SchI	GAGTC	2 cut(s)	280, 289
ScrFI	CCNGG	1 cut(s)	314
SduI	GDGCHC	1 cut(s)	39
SetI	ASST	4 cut(s)	159, 171, 381, 453
SfaNI	GCATC	2 cut(s)	29, 281
SfcI	CTRYAG	1 cut(s)	198
Sfr303I	CCGCGG	1 cut(s)	425
SfuI	TTCGAA	3 cut(s)	66, 100, 467
SgrBI	CCGCGG	1 cut(s)	425
SinI	GGWCC	1 cut(s)	391
Sse9I	AATT	2 cut(s)	239, 462
SsiI	CCGC	8 cut(s)	33, 141, 188, 395, 398, 422, 424, 505
SspMI	CTAG	3 cut(s)	30, 90, 380
StyD4I	CCNGG	1 cut(s)	312
StyI	CCWWGG	3 cut(s)	108, 379, 473
TaaI	ACNGT	1 cut(s)	500
TaqI	TCGA	7 cut(s)	66, 100, 254, 260, 289, 417, 467
TasI	AATT	2 cut(s)	239, 462
TauI	GCSGC	3 cut(s)	144, 400, 424
TfiI	GAWTC	2 cut(s)	11, 63
TseI	GCWGC	3 cut(s)	144, 197, 205
TspDTI	ATGAA	1 cut(s)	74
VpaK11BI	GGWCC	1 cut(s)	391
XmaJI	CCTAGG	1 cut(s)	379
XspI	CTAG	3 cut(s)	30, 90, 380

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