Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5D

Orthogroup ID

OG0008728

Physical Location & Seq

Genomic Coordinates Reverse (-)

41120626 .. 41121289

Gene Structure 664 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5DG319300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 495 bp

ATGCTCTCATCAGGGAATTCGACTGAAGTTTCAGGCGCATCTGACATTGTTTCATCAAACTTGTTGCAGGTAATCCTGTTGAATGACAATACTGAAGTCCGCACTATTAGATTAGGACTTCAGTTGCCTGAGCCTTGCATCGACATGGAGATTATTGTTCAAAGCGTTAGACTAATGAAGGTTGATGGTTCTGTACTTTCTCTGAACATAAATCACAGCTCAAGACATCTTGCTGTGGGATCTAGTAAAGGACATGTTTCAGTTATTGATATAGAAGGGCCCACTCTATTATATAAAATCCACATTGCAAGTGAAATTTCTACCCGCATCATCTCTCTGCAGTTTGAAACCTGCAGTTTTCATGGTTTCGACAAGAATGTCTTAGCTGTTGCAACAGAGGACTCATCTGTTTTGGCTCTTGATAGTGATAATGGAAACACATTGAGCACTAGTCTGGTTCATCCCAAGAAACCCACTAGAGCACTTTTAATGTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000149 GO:0002791 GO:0003674 GO:0005096 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005886 GO:0008047 GO:0008150 GO:0012505 GO:0016020 GO:0017016 GO:0017075 GO:0017137 GO:0017157 GO:0019899 GO:0019905 GO:0030141 GO:0030234 GO:0030695 GO:0031267 GO:0031410 GO:0031982 GO:0032879 GO:0032880 GO:0043085 GO:0043087 GO:0043226 GO:0043227 GO:0043229 GO:0043547 GO:0044093 GO:0044424 GO:0044444 GO:0044464 GO:0045921 GO:0048518 GO:0048522 GO:0050708 GO:0050789 GO:0050790 GO:0050794 GO:0051020 GO:0051046 GO:0051047 GO:0051049 GO:0051050 GO:0051223 GO:0051336 GO:0051345 GO:0060589 GO:0060627 GO:0065007 GO:0065009 GO:0070201 GO:0071944 GO:0090087 GO:0097708 GO:0098772 GO:0099503 GO:1903530 GO:1903532

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Lgl_C

Protein Analysis

164

Amino Acids

17.65

Weight (kDa)

5.6

Isoelectric Point (pI)

40.81

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Beta-prop_VPS8	PF23410	49 - 115	8.2e-06	Vps8 beta-propeller

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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Orthologous Genes (Group: OG0008728)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G35560 AT4G35560
fragaria_vesca	FvH4_1g10310
malus_domestica	MD15G1231200.v1.1
prunus_persica	Prupe.7G183000_v2.0.a1
pyrus_communis	pycom15g20610
rosa_chinensis	RchiOBHm_Chr2g0097151
rosa_laevigata	RLG00000016707
rosa_multiflora	Rmu_sc0001182.1_g000007 Rmu_sc0013203.1_g000011
rosa_roxburghii	Rroxscaffold_2G00144930
rosa_rugosa	Rorug02G0064700.1 Rorug02G0064800
rosa_samantha	Rh1CG156700 Rh2AG111800 Rh2CG116100 Rh2DG115100 Rh4AG336200 Rh4DG120600 Rh4DG338700 Rh5DG319300 Rh7AG274900
rosa_wichuraiana	Rw2G008700

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	377
Acc36I	ACCTGC	2 cut(s)	58, 359
AciI	CCGC	2 cut(s)	100, 325
AclWI	GGATC	1 cut(s)	247
AcsI	RAATTY	2 cut(s)	16, 315
AcuI	CTGAAG	3 cut(s)	45, 104, 114
AfaI	GTAC	1 cut(s)	195
AflIII	ACRYGT	1 cut(s)	253
AgsI	TTSAA	3 cut(s)	82, 161, 347
AhlI	ACTAGT	1 cut(s)	449
AluBI	AGCT	2 cut(s)	219, 386
AluI	AGCT	2 cut(s)	219, 386
Alw21I	GWGCWC	2 cut(s)	449, 484
AlwI	GGATC	1 cut(s)	247
AoxI	GGCC	1 cut(s)	278
ApaI	GGGCCC	1 cut(s)	282
ApoI	RAATTY	2 cut(s)	16, 315
AspLEI	GCGC	1 cut(s)	38
AspS9I	GGNCC	2 cut(s)	278, 279
BaeGI	GKGCMC	1 cut(s)	282
BanII	GRGCYC	1 cut(s)	282
Bbv12I	GWGCWC	2 cut(s)	449, 484
BccI	CCATC	1 cut(s)	179
BcuI	ACTAGT	1 cut(s)	449
BfaI	CTAG	3 cut(s)	243, 450, 477
BfmI	CTRYAG	2 cut(s)	338, 352
BfuAI	ACCTGC	2 cut(s)	58, 359
BmgT120I	GGNCC	2 cut(s)	278, 279
BmiI	GGNNCC	1 cut(s)	280
BmsI	GCATC	3 cut(s)	47, 147, 336
Bpu10I	CCTNAGC	1 cut(s)	129
BpuEI	CTTGAG	1 cut(s)	205
Bse3DI	GCAATG	1 cut(s)	303
BseGI	GGATG	1 cut(s)	460
BseMI	GCAATG	1 cut(s)	303
BseMII	CTCAG	1 cut(s)	120
BseSI	GKGCMC	1 cut(s)	282
BshFI	GGCC	1 cut(s)	280
BsiHKAI	GWGCWC	2 cut(s)	449, 484
BsnI	GGCC	1 cut(s)	280
Bsp120I	GGGCCC	1 cut(s)	278
Bsp1286I	GDGCHC	3 cut(s)	282, 449, 484
Bsp143I	GATC	1 cut(s)	239
BspACI	CCGC	2 cut(s)	100, 325
BspANI	GGCC	1 cut(s)	280
BspCNI	CTCAG	1 cut(s)	121
BspLI	GGNNCC	1 cut(s)	280
BspMAI	CTGCAG	2 cut(s)	342, 356
BspMI	ACCTGC	2 cut(s)	58, 359
BspPI	GGATC	1 cut(s)	247
BsrDI	GCAATG	1 cut(s)	303
BssMI	GATC	1 cut(s)	239
BstDEI	CTNAG	2 cut(s)	129, 382
BstF5I	GGATG	1 cut(s)	460
BstHHI	GCGC	1 cut(s)	38
BstKTI	GATC	1 cut(s)	242
BstMBI	GATC	1 cut(s)	239
BstNSI	RCATGY	1 cut(s)	257
BstSFI	CTRYAG	2 cut(s)	338, 352
BstSLI	GKGCMC	1 cut(s)	282
BstX2I	RGATCY	1 cut(s)	239
BstYI	RGATCY	1 cut(s)	239
BsuRI	GGCC	1 cut(s)	280
BtsCI	GGATG	1 cut(s)	460
BveI	ACCTGC	2 cut(s)	58, 359
CfoI	GCGC	1 cut(s)	38
Cfr13I	GGNCC	2 cut(s)	278, 279
Csp6I	GTAC	1 cut(s)	194
CviAII	CATG	3 cut(s)	145, 254, 362
CviJI	RGCY	5 cut(s)	133, 219, 280, 386, 416
CviKI_1	RGCY	5 cut(s)	133, 219, 280, 386, 416
CviQI	GTAC	1 cut(s)	194
DdeI	CTNAG	2 cut(s)	129, 382
DpnI	GATC	1 cut(s)	241
DpnII	GATC	1 cut(s)	239
DrdI	GACNNNNNNGTC	1 cut(s)	377
DseDI	GACNNNNNNGTC	1 cut(s)	377
Eco24I	GRGCYC	1 cut(s)	282
Eco57I	CTGAAG	3 cut(s)	45, 104, 114
EcoO109I	RGGNCCY	1 cut(s)	278
EcoRI	GAATTC	1 cut(s)	16
EcoT38I	GRGCYC	1 cut(s)	282
FaeI	CATG	3 cut(s)	148, 257, 365
FaiI	YATR	7 cut(s)	146, 209, 255, 272, 292, 294, 363
FalI	AAGNNNNNCTT	2 cut(s)	365, 397
FatI	CATG	3 cut(s)	144, 253, 361
FauI	CCCGC	1 cut(s)	332
FokI	GGATG	1 cut(s)	447
FriOI	GRGCYC	1 cut(s)	282
FspBI	CTAG	3 cut(s)	243, 450, 477
GlaI	GCGC	1 cut(s)	37
HaeIII	GGCC	1 cut(s)	280
HhaI	GCGC	1 cut(s)	38
Hin1II	CATG	3 cut(s)	148, 257, 365
Hin6I	GCGC	1 cut(s)	36
HinP1I	GCGC	1 cut(s)	36
HinfI	GANTC	1 cut(s)	401
Hpy188I	TCNGA	2 cut(s)	43, 204
Hpy188III	TCNNGA	2 cut(s)	222, 419
HpyAV	CCTTC	2 cut(s)	172, 269
HpyCH4V	TGCA	6 cut(s)	67, 138, 308, 340, 354, 392
HpyF3I	CTNAG	2 cut(s)	129, 382
Hsp92II	CATG	3 cut(s)	148, 257, 365
HspAI	GCGC	1 cut(s)	36
Kzo9I	GATC	1 cut(s)	239
LpnPI	CCDG	6 cut(s)	18, 53, 89, 141, 364, 440
LweI	GCATC	3 cut(s)	47, 147, 336
MaeI	CTAG	3 cut(s)	243, 450, 477
MalI	GATC	1 cut(s)	241
MboI	GATC	1 cut(s)	239
MflI	RGATCY	1 cut(s)	239
MhlI	GDGCHC	3 cut(s)	282, 449, 484
MluCI	AATT	2 cut(s)	16, 315
MlyI	GAGTC	1 cut(s)	395
MnlI	CCTC	1 cut(s)	391
MseI	TTAA	1 cut(s)	488
MslI	CAYNNNNRTG	1 cut(s)	143
NdeII	GATC	1 cut(s)	239
NlaIII	CATG	3 cut(s)	148, 257, 365
NlaIV	GGNNCC	1 cut(s)	280
NspI	RCATGY	1 cut(s)	257
PciI	ACATGT	1 cut(s)	253
PleI	GAGTC	1 cut(s)	395
PpsI	GAGTC	1 cut(s)	395
PscI	ACATGT	1 cut(s)	253
PspN4I	GGNNCC	1 cut(s)	280
PspOMI	GGGCCC	1 cut(s)	278
PspPI	GGNCC	2 cut(s)	278, 279
PstI	CTGCAG	2 cut(s)	342, 356
PsuI	RGATCY	1 cut(s)	239
RsaI	GTAC	1 cut(s)	195
RsaNI	GTAC	1 cut(s)	194
RseI	CAYNNNNRTG	1 cut(s)	143
SaqAI	TTAA	1 cut(s)	488
Sau3AI	GATC	1 cut(s)	239
Sau96I	GGNCC	2 cut(s)	278, 279
SchI	GAGTC	1 cut(s)	395
SduI	GDGCHC	3 cut(s)	282, 449, 484
SetI	ASST	5 cut(s)	72, 183, 221, 353, 388
SfaNI	GCATC	3 cut(s)	47, 147, 336
SfcI	CTRYAG	2 cut(s)	338, 352
SmiMI	CAYNNNNRTG	1 cut(s)	143
SmlI	CTYRAG	1 cut(s)	220
SmoI	CTYRAG	1 cut(s)	220
SpeI	ACTAGT	1 cut(s)	449
Sse9I	AATT	2 cut(s)	16, 315
SsiI	CCGC	2 cut(s)	100, 325
SspMI	CTAG	3 cut(s)	243, 450, 477
TaqI	TCGA	3 cut(s)	20, 141, 369
TasI	AATT	2 cut(s)	16, 315
TatI	WGTACW	1 cut(s)	193
Tru1I	TTAA	1 cut(s)	488
Tru9I	TTAA	1 cut(s)	488
TspDTI	ATGAA	4 cut(s)	42, 191, 350, 449
XapI	RAATTY	2 cut(s)	16, 315
XceI	RCATGY	1 cut(s)	257
XspI	CTAG	3 cut(s)	243, 450, 477

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