Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3D

Orthogroup ID

OG0001002

Physical Location & Seq

Genomic Coordinates Forward (+)

10282035 .. 10291520

Gene Structure 9486 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3DG121600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 432 bp

ATGGCCTCGGAACAGGAGAGAAGGGTTCCCCAGAAGAGGGCAGAGCTGGACGAAAAGGCACGGCGGGGAGAGATTGTTGTTCCCGGTGGAACTGGTGGCAAGAGCCTCGAGGCTCAGGAGCACCTTGCTGAAGGACGACACAAGGGAGGGGAGAAGGGAGGGCAGACAAGGAAGGAGCAGATAGGCCATGAAGGGTACCATGAGATGGGCAAGAAGGGTGGACTCAGCACCAAGGACGAGTCCGGAGGAGAGCGTGCTGCTGAGGAGGGGCGACACAAGGGAGGGGAGACCAGGAGGGAGCAGATAGGTAATGAAGGGTATCATGAGATGGGCAAAAAGGGCGGATTGAGCACCAAGGACAAGTCCGGTGGAGAGCGTGCTGCTGAGGAAGGCATTCCTATTGACGAGTCCAAGTATAATAAGAGTCGCTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0001101 GO:0003006 GO:0003674 GO:0003676 GO:0003677 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005829 GO:0007275 GO:0008150 GO:0009719 GO:0009725 GO:0009737 GO:0009791 GO:0010033 GO:0010154 GO:0022414 GO:0032501 GO:0032502 GO:0033993 GO:0042221 GO:0044424 GO:0044444 GO:0044464 GO:0048316 GO:0048608 GO:0048731 GO:0048856 GO:0050896 GO:0061458 GO:0097159 GO:0097305 GO:1901363 GO:1901700

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

LEA_5

Protein Analysis

143

Amino Acids

15.52

Weight (kDa)

7.95

Isoelectric Point (pI)

50.85

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
LEA_5	PF00477	11 - 51	1.6e-16	Small hydrophilic plant seed protein
LEA_5	PF00477	50 - 90	4.4e-16	Small hydrophilic plant seed protein
LEA_5	PF00477	92 - 139	4.7e-21	Small hydrophilic plant seed 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

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0001002)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G40170 AT3G51810 AT3G51810
fragaria_vesca	FvH4_6g11140 FvH4_6g11160 FvH4_6g11170 FvH4_6g11180 FvH4_7g24640
malus_domestica	MD00G1062000.v1.1 MD04G1121100.v1.1
prunus_persica	Prupe.2G252100_v2.0.a1 Prupe.6G280200_v2.0.a1 Prupe.6G280300_v2.0.a1
pyrus_communis	pycom12g16320
rosa_chinensis	RchiOBHm_Chr3g0462601 RchiOBHm_Chr3g0462611 RchiOBHm_Chr3g0462621
rosa_laevigata	RLG00000024845 RLG00000024846 RLG00000028989
rosa_multiflora	Rmu_co8007370.1_g000001 Rmu_co8521225.1_g000002 Rmu_sc0002882.1_g000003 Rmu_sc0002882.1_g000004 Rmu_sc0002882.1_g000006 Rmu_sc0002882.1_g000007 Rmu_sc0003624.1_g000025 Rmu_sc0003624.1_g000026 Rmu_sc0006766.1_g000011 Rmu_sc0015198.1_g000001
rosa_roxburghii	Rroxscaffold_3G00269140 Rroxscaffold_4G00286530 Rroxscaffold_4G00310890 Rroxscaffold_4G00310930 Rroxscaffold_6G00417350 Rroxscaffold_6G00417360 Rroxscaffold_6G00417370
rosa_rugosa	Rorug01G0357000 Rorug03G0057700 Rorug03G0057800 Rorug03G0057900 Rorug03G0058000 Rorug03G0058100 Rorug03G0058200
rosa_samantha	Rh1BG328500 Rh1CG341600 Rh1DG358800 Rh3AG115900 Rh3AG116000 Rh3AG116200 Rh3AG116300 Rh3BG119400 Rh3BG119500 Rh3BG119700 Rh3BG119800 Rh3CG122700 Rh3CG122800 Rh3CG123000 Rh3DG121500 Rh3DG121600 Rh3DG121700
rosa_wichuraiana	Rw3G009820

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AbsI	CCTCGAGG	1 cut(s)	107
Acc65I	GGTACC	1 cut(s)	195
AccB1I	GGYRCC	1 cut(s)	195
AccB7I	CCANNNNNTGG	1 cut(s)	205
AccIII	TCCGGA	1 cut(s)	242
AciI	CCGC	2 cut(s)	64, 342
AcuI	CTGAAG	1 cut(s)	150
AfaI	GTAC	1 cut(s)	197
AfiI	CCNNNNNNNGG	3 cut(s)	36, 37, 205
AjnI	CCWGG	1 cut(s)	290
AluBI	AGCT	1 cut(s)	46
AluI	AGCT	1 cut(s)	46
Alw21I	GWGCWC	2 cut(s)	123, 353
Alw26I	GTCTC	1 cut(s)	281
Ama87I	CYCGRG	1 cut(s)	107
Aor13HI	TCCGGA	1 cut(s)	242
AoxI	GGCC	2 cut(s)	3, 184
ApeKI	GCWGC	2 cut(s)	257, 380
Asp700I	GAANNNNTTC	1 cut(s)	393
Asp718I	GGTACC	1 cut(s)	195
AsuC2I	CCSGG	1 cut(s)	84
AvaI	CYCGRG	1 cut(s)	107
BanI	GGYRCC	1 cut(s)	195
Bbv12I	GWGCWC	2 cut(s)	123, 353
BbvCI	CCTCAGC	2 cut(s)	261, 384
BbvI	GCAGC	2 cut(s)	244, 367
BccI	CCATC	2 cut(s)	199, 322
BceAI	ACGGC	1 cut(s)	77
BcgI	CGANNNNNNTGC	2 cut(s)	88, 122
BciT130I	CCWGG	1 cut(s)	292
BcnI	CCSGG	1 cut(s)	84
BcoDI	GTCTC	1 cut(s)	281
BisI	GCNGC	2 cut(s)	258, 381
BlsI	GCNGC	2 cut(s)	259, 382
Bme1390I	CCNGG	2 cut(s)	84, 292
BmeT110I	CYCGRG	1 cut(s)	107
BmiI	GGNNCC	2 cut(s)	27, 197
BmrFI	CCNGG	2 cut(s)	84, 292
Bpu10I	CCTNAGC	3 cut(s)	114, 261, 384
BpuMI	CCSGG	1 cut(s)	84
BsaI	GGTCTC	1 cut(s)	281
BsaJI	CCNNGG	3 cut(s)	6, 231, 354
BsaWI	WCCGGW	2 cut(s)	242, 365
BsaXI	ACNNNNNCTCC	2 cut(s)	60, 90
Bsc4I	CCNNNNNNNGG	3 cut(s)	36, 37, 205
Bse1I	ACTGG	1 cut(s)	97
BseAI	TCCGGA	1 cut(s)	242
BseBI	CCWGG	1 cut(s)	292
BseDI	CCNNGG	3 cut(s)	6, 231, 354
BseLI	CCNNNNNNNGG	3 cut(s)	36, 37, 205
BseMII	CTCAG	4 cut(s)	128, 238, 252, 375
BseNI	ACTGG	1 cut(s)	97
BseRI	GAGGAG	2 cut(s)	261, 278
BseXI	GCAGC	2 cut(s)	244, 367
BshFI	GGCC	2 cut(s)	5, 186
BshNI	GGYRCC	1 cut(s)	195
BsiHKAI	GWGCWC	2 cut(s)	123, 353
BsiHKCI	CYCGRG	1 cut(s)	107
BsiSI	CCGG	3 cut(s)	84, 243, 366
BslI	CCNNNNNNNGG	3 cut(s)	36, 37, 205
BsmAI	GTCTC	1 cut(s)	281
BsmI	GAATGC	1 cut(s)	393
BsnI	GGCC	2 cut(s)	5, 186
Bso31I	GGTCTC	1 cut(s)	281
BsoBI	CYCGRG	1 cut(s)	107
Bsp1286I	GDGCHC	2 cut(s)	123, 353
Bsp13I	TCCGGA	1 cut(s)	242
BspACI	CCGC	2 cut(s)	64, 342
BspANI	GGCC	2 cut(s)	5, 186
BspCNI	CTCAG	4 cut(s)	127, 237, 253, 376
BspEI	TCCGGA	1 cut(s)	242
BspHI	TCATGA	1 cut(s)	322
BspLI	GGNNCC	2 cut(s)	27, 197
BspT107I	GGYRCC	1 cut(s)	195
BspTNI	GGTCTC	1 cut(s)	281
BsrI	ACTGG	1 cut(s)	97
BssECI	CCNNGG	3 cut(s)	6, 231, 354
BssT1I	CCWWGG	2 cut(s)	231, 354
Bst2UI	CCWGG	1 cut(s)	292
Bst6I	CTCTTC	1 cut(s)	29
BstC8I	GCNNGC	2 cut(s)	255, 378
BstDEI	CTNAG	4 cut(s)	114, 224, 261, 384
BstMAI	GTCTC	1 cut(s)	281
BstMWI	GCNNNNNNNGC	2 cut(s)	339, 348
BstNI	CCWGG	1 cut(s)	292
BstSCI	CCNGG	2 cut(s)	82, 290
BstV1I	GCAGC	2 cut(s)	244, 367
BsuRI	GGCC	2 cut(s)	5, 186
Cac8I	GCNNGC	2 cut(s)	255, 378
CciI	TCATGA	1 cut(s)	322
Csp6I	GTAC	1 cut(s)	196
CspCI	CAANNNNNGTGG	4 cut(s)	199, 234, 349, 384
CviAII	CATG	3 cut(s)	188, 200, 323
CviJI	RGCY	5 cut(s)	5, 46, 105, 113, 186
CviKI_1	RGCY	5 cut(s)	5, 46, 105, 113, 186
CviQI	GTAC	1 cut(s)	196
DdeI	CTNAG	4 cut(s)	114, 224, 261, 384
Eam1104I	CTCTTC	1 cut(s)	29
EarI	CTCTTC	1 cut(s)	29
EciI	GGCGGA	1 cut(s)	357
Eco130I	CCWWGG	2 cut(s)	231, 354
Eco31I	GGTCTC	1 cut(s)	281
Eco57I	CTGAAG	1 cut(s)	150
Eco88I	CYCGRG	1 cut(s)	107
EcoRII	CCWGG	1 cut(s)	290
EcoT14I	CCWWGG	2 cut(s)	231, 354
ErhI	CCWWGG	2 cut(s)	231, 354
FaeI	CATG	3 cut(s)	191, 203, 326
FaiI	YATR	4 cut(s)	189, 201, 324, 417
FatI	CATG	3 cut(s)	187, 199, 322
FauI	CCCGC	1 cut(s)	57
Fnu4HI	GCNGC	2 cut(s)	258, 381
Fsp4HI	GCNGC	2 cut(s)	258, 381
GluI	GCNGC	2 cut(s)	258, 381
HaeIII	GGCC	2 cut(s)	5, 186
HapII	CCGG	3 cut(s)	84, 243, 366
Hin1II	CATG	3 cut(s)	191, 203, 326
HinfI	GANTC	4 cut(s)	222, 239, 407, 424
HpaII	CCGG	3 cut(s)	84, 243, 366
Hpy166II	GTNNAC	1 cut(s)	221
Hpy188I	TCNGA	1 cut(s)	10
Hpy188III	TCNNGA	3 cut(s)	116, 243, 323
Hpy8I	GTNNAC	1 cut(s)	221
HpyAV	CCTTC	8 cut(s)	15, 125, 148, 166, 185, 208, 308, 383
HpyF10VI	GCNNNNNNNGC	2 cut(s)	339, 348
HpyF3I	CTNAG	4 cut(s)	114, 224, 261, 384
Hsp92II	CATG	3 cut(s)	191, 203, 326
Kpn2I	TCCGGA	1 cut(s)	242
KpnI	GGTACC	1 cut(s)	199
LmnI	GCTCC	3 cut(s)	118, 175, 298
LpnPI	CCDG	9 cut(s)	32, 44, 78, 97, 101, 256, 277, 304, 379
Lsp1109I	GCAGC	2 cut(s)	244, 367
MboII	GAAGA	1 cut(s)	46
MhlI	GDGCHC	2 cut(s)	123, 353
MlyI	GAGTC	3 cut(s)	216, 248, 416
MroI	TCCGGA	1 cut(s)	242
MroXI	GAANNNNTTC	1 cut(s)	393
MspI	CCGG	3 cut(s)	84, 243, 366
MspR9I	CCNGG	2 cut(s)	84, 292
Mva1269I	GAATGC	1 cut(s)	393
MvaI	CCWGG	1 cut(s)	292
MwoI	GCNNNNNNNGC	2 cut(s)	339, 348
NciI	CCSGG	1 cut(s)	84
NlaIII	CATG	3 cut(s)	191, 203, 326
NlaIV	GGNNCC	2 cut(s)	27, 197
PaeR7I	CTCGAG	1 cut(s)	107
PagI	TCATGA	1 cut(s)	322
PctI	GAATGC	1 cut(s)	393
PdmI	GAANNNNTTC	1 cut(s)	393
PflMI	CCANNNNNTGG	1 cut(s)	205
PkrI	GCNGC	2 cut(s)	259, 382
PleI	GAGTC	3 cut(s)	216, 247, 415
PpsI	GAGTC	3 cut(s)	216, 247, 415
Psp6I	CCWGG	1 cut(s)	290
PspGI	CCWGG	1 cut(s)	290
PspN4I	GGNNCC	2 cut(s)	27, 197
PspXI	VCTCGAGB	1 cut(s)	107
RsaI	GTAC	1 cut(s)	197
RsaNI	GTAC	1 cut(s)	196
SatI	GCNGC	2 cut(s)	258, 381
SchI	GAGTC	3 cut(s)	216, 248, 416
ScrFI	CCNGG	2 cut(s)	84, 292
SduI	GDGCHC	2 cut(s)	123, 353
SetI	ASST	3 cut(s)	48, 126, 310
Sfr274I	CTCGAG	1 cut(s)	107
SlaI	CTCGAG	1 cut(s)	107
SmlI	CTYRAG	1 cut(s)	107
SmoI	CTYRAG	1 cut(s)	107
SsiI	CCGC	2 cut(s)	64, 342
StyD4I	CCNGG	2 cut(s)	82, 290
StyI	CCWWGG	2 cut(s)	231, 354
TaqI	TCGA	1 cut(s)	108
TseI	GCWGC	2 cut(s)	257, 380
TspDTI	ATGAA	2 cut(s)	204, 327
Van91I	CCANNNNNTGG	1 cut(s)	205
XhoI	CTCGAG	1 cut(s)	107
XmnI	GAANNNNTTC	1 cut(s)	393

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