Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3C

Orthogroup ID

OG0001002

Physical Location & Seq

Genomic Coordinates Forward (+)

9936546 .. 9937601

Gene Structure 1056 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3CG122800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 312 bp

ATGGCCTCGGAACAGGAGAGAAGGGTTCCCCAGAAGAGGGCAGAGCTGGACGAAAAAGCACGGCGGGAAGAGATTGTTGTTCCCGGTGGAACTGGTGGCAAGAGCCTCGAGGATCAGGAGCACCTTGCTGAAGGACGACACAAGGGAGGGGAGAAGGGAGGGCAGACAAGGAAGGAGCAGATAGGCCATGAAGGGTACCATGAGATGGGCAAGAAGGGTGGACTCAGCACCAAGGACGAGTCCGGAGGAGAGCGTGCTGCTGAGGAGGGTGTTCCGATTGACGAGTCCAAGTACAAAACTAAGAGTCGTTGA

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

103

Amino Acids

11.33

Weight (kDa)

6.44

Isoelectric Point (pI)

60.84

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
LEA_5	PF00477	11 - 51	5.1e-15	Small hydrophilic plant seed protein
LEA_5	PF00477	50 - 98	1.1e-21	Small hydrophilic plant seed 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: 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	1 cut(s)	64
AclWI	GGATC	1 cut(s)	120
AcuI	CTGAAG	1 cut(s)	150
AfaI	GTAC	2 cut(s)	197, 293
AfiI	CCNNNNNNNGG	3 cut(s)	36, 37, 205
AluBI	AGCT	1 cut(s)	46
AluI	AGCT	1 cut(s)	46
Alw21I	GWGCWC	1 cut(s)	123
AlwI	GGATC	1 cut(s)	120
Ama87I	CYCGRG	1 cut(s)	107
Aor13HI	TCCGGA	1 cut(s)	242
AoxI	GGCC	2 cut(s)	3, 184
ApeKI	GCWGC	1 cut(s)	257
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	1 cut(s)	123
BbvCI	CCTCAGC	1 cut(s)	261
BbvI	GCAGC	1 cut(s)	244
BccI	CCATC	1 cut(s)	199
BceAI	ACGGC	1 cut(s)	77
BcgI	CGANNNNNNTGC	2 cut(s)	88, 122
BcnI	CCSGG	1 cut(s)	84
BisI	GCNGC	1 cut(s)	258
BlsI	GCNGC	1 cut(s)	259
Bme1390I	CCNGG	1 cut(s)	84
BmeT110I	CYCGRG	1 cut(s)	107
BmiI	GGNNCC	2 cut(s)	27, 197
BmrFI	CCNGG	1 cut(s)	84
Bpu10I	CCTNAGC	1 cut(s)	261
BpuMI	CCSGG	1 cut(s)	84
BsaJI	CCNNGG	2 cut(s)	6, 231
BsaWI	WCCGGW	1 cut(s)	242
Bsc4I	CCNNNNNNNGG	3 cut(s)	36, 37, 205
Bse1I	ACTGG	1 cut(s)	97
BseAI	TCCGGA	1 cut(s)	242
BseDI	CCNNGG	2 cut(s)	6, 231
BseLI	CCNNNNNNNGG	3 cut(s)	36, 37, 205
BseMII	CTCAG	2 cut(s)	238, 252
BseNI	ACTGG	1 cut(s)	97
BseRI	GAGGAG	2 cut(s)	261, 278
BseXI	GCAGC	1 cut(s)	244
BshFI	GGCC	2 cut(s)	5, 186
BshNI	GGYRCC	1 cut(s)	195
BsiHKAI	GWGCWC	1 cut(s)	123
BsiHKCI	CYCGRG	1 cut(s)	107
BsiSI	CCGG	2 cut(s)	84, 243
BslI	CCNNNNNNNGG	3 cut(s)	36, 37, 205
BsnI	GGCC	2 cut(s)	5, 186
BsoBI	CYCGRG	1 cut(s)	107
Bsp1286I	GDGCHC	1 cut(s)	123
Bsp13I	TCCGGA	1 cut(s)	242
Bsp143I	GATC	1 cut(s)	112
BspACI	CCGC	1 cut(s)	64
BspANI	GGCC	2 cut(s)	5, 186
BspCNI	CTCAG	2 cut(s)	237, 253
BspEI	TCCGGA	1 cut(s)	242
BspLI	GGNNCC	2 cut(s)	27, 197
BspPI	GGATC	1 cut(s)	120
BspT107I	GGYRCC	1 cut(s)	195
BsrI	ACTGG	1 cut(s)	97
BssECI	CCNNGG	2 cut(s)	6, 231
BssMI	GATC	1 cut(s)	112
BssT1I	CCWWGG	1 cut(s)	231
Bst6I	CTCTTC	2 cut(s)	29, 63
BstC8I	GCNNGC	1 cut(s)	255
BstDEI	CTNAG	3 cut(s)	224, 261, 300
BstKTI	GATC	1 cut(s)	115
BstMBI	GATC	1 cut(s)	112
BstSCI	CCNGG	1 cut(s)	82
BstV1I	GCAGC	1 cut(s)	244
BsuRI	GGCC	2 cut(s)	5, 186
Cac8I	GCNNGC	1 cut(s)	255
Csp6I	GTAC	2 cut(s)	196, 292
CspCI	CAANNNNNGTGG	2 cut(s)	199, 234
CviAII	CATG	2 cut(s)	188, 200
CviJI	RGCY	4 cut(s)	5, 46, 105, 186
CviKI_1	RGCY	4 cut(s)	5, 46, 105, 186
CviQI	GTAC	2 cut(s)	196, 292
DdeI	CTNAG	3 cut(s)	224, 261, 300
DpnI	GATC	1 cut(s)	114
DpnII	GATC	1 cut(s)	112
Eam1104I	CTCTTC	2 cut(s)	29, 63
EarI	CTCTTC	2 cut(s)	29, 63
Eco130I	CCWWGG	1 cut(s)	231
Eco57I	CTGAAG	1 cut(s)	150
Eco88I	CYCGRG	1 cut(s)	107
EcoT14I	CCWWGG	1 cut(s)	231
ErhI	CCWWGG	1 cut(s)	231
FaeI	CATG	2 cut(s)	191, 203
FaiI	YATR	2 cut(s)	189, 201
FatI	CATG	2 cut(s)	187, 199
FauI	CCCGC	1 cut(s)	57
Fnu4HI	GCNGC	1 cut(s)	258
Fsp4HI	GCNGC	1 cut(s)	258
GluI	GCNGC	1 cut(s)	258
HaeIII	GGCC	2 cut(s)	5, 186
HapII	CCGG	2 cut(s)	84, 243
Hin1II	CATG	2 cut(s)	191, 203
HinfI	GANTC	4 cut(s)	222, 239, 284, 304
HpaII	CCGG	2 cut(s)	84, 243
Hpy166II	GTNNAC	1 cut(s)	221
Hpy188I	TCNGA	2 cut(s)	10, 276
Hpy188III	TCNNGA	2 cut(s)	116, 243
Hpy8I	GTNNAC	1 cut(s)	221
HpyAV	CCTTC	6 cut(s)	15, 125, 148, 166, 185, 208
HpyF3I	CTNAG	3 cut(s)	224, 261, 300
Hsp92II	CATG	2 cut(s)	191, 203
Kpn2I	TCCGGA	1 cut(s)	242
KpnI	GGTACC	1 cut(s)	199
Kzo9I	GATC	1 cut(s)	112
LmnI	GCTCC	2 cut(s)	118, 175
LpnPI	CCDG	6 cut(s)	32, 44, 78, 97, 101, 256
Lsp1109I	GCAGC	1 cut(s)	244
MalI	GATC	1 cut(s)	114
MboI	GATC	1 cut(s)	112
MboII	GAAGA	2 cut(s)	46, 80
MhlI	GDGCHC	1 cut(s)	123
MlyI	GAGTC	3 cut(s)	216, 248, 293
MnlI	CCTC	9 cut(s)	16, 30, 103, 116, 140, 152, 239, 256, 259
MroI	TCCGGA	1 cut(s)	242
MspI	CCGG	2 cut(s)	84, 243
MspR9I	CCNGG	1 cut(s)	84
NciI	CCSGG	1 cut(s)	84
NdeII	GATC	1 cut(s)	112
NlaIII	CATG	2 cut(s)	191, 203
NlaIV	GGNNCC	2 cut(s)	27, 197
PaeR7I	CTCGAG	1 cut(s)	107
PflMI	CCANNNNNTGG	1 cut(s)	205
PkrI	GCNGC	1 cut(s)	259
PleI	GAGTC	3 cut(s)	216, 247, 292
PpsI	GAGTC	3 cut(s)	216, 247, 292
PspN4I	GGNNCC	2 cut(s)	27, 197
PspXI	VCTCGAGB	1 cut(s)	107
RsaI	GTAC	2 cut(s)	197, 293
RsaNI	GTAC	2 cut(s)	196, 292
SatI	GCNGC	1 cut(s)	258
Sau3AI	GATC	1 cut(s)	112
SchI	GAGTC	3 cut(s)	216, 248, 293
ScrFI	CCNGG	1 cut(s)	84
SduI	GDGCHC	1 cut(s)	123
SetI	ASST	2 cut(s)	48, 126
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	1 cut(s)	64
StyD4I	CCNGG	1 cut(s)	82
StyI	CCWWGG	1 cut(s)	231
TaqI	TCGA	1 cut(s)	108
TatI	WGTACW	1 cut(s)	291
TseI	GCWGC	1 cut(s)	257
TspDTI	ATGAA	1 cut(s)	204
Van91I	CCANNNNNTGG	1 cut(s)	205
XhoI	CTCGAG	1 cut(s)	107

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