Basic Information

Type: gene

Biological Identity

Species

arabidopsis_thaliana

Chromosome

Orthogroup ID

OG0001881

Physical Location & Seq

Genomic Coordinates Reverse (-)

21995610 .. 21996840

Gene Structure 1231 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

AT3G59540.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 210 bp

ATGCCGAAGCAAATCCATGAGATCAAGGACTTCCTTTTGACGGCGAGAAGGAAGGATGCAAGGTCTGTGAAGATCAAGAGAAGCAAGGACATTGTGAAGTTCAAGGTCAGGTGCTCAAGGTACCTCTACACACTATGTGTCTTCGACCAAGAGAAGGCCGATAAGTTGAAGCAGTCTCTTCCTCCAGGTTTGAGTGTGCAAGACCTTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003723 GO:0003735 GO:0005198 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005829 GO:0005840 GO:0006412 GO:0006518 GO:0006807 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009987 GO:0010467 GO:0015934 GO:0016043 GO:0019538 GO:0022607 GO:0022613 GO:0022618 GO:0022625 GO:0022626 GO:0032991 GO:0034622 GO:0034641 GO:0034645 GO:0043043 GO:0043170 GO:0043226 GO:0043228 GO:0043229 GO:0043232 GO:0043603 GO:0043604 GO:0043933 GO:0044085 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044267 GO:0044271 GO:0044391 GO:0044422 GO:0044424 GO:0044444 GO:0044445 GO:0044446 GO:0044464 GO:0065003 GO:0071704 GO:0071826 GO:0071840 GO:0097159 GO:1901363 GO:1901564 GO:1901566 GO:1901576 GO:1990904

KEGG Pathways

Metabolic & Signaling

ko03010 map03010

Pfam Domains

Protein Families

Ribosomal_L38e

Protein Analysis

69

Amino Acids

8.12

Weight (kDa)

9.95

Isoelectric Point (pI)

56.93

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Ribosomal_L38e	PF01781	2 - 68	5.2e-36	Ribosomal L38e protein family

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: OG0001881)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G43460 AT3G59540
fragaria_vesca	FvH4_2g11140 FvH4_2g12030 FvH4_3g31637 FvH4_6g00180 FvH4_6g00180
malus_domestica	MD03G1210200.v1.1 MD04G1045900.v1.1 MD04G1247500.v1.1 MD05G1254000.v1.1 MD05G1339000.v1.1 MD11G1200200.v1.1 MD12G1262900.v1.1 MD13G1258200.v1.1 MD15G1353900.v1.1
prunus_persica	Prupe.1G193400_v2.0.a1 Prupe.1G198900_v2.0.a1 Prupe.6G363900_v2.0.a1 Prupe.7G035900_v2.0.a1
pyrus_communis	pycom04g21820 pycom12g24090
rosa_chinensis	RchiOBHm_Chr3g0447551 RchiOBHm_Chr6g0269441
rosa_laevigata	RLG00000025704
rosa_multiflora	Rmu_co8253789.1_g000001 Rmu_sc0000743.1_g000005 Rmu_sc0003550.1_g000008 Rmu_sc0027627.1_g000001 Rmu_sc0037294.1_g000003
rosa_roxburghii	Rroxscaffold_7G00198720
rosa_rugosa	Rorug02G0602700 Rorug02G0602800 Rorug05G0286200 Rorug05G0286200 Rorug06G0047800
rosa_samantha	Rh2CG566400 Rh3CG339700 Rh5CG368600 Rh5DG420000 Rh6CG167700 Rh6DG159700
rosa_wichuraiana	Rw2G024710 Rw3G000200 Rw5G036920 Rw6G014480

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc65I	GGTACC	1 cut(s)	120
AccB1I	GGYRCC	1 cut(s)	120
AdeI	CACNNNGTG	1 cut(s)	137
AfaI	GTAC	1 cut(s)	122
AfiI	CCNNNNNNNGG	2 cut(s)	40, 154
AgsI	TTSAA	2 cut(s)	103, 169
AjnI	CCWGG	1 cut(s)	184
Alw21I	GWGCWC	1 cut(s)	116
Alw26I	GTCTC	1 cut(s)	180
AoxI	GGCC	1 cut(s)	156
Asp718I	GGTACC	1 cut(s)	120
BanI	GGYRCC	1 cut(s)	120
BbsI	GAAGAC	1 cut(s)	133
Bbv12I	GWGCWC	1 cut(s)	116
BceAI	ACGGC	1 cut(s)	57
BciT130I	CCWGG	1 cut(s)	186
BcoDI	GTCTC	1 cut(s)	180
Bme1390I	CCNGG	1 cut(s)	186
BmiI	GGNNCC	1 cut(s)	122
BmrFI	CCNGG	1 cut(s)	186
BmsI	GCATC	1 cut(s)	46
BpiI	GAAGAC	1 cut(s)	133
BpmI	CTGGAG	1 cut(s)	168
BpuEI	CTTGAG	1 cut(s)	100
Bsc4I	CCNNNNNNNGG	2 cut(s)	40, 154
BseBI	CCWGG	1 cut(s)	186
BseGI	GGATG	1 cut(s)	61
BseLI	CCNNNNNNNGG	2 cut(s)	40, 154
BshFI	GGCC	1 cut(s)	158
BshNI	GGYRCC	1 cut(s)	120
BsiHKAI	GWGCWC	1 cut(s)	116
BslI	CCNNNNNNNGG	2 cut(s)	40, 154
BsmAI	GTCTC	1 cut(s)	180
BsnI	GGCC	1 cut(s)	158
Bsp1286I	GDGCHC	1 cut(s)	116
Bsp143I	GATC	2 cut(s)	21, 72
BspANI	GGCC	1 cut(s)	158
BspLI	GGNNCC	1 cut(s)	122
BspT107I	GGYRCC	1 cut(s)	120
BssMI	GATC	2 cut(s)	21, 72
Bst2UI	CCWGG	1 cut(s)	186
Bst6I	CTCTTC	1 cut(s)	183
BstF5I	GGATG	1 cut(s)	61
BstKTI	GATC	2 cut(s)	24, 75
BstMAI	GTCTC	1 cut(s)	180
BstMBI	GATC	2 cut(s)	21, 72
BstNI	CCWGG	1 cut(s)	186
BstSCI	CCNGG	1 cut(s)	184
BstV2I	GAAGAC	1 cut(s)	133
BsuRI	GGCC	1 cut(s)	158
BtsCI	GGATG	1 cut(s)	61
Csp6I	GTAC	1 cut(s)	121
CviAII	CATG	1 cut(s)	17
CviJI	RGCY	1 cut(s)	158
CviKI_1	RGCY	1 cut(s)	158
CviQI	GTAC	1 cut(s)	121
DpnI	GATC	2 cut(s)	23, 74
DpnII	GATC	2 cut(s)	21, 72
DraIII	CACNNNGTG	1 cut(s)	137
Eam1104I	CTCTTC	1 cut(s)	183
EarI	CTCTTC	1 cut(s)	183
EcoRII	CCWGG	1 cut(s)	184
FaeI	CATG	1 cut(s)	20
FaiI	YATR	2 cut(s)	18, 136
FatI	CATG	1 cut(s)	16
FokI	GGATG	1 cut(s)	68
GsuI	CTGGAG	1 cut(s)	168
HaeIII	GGCC	1 cut(s)	158
Hin1II	CATG	1 cut(s)	20
Hpy188III	TCNNGA	1 cut(s)	76
HpyAV	CCTTC	3 cut(s)	42, 46, 148
HpyCH4V	TGCA	2 cut(s)	59, 199
Hsp92II	CATG	1 cut(s)	20
KpnI	GGTACC	1 cut(s)	124
Kzo9I	GATC	2 cut(s)	21, 72
LpnPI	CCDG	3 cut(s)	94, 171, 198
LweI	GCATC	1 cut(s)	46
MalI	GATC	2 cut(s)	23, 74
MboI	GATC	2 cut(s)	21, 72
MboII	GAAGA	3 cut(s)	82, 133, 170
MhlI	GDGCHC	1 cut(s)	116
MnlI	CCTC	2 cut(s)	134, 192
MspR9I	CCNGG	1 cut(s)	186
MvaI	CCWGG	1 cut(s)	186
NdeII	GATC	2 cut(s)	21, 72
NlaIII	CATG	1 cut(s)	20
NlaIV	GGNNCC	1 cut(s)	122
Psp6I	CCWGG	1 cut(s)	184
PspGI	CCWGG	1 cut(s)	184
PspN4I	GGNNCC	1 cut(s)	122
RsaI	GTAC	1 cut(s)	122
RsaNI	GTAC	1 cut(s)	121
Sau3AI	GATC	2 cut(s)	21, 72
ScrFI	CCNGG	1 cut(s)	186
SduI	GDGCHC	1 cut(s)	116
SetI	ASST	7 cut(s)	65, 108, 113, 122, 126, 190, 207
SfaNI	GCATC	1 cut(s)	46
SmlI	CTYRAG	1 cut(s)	115
SmoI	CTYRAG	1 cut(s)	115
StyD4I	CCNGG	1 cut(s)	184
TaqI	TCGA	1 cut(s)	144

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