Basic Information

Type: gene

Biological Identity

Species

arabidopsis_thaliana

Chromosome

Orthogroup ID

OG0016178

Physical Location & Seq

Genomic Coordinates Forward (+)

19813346 .. 19814554

Gene Structure 1209 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

AT5G48870.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 267 bp

ATGGCGAACAATCCTTCACAGCTTCTTCCTTCAGAGCTAATCGATAGGTGTATAGGGTCTAAGATTTGGGTGATAATGAAAGGAGATAAGGAGCTCGTTGGTATTCTCAAAGGATTCGATGTTTATGTCAACATGGTTCTTGAAGATGTCACCGAATATGAGATTACGGCAGAAGGAAGACGGGTCACAAAGCTTGATCAGATTCTACTCAATGGCAACAACATCGCCATTCTGGTGCCAGGTGGGTCTCCCGAAGATGGAGAATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000375 GO:0000377 GO:0000398 GO:0000956 GO:0001101 GO:0003674 GO:0003676 GO:0003723 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005688 GO:0006139 GO:0006396 GO:0006397 GO:0006401 GO:0006402 GO:0006725 GO:0006807 GO:0006950 GO:0008150 GO:0008152 GO:0008380 GO:0009056 GO:0009057 GO:0009414 GO:0009415 GO:0009628 GO:0009719 GO:0009725 GO:0009737 GO:0009892 GO:0009987 GO:0010033 GO:0010035 GO:0010467 GO:0010468 GO:0010605 GO:0010629 GO:0016070 GO:0016071 GO:0019222 GO:0019439 GO:0030532 GO:0032991 GO:0033993 GO:0034641 GO:0034655 GO:0042221 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044237 GO:0044238 GO:0044248 GO:0044260 GO:0044265 GO:0044270 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0046483 GO:0046540 GO:0046700 GO:0048519 GO:0050789 GO:0050896 GO:0060255 GO:0065007 GO:0071704 GO:0090304 GO:0097159 GO:0097305 GO:0097525 GO:0097526 GO:0120114 GO:1901360 GO:1901361 GO:1901363 GO:1901575 GO:1901700 GO:1990726 GO:1990904

KEGG Pathways

Metabolic & Signaling

ko03018 ko03040 map03018 map03040

Pfam Domains

Protein Families

LSM

Protein Analysis

88

Amino Acids

9.66

Weight (kDa)

4.5

Isoelectric Point (pI)

43.98

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
LSM	PF01423	13 - 80	2.4e-20	LSM domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Orthologous Genes (Group: OG0016178)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G48870
fragaria_vesca	FvH4_1g24390
malus_domestica	MD05G1178700.v1.1 MD10G1167200.v1.1
prunus_persica	Prupe.8G205100_v2.0.a1
pyrus_communis	pycom05g16470 pycom10g14410
rosa_chinensis	RchiOBHm_Chr2g0121221
rosa_multiflora	Rmu_sc0000079.1_g000038
rosa_roxburghii	Rroxscaffold_2G00122500
rosa_rugosa	Rorug02G0232900
rosa_samantha	Rh2AG289800 Rh2BG300500 Rh2CG279200
rosa_wichuraiana	Rw2G023240

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	235
AcuI	CTGAAG	1 cut(s)	15
AfiI	CCNNNNNNNGG	1 cut(s)	257
AgsI	TTSAA	1 cut(s)	143
AjnI	CCWGG	1 cut(s)	238
AluBI	AGCT	4 cut(s)	22, 37, 94, 193
AluI	AGCT	4 cut(s)	22, 37, 94, 193
Alw21I	GWGCWC	1 cut(s)	96
Alw26I	GTCTC	1 cut(s)	252
AsuHPI	GGTGA	2 cut(s)	82, 142
BanI	GGYRCC	1 cut(s)	235
BanII	GRGCYC	1 cut(s)	96
BbsI	GAAGAC	1 cut(s)	184
Bbv12I	GWGCWC	1 cut(s)	96
BccI	CCATC	1 cut(s)	251
BceAI	ACGGC	1 cut(s)	183
BcgI	CGANNNNNNTGC	2 cut(s)	205, 239
BciT130I	CCWGG	1 cut(s)	240
BclI	TGATCA	1 cut(s)	196
BcoDI	GTCTC	1 cut(s)	252
Bme1390I	CCNGG	1 cut(s)	240
BmiI	GGNNCC	1 cut(s)	237
BmrFI	CCNGG	1 cut(s)	240
BpiI	GAAGAC	1 cut(s)	184
Bsa29I	ATCGAT	1 cut(s)	42
BsaI	GGTCTC	1 cut(s)	252
Bsc4I	CCNNNNNNNGG	1 cut(s)	257
BseBI	CCWGG	1 cut(s)	240
BseCI	ATCGAT	1 cut(s)	42
BseLI	CCNNNNNNNGG	1 cut(s)	257
BshNI	GGYRCC	1 cut(s)	235
BshVI	ATCGAT	1 cut(s)	42
BsiHKAI	GWGCWC	1 cut(s)	96
BslI	CCNNNNNNNGG	1 cut(s)	257
BsmAI	GTCTC	1 cut(s)	252
Bso31I	GGTCTC	1 cut(s)	252
Bsp1286I	GDGCHC	1 cut(s)	96
Bsp143I	GATC	1 cut(s)	196
BspDI	ATCGAT	1 cut(s)	42
BspLI	GGNNCC	1 cut(s)	237
BspT107I	GGYRCC	1 cut(s)	235
BspTNI	GGTCTC	1 cut(s)	252
BssMI	GATC	1 cut(s)	196
Bst2UI	CCWGG	1 cut(s)	240
BstDEI	CTNAG	1 cut(s)	60
BstKTI	GATC	1 cut(s)	199
BstMAI	GTCTC	1 cut(s)	252
BstMBI	GATC	1 cut(s)	196
BstNI	CCWGG	1 cut(s)	240
BstSCI	CCNGG	1 cut(s)	238
BstV2I	GAAGAC	1 cut(s)	184
Bsu15I	ATCGAT	1 cut(s)	42
BsuTUI	ATCGAT	1 cut(s)	42
BtgZI	GCGATG	1 cut(s)	208
ClaI	ATCGAT	1 cut(s)	42
CviAII	CATG	1 cut(s)	133
CviJI	RGCY	4 cut(s)	22, 37, 94, 193
CviKI_1	RGCY	4 cut(s)	22, 37, 94, 193
DdeI	CTNAG	1 cut(s)	60
DpnI	GATC	1 cut(s)	198
DpnII	GATC	1 cut(s)	196
Ecl136II	GAGCTC	1 cut(s)	94
Eco24I	GRGCYC	1 cut(s)	96
Eco31I	GGTCTC	1 cut(s)	252
Eco53kI	GAGCTC	1 cut(s)	94
Eco57I	CTGAAG	1 cut(s)	15
EcoICRI	GAGCTC	1 cut(s)	94
EcoRII	CCWGG	1 cut(s)	238
EcoT38I	GRGCYC	1 cut(s)	96
FaeI	CATG	1 cut(s)	136
FaiI	YATR	4 cut(s)	53, 126, 134, 159
FatI	CATG	1 cut(s)	132
FbaI	TGATCA	1 cut(s)	196
FriOI	GRGCYC	1 cut(s)	96
Hin1II	CATG	1 cut(s)	136
HincII	GTYRAC	1 cut(s)	130
HindII	GTYRAC	1 cut(s)	130
HindIII	AAGCTT	1 cut(s)	191
HinfI	GANTC	2 cut(s)	114, 202
HphI	GGTGA	2 cut(s)	82, 142
Hpy166II	GTNNAC	1 cut(s)	130
Hpy188I	TCNGA	2 cut(s)	34, 201
Hpy188III	TCNNGA	2 cut(s)	140, 251
Hpy8I	GTNNAC	1 cut(s)	130
HpyAV	CCTTC	3 cut(s)	24, 39, 167
HpyF3I	CTNAG	1 cut(s)	60
Hsp92II	CATG	1 cut(s)	136
Ksp22I	TGATCA	1 cut(s)	196
Kzo9I	GATC	1 cut(s)	196
LmnI	GCTCC	1 cut(s)	91
LpnPI	CCDG	3 cut(s)	218, 225, 252
MaeIII	GTNAC	2 cut(s)	148, 184
MalI	GATC	1 cut(s)	198
MboI	GATC	1 cut(s)	196
MboII	GAAGA	4 cut(s)	17, 155, 189, 266
MhlI	GDGCHC	1 cut(s)	96
MslI	CAYNNNNRTG	1 cut(s)	233
MspR9I	CCNGG	1 cut(s)	240
MvaI	CCWGG	1 cut(s)	240
NdeII	GATC	1 cut(s)	196
NlaIII	CATG	1 cut(s)	136
NlaIV	GGNNCC	1 cut(s)	237
NmuCI	GTSAC	2 cut(s)	148, 184
PfeI	GAWTC	2 cut(s)	114, 202
Psp124BI	GAGCTC	1 cut(s)	96
Psp6I	CCWGG	1 cut(s)	238
PspGI	CCWGG	1 cut(s)	238
PspN4I	GGNNCC	1 cut(s)	237
RseI	CAYNNNNRTG	1 cut(s)	233
SacI	GAGCTC	1 cut(s)	96
Sau3AI	GATC	1 cut(s)	196
ScrFI	CCNGG	1 cut(s)	240
SduI	GDGCHC	1 cut(s)	96
SetI	ASST	6 cut(s)	24, 39, 50, 96, 195, 244
SgeI	CNNG	9 cut(s)	107, 145, 152, 194, 206, 245, 251, 252, 263
SmiMI	CAYNNNNRTG	1 cut(s)	233
SstI	GAGCTC	1 cut(s)	96
StyD4I	CCNGG	1 cut(s)	238
TaqI	TCGA	2 cut(s)	42, 117
TfiI	GAWTC	2 cut(s)	114, 202
TseFI	GTSAC	2 cut(s)	148, 184
Tsp45I	GTSAC	2 cut(s)	148, 184
TspDTI	ATGAA	1 cut(s)	92

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