AT1G21190

Component of LSM protein complexes, which are involved in RNA processing. Component of the cytoplasmic LSM1-LSM7 complex which is involved in mRNA degradation by promoting decapping and leading to accurate 5'-3' mRNA decay. The cytoplasmic LSM1-LSM7 complex regulates developmental gene expression by the decapping of specific development-related transcripts. Component of the nuclear LSM2-LSM8 complex which is involved splicing nuclear mRNAs. LSM2-LSM8 binds directly to the U6 small nuclear RNAs (snRNAs) and is essential for accurate splicing of selected development-related mRNAs through the stabilization of the spliceosomal U6 snRNA. Plays a critical role in the regulation of development-related gene expression

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
1
OG0014013
Physical Location & Seq
Reverse (-)
7419664 .. 7420957
1294 bp
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UTR
Exon/CDS
Intron
AT1G21190.1

Sequence Viewer

Length: 294 bp
ATGTCAGTCGAGGAAGACGCCACCGTTAGAGAGCCACTCGATCTGATTCGGTTGAGTATCGAAGAGAGGATCTATGTCAAGCTCCGATCTGACCGTGAACTCCGCGGCAAGCTTCACGCTTTTGATCAGCATTTGAATATGATTCTGGGTGATGTTGAAGAGGTTATTACGACTATAGAAATCGACGACGAGACATATGAAGAGATTGTTCGGACAACGAAGCGAACGGTACCGTTTCTATTCGTGAGAGGAGATGGAGTGATATTGGTGTCACCGCCTTTGAGGACGACCTAA

Protein Analysis

97

Amino Acids

11.25

Weight (kDa)

4.78

Isoelectric Point (pI)

67.35

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
LSM PF01423 16 - 92 5.6e-18 LSM domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Orthologous Genes (Group: OG0014013)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G21190 AT1G76860
fragaria_vesca FvH4_2g13861
malus_domestica MD05G1024000.v1.1 MD10G1024500.v1.1
prunus_persica Prupe.3G148200_v2.0.a1 Prupe.8G028400_v2.0.a1
pyrus_communis pycom10g01630
rosa_chinensis RchiOBHm_Chr6g0275571
rosa_multiflora Rmu_ssc0000162.1_g000017
rosa_roxburghii Rroxscaffold_7G00193180
rosa_rugosa Rorug06G0094100
rosa_samantha Rh6AG206500 Rh6BG209500 Rh6CG211800 Rh6DG202100
rosa_wichuraiana Rw6G017930

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc65I GGTACC 1 cut(s) 229
AccB1I GGYRCC 1 cut(s) 229
AccII CGCG 1 cut(s) 105
AciI CCGC 3 cut(s) 103, 105, 275
AclWI GGATC 1 cut(s) 77
AcyI GRCGYC 1 cut(s) 18
AfaI GTAC 1 cut(s) 231
AgsI TTSAA 2 cut(s) 136, 158
AluBI AGCT 2 cut(s) 82, 112
AluI AGCT 2 cut(s) 82, 112
Alw26I GTCTC 1 cut(s) 185
AlwI GGATC 1 cut(s) 77
Asp718I GGTACC 1 cut(s) 229
AsuHPI GGTGA 2 cut(s) 161, 264
BanI GGYRCC 1 cut(s) 229
BbsI GAAGAC 1 cut(s) 21
BccI CCATC 1 cut(s) 248
BclI TGATCA 1 cut(s) 124
BcoDI GTCTC 1 cut(s) 185
BfmI CTRYAG 1 cut(s) 174
BisI GCNGC 1 cut(s) 106
BlsI GCNGC 1 cut(s) 107
BmiI GGNNCC 1 cut(s) 231
BpiI GAAGAC 1 cut(s) 21
BplI GAGNNNNNCTC 2 cut(s) 21, 53
BsaHI GRCGYC 1 cut(s) 18
BsaJI CCNNGG 1 cut(s) 103
BsaXI ACNNNNNCTCC 2 cut(s) 243, 273
BseDI CCNNGG 1 cut(s) 103
BseRI GAGGAG 1 cut(s) 264
Bsh1236I CGCG 1 cut(s) 105
BshNI GGYRCC 1 cut(s) 229
BsmAI GTCTC 1 cut(s) 185
Bsp143I GATC 4 cut(s) 40, 69, 86, 124
BspACI CCGC 3 cut(s) 103, 105, 275
BspFNI CGCG 1 cut(s) 105
BspLI GGNNCC 1 cut(s) 231
BspPI GGATC 1 cut(s) 77
BspT107I GGYRCC 1 cut(s) 229
BssECI CCNNGG 1 cut(s) 103
BssMI GATC 4 cut(s) 40, 69, 86, 124
BssNI GRCGYC 1 cut(s) 18
Bst4CI ACNGT 4 cut(s) 25, 95, 229, 234
Bst6I CTCTTC 3 cut(s) 57, 153, 195
BstACI GRCGYC 1 cut(s) 18
BstC8I GCNNGC 1 cut(s) 110
BstDSI CCRYGG 1 cut(s) 103
BstFNI CGCG 1 cut(s) 105
BstKTI GATC 4 cut(s) 43, 72, 89, 127
BstMAI GTCTC 1 cut(s) 185
BstMBI GATC 4 cut(s) 40, 69, 86, 124
BstSFI CTRYAG 1 cut(s) 174
BstUI CGCG 1 cut(s) 105
BstV2I GAAGAC 1 cut(s) 21
BstX2I RGATCY 1 cut(s) 69
BstYI RGATCY 1 cut(s) 69
BtgI CCRYGG 1 cut(s) 103
Cac8I GCNNGC 1 cut(s) 110
Cfr42I CCGCGG 1 cut(s) 106
CseI GACGC 1 cut(s) 26
Csp6I GTAC 1 cut(s) 230
CviJI RGCY 3 cut(s) 34, 82, 112
CviKI_1 RGCY 3 cut(s) 34, 82, 112
CviQI GTAC 1 cut(s) 230
DpnI GATC 4 cut(s) 42, 71, 88, 126
DpnII GATC 4 cut(s) 40, 69, 86, 124
Eam1104I CTCTTC 3 cut(s) 57, 153, 195
EarI CTCTTC 3 cut(s) 57, 153, 195
FaiI YATR 5 cut(s) 75, 140, 176, 196, 198
FauNDI CATATG 1 cut(s) 196
FbaI TGATCA 1 cut(s) 124
Fnu4HI GCNGC 1 cut(s) 106
Fsp4HI GCNGC 1 cut(s) 106
GluI GCNGC 1 cut(s) 106
HgaI GACGC 1 cut(s) 26
Hin1I GRCGYC 1 cut(s) 18
HindIII AAGCTT 1 cut(s) 110
HinfI GANTC 2 cut(s) 46, 142
HphI GGTGA 2 cut(s) 161, 264
Hpy166II GTNNAC 1 cut(s) 98
Hpy188I TCNGA 4 cut(s) 45, 86, 91, 213
Hpy188III TCNNGA 1 cut(s) 244
Hpy8I GTNNAC 1 cut(s) 98
Hpy99I CGWCG 2 cut(s) 188, 191
HpyCH4III ACNGT 4 cut(s) 25, 95, 229, 234
Hsp92I GRCGYC 1 cut(s) 18
KpnI GGTACC 1 cut(s) 233
Ksp22I TGATCA 1 cut(s) 124
KspI CCGCGG 1 cut(s) 106
Kzo9I GATC 4 cut(s) 40, 69, 86, 124
LmnI GCTCC 1 cut(s) 87
LpnPI CCDG 1 cut(s) 131
MaeIII GTNAC 1 cut(s) 270
MalI GATC 4 cut(s) 42, 71, 88, 126
MboI GATC 4 cut(s) 40, 69, 86, 124
MboII GAAGA 4 cut(s) 26, 74, 170, 212
MflI RGATCY 1 cut(s) 69
MnlI CCTC 5 cut(s) 4, 60, 154, 242, 276
MspA1I CMGCKG 1 cut(s) 105
MvnI CGCG 1 cut(s) 105
NdeI CATATG 1 cut(s) 196
NdeII GATC 4 cut(s) 40, 69, 86, 124
NlaIV GGNNCC 1 cut(s) 231
NmuCI GTSAC 1 cut(s) 270
PfeI GAWTC 2 cut(s) 46, 142
PkrI GCNGC 1 cut(s) 107
PspN4I GGNNCC 1 cut(s) 231
PsuI RGATCY 1 cut(s) 69
RsaI GTAC 1 cut(s) 231
RsaNI GTAC 1 cut(s) 230
SacII CCGCGG 1 cut(s) 106
SatI GCNGC 1 cut(s) 106
Sau3AI GATC 4 cut(s) 40, 69, 86, 124
SetI ASST 4 cut(s) 84, 114, 165, 293
SfcI CTRYAG 1 cut(s) 174
Sfr303I CCGCGG 1 cut(s) 106
SgrBI CCGCGG 1 cut(s) 106
SsiI CCGC 3 cut(s) 103, 105, 275
TaaI ACNGT 4 cut(s) 25, 95, 229, 234
TaqI TCGA 4 cut(s) 9, 39, 60, 183
TauI GCSGC 1 cut(s) 108
TfiI GAWTC 2 cut(s) 46, 142
TseFI GTSAC 1 cut(s) 270
Tsp45I GTSAC 1 cut(s) 270
TspDTI ATGAA 1 cut(s) 213
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.