AT1G76860

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 (-)
28854414 .. 28855750
1337 bp
Loading structure...
UTR
Exon/CDS
Intron
AT1G76860.1

Sequence Viewer

Length: 297 bp
ATGTCCGGCGAGGAAGAAGCCACCGTGAGGGAGCCACTAGATCTGATTAGGCTGAGTCTCGACGAGAGAATCTATGTCAAGCTCCGGTCAGACCGCGAACTTCGCGGCAAGCTTCACGCGTTTGATCAGCATTTGAATATGATTCTGGGTGATGTTGAAGAAACTATCACTACAGTAGAAATCGATGACGAGACATATGAAGAGATTGTTCGGACTACAAAGCGGACGATTGAGTTTCTATTCGTGAGAGGAGATGGAGTGATATTGGTGTCTCCACCGCTGAGGACAGCAGCCTGA

Protein Analysis

98

Amino Acids

11.29

Weight (kDa)

4.71

Isoelectric Point (pI)

55.61

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
LSM PF01423 16 - 92 2.7e-19 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)
AccII CGCG 3 cut(s) 96, 105, 119
AciI CCGC 4 cut(s) 94, 105, 223, 278
AfiI CCNNNNNNNGG 1 cut(s) 27
AflIII ACRYGT 1 cut(s) 117
AgsI TTSAA 2 cut(s) 136, 158
AluBI AGCT 2 cut(s) 82, 112
AluI AGCT 2 cut(s) 82, 112
Alw26I GTCTC 3 cut(s) 62, 185, 276
ApeKI GCWGC 1 cut(s) 290
AsuHPI GGTGA 1 cut(s) 161
BbvCI CCTCAGC 1 cut(s) 281
BccI CCATC 1 cut(s) 248
BclI TGATCA 1 cut(s) 124
BcoDI GTCTC 3 cut(s) 62, 185, 276
BfaI CTAG 1 cut(s) 38
BfmI CTRYAG 1 cut(s) 171
BglII AGATCT 1 cut(s) 40
BisI GCNGC 2 cut(s) 106, 291
BlsI GCNGC 2 cut(s) 107, 292
BmiI GGNNCC 1 cut(s) 33
Bpu10I CCTNAGC 1 cut(s) 281
Bsa29I ATCGAT 1 cut(s) 183
BsaWI WCCGGW 1 cut(s) 84
BsaXI ACNNNNNCTCC 2 cut(s) 243, 273
Bsc4I CCNNNNNNNGG 1 cut(s) 27
BseCI ATCGAT 1 cut(s) 183
BseLI CCNNNNNNNGG 1 cut(s) 27
BseMII CTCAG 2 cut(s) 44, 272
BseRI GAGGAG 1 cut(s) 264
Bsh1236I CGCG 3 cut(s) 96, 105, 119
BshVI ATCGAT 1 cut(s) 183
BsiSI CCGG 2 cut(s) 6, 85
BslI CCNNNNNNNGG 1 cut(s) 27
BsmAI GTCTC 3 cut(s) 62, 185, 276
Bsp143I GATC 2 cut(s) 40, 124
BspACI CCGC 4 cut(s) 94, 105, 223, 278
BspCNI CTCAG 2 cut(s) 45, 273
BspDI ATCGAT 1 cut(s) 183
BspFNI CGCG 3 cut(s) 96, 105, 119
BspLI GGNNCC 1 cut(s) 33
BssMI GATC 2 cut(s) 40, 124
Bst4CI ACNGT 2 cut(s) 25, 175
Bst6I CTCTTC 1 cut(s) 195
BstC8I GCNNGC 1 cut(s) 110
BstDEI CTNAG 2 cut(s) 53, 281
BstFNI CGCG 3 cut(s) 96, 105, 119
BstKTI GATC 2 cut(s) 43, 127
BstMAI GTCTC 3 cut(s) 62, 185, 276
BstMBI GATC 2 cut(s) 40, 124
BstMWI GCNNNNNNNGC 1 cut(s) 102
BstSFI CTRYAG 1 cut(s) 171
BstUI CGCG 3 cut(s) 96, 105, 119
BstX2I RGATCY 1 cut(s) 40
BstYI RGATCY 1 cut(s) 40
Bsu15I ATCGAT 1 cut(s) 183
BsuTUI ATCGAT 1 cut(s) 183
Cac8I GCNNGC 1 cut(s) 110
ClaI ATCGAT 1 cut(s) 183
CviJI RGCY 6 cut(s) 20, 34, 52, 82, 112, 293
CviKI_1 RGCY 6 cut(s) 20, 34, 52, 82, 112, 293
DdeI CTNAG 2 cut(s) 53, 281
DpnI GATC 2 cut(s) 42, 126
DpnII GATC 2 cut(s) 40, 124
Eam1104I CTCTTC 1 cut(s) 195
EarI CTCTTC 1 cut(s) 195
FaiI YATR 4 cut(s) 75, 140, 196, 198
FauNDI CATATG 1 cut(s) 196
FbaI TGATCA 1 cut(s) 124
Fnu4HI GCNGC 2 cut(s) 106, 291
Fsp4HI GCNGC 2 cut(s) 106, 291
FspBI CTAG 1 cut(s) 38
GluI GCNGC 2 cut(s) 106, 291
HapII CCGG 2 cut(s) 6, 85
HindIII AAGCTT 1 cut(s) 110
HinfI GANTC 3 cut(s) 55, 69, 142
HpaII CCGG 2 cut(s) 6, 85
HphI GGTGA 1 cut(s) 161
Hpy188I TCNGA 3 cut(s) 45, 91, 213
Hpy188III TCNNGA 2 cut(s) 59, 244
Hpy99I CGWCG 1 cut(s) 65
HpyCH4III ACNGT 2 cut(s) 25, 175
HpyF10VI GCNNNNNNNGC 1 cut(s) 102
HpyF3I CTNAG 2 cut(s) 53, 281
Ksp22I TGATCA 1 cut(s) 124
Kzo9I GATC 2 cut(s) 40, 124
LmnI GCTCC 2 cut(s) 31, 87
LpnPI CCDG 3 cut(s) 19, 98, 131
MaeI CTAG 1 cut(s) 38
MalI GATC 2 cut(s) 42, 126
MboI GATC 2 cut(s) 40, 124
MboII GAAGA 3 cut(s) 26, 170, 212
MflI RGATCY 1 cut(s) 40
MluI ACGCGT 1 cut(s) 117
MlyI GAGTC 1 cut(s) 64
MnlI CCTC 4 cut(s) 4, 21, 242, 276
MspA1I CMGCKG 1 cut(s) 280
MspI CCGG 2 cut(s) 6, 85
MvnI CGCG 3 cut(s) 96, 105, 119
MwoI GCNNNNNNNGC 1 cut(s) 102
NdeI CATATG 1 cut(s) 196
NdeII GATC 2 cut(s) 40, 124
NlaIV GGNNCC 1 cut(s) 33
PfeI GAWTC 2 cut(s) 69, 142
PkrI GCNGC 2 cut(s) 107, 292
PleI GAGTC 1 cut(s) 63
PpsI GAGTC 1 cut(s) 63
PspN4I GGNNCC 1 cut(s) 33
PsuI RGATCY 1 cut(s) 40
SatI GCNGC 2 cut(s) 106, 291
Sau3AI GATC 2 cut(s) 40, 124
SchI GAGTC 1 cut(s) 64
SetI ASST 2 cut(s) 84, 114
SfcI CTRYAG 1 cut(s) 171
SsiI CCGC 4 cut(s) 94, 105, 223, 278
SspMI CTAG 1 cut(s) 38
TaaI ACNGT 2 cut(s) 25, 175
TaqI TCGA 2 cut(s) 60, 183
TauI GCSGC 1 cut(s) 108
TfiI GAWTC 2 cut(s) 69, 142
TseI GCWGC 1 cut(s) 290
TspDTI ATGAA 1 cut(s) 213
XspI CTAG 1 cut(s) 38
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.