MD05G1281500.v1.1

LSM domain

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr05
OG0017944
Physical Location & Seq
Forward (+)
41552954 .. 41553283
330 bp
Loading structure...
UTR
Exon/CDS
Intron
MD05G1281500.v1.1.491

Sequence Viewer

Length: 330 bp
ATGGAACAAGAAGCGGCGGAAACGCTAATTCAGGCTGCGAGGTCAGATGGGTCGGAGCCGGCGTCAGTGAACCGCGCCAGGAGGCTGCTGTTCCGGCGAATGCTAGTTGGGATAAGAGACGGCCGGTTTTTCTTGGGCACCTTTCACTGCATCGACAAGCAAGGCAACATCATACTCCAGGACGCAGTGGAGTATCGGAGCACGCGGCGGTCCTCCCCGTCTCCGATGGAGCAGCGGTGCCTCGGTCTGATTCTAATCCCTTCTTCTTGCCGTGCTTCTTGTCACGTTGGCTGCTCTGTCGAAGAACAATTGTCTCTGCTTTCCTTCTAG
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
LSM

Protein Analysis

110

Amino Acids

12.19

Weight (kDa)

8.4

Isoelectric Point (pI)

87.44

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
LSM PF01423 32 - 87 1.2e-07 LSM domain
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: OG0017944)

Species Orthologous Gene IDs
arabidopsis_thaliana AT4G18372 AT4G18372
fragaria_vesca FvH4_3g05282
malus_domestica MD05G1281500.v1.1
prunus_persica Prupe.4G083100_v2.0.a1
rosa_chinensis RchiOBHm_Chr5g0014441
rosa_laevigata RLG00000032110
rosa_multiflora Rmu_sc0031709.1_g000002 Rmu_ssc0000422.1_g000033
rosa_roxburghii Rroxscaffold_1G00062140
rosa_wichuraiana Rw5G009820

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 2 cut(s) 137, 237
AccII CGCG 2 cut(s) 75, 205
AciI CCGC 6 cut(s) 14, 17, 73, 205, 208, 235
AcoI YGGCCR 1 cut(s) 121
AcyI GRCGYC 1 cut(s) 62
AjnI CCWGG 2 cut(s) 77, 177
Alw21I GWGCWC 1 cut(s) 203
Alw26I GTCTC 3 cut(s) 111, 225, 318
AoxI GGCC 1 cut(s) 121
ApeKI GCWGC 4 cut(s) 35, 85, 232, 291
AspLEI GCGC 1 cut(s) 77
AspS9I GGNCC 1 cut(s) 210
AvaII GGWCC 1 cut(s) 210
BaeGI GKGCMC 1 cut(s) 140
BanI GGYRCC 2 cut(s) 137, 237
Bbv12I GWGCWC 1 cut(s) 203
BbvI GCAGC 4 cut(s) 22, 72, 244, 278
BccI CCATC 2 cut(s) 41, 220
BceAI ACGGC 2 cut(s) 136, 255
BciT130I CCWGG 2 cut(s) 79, 179
BcoDI GTCTC 3 cut(s) 111, 225, 318
BfaI CTAG 2 cut(s) 104, 328
BisI GCNGC 6 cut(s) 15, 36, 86, 206, 233, 292
BlsI GCNGC 6 cut(s) 16, 37, 87, 207, 234, 293
Bme1390I CCNGG 2 cut(s) 79, 179
Bme18I GGWCC 1 cut(s) 210
BmgT120I GGNCC 1 cut(s) 210
BmiI GGNNCC 3 cut(s) 57, 139, 239
BmrFI CCNGG 2 cut(s) 79, 179
BmsI GCATC 1 cut(s) 159
BpmI CTGGAG 1 cut(s) 161
BsaBI GATNNNNATC 1 cut(s) 254
BsaHI GRCGYC 1 cut(s) 62
BsaJI CCNNGG 1 cut(s) 241
BsaXI ACNNNNNCTCC 4 cut(s) 47, 77, 221, 251
Bse118I RCCGGY 2 cut(s) 58, 123
Bse8I GATNNNNATC 1 cut(s) 254
BseBI CCWGG 2 cut(s) 79, 179
BseDI CCNNGG 1 cut(s) 241
BseJI GATNNNNATC 1 cut(s) 254
BseSI GKGCMC 1 cut(s) 140
BseX3I CGGCCG 1 cut(s) 121
BseXI GCAGC 4 cut(s) 22, 72, 244, 278
Bsh1236I CGCG 2 cut(s) 75, 205
Bsh1285I CGRYCG 1 cut(s) 124
BshFI GGCC 1 cut(s) 123
BshNI GGYRCC 2 cut(s) 137, 237
BsiEI CGRYCG 1 cut(s) 124
BsiHKAI GWGCWC 1 cut(s) 203
BsiSI CCGG 3 cut(s) 59, 94, 124
BsmAI GTCTC 3 cut(s) 111, 225, 318
BsmBI CGTCTC 2 cut(s) 111, 225
BsmI GAATGC 1 cut(s) 105
BsnI GGCC 1 cut(s) 123
Bsp1286I GDGCHC 2 cut(s) 140, 203
BspACI CCGC 6 cut(s) 14, 17, 73, 205, 208, 235
BspANI GGCC 1 cut(s) 123
BspFNI CGCG 2 cut(s) 75, 205
BspLI GGNNCC 3 cut(s) 57, 139, 239
BspT107I GGYRCC 2 cut(s) 137, 237
BsrFI RCCGGY 2 cut(s) 58, 123
BssAI RCCGGY 2 cut(s) 58, 123
BssECI CCNNGG 1 cut(s) 241
BssNI GRCGYC 1 cut(s) 62
Bst2UI CCWGG 2 cut(s) 79, 179
BstACI GRCGYC 1 cut(s) 62
BstC8I GCNNGC 2 cut(s) 60, 203
BstFNI CGCG 2 cut(s) 75, 205
BstHHI GCGC 1 cut(s) 77
BstMAI GTCTC 3 cut(s) 111, 225, 318
BstMCI CGRYCG 1 cut(s) 124
BstMWI GCNNNNNNNGC 1 cut(s) 94
BstNI CCWGG 2 cut(s) 79, 179
BstSCI CCNGG 2 cut(s) 77, 177
BstSLI GKGCMC 1 cut(s) 140
BstUI CGCG 2 cut(s) 75, 205
BstV1I GCAGC 4 cut(s) 22, 72, 244, 278
BstZI CGGCCG 1 cut(s) 121
BsuRI GGCC 1 cut(s) 123
BtsI GCAGTG 2 cut(s) 145, 192
BtsIMutI CAGTG 3 cut(s) 72, 145, 192
Cac8I GCNNGC 2 cut(s) 60, 203
CfoI GCGC 1 cut(s) 77
Cfr10I RCCGGY 2 cut(s) 58, 123
Cfr13I GGNCC 1 cut(s) 210
CseI GACGC 2 cut(s) 51, 191
CviJI RGCY 5 cut(s) 35, 58, 85, 123, 291
CviKI_1 RGCY 5 cut(s) 35, 58, 85, 123, 291
EaeI YGGCCR 1 cut(s) 121
EagI CGGCCG 1 cut(s) 121
EciI GGCGGA 1 cut(s) 32
EclXI CGGCCG 1 cut(s) 121
Eco47I GGWCC 1 cut(s) 210
Eco52I CGGCCG 1 cut(s) 121
EcoRII CCWGG 2 cut(s) 77, 177
Esp3I CGTCTC 2 cut(s) 111, 225
FaiI YATR 1 cut(s) 173
Fnu4HI GCNGC 6 cut(s) 15, 36, 86, 206, 233, 292
Fsp4HI GCNGC 6 cut(s) 15, 36, 86, 206, 233, 292
FspBI CTAG 2 cut(s) 104, 328
GlaI GCGC 1 cut(s) 76
GluI GCNGC 6 cut(s) 15, 36, 86, 206, 233, 292
GsuI CTGGAG 1 cut(s) 161
HaeIII GGCC 1 cut(s) 123
HapII CCGG 3 cut(s) 59, 94, 124
HgaI GACGC 2 cut(s) 51, 191
HhaI GCGC 1 cut(s) 77
Hin1I GRCGYC 1 cut(s) 62
Hin6I GCGC 1 cut(s) 75
HinP1I GCGC 1 cut(s) 75
HinfI GANTC 1 cut(s) 250
HpaII CCGG 3 cut(s) 59, 94, 124
Hpy166II GTNNAC 1 cut(s) 70
Hpy188I TCNGA 5 cut(s) 46, 55, 198, 225, 249
Hpy8I GTNNAC 1 cut(s) 70
HpyAV CCTTC 1 cut(s) 270
HpyCH4IV ACGT 1 cut(s) 285
HpyCH4V TGCA 1 cut(s) 150
HpyF10VI GCNNNNNNNGC 1 cut(s) 94
HpySE526I ACGT 1 cut(s) 285
Hsp92I GRCGYC 1 cut(s) 62
HspAI GCGC 1 cut(s) 75
KroI GCCGGC 1 cut(s) 58
KroNI GCCGGC 1 cut(s) 60
LmnI GCTCC 3 cut(s) 55, 198, 229
LpnPI CCDG 8 cut(s) 17, 64, 72, 91, 107, 137, 164, 191
Lsp1109I GCAGC 4 cut(s) 22, 72, 244, 278
LweI GCATC 1 cut(s) 159
MaeI CTAG 2 cut(s) 104, 328
MaeII ACGT 1 cut(s) 285
MaeIII GTNAC 1 cut(s) 281
MboII GAAGA 2 cut(s) 255, 314
MfeI CAATTG 1 cut(s) 308
MhlI GDGCHC 2 cut(s) 140, 203
MluCI AATT 2 cut(s) 27, 308
MmeI TCCRAC 1 cut(s) 33
MnlI CCTC 4 cut(s) 33, 75, 223, 251
MroNI GCCGGC 1 cut(s) 58
MspA1I CMGCKG 1 cut(s) 235
MspI CCGG 3 cut(s) 59, 94, 124
MspR9I CCNGG 2 cut(s) 79, 179
MunI CAATTG 1 cut(s) 308
Mva1269I GAATGC 1 cut(s) 105
MvaI CCWGG 2 cut(s) 79, 179
MvnI CGCG 2 cut(s) 75, 205
MwoI GCNNNNNNNGC 1 cut(s) 94
NaeI GCCGGC 1 cut(s) 60
NgoMIV GCCGGC 1 cut(s) 58
NlaIV GGNNCC 3 cut(s) 57, 139, 239
NmuCI GTSAC 1 cut(s) 281
PcsI WCGNNNNNNNCGW 1 cut(s) 59
PctI GAATGC 1 cut(s) 105
PdiI GCCGGC 1 cut(s) 60
PfeI GAWTC 1 cut(s) 250
PfoI TCCNGGA 1 cut(s) 177
PkrI GCNGC 6 cut(s) 16, 37, 87, 207, 234, 293
Psp6I CCWGG 2 cut(s) 77, 177
PspGI CCWGG 2 cut(s) 77, 177
PspN4I GGNNCC 3 cut(s) 57, 139, 239
PspPI GGNCC 1 cut(s) 210
SatI GCNGC 6 cut(s) 15, 36, 86, 206, 233, 292
Sau96I GGNCC 1 cut(s) 210
ScrFI CCNGG 2 cut(s) 79, 179
SduI GDGCHC 2 cut(s) 140, 203
SetI ASST 3 cut(s) 44, 143, 288
SfaNI GCATC 1 cut(s) 159
SinI GGWCC 1 cut(s) 210
Sse9I AATT 2 cut(s) 27, 308
SsiI CCGC 6 cut(s) 14, 17, 73, 205, 208, 235
SspMI CTAG 2 cut(s) 104, 328
StyD4I CCNGG 2 cut(s) 77, 177
TaiI ACGT 1 cut(s) 288
TaqI TCGA 2 cut(s) 153, 300
TaqII GACCGA 1 cut(s) 233
TasI AATT 2 cut(s) 27, 308
TauI GCSGC 2 cut(s) 17, 208
TfiI GAWTC 1 cut(s) 250
TscAI CASTG 3 cut(s) 72, 152, 192
TseFI GTSAC 1 cut(s) 281
TseI GCWGC 4 cut(s) 35, 85, 232, 291
Tsp45I GTSAC 1 cut(s) 281
TspRI CASTG 3 cut(s) 72, 152, 192
VpaK11BI GGWCC 1 cut(s) 210
XspI CTAG 2 cut(s) 104, 328
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.