AT3G62840

Small nuclear ribonucleoprotein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
3
OG0002981
Physical Location & Seq
Reverse (-)
23235490 .. 23236816
1327 bp
Loading structure...
UTR
Exon/CDS
Intron
AT3G62840.2

Sequence Viewer

Length: 330 bp
ATGAGTAAACCAATGGAAGAGGATACCAACCAGGGAAAGACTGAGGAGGAGGAGTTCAACACTGGACCACTCTCTGTTTTGATGATGAGTGTTAAGAATAACACTCAGGTGTTGATCAATTGCCGTAACAACAGGAAACTCCTTGGCCGAGTTAGGGCTTTTGACAGGCACTGCAACATGGTTCTTGAAAATGTCAGAGAAATGTGGACTGAGGTTCCGAAAACCGGAAAAGGAAAGAAGAAAGCTCTTCCTGTTAACAGAGATCGATTCATCAGCAAGATGTTCCTGCGTGGAGACTCAGTCATTATCGTCCTCAGGAACCCCAAGTGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko03040 map03040
Pfam Domains
Protein Families
LSM

Protein Analysis

109

Amino Acids

12.63

Weight (kDa)

9.94

Isoelectric Point (pI)

35.39

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
LSM PF01423 29 - 103 3.3e-18 LSM domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Publication-ready
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AcoI YGGCCR 1 cut(s) 145
AfiI CCNNNNNNNGG 2 cut(s) 154, 224
AgsI TTSAA 2 cut(s) 58, 188
AjnI CCWGG 1 cut(s) 30
AleI CACNNNNGTG 1 cut(s) 107
AloI GAACNNNNNNTCC 2 cut(s) 38, 70
AluBI AGCT 1 cut(s) 245
AluI AGCT 1 cut(s) 245
Alw26I GTCTC 1 cut(s) 288
AlwNI CAGNNNCTG 1 cut(s) 171
AoxI GGCC 1 cut(s) 145
AspS9I GGNCC 1 cut(s) 65
AvaII GGWCC 1 cut(s) 65
AxyI CCTNAGG 1 cut(s) 314
BceAI ACGGC 1 cut(s) 108
BciT130I CCWGG 1 cut(s) 32
BciVI GTATCC 1 cut(s) 16
BclI TGATCA 1 cut(s) 114
BcoDI GTCTC 1 cut(s) 288
BfuI GTATCC 1 cut(s) 16
Bme1390I CCNGG 1 cut(s) 32
Bme18I GGWCC 1 cut(s) 65
BmgT120I GGNCC 1 cut(s) 65
BmiI GGNNCC 2 cut(s) 216, 320
BmrFI CCNGG 1 cut(s) 32
Bsa29I ATCGAT 1 cut(s) 265
BsaJI CCNNGG 2 cut(s) 31, 142
BsaWI WCCGGW 1 cut(s) 224
BsaXI ACNNNNNCTCC 4 cut(s) 38, 68, 285, 315
Bsc4I CCNNNNNNNGG 2 cut(s) 154, 224
Bse1I ACTGG 1 cut(s) 67
Bse21I CCTNAGG 1 cut(s) 314
BseBI CCWGG 1 cut(s) 32
BseCI ATCGAT 1 cut(s) 265
BseDI CCNNGG 2 cut(s) 31, 142
BseLI CCNNNNNNNGG 2 cut(s) 154, 224
BseMII CTCAG 5 cut(s) 33, 119, 201, 312, 328
BseNI ACTGG 1 cut(s) 67
BseRI GAGGAG 3 cut(s) 59, 62, 65
BshFI GGCC 1 cut(s) 147
BshVI ATCGAT 1 cut(s) 265
BsiSI CCGG 1 cut(s) 225
BslI CCNNNNNNNGG 2 cut(s) 154, 224
BsmAI GTCTC 1 cut(s) 288
BsnI GGCC 1 cut(s) 147
Bsp143I GATC 2 cut(s) 114, 262
BspANI GGCC 1 cut(s) 147
BspCNI CTCAG 5 cut(s) 34, 118, 202, 311, 327
BspDI ATCGAT 1 cut(s) 265
BspLI GGNNCC 2 cut(s) 216, 320
BspQI GCTCTTC 1 cut(s) 252
BsrI ACTGG 1 cut(s) 67
BssECI CCNNGG 2 cut(s) 31, 142
BssMI GATC 2 cut(s) 114, 262
BssT1I CCWWGG 1 cut(s) 142
Bst2UI CCWGG 1 cut(s) 32
Bst6I CTCTTC 2 cut(s) 12, 252
BstDEI CTNAG 5 cut(s) 42, 105, 210, 298, 314
BstKTI GATC 2 cut(s) 117, 265
BstMAI GTCTC 1 cut(s) 288
BstMBI GATC 2 cut(s) 114, 262
BstNI CCWGG 1 cut(s) 32
BstSCI CCNGG 1 cut(s) 30
Bsu15I ATCGAT 1 cut(s) 265
Bsu36I CCTNAGG 1 cut(s) 314
BsuI GTATCC 1 cut(s) 16
BsuRI GGCC 1 cut(s) 147
BsuTUI ATCGAT 1 cut(s) 265
BtsI GCAGTG 1 cut(s) 169
BtsIMutI CAGTG 2 cut(s) 60, 169
CaiI CAGNNNCTG 1 cut(s) 171
Cfr13I GGNCC 1 cut(s) 65
ClaI ATCGAT 1 cut(s) 265
CviAII CATG 1 cut(s) 178
CviJI RGCY 3 cut(s) 147, 158, 245
CviKI_1 RGCY 3 cut(s) 147, 158, 245
DdeI CTNAG 5 cut(s) 42, 105, 210, 298, 314
DpnI GATC 2 cut(s) 116, 264
DpnII GATC 2 cut(s) 114, 262
EaeI YGGCCR 1 cut(s) 145
Eam1104I CTCTTC 2 cut(s) 12, 252
EarI CTCTTC 2 cut(s) 12, 252
Eco130I CCWWGG 1 cut(s) 142
Eco47I GGWCC 1 cut(s) 65
Eco81I CCTNAGG 1 cut(s) 314
EcoRII CCWGG 1 cut(s) 30
EcoT14I CCWWGG 1 cut(s) 142
ErhI CCWWGG 1 cut(s) 142
FaeI CATG 1 cut(s) 181
FaiI YATR 1 cut(s) 179
FatI CATG 1 cut(s) 177
FbaI TGATCA 1 cut(s) 114
HaeIII GGCC 1 cut(s) 147
HapII CCGG 1 cut(s) 225
Hin1II CATG 1 cut(s) 181
HincII GTYRAC 1 cut(s) 256
HindII GTYRAC 1 cut(s) 256
HinfI GANTC 2 cut(s) 267, 296
HpaI GTTAAC 1 cut(s) 256
HpaII CCGG 1 cut(s) 225
Hpy166II GTNNAC 3 cut(s) 8, 207, 256
Hpy188I TCNGA 2 cut(s) 197, 219
Hpy188III TCNNGA 2 cut(s) 185, 316
Hpy8I GTNNAC 3 cut(s) 8, 207, 256
HpyCH4V TGCA 1 cut(s) 174
HpyF3I CTNAG 5 cut(s) 42, 105, 210, 298, 314
Hsp92II CATG 1 cut(s) 181
Ksp22I TGATCA 1 cut(s) 114
KspAI GTTAAC 1 cut(s) 256
Kzo9I GATC 2 cut(s) 114, 262
LguI GCTCTTC 1 cut(s) 252
MaeIII GTNAC 1 cut(s) 125
MalI GATC 2 cut(s) 116, 264
MboI GATC 2 cut(s) 114, 262
MboII GAAGA 3 cut(s) 29, 239, 250
MfeI CAATTG 1 cut(s) 118
MluCI AATT 1 cut(s) 118
MlyI GAGTC 1 cut(s) 290
MnlI CCTC 6 cut(s) 13, 37, 40, 43, 205, 323
MseI TTAA 2 cut(s) 93, 255
MslI CAYNNNNRTG 1 cut(s) 107
MspI CCGG 1 cut(s) 225
MspR9I CCNGG 1 cut(s) 32
MunI CAATTG 1 cut(s) 118
MvaI CCWGG 1 cut(s) 32
NdeII GATC 2 cut(s) 114, 262
NlaIII CATG 1 cut(s) 181
NlaIV GGNNCC 2 cut(s) 216, 320
NmeAIII GCCGAG 1 cut(s) 173
OliI CACNNNNGTG 1 cut(s) 107
PciSI GCTCTTC 1 cut(s) 252
PfeI GAWTC 1 cut(s) 267
PflFI GACNNNGTC 1 cut(s) 299
PleI GAGTC 1 cut(s) 290
PpsI GAGTC 1 cut(s) 290
Psp6I CCWGG 1 cut(s) 30
PspGI CCWGG 1 cut(s) 30
PspN4I GGNNCC 2 cut(s) 216, 320
PspPI GGNCC 1 cut(s) 65
PstNI CAGNNNCTG 1 cut(s) 171
PsyI GACNNNGTC 1 cut(s) 299
RseI CAYNNNNRTG 1 cut(s) 107
SapI GCTCTTC 1 cut(s) 252
SaqAI TTAA 2 cut(s) 93, 255
Sau3AI GATC 2 cut(s) 114, 262
Sau96I GGNCC 1 cut(s) 65
SchI GAGTC 1 cut(s) 290
ScrFI CCNGG 1 cut(s) 32
SetI ASST 3 cut(s) 111, 216, 247
SinI GGWCC 1 cut(s) 65
SmiMI CAYNNNNRTG 1 cut(s) 107
Sse9I AATT 1 cut(s) 118
StyD4I CCNGG 1 cut(s) 30
StyI CCWWGG 1 cut(s) 142
TaqI TCGA 1 cut(s) 265
TasI AATT 1 cut(s) 118
TfiI GAWTC 1 cut(s) 267
Tru1I TTAA 2 cut(s) 93, 255
Tru9I TTAA 2 cut(s) 93, 255
TscAI CASTG 2 cut(s) 67, 176
TspDTI ATGAA 1 cut(s) 259
TspRI CASTG 2 cut(s) 67, 176
Tth111I GACNNNGTC 1 cut(s) 299
VpaK11BI GGWCC 1 cut(s) 65
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.