AT3G23700

S1 RNA binding domain

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
3
OG0005054
Physical Location & Seq
Reverse (-)
8531374 .. 8533834
2461 bp
Loading structure...
UTR
Exon/CDS
Intron
AT3G23700.1

Sequence Viewer

Length: 1179 bp
ATGGCGGTTTTTAGTGGCGCTACTACTTTAGGTTCTGTTTCATTCGCCTCTCATCTCTTCGACCAACAATCCACTTTCCTCTCTTGCCCACTTAGACTCCTTCCTTCCTCGTCTTCTTCTTCTTCCAATAGAAACTCTCTCGTCTGCATAGTCAAATCCTTCTCAAGCTCCGCCACAGCAGATACCGATAGAAACTCCGATCAATCAGCCTCTTCCTCAGTCCTCTCCGCTTCCAATTCTCTTCTCCGTGATACCTCCGACGAAGCTTCAGCTGCAGGACCAAGCGATTGGAAAACAGCAAAAGCTTATTGTAAAAGTGGTGATACATTTGAAGGTGAAGTTCAAGGCTTTAATGGTGGTGGCTTACTTATTCGTTTTCATTCTCTTGTGGGTTTTCTTCCTTATCCACAATTAAGTCCTTCCCGTTCTTGTAAAGAGCCTCAGAAAAGTATTCATGAGATAGCTAAGACTTTGGTTGGTTCTAAACTTCCTGTAAAGGTTGTTCAAGCTGATGAGGAAAATAGAAAGTTGATTTTATCTGAGAAGTTAGCATTATGGCCAAAGTATTCACAAAACGTTAATGTTGGGGATGTGTTTAACGGAAGAGTAGGTTCTGTTGAGGACTATGGTGCCTTTATCCACTTGCGTTTTGATGATGGTCTTTATCATTTAACTGGACTAGTGCATGTCTCCGAAGTATCATGGGATTACGTTCAAGATGTTAGGGATGTACTACGCGATGGTGACGAGGTTCGGGTTATAGTCACGAATATTGACAAAGAGAAATCAAGGATTACACTATCCATCAAACAACTAGAAGATGATCCTCTTCTAGAAACATTAGACAAAGTGATTTTGAAGGACAGTTCTACTGGATCTCCTTCGCTAAGCTCGAACAATGGGGATACAATTGAACCTCTTCCAGGGCTAGAAACAATACTTGAAGAGCTTTTAAAGGAAGATGGAATAGAAGCTGTGAAAATCAACCGGCAAGGATTTGAGAAAAGAGTGGTTTCACAAGACCTACAACTTTGGCTCTCAAATACACCGCCTTCTGATGGGAAGTTTGTTCTTCTTGCCCGTGCTGGAAGACAGGTGCAAGAGATACACTTGACAACGTCTCTGGAACAAGGAGGAATCAAGAAAGCGCTTCAGCATGTACTAGAACGCGTCCCCTAA
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
S1

Protein Analysis

392

Amino Acids

42.75

Weight (kDa)

5.39

Isoelectric Point (pI)

48.27

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
S1 PF00575 105 - 180 6e-07 S1 RNA binding domain
S1 PF00575 193 - 270 1.2e-16 S1 RNA binding domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 1 cut(s) 629
AccII CGCG 2 cut(s) 738, 1170
AciI CCGC 4 cut(s) 5, 171, 228, 1049
AclI AACGTT 1 cut(s) 576
AclWI GGATC 2 cut(s) 818, 883
AcoI YGGCCR 1 cut(s) 557
AcuI CTGAAG 2 cut(s) 252, 1136
AfaI GTAC 2 cut(s) 732, 1161
AfeI AGCGCT 1 cut(s) 1149
AfiI CCNNNNNNNGG 2 cut(s) 923, 1058
AflIII ACRYGT 1 cut(s) 1168
AgsI TTSAA 7 cut(s) 332, 344, 506, 716, 859, 914, 944
AhlI ACTAGT 1 cut(s) 679
AjnI CCWGG 1 cut(s) 922
AluBI AGCT 9 cut(s) 168, 266, 272, 305, 464, 509, 891, 949, 974
AluI AGCT 9 cut(s) 168, 266, 272, 305, 464, 509, 891, 949, 974
Alw26I GTCTC 2 cut(s) 694, 1125
AlwI GGATC 2 cut(s) 818, 883
Aor51HI AGCGCT 1 cut(s) 1149
AoxI GGCC 1 cut(s) 557
ApeKI GCWGC 1 cut(s) 272
Asp700I GAANNNNTTC 1 cut(s) 918
AspLEI GCGC 2 cut(s) 20, 1150
AspS9I GGNCC 1 cut(s) 278
AsuHPI GGTGA 3 cut(s) 332, 347, 755
AvaII GGWCC 1 cut(s) 278
BalI TGGCCA 1 cut(s) 559
BanI GGYRCC 1 cut(s) 629
BbsI GAAGAC 2 cut(s) 105, 1096
BbvI GCAGC 1 cut(s) 259
BccI CCATC 5 cut(s) 650, 734, 812, 956, 1052
BciT130I CCWGG 1 cut(s) 924
BciVI GTATCC 1 cut(s) 898
BcoDI GTCTC 2 cut(s) 694, 1125
BcuI ACTAGT 1 cut(s) 679
BfaI CTAG 5 cut(s) 680, 815, 833, 929, 1163
BfmI CTRYAG 1 cut(s) 273
BfoI RGCGCY 2 cut(s) 21, 1151
BfuI GTATCC 1 cut(s) 898
BisI GCNGC 1 cut(s) 273
BlpI GCTNAGC 1 cut(s) 887
BlsI GCNGC 1 cut(s) 274
Bme1390I CCNGG 1 cut(s) 924
Bme18I GGWCC 1 cut(s) 278
BmgT120I GGNCC 1 cut(s) 278
BmiI GGNNCC 1 cut(s) 631
BmrFI CCNGG 1 cut(s) 924
BpiI GAAGAC 2 cut(s) 105, 1096
Bpu1102I GCTNAGC 1 cut(s) 887
BpuEI CTTGAG 1 cut(s) 148
BsaJI CCNNGG 1 cut(s) 923
BsaXI ACNNNNNCTCC 4 cut(s) 81, 111, 862, 892
Bsc4I CCNNNNNNNGG 2 cut(s) 923, 1058
Bse118I RCCGGY 1 cut(s) 987
Bse1I ACTGG 2 cut(s) 679, 877
BseBI CCWGG 1 cut(s) 924
BseDI CCNNGG 1 cut(s) 923
BseGI GGATG 2 cut(s) 595, 733
BseLI CCNNNNNNNGG 2 cut(s) 923, 1058
BseMII CTCAG 3 cut(s) 231, 455, 531
BseNI ACTGG 2 cut(s) 679, 877
BseXI GCAGC 1 cut(s) 259
Bsh1236I CGCG 2 cut(s) 738, 1170
BshFI GGCC 1 cut(s) 559
BshNI GGYRCC 1 cut(s) 629
BsiSI CCGG 1 cut(s) 988
BslFI GGGAC 1 cut(s) 1157
BslI CCNNNNNNNGG 2 cut(s) 923, 1058
BsmAI GTCTC 2 cut(s) 694, 1125
BsmBI CGTCTC 1 cut(s) 1125
BsmFI GGGAC 1 cut(s) 1157
BsnI GGCC 1 cut(s) 559
Bsp143I GATC 3 cut(s) 199, 823, 875
Bsp1720I GCTNAGC 1 cut(s) 887
BspACI CCGC 4 cut(s) 5, 171, 228, 1049
BspANI GGCC 1 cut(s) 559
BspCNI CTCAG 3 cut(s) 230, 454, 532
BspFNI CGCG 2 cut(s) 738, 1170
BspHI TCATGA 1 cut(s) 454
BspLI GGNNCC 1 cut(s) 631
BspMAI CTGCAG 1 cut(s) 277
BspPI GGATC 2 cut(s) 818, 883
BspQI GCTCTTC 1 cut(s) 939
BspT107I GGYRCC 1 cut(s) 629
BsrFI RCCGGY 1 cut(s) 987
BsrI ACTGG 2 cut(s) 679, 877
BssAI RCCGGY 1 cut(s) 987
BssECI CCNNGG 1 cut(s) 923
BssMI GATC 3 cut(s) 199, 823, 875
Bst2UI CCWGG 1 cut(s) 924
Bst4CI ACNGT 1 cut(s) 866
Bst6I CTCTTC 7 cut(s) 62, 217, 246, 598, 834, 924, 939
BstDEI CTNAG 6 cut(s) 92, 217, 441, 465, 540, 887
BstENI CCTNNNNNAGG 1 cut(s) 921
BstF5I GGATG 2 cut(s) 595, 733
BstFNI CGCG 2 cut(s) 738, 1170
BstH2I RGCGCY 2 cut(s) 21, 1151
BstHHI GCGC 2 cut(s) 20, 1150
BstKTI GATC 3 cut(s) 202, 826, 878
BstMAI GTCTC 2 cut(s) 694, 1125
BstMBI GATC 3 cut(s) 199, 823, 875
BstMWI GCNNNNNNNGC 1 cut(s) 272
BstNI CCWGG 1 cut(s) 924
BstNSI RCATGY 2 cut(s) 689, 1160
BstSCI CCNGG 1 cut(s) 922
BstSFI CTRYAG 1 cut(s) 273
BstUI CGCG 2 cut(s) 738, 1170
BstV1I GCAGC 1 cut(s) 259
BstV2I GAAGAC 2 cut(s) 105, 1096
BstX2I RGATCY 1 cut(s) 875
BstXI CCANNNNNNTGG 1 cut(s) 288
BstYI RGATCY 1 cut(s) 875
BsuI GTATCC 1 cut(s) 898
BsuRI GGCC 1 cut(s) 559
BtgZI GCGATG 1 cut(s) 753
BtsCI GGATG 2 cut(s) 595, 733
CciI TCATGA 1 cut(s) 454
CfoI GCGC 2 cut(s) 20, 1150
Cfr10I RCCGGY 1 cut(s) 987
Cfr13I GGNCC 1 cut(s) 278
CseI GACGC 1 cut(s) 1159
Csp6I GTAC 2 cut(s) 731, 1160
CviAII CATG 4 cut(s) 455, 686, 702, 1157
CviQI GTAC 2 cut(s) 731, 1160
DdeI CTNAG 6 cut(s) 92, 217, 441, 465, 540, 887
DpnI GATC 3 cut(s) 201, 825, 877
DpnII GATC 3 cut(s) 199, 823, 875
DraI TTTAAA 1 cut(s) 954
EaeI YGGCCR 1 cut(s) 557
Eam1104I CTCTTC 7 cut(s) 62, 217, 246, 598, 834, 924, 939
EarI CTCTTC 7 cut(s) 62, 217, 246, 598, 834, 924, 939
EciI GGCGGA 1 cut(s) 160
Eco47I GGWCC 1 cut(s) 278
Eco47III AGCGCT 1 cut(s) 1149
Eco57I CTGAAG 2 cut(s) 252, 1136
EcoNI CCTNNNNNAGG 1 cut(s) 921
EcoRII CCWGG 1 cut(s) 922
Esp3I CGTCTC 1 cut(s) 1125
FaeI CATG 4 cut(s) 458, 689, 705, 1160
FaiI YATR 8 cut(s) 149, 456, 556, 627, 687, 703, 761, 1158
FaqI GGGAC 1 cut(s) 1157
FatI CATG 4 cut(s) 454, 685, 701, 1156
Fnu4HI GCNGC 1 cut(s) 273
FokI GGATG 2 cut(s) 602, 740
Fsp4HI GCNGC 1 cut(s) 273
FspBI CTAG 5 cut(s) 680, 815, 833, 929, 1163
GlaI GCGC 2 cut(s) 19, 1149
GluI GCNGC 1 cut(s) 273
HaeII RGCGCY 2 cut(s) 21, 1151
HaeIII GGCC 1 cut(s) 559
HapII CCGG 1 cut(s) 988
HgaI GACGC 1 cut(s) 1159
HhaI GCGC 2 cut(s) 20, 1150
Hin1II CATG 4 cut(s) 458, 689, 705, 1160
Hin6I GCGC 2 cut(s) 18, 1148
HinP1I GCGC 2 cut(s) 18, 1148
HindIII AAGCTT 2 cut(s) 264, 303
HinfI GANTC 2 cut(s) 96, 1137
HpaII CCGG 1 cut(s) 988
HphI GGTGA 3 cut(s) 332, 347, 755
Hpy188I TCNGA 6 cut(s) 199, 259, 444, 541, 694, 1057
Hpy188III TCNNGA 6 cut(s) 455, 716, 766, 833, 1124, 1141
Hpy99I CGWCG 1 cut(s) 263
HpyAV CCTTC 8 cut(s) 110, 114, 169, 326, 429, 853, 891, 1062
HpyCH4III ACNGT 1 cut(s) 866
HpyCH4IV ACGT 3 cut(s) 576, 711, 1118
HpyCH4V TGCA 4 cut(s) 147, 275, 685, 1099
HpyF10VI GCNNNNNNNGC 1 cut(s) 272
HpyF3I CTNAG 6 cut(s) 92, 217, 441, 465, 540, 887
HpySE526I ACGT 3 cut(s) 576, 711, 1118
Hsp92II CATG 4 cut(s) 458, 689, 705, 1160
HspAI GCGC 2 cut(s) 18, 1148
Kzo9I GATC 3 cut(s) 199, 823, 875
LguI GCTCTTC 1 cut(s) 939
LmnI GCTCC 1 cut(s) 173
Lsp1109I GCAGC 1 cut(s) 259
MaeI CTAG 5 cut(s) 680, 815, 833, 929, 1163
MaeII ACGT 3 cut(s) 576, 711, 1118
MaeIII GTNAC 2 cut(s) 743, 763
MalI GATC 3 cut(s) 201, 825, 877
MboI GATC 3 cut(s) 199, 823, 875
MfeI CAATTG 1 cut(s) 909
MflI RGATCY 1 cut(s) 875
MlsI TGGCCA 1 cut(s) 559
MluCI AATT 3 cut(s) 235, 410, 909
MluI ACGCGT 1 cut(s) 1168
MluNI TGGCCA 1 cut(s) 559
MlyI GAGTC 1 cut(s) 90
MmeI TCCRAC 1 cut(s) 282
Mox20I TGGCCA 1 cut(s) 559
MroXI GAANNNNTTC 1 cut(s) 918
MscI TGGCCA 1 cut(s) 559
MseI TTAA 6 cut(s) 351, 413, 579, 597, 671, 953
Msp20I TGGCCA 1 cut(s) 559
MspA1I CMGCKG 1 cut(s) 272
MspI CCGG 1 cut(s) 988
MspR9I CCNGG 1 cut(s) 924
MunI CAATTG 1 cut(s) 909
MvaI CCWGG 1 cut(s) 924
MvnI CGCG 2 cut(s) 738, 1170
MwoI GCNNNNNNNGC 1 cut(s) 272
NdeII GATC 3 cut(s) 199, 823, 875
NlaIII CATG 4 cut(s) 458, 689, 705, 1160
NlaIV GGNNCC 1 cut(s) 631
NmuCI GTSAC 2 cut(s) 743, 763
NspI RCATGY 2 cut(s) 689, 1160
PagI TCATGA 1 cut(s) 454
PciSI GCTCTTC 1 cut(s) 939
PcsI WCGNNNNNNNCGW 1 cut(s) 890
PdmI GAANNNNTTC 1 cut(s) 918
PfeI GAWTC 1 cut(s) 1137
PflFI GACNNNGTC 1 cut(s) 1117
PkrI GCNGC 1 cut(s) 274
PleI GAGTC 1 cut(s) 90
PpsI GAGTC 1 cut(s) 90
Psp1406I AACGTT 1 cut(s) 576
Psp6I CCWGG 1 cut(s) 922
PspGI CCWGG 1 cut(s) 922
PspN4I GGNNCC 1 cut(s) 631
PspPI GGNCC 1 cut(s) 278
PsrI GAACNNNNNNTAC 2 cut(s) 486, 518
PstI CTGCAG 1 cut(s) 277
PsuI RGATCY 1 cut(s) 875
PsyI GACNNNGTC 1 cut(s) 1117
PvuII CAGCTG 1 cut(s) 272
RsaI GTAC 2 cut(s) 732, 1161
RsaNI GTAC 2 cut(s) 731, 1160
SapI GCTCTTC 1 cut(s) 939
SaqAI TTAA 6 cut(s) 351, 413, 579, 597, 671, 953
SatI GCNGC 1 cut(s) 273
Sau3AI GATC 3 cut(s) 199, 823, 875
Sau96I GGNCC 1 cut(s) 278
SchI GAGTC 1 cut(s) 90
ScrFI CCNGG 1 cut(s) 924
SfcI CTRYAG 1 cut(s) 273
SinI GGWCC 1 cut(s) 278
SmlI CTYRAG 1 cut(s) 163
SmoI CTYRAG 1 cut(s) 163
SpeI ACTAGT 1 cut(s) 679
Sse9I AATT 3 cut(s) 235, 410, 909
SsiI CCGC 4 cut(s) 5, 171, 228, 1049
SspI AATATT 1 cut(s) 772
SspMI CTAG 5 cut(s) 680, 815, 833, 929, 1163
StyD4I CCNGG 1 cut(s) 922
TaaI ACNGT 1 cut(s) 866
TaiI ACGT 3 cut(s) 579, 714, 1121
TaqI TCGA 2 cut(s) 60, 893
TasI AATT 3 cut(s) 235, 410, 909
TatI WGTACW 2 cut(s) 730, 1159
TfiI GAWTC 1 cut(s) 1137
Tru1I TTAA 6 cut(s) 351, 413, 579, 597, 671, 953
Tru9I TTAA 6 cut(s) 351, 413, 579, 597, 671, 953
TseFI GTSAC 2 cut(s) 743, 763
TseI GCWGC 1 cut(s) 272
Tsp45I GTSAC 2 cut(s) 743, 763
TspDTI ATGAA 3 cut(s) 30, 368, 443
TspGWI ACGGA 2 cut(s) 236, 615
Tth111I GACNNNGTC 1 cut(s) 1117
VpaK11BI GGWCC 1 cut(s) 278
XagI CCTNNNNNAGG 1 cut(s) 921
XbaI TCTAGA 1 cut(s) 832
XceI RCATGY 2 cut(s) 689, 1160
XmnI GAANNNNTTC 1 cut(s) 918
XspI CTAG 5 cut(s) 680, 815, 833, 929, 1163
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.