AT3G04500

RNA recognition motif

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
3
OG0006115
Physical Location & Seq
Reverse (-)
1211762 .. 1213907
2146 bp
Loading structure...
UTR
Exon/CDS
Intron
AT3G04500.1

Sequence Viewer

Length: 738 bp
ATGTCAATCCCACCATCTTCAGGTTCTTCTTCTTCATCTTCCTCGTCTCAGTACACATACGCAGCTAATTCTTACTATTCCGCTCCGTATCAGCCTCCACAGCCTTACGCGGCGGCGCCTTCGCCTGCTGTACCGGCGCCTGTGGCATCCATTCCCGGAGCTACGGTCTATCCTCAGCCTGTTGGACCGGTTCCTGCCGTCTACGCTTACCCTCAGTACCAACAGGCACATCAATTGTTCCAAAGAGATGCACAGACAATTACACCAGAAGCTCTTGAGAATGTAAAAGCTGCTTTGGCAAGTAGTGAAACCGAACACAAAGCAGAAACTAAAAAGAGAGCCATTCCTCGTAAAGCTGCTGGACAGTCTTGGGAGGATCCTACTCTTTCAGAATGGCCAGAAAATGACTATCGTCTGTTCTGTGGTGATCTTGGGAACGAAGTGAATGATGATGTTCTTTCCAAAGCATTTGCTAGATTCCCCACCTTCAATATGGCCAAGGTCATTAGAGATAAGCGGACTGGTAAAACCAAGGGTTATGGGTTTGTGAGTTTCTTAAATCCTGCGGATCTAGCAGCAGCCTTAAAAGAAATGAATGGTAAGTATGTTGGAAATCGTCCGATAAAACTACGAAAGAGTAGCTGGAAAGAGAGAACAGATCAGGAGGCTGCTGAAAGACAAAAGCATCACAGCAATAAGAAGCAAAAAACTGTGAAGAAGAGCATACTTCACAAGTGA
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
RRM_1

Protein Analysis

245

Amino Acids

26.99

Weight (kDa)

9.55

Isoelectric Point (pI)

52.24

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RRM_1 PF00076 139 - 209 8.4e-18 RNA recognition motif
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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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 2 cut(s) 115, 136
AccBSI CCGCTC 1 cut(s) 83
AccI GTMKAC 1 cut(s) 201
AccII CGCG 1 cut(s) 110
AciI CCGC 5 cut(s) 81, 110, 113, 517, 566
AclWI GGATC 3 cut(s) 371, 384, 576
AcoI YGGCCR 2 cut(s) 395, 495
AcyI GRCGYC 2 cut(s) 116, 137
AfaI GTAC 3 cut(s) 53, 132, 218
AfiI CCNNNNNNNGG 1 cut(s) 20
AgeI ACCGGT 1 cut(s) 187
AgsI TTSAA 1 cut(s) 490
AluBI AGCT 6 cut(s) 65, 161, 272, 290, 356, 642
AluI AGCT 6 cut(s) 65, 161, 272, 290, 356, 642
Alw26I GTCTC 1 cut(s) 51
AlwI GGATC 3 cut(s) 371, 384, 576
AoxI GGCC 2 cut(s) 395, 495
ApeKI GCWGC 6 cut(s) 62, 290, 356, 575, 578, 668
AsiGI ACCGGT 1 cut(s) 187
AspLEI GCGC 2 cut(s) 118, 139
AspS9I GGNCC 1 cut(s) 185
AsuC2I CCSGG 1 cut(s) 156
AsuHPI GGTGA 1 cut(s) 437
AvaII GGWCC 1 cut(s) 185
BalI TGGCCA 2 cut(s) 397, 497
BamHI GGATCC 1 cut(s) 376
BanI GGYRCC 2 cut(s) 115, 136
BbvCI CCTCAGC 1 cut(s) 174
BbvI GCAGC 6 cut(s) 74, 277, 343, 587, 590, 655
BccI CCATC 1 cut(s) 22
BceAI ACGGC 1 cut(s) 182
BcnI CCSGG 1 cut(s) 156
BcoDI GTCTC 1 cut(s) 51
BfaI CTAG 2 cut(s) 474, 572
BfoI RGCGCY 2 cut(s) 119, 140
BisI GCNGC 8 cut(s) 63, 111, 114, 291, 357, 576, 579, 669
BlsI GCNGC 8 cut(s) 64, 112, 115, 292, 358, 577, 580, 670
Bme1390I CCNGG 1 cut(s) 156
Bme18I GGWCC 1 cut(s) 185
BmgT120I GGNCC 1 cut(s) 185
BmiI GGNNCC 4 cut(s) 117, 138, 192, 378
BmrFI CCNGG 1 cut(s) 156
BmsI GCATC 3 cut(s) 155, 238, 694
BoxI GACNNNNGTC 1 cut(s) 411
Bpu10I CCTNAGC 1 cut(s) 174
BpuEI CTTGAG 1 cut(s) 296
BpuMI CCSGG 1 cut(s) 156
BsaHI GRCGYC 2 cut(s) 116, 137
BsaJI CCNNGG 2 cut(s) 498, 531
BsaWI WCCGGW 1 cut(s) 187
BsaXI ACNNNNNCTCC 2 cut(s) 150, 180
Bsc4I CCNNNNNNNGG 1 cut(s) 20
Bse118I RCCGGY 2 cut(s) 133, 187
Bse1I ACTGG 1 cut(s) 526
BseDI CCNNGG 2 cut(s) 498, 531
BseGI GGATG 1 cut(s) 146
BseLI CCNNNNNNNGG 1 cut(s) 20
BseMII CTCAG 3 cut(s) 62, 188, 227
BseNI ACTGG 1 cut(s) 526
BseXI GCAGC 6 cut(s) 74, 277, 343, 587, 590, 655
Bsh1236I CGCG 1 cut(s) 110
BshFI GGCC 2 cut(s) 397, 497
BshNI GGYRCC 2 cut(s) 115, 136
BshTI ACCGGT 1 cut(s) 187
BsiSI CCGG 3 cut(s) 134, 156, 188
BslI CCNNNNNNNGG 1 cut(s) 20
BsmAI GTCTC 1 cut(s) 51
BsmBI CGTCTC 1 cut(s) 51
BsnI GGCC 2 cut(s) 397, 497
Bsp143I GATC 4 cut(s) 376, 427, 568, 658
BspACI CCGC 5 cut(s) 81, 110, 113, 517, 566
BspANI GGCC 2 cut(s) 397, 497
BspCNI CTCAG 3 cut(s) 61, 187, 226
BspFNI CGCG 1 cut(s) 110
BspLI GGNNCC 4 cut(s) 117, 138, 192, 378
BspPI GGATC 3 cut(s) 371, 384, 576
BspQI GCTCTTC 1 cut(s) 713
BspT107I GGYRCC 2 cut(s) 115, 136
BsrBI CCGCTC 1 cut(s) 83
BsrFI RCCGGY 2 cut(s) 133, 187
BsrI ACTGG 1 cut(s) 526
BssAI RCCGGY 2 cut(s) 133, 187
BssECI CCNNGG 2 cut(s) 498, 531
BssMI GATC 4 cut(s) 376, 427, 568, 658
BssNI GRCGYC 2 cut(s) 116, 137
BssT1I CCWWGG 2 cut(s) 498, 531
Bst4CI ACNGT 3 cut(s) 166, 366, 712
Bst6I CTCTTC 1 cut(s) 713
BstACI GRCGYC 2 cut(s) 116, 137
BstC8I GCNNGC 1 cut(s) 126
BstDEI CTNAG 3 cut(s) 48, 174, 213
BstF5I GGATG 1 cut(s) 146
BstFNI CGCG 1 cut(s) 110
BstH2I RGCGCY 2 cut(s) 119, 140
BstHHI GCGC 2 cut(s) 118, 139
BstKTI GATC 4 cut(s) 379, 430, 571, 661
BstMAI GTCTC 1 cut(s) 51
BstMBI GATC 4 cut(s) 376, 427, 568, 658
BstMWI GCNNNNNNNGC 6 cut(s) 100, 134, 143, 203, 296, 572
BstPAI GACNNNNGTC 1 cut(s) 411
BstSCI CCNGG 1 cut(s) 154
BstUI CGCG 1 cut(s) 110
BstV1I GCAGC 6 cut(s) 74, 277, 343, 587, 590, 655
BstX2I RGATCY 2 cut(s) 376, 568
BstYI RGATCY 2 cut(s) 376, 568
BsuRI GGCC 2 cut(s) 397, 497
BtsCI GGATG 1 cut(s) 146
Cac8I GCNNGC 1 cut(s) 126
CfoI GCGC 2 cut(s) 118, 139
Cfr10I RCCGGY 2 cut(s) 133, 187
Cfr13I GGNCC 1 cut(s) 185
Csp6I GTAC 3 cut(s) 52, 131, 217
CspAI ACCGGT 1 cut(s) 187
CviQI GTAC 3 cut(s) 52, 131, 217
DdeI CTNAG 3 cut(s) 48, 174, 213
DinI GGCGCC 2 cut(s) 117, 138
DpnI GATC 4 cut(s) 378, 429, 570, 660
DpnII GATC 4 cut(s) 376, 427, 568, 658
EaeI YGGCCR 2 cut(s) 395, 495
Eam1104I CTCTTC 1 cut(s) 713
EarI CTCTTC 1 cut(s) 713
Eco130I CCWWGG 2 cut(s) 498, 531
Eco47I GGWCC 1 cut(s) 185
EcoT14I CCWWGG 2 cut(s) 498, 531
EgeI GGCGCC 2 cut(s) 117, 138
EheI GGCGCC 2 cut(s) 117, 138
ErhI CCWWGG 2 cut(s) 498, 531
Esp3I CGTCTC 1 cut(s) 51
FaiI YATR 5 cut(s) 58, 494, 540, 606, 725
FblI GTMKAC 1 cut(s) 201
Fnu4HI GCNGC 8 cut(s) 63, 111, 114, 291, 357, 576, 579, 669
FokI GGATG 1 cut(s) 133
Fsp4HI GCNGC 8 cut(s) 63, 111, 114, 291, 357, 576, 579, 669
FspBI CTAG 2 cut(s) 474, 572
GlaI GCGC 2 cut(s) 117, 138
GluI GCNGC 8 cut(s) 63, 111, 114, 291, 357, 576, 579, 669
HaeII RGCGCY 2 cut(s) 119, 140
HaeIII GGCC 2 cut(s) 397, 497
HapII CCGG 3 cut(s) 134, 156, 188
HhaI GCGC 2 cut(s) 118, 139
Hin1I GRCGYC 2 cut(s) 116, 137
Hin6I GCGC 2 cut(s) 116, 137
HinP1I GCGC 2 cut(s) 116, 137
HinfI GANTC 1 cut(s) 477
HpaII CCGG 3 cut(s) 134, 156, 188
HphI GGTGA 1 cut(s) 437
Hpy166II GTNNAC 2 cut(s) 54, 202
Hpy188I TCNGA 2 cut(s) 391, 621
Hpy188III TCNNGA 2 cut(s) 275, 662
Hpy8I GTNNAC 2 cut(s) 54, 202
HpyAV CCTTC 2 cut(s) 129, 496
HpyCH4III ACNGT 3 cut(s) 166, 366, 712
HpyCH4V TGCA 1 cut(s) 251
HpyF10VI GCNNNNNNNGC 6 cut(s) 100, 134, 143, 203, 296, 572
HpyF3I CTNAG 3 cut(s) 48, 174, 213
Hsp92I GRCGYC 2 cut(s) 116, 137
HspAI GCGC 2 cut(s) 116, 137
KasI GGCGCC 2 cut(s) 115, 136
Kzo9I GATC 4 cut(s) 376, 427, 568, 658
LguI GCTCTTC 1 cut(s) 713
LmnI GCTCC 2 cut(s) 88, 158
Lsp1109I GCAGC 6 cut(s) 74, 277, 343, 587, 590, 655
LweI GCATC 3 cut(s) 155, 238, 694
MaeI CTAG 2 cut(s) 474, 572
MalI GATC 4 cut(s) 378, 429, 570, 660
MbiI CCGCTC 1 cut(s) 83
MboI GATC 4 cut(s) 376, 427, 568, 658
MboII GAAGA 7 cut(s) 9, 18, 21, 24, 30, 727, 730
MfeI CAATTG 1 cut(s) 233
MflI RGATCY 2 cut(s) 376, 568
MlsI TGGCCA 2 cut(s) 397, 497
MluCI AATT 3 cut(s) 67, 233, 258
MluNI TGGCCA 2 cut(s) 397, 497
Mly113I GGCGCC 2 cut(s) 116, 137
MmeI TCCRAC 2 cut(s) 163, 589
MnlI CCTC 7 cut(s) 52, 105, 183, 222, 357, 367, 658
Mox20I TGGCCA 2 cut(s) 397, 497
MscI TGGCCA 2 cut(s) 397, 497
MseI TTAA 2 cut(s) 557, 584
Msp20I TGGCCA 2 cut(s) 397, 497
MspI CCGG 3 cut(s) 134, 156, 188
MspR9I CCNGG 1 cut(s) 156
MunI CAATTG 1 cut(s) 233
MvnI CGCG 1 cut(s) 110
MwoI GCNNNNNNNGC 6 cut(s) 100, 134, 143, 203, 296, 572
NarI GGCGCC 2 cut(s) 116, 137
NciI CCSGG 1 cut(s) 156
NdeII GATC 4 cut(s) 376, 427, 568, 658
NlaIV GGNNCC 4 cut(s) 117, 138, 192, 378
PciSI GCTCTTC 1 cut(s) 713
PfeI GAWTC 1 cut(s) 477
PfoI TCCNGGA 1 cut(s) 154
PinAI ACCGGT 1 cut(s) 187
PkrI GCNGC 8 cut(s) 64, 112, 115, 292, 358, 577, 580, 670
PluTI GGCGCC 2 cut(s) 119, 140
PshAI GACNNNNGTC 1 cut(s) 411
PspN4I GGNNCC 4 cut(s) 117, 138, 192, 378
PspPI GGNCC 1 cut(s) 185
PsuI RGATCY 2 cut(s) 376, 568
RsaI GTAC 3 cut(s) 53, 132, 218
RsaNI GTAC 3 cut(s) 52, 131, 217
SapI GCTCTTC 1 cut(s) 713
SaqAI TTAA 2 cut(s) 557, 584
SatI GCNGC 8 cut(s) 63, 111, 114, 291, 357, 576, 579, 669
Sau3AI GATC 4 cut(s) 376, 427, 568, 658
Sau96I GGNCC 1 cut(s) 185
ScrFI CCNGG 1 cut(s) 156
SetI ASST 9 cut(s) 25, 67, 163, 274, 292, 358, 488, 504, 644
SfaNI GCATC 3 cut(s) 155, 238, 694
SfoI GGCGCC 2 cut(s) 117, 138
SinI GGWCC 1 cut(s) 185
SmlI CTYRAG 1 cut(s) 275
SmoI CTYRAG 1 cut(s) 275
Sse9I AATT 3 cut(s) 67, 233, 258
SsiI CCGC 5 cut(s) 81, 110, 113, 517, 566
SspDI GGCGCC 2 cut(s) 115, 136
SspMI CTAG 2 cut(s) 474, 572
StyD4I CCNGG 1 cut(s) 154
StyI CCWWGG 2 cut(s) 498, 531
TaaI ACNGT 3 cut(s) 166, 366, 712
TasI AATT 3 cut(s) 67, 233, 258
TatI WGTACW 1 cut(s) 51
TauI GCSGC 2 cut(s) 113, 116
TfiI GAWTC 1 cut(s) 477
Tru1I TTAA 2 cut(s) 557, 584
Tru9I TTAA 2 cut(s) 557, 584
TseI GCWGC 6 cut(s) 62, 290, 356, 575, 578, 668
TspDTI ATGAA 2 cut(s) 24, 608
TspGWI ACGGA 1 cut(s) 75
VpaK11BI GGWCC 1 cut(s) 185
XcmI CCANNNNNNNNNTGG 1 cut(s) 490
XmiI GTMKAC 1 cut(s) 201
XspI CTAG 2 cut(s) 474, 572
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.