AT1G09140

RNA recognition motif

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
1
OG0007007
Physical Location & Seq
Reverse (-)
2942538 .. 2945976
3439 bp
Loading structure...
UTR
Exon/CDS
Intron
AT1G09140.3

Sequence Viewer

Length: 807 bp
ATGAGTAGCCGATGGAATCGTACGATCTACGTTGGGAATTTGCCTGGAGATATTCGCAAGTGTGAGGTTGAAGATCTCTTCTACAAGTATGGACCAATTGTGGACATTGATTTGAAGATTCCACCGAGACCTCCTGGTTATGCCTTTGTCGAGTTTGAAGATCCTCGTGATGCAGACGATGCAATTTATGGACGTGATGGTTATGATTTTGATGGGTGTCGACTTCGGGTTGAGATTGCACATGGTGGTCGTAGATTTTCACCATCAGTTGATAGGTACAGCAGCAGCTACAGTGCGAGCCGTGCACCTTCAAGACGCTCTGACTACCGCGTGCTTGTGACCGGATTACCGCCTTCTGCTTCGTGGCAGGACCTTAAGGATCACATGCGCAAAGCTGGAGATGTCTGCTTCTCTGAAGTTTTCCCTGACCGTAAAGGCATGTCTGGGGTTGTGGATTATAGCAACTATGATGATATGAAGTACGCAATAAGGAAACTTGATGCCACTGAATTTCGAAATGCTTTCTCTAGTGCTTATATACGGGTGAGGGAATATGAGTCGAGGAGTGTGAGTCGAAGCCCAGATGATTCTAAAAGCTATAGAAGCAGGAGTCGGAGCCGTGGTCCAAGCTGTAGCTATAGTAGCAAGAGCAGGAGTGTGTCACCTGCTAGATCCATTTCCCCGCGTTCACGGCCCCTTAGTCGTTCTCGCTCGCTATACAGCTCTGTCTCAAGGTCCCAATCAAGATCAAAATCAAGATCAAGATCAAGATCGAATTCTCCAGTTTCACCTGTGATATCTGGTTGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko03040 ko04657 ko05168 map03040 map04657 map05168
Pfam Domains
Protein Families
RRM_1

Protein Analysis

268

Amino Acids

30.39

Weight (kDa)

9.89

Isoelectric Point (pI)

88.47

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RRM_1 PF00076 9 - 76 1e-17 RNA recognition motif
RRM_1 PF00076 111 - 173 5.6e-11 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)
AarI CACCTGC 1 cut(s) 673
Acc16I TGCGCA 1 cut(s) 389
Acc36I ACCTGC 1 cut(s) 673
AccI GTMKAC 1 cut(s) 220
AccII CGCG 2 cut(s) 330, 685
AciI CCGC 3 cut(s) 328, 350, 683
AclWI GGATC 3 cut(s) 155, 387, 666
AcsI RAATTY 3 cut(s) 37, 509, 775
AcuI CTGAAG 1 cut(s) 435
AdeI CACNNNGTG 1 cut(s) 245
AfaI GTAC 3 cut(s) 22, 278, 482
AflII CTTAAG 1 cut(s) 374
AgsI TTSAA 4 cut(s) 71, 115, 158, 312
AjiI CACGTC 1 cut(s) 194
AjnI CCWGG 2 cut(s) 43, 133
AluBI AGCT 6 cut(s) 288, 395, 597, 630, 636, 723
AluI AGCT 6 cut(s) 288, 395, 597, 630, 636, 723
Alw21I GWGCWC 1 cut(s) 307
Alw26I GTCTC 2 cut(s) 121, 733
Alw44I GTGCAC 1 cut(s) 303
AlwI GGATC 3 cut(s) 155, 387, 666
AoxI GGCC 1 cut(s) 692
ApaLI GTGCAC 1 cut(s) 303
ApeKI GCWGC 2 cut(s) 282, 285
ApoI RAATTY 3 cut(s) 37, 509, 775
AspLEI GCGC 1 cut(s) 390
AspS9I GGNCC 5 cut(s) 92, 370, 623, 693, 735
AsuHPI GGTGA 4 cut(s) 252, 556, 654, 780
AsuII TTCGAA 1 cut(s) 514
AvaII GGWCC 4 cut(s) 92, 370, 623, 735
BaeGI GKGCMC 1 cut(s) 307
BauI CACGAG 1 cut(s) 165
Bbv12I GWGCWC 1 cut(s) 307
BbvI GCAGC 2 cut(s) 294, 297
BccI CCATC 4 cut(s) 6, 191, 206, 271
BceAI ACGGC 3 cut(s) 285, 603, 707
BciT130I CCWGG 2 cut(s) 45, 135
BcoDI GTCTC 2 cut(s) 121, 733
BfaI CTAG 2 cut(s) 528, 669
BfmI CTRYAG 4 cut(s) 289, 598, 631, 637
BfrI CTTAAG 1 cut(s) 374
BfuAI ACCTGC 1 cut(s) 673
BglII AGATCT 1 cut(s) 73
BisI GCNGC 2 cut(s) 283, 286
BlsI GCNGC 2 cut(s) 284, 287
Bme1390I CCNGG 2 cut(s) 45, 135
Bme18I GGWCC 4 cut(s) 92, 370, 623, 735
BmgBI CACGTC 1 cut(s) 194
BmgT120I GGNCC 5 cut(s) 92, 370, 623, 693, 735
BmiI GGNNCC 3 cut(s) 617, 695, 737
BmrFI CCNGG 2 cut(s) 45, 135
BmsI GCATC 3 cut(s) 160, 169, 490
BpmI CTGGAG 3 cut(s) 66, 417, 765
Bpu14I TTCGAA 1 cut(s) 514
BpuEI CTTGAG 1 cut(s) 715
BsaBI GATNNNNATC 3 cut(s) 751, 763, 769
BsaI GGTCTC 1 cut(s) 121
BsaJI CCNNGG 1 cut(s) 619
BsaWI WCCGGW 1 cut(s) 341
BsaXI ACNNNNNCTCC 4 cut(s) 556, 586, 607, 637
Bse1I ACTGG 1 cut(s) 782
Bse8I GATNNNNATC 3 cut(s) 751, 763, 769
BseBI CCWGG 2 cut(s) 45, 135
BseDI CCNNGG 1 cut(s) 619
BseJI GATNNNNATC 3 cut(s) 751, 763, 769
BseNI ACTGG 1 cut(s) 782
BseRI GAGGAG 1 cut(s) 577
BseSI GKGCMC 1 cut(s) 307
BseXI GCAGC 2 cut(s) 294, 297
Bsh1236I CGCG 2 cut(s) 330, 685
BshFI GGCC 1 cut(s) 694
BsiHKAI GWGCWC 1 cut(s) 307
BsiSI CCGG 1 cut(s) 342
BsiWI CGTACG 1 cut(s) 20
BslFI GGGAC 1 cut(s) 721
BsmAI GTCTC 2 cut(s) 121, 733
BsmFI GGGAC 1 cut(s) 721
BsnI GGCC 1 cut(s) 694
Bso31I GGTCTC 1 cut(s) 121
Bsp119I TTCGAA 1 cut(s) 514
Bsp1286I GDGCHC 1 cut(s) 307
Bsp143I GATC 9 cut(s) 24, 73, 160, 379, 671, 746, 758, 764, 770
BspACI CCGC 3 cut(s) 328, 350, 683
BspANI GGCC 1 cut(s) 694
BspFNI CGCG 2 cut(s) 330, 685
BspLI GGNNCC 3 cut(s) 617, 695, 737
BspMI ACCTGC 1 cut(s) 673
BspPI GGATC 3 cut(s) 155, 387, 666
BspT104I TTCGAA 1 cut(s) 514
BspTI CTTAAG 1 cut(s) 374
BspTNI GGTCTC 1 cut(s) 121
BsrI ACTGG 1 cut(s) 782
BssECI CCNNGG 1 cut(s) 619
BssMI GATC 9 cut(s) 24, 73, 160, 379, 671, 746, 758, 764, 770
BssSI CACGAG 1 cut(s) 165
Bst2BI CACGAG 1 cut(s) 165
Bst2UI CCWGG 2 cut(s) 45, 135
Bst4CI ACNGT 2 cut(s) 293, 431
Bst6I CTCTTC 1 cut(s) 83
BstAFI CTTAAG 1 cut(s) 374
BstAPI GCANNNNNTGC 1 cut(s) 179
BstBI TTCGAA 1 cut(s) 514
BstC8I GCNNGC 3 cut(s) 298, 332, 713
BstDEI CTNAG 1 cut(s) 698
BstDSI CCRYGG 1 cut(s) 619
BstFNI CGCG 2 cut(s) 330, 685
BstHHI GCGC 1 cut(s) 390
BstKTI GATC 9 cut(s) 27, 76, 163, 382, 674, 749, 761, 767, 773
BstMAI GTCTC 2 cut(s) 121, 733
BstMBI GATC 9 cut(s) 24, 73, 160, 379, 671, 746, 758, 764, 770
BstMWI GCNNNNNNNGC 5 cut(s) 179, 302, 603, 642, 691
BstNI CCWGG 2 cut(s) 45, 135
BstNSI RCATGY 2 cut(s) 388, 442
BstSCI CCNGG 2 cut(s) 43, 133
BstSFI CTRYAG 4 cut(s) 289, 598, 631, 637
BstSLI GKGCMC 1 cut(s) 307
BstUI CGCG 2 cut(s) 330, 685
BstV1I GCAGC 2 cut(s) 294, 297
BstX2I RGATCY 3 cut(s) 73, 160, 671
BstYI RGATCY 3 cut(s) 73, 160, 671
BsuRI GGCC 1 cut(s) 694
BtgI CCRYGG 1 cut(s) 619
BtrI CACGTC 1 cut(s) 194
BtsIMutI CAGTG 2 cut(s) 298, 504
BveI ACCTGC 1 cut(s) 673
Cac8I GCNNGC 3 cut(s) 298, 332, 713
CfoI GCGC 1 cut(s) 390
Cfr13I GGNCC 5 cut(s) 92, 370, 623, 693, 735
CseI GACGC 1 cut(s) 324
Csp6I GTAC 3 cut(s) 21, 277, 481
CviAII CATG 3 cut(s) 242, 385, 439
CviQI GTAC 3 cut(s) 21, 277, 481
DdeI CTNAG 1 cut(s) 698
DpnI GATC 9 cut(s) 26, 75, 162, 381, 673, 748, 760, 766, 772
DpnII GATC 9 cut(s) 24, 73, 160, 379, 671, 746, 758, 764, 770
DraIII CACNNNGTG 1 cut(s) 245
Eam1104I CTCTTC 1 cut(s) 83
EarI CTCTTC 1 cut(s) 83
Eco31I GGTCTC 1 cut(s) 121
Eco32I GATATC 1 cut(s) 798
Eco47I GGWCC 4 cut(s) 92, 370, 623, 735
Eco57I CTGAAG 1 cut(s) 435
EcoO109I RGGNCCY 2 cut(s) 370, 735
EcoRI GAATTC 1 cut(s) 775
EcoRII CCWGG 2 cut(s) 43, 133
EcoRV GATATC 1 cut(s) 798
FaeI CATG 3 cut(s) 245, 388, 442
FaqI GGGAC 1 cut(s) 721
FatI CATG 3 cut(s) 241, 384, 438
FauI CCCGC 1 cut(s) 690
FblI GTMKAC 1 cut(s) 220
Fnu4HI GCNGC 2 cut(s) 283, 286
Fsp4HI GCNGC 2 cut(s) 283, 286
FspBI CTAG 2 cut(s) 528, 669
FspI TGCGCA 1 cut(s) 389
GlaI GCGC 1 cut(s) 389
GluI GCNGC 2 cut(s) 283, 286
GsuI CTGGAG 3 cut(s) 66, 417, 765
HaeIII GGCC 1 cut(s) 694
HapII CCGG 1 cut(s) 342
HgaI GACGC 1 cut(s) 324
HhaI GCGC 1 cut(s) 390
Hin1II CATG 3 cut(s) 245, 388, 442
Hin6I GCGC 1 cut(s) 388
HinP1I GCGC 1 cut(s) 388
HincII GTYRAC 1 cut(s) 221
HindII GTYRAC 1 cut(s) 221
HinfI GANTC 6 cut(s) 16, 118, 557, 571, 587, 610
HpaII CCGG 1 cut(s) 342
HphI GGTGA 4 cut(s) 252, 556, 654, 780
Hpy166II GTNNAC 4 cut(s) 103, 221, 305, 689
Hpy188I TCNGA 3 cut(s) 322, 415, 615
Hpy188III TCNNGA 6 cut(s) 167, 312, 744, 756, 762, 768
Hpy8I GTNNAC 4 cut(s) 103, 221, 305, 689
HpyAV CCTTC 2 cut(s) 318, 363
HpyCH4III ACNGT 2 cut(s) 293, 431
HpyCH4IV ACGT 2 cut(s) 30, 193
HpyCH4V TGCA 4 cut(s) 173, 182, 239, 305
HpyF10VI GCNNNNNNNGC 5 cut(s) 179, 302, 603, 642, 691
HpyF3I CTNAG 1 cut(s) 698
HpySE526I ACGT 2 cut(s) 30, 193
Hsp92II CATG 3 cut(s) 245, 388, 442
HspAI GCGC 1 cut(s) 388
Kzo9I GATC 9 cut(s) 24, 73, 160, 379, 671, 746, 758, 764, 770
LmnI GCTCC 1 cut(s) 615
Lsp1109I GCAGC 2 cut(s) 294, 297
LweI GCATC 3 cut(s) 160, 169, 490
MaeI CTAG 2 cut(s) 528, 669
MaeII ACGT 2 cut(s) 30, 193
MaeIII GTNAC 2 cut(s) 337, 660
MalI GATC 9 cut(s) 26, 75, 162, 381, 673, 748, 760, 766, 772
MboI GATC 9 cut(s) 24, 73, 160, 379, 671, 746, 758, 764, 770
MboII GAAGA 4 cut(s) 70, 83, 127, 170
MfeI CAATTG 1 cut(s) 96
MflI RGATCY 3 cut(s) 73, 160, 671
MhlI GDGCHC 1 cut(s) 307
MluCI AATT 5 cut(s) 37, 96, 183, 509, 775
MlyI GAGTC 3 cut(s) 566, 580, 619
MmeI TCCRAC 1 cut(s) 593
MnlI CCTC 5 cut(s) 58, 141, 174, 540, 555
MseI TTAA 1 cut(s) 375
MspCI CTTAAG 1 cut(s) 374
MspI CCGG 1 cut(s) 342
MspR9I CCNGG 2 cut(s) 45, 135
MunI CAATTG 1 cut(s) 96
MvaI CCWGG 2 cut(s) 45, 135
MvnI CGCG 2 cut(s) 330, 685
MwoI GCNNNNNNNGC 5 cut(s) 179, 302, 603, 642, 691
NdeII GATC 9 cut(s) 24, 73, 160, 379, 671, 746, 758, 764, 770
NlaIII CATG 3 cut(s) 245, 388, 442
NlaIV GGNNCC 3 cut(s) 617, 695, 737
NmuCI GTSAC 2 cut(s) 337, 660
NsbI TGCGCA 1 cut(s) 389
NspI RCATGY 2 cut(s) 388, 442
NspV TTCGAA 1 cut(s) 514
PaqCI CACCTGC 1 cut(s) 673
PfeI GAWTC 3 cut(s) 16, 118, 587
Pfl23II CGTACG 1 cut(s) 20
PkrI GCNGC 2 cut(s) 284, 287
PleI GAGTC 3 cut(s) 565, 579, 618
PpsI GAGTC 3 cut(s) 565, 579, 618
PpuMI RGGWCCY 2 cut(s) 370, 735
Psp5II RGGWCCY 2 cut(s) 370, 735
Psp6I CCWGG 2 cut(s) 43, 133
PspGI CCWGG 2 cut(s) 43, 133
PspLI CGTACG 1 cut(s) 20
PspN4I GGNNCC 3 cut(s) 617, 695, 737
PspPI GGNCC 5 cut(s) 92, 370, 623, 693, 735
PspPPI RGGWCCY 2 cut(s) 370, 735
PsuI RGATCY 3 cut(s) 73, 160, 671
RsaI GTAC 3 cut(s) 22, 278, 482
RsaNI GTAC 3 cut(s) 21, 277, 481
SalI GTCGAC 1 cut(s) 219
SaqAI TTAA 1 cut(s) 375
SatI GCNGC 2 cut(s) 283, 286
Sau3AI GATC 9 cut(s) 24, 73, 160, 379, 671, 746, 758, 764, 770
Sau96I GGNCC 5 cut(s) 92, 370, 623, 693, 735
SchI GAGTC 3 cut(s) 566, 580, 619
ScrFI CCNGG 2 cut(s) 45, 135
SduI GDGCHC 1 cut(s) 307
SfaNI GCATC 3 cut(s) 160, 169, 490
SfcI CTRYAG 4 cut(s) 289, 598, 631, 637
SfuI TTCGAA 1 cut(s) 514
SinI GGWCC 4 cut(s) 92, 370, 623, 735
SmlI CTYRAG 2 cut(s) 374, 730
SmoI CTYRAG 2 cut(s) 374, 730
Sse9I AATT 5 cut(s) 37, 96, 183, 509, 775
SsiI CCGC 3 cut(s) 328, 350, 683
SspMI CTAG 2 cut(s) 528, 669
StyD4I CCNGG 2 cut(s) 43, 133
TaaI ACNGT 2 cut(s) 293, 431
TaiI ACGT 2 cut(s) 33, 196
TaqI TCGA 6 cut(s) 150, 220, 514, 560, 574, 773
TasI AATT 5 cut(s) 37, 96, 183, 509, 775
TfiI GAWTC 3 cut(s) 16, 118, 587
Tru1I TTAA 1 cut(s) 375
Tru9I TTAA 1 cut(s) 375
TscAI CASTG 2 cut(s) 298, 511
TseFI GTSAC 2 cut(s) 337, 660
TseI GCWGC 2 cut(s) 282, 285
Tsp45I GTSAC 2 cut(s) 337, 660
TspDTI ATGAA 1 cut(s) 491
TspRI CASTG 2 cut(s) 298, 511
Vha464I CTTAAG 1 cut(s) 374
VneI GTGCAC 1 cut(s) 303
VpaK11BI GGWCC 4 cut(s) 92, 370, 623, 735
XapI RAATTY 3 cut(s) 37, 509, 775
XceI RCATGY 2 cut(s) 388, 442
XmiI GTMKAC 1 cut(s) 220
XspI CTAG 2 cut(s) 528, 669
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.