AT4G17720

RNA recognition motif

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
4
OG0003548
Physical Location & Seq
Reverse (-)
9862365 .. 9864663
2299 bp
Loading structure...
UTR
Exon/CDS
Intron
AT4G17720.1

Sequence Viewer

Length: 942 bp
ATGACGATGACAACAGTTAAAGTGAGCAATGTTTCTCTAGGAGCAACCGATAGAGATCTCAAGGAGTTCTTTTCCTTTTCTGGCGATATTCTGTACCTTGAGACGCAGAGCGAGACTGAGCGGACTAAACTGGCATATGTCACTTTTAAGGATCTACAAGGAGCTGAAACTGCGGTTCTTCTCTCGGGAGCAACGATTGTTGATTCTTCAGTCATTGTCTCTATGGCTCCTGATTACCAACTGTCCCCTGAGGCTTTAGCTTCCTTGGAACCCAAGGACAGCAATAAATCTCCCAAGGCAGGTGACTCCGTGTTGAGAAAAGCCGAAGATGTTGTGAGCAGCATGCTTGCAAAGGGCTTTATCCTGGGAAAAGATGCCATAGCTAAAGCCAAAAGTGTTGACGAGAAGCACCAGCTAACATCTACAGCATCAGCCAAAGTCGCATCTTTTGACAAGAAAATTGGTTTCACTGATAAGATCAACACAGGCACGGTGGTAGTGGGAGAAAAGGTCAGGGAAGTTGATCAGAAGTACCAAGTCTCAGAGAAAACCAAATCAGCAATCGCTGCAGCGGAGCAGACAGTGAGCAATGCAGGTTCAGCTATAATGAAGAACCGGTATGTTCTCACAGGTGCCACGTGGGTTACTGGAGCATTCAACAAAGTTGCTAAAGCTGCAGAAGAAGTTGGACAAAAGGCTAAAGAGAAAGTTGGTATGGCTGAGGAAGAGGATAAGAGGAAAGTGGTTGATGAGTTTGCTAGAGTTCACTTGTCTGAATCACCAAAGGCAGCTTCATCAACGCAAGAAGCCGAACGTGAATCAAAACTCTCTGAATCTCCTGAAGCAAAGAAAGATTCTGAACATCTTGAGCCACAATCGAAACCATTGCAGCAACAATCTCCTCCACCTATGGCTTCAGCTCCTGCTCCGGCTCAACCTTGA
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

313

Amino Acids

33.55

Weight (kDa)

5.85

Isoelectric Point (pI)

39.41

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RRM_1 PF00076 7 - 68 4e-06 RNA recognition motif
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)
AarI CACCTGC 1 cut(s) 290
Acc36I ACCTGC 2 cut(s) 290, 584
AccB1I GGYRCC 1 cut(s) 632
AccBSI CCGCTC 1 cut(s) 121
AciI CCGC 3 cut(s) 121, 173, 572
AclWI GGATC 1 cut(s) 159
AcuI CTGAAG 3 cut(s) 192, 861, 900
AcvI CACGTG 1 cut(s) 639
AfaI GTAC 2 cut(s) 95, 533
AfiI CCNNNNNNNGG 1 cut(s) 299
AgeI ACCGGT 1 cut(s) 615
AgsI TTSAA 1 cut(s) 658
AjnI CCWGG 1 cut(s) 363
AjuI GAANNNNNNNTTGG 2 cut(s) 775, 807
AluBI AGCT 8 cut(s) 164, 260, 383, 415, 602, 674, 791, 920
AluI AGCT 8 cut(s) 164, 260, 383, 415, 602, 674, 791, 920
Alw26I GTCTC 4 cut(s) 95, 107, 223, 544
AlwI GGATC 1 cut(s) 159
AlwNI CAGNNNCTG 1 cut(s) 923
Ama87I CYCGRG 1 cut(s) 184
ApeKI GCWGC 6 cut(s) 339, 566, 569, 674, 788, 889
AsiGI ACCGGT 1 cut(s) 615
AsuHPI GGTGA 2 cut(s) 314, 771
AvaI CYCGRG 1 cut(s) 184
AxyI CCTNAGG 1 cut(s) 249
BanI GGYRCC 1 cut(s) 632
BbrPI CACGTG 1 cut(s) 639
BbvCI CCTCAGC 1 cut(s) 720
BbvI GCAGC 6 cut(s) 351, 553, 581, 661, 800, 901
BcgI CGANNNNNNTGC 2 cut(s) 868, 902
BciT130I CCWGG 1 cut(s) 365
BclI TGATCA 1 cut(s) 523
BcoDI GTCTC 4 cut(s) 95, 107, 223, 544
BfaI CTAG 2 cut(s) 38, 759
BfmI CTRYAG 3 cut(s) 423, 567, 675
BfuAI ACCTGC 2 cut(s) 290, 584
BglII AGATCT 1 cut(s) 55
BisI GCNGC 6 cut(s) 340, 567, 570, 675, 789, 890
BlsI GCNGC 6 cut(s) 341, 568, 571, 676, 790, 891
Bme1390I CCNGG 1 cut(s) 365
BmeT110I CYCGRG 1 cut(s) 184
BmiI GGNNCC 3 cut(s) 228, 270, 634
BmrFI CCNGG 1 cut(s) 365
BmsI GCATC 3 cut(s) 364, 437, 452
BpmI CTGGAG 1 cut(s) 669
Bpu10I CCTNAGC 1 cut(s) 720
BpuEI CTTGAG 3 cut(s) 44, 119, 887
BsaAI YACGTR 1 cut(s) 639
BsaBI GATNNNNATC 1 cut(s) 54
BsaJI CCNNGG 4 cut(s) 264, 273, 294, 364
BsaWI WCCGGW 1 cut(s) 615
BsaXI ACNNNNNCTCC 2 cut(s) 495, 525
Bsc4I CCNNNNNNNGG 1 cut(s) 299
Bse118I RCCGGY 1 cut(s) 615
Bse1I ACTGG 2 cut(s) 135, 652
Bse21I CCTNAGG 1 cut(s) 249
Bse3DI GCAATG 3 cut(s) 34, 595, 884
Bse8I GATNNNNATC 1 cut(s) 54
BseBI CCWGG 1 cut(s) 365
BseDI CCNNGG 4 cut(s) 264, 273, 294, 364
BseJI GATNNNNATC 1 cut(s) 54
BseLI CCNNNNNNNGG 1 cut(s) 299
BseMI GCAATG 3 cut(s) 34, 595, 884
BseMII CTCAG 4 cut(s) 108, 240, 555, 711
BseNI ACTGG 2 cut(s) 135, 652
BseRI GAGGAG 1 cut(s) 891
BseXI GCAGC 6 cut(s) 351, 553, 581, 661, 800, 901
BshNI GGYRCC 1 cut(s) 632
BshTI ACCGGT 1 cut(s) 615
BsiHKCI CYCGRG 1 cut(s) 184
BsiSI CCGG 2 cut(s) 616, 929
BslFI GGGAC 1 cut(s) 229
BslI CCNNNNNNNGG 1 cut(s) 299
BsmAI GTCTC 4 cut(s) 95, 107, 223, 544
BsmBI CGTCTC 1 cut(s) 95
BsmFI GGGAC 1 cut(s) 229
BsmI GAATGC 1 cut(s) 653
BsoBI CYCGRG 1 cut(s) 184
Bsp143I GATC 4 cut(s) 55, 151, 477, 523
BspACI CCGC 3 cut(s) 121, 173, 572
BspCNI CTCAG 4 cut(s) 109, 241, 554, 712
BspLI GGNNCC 3 cut(s) 228, 270, 634
BspMAI CTGCAG 2 cut(s) 571, 679
BspMI ACCTGC 2 cut(s) 290, 584
BspPI GGATC 1 cut(s) 159
BspT107I GGYRCC 1 cut(s) 632
BsrBI CCGCTC 1 cut(s) 121
BsrDI GCAATG 3 cut(s) 34, 595, 884
BsrFI RCCGGY 1 cut(s) 615
BsrI ACTGG 2 cut(s) 135, 652
BssAI RCCGGY 1 cut(s) 615
BssECI CCNNGG 4 cut(s) 264, 273, 294, 364
BssMI GATC 4 cut(s) 55, 151, 477, 523
BssT1I CCWWGG 3 cut(s) 264, 273, 294
Bst2UI CCWGG 1 cut(s) 365
Bst4CI ACNGT 4 cut(s) 16, 243, 493, 583
Bst6I CTCTTC 1 cut(s) 720
BstAPI GCANNNNNTGC 1 cut(s) 566
BstBAI YACGTR 1 cut(s) 639
BstC8I GCNNGC 2 cut(s) 344, 348
BstDEI CTNAG 4 cut(s) 117, 249, 541, 720
BstKTI GATC 4 cut(s) 58, 154, 480, 526
BstMAI GTCTC 4 cut(s) 95, 107, 223, 544
BstMBI GATC 4 cut(s) 55, 151, 477, 523
BstMWI GCNNNNNNNGC 5 cut(s) 170, 440, 566, 599, 674
BstNI CCWGG 1 cut(s) 365
BstNSI RCATGY 1 cut(s) 346
BstSCI CCNGG 1 cut(s) 363
BstSFI CTRYAG 3 cut(s) 423, 567, 675
BstV1I GCAGC 6 cut(s) 351, 553, 581, 661, 800, 901
BstX2I RGATCY 2 cut(s) 55, 151
BstYI RGATCY 2 cut(s) 55, 151
Bsu36I CCTNAGG 1 cut(s) 249
BtsIMutI CAGTG 2 cut(s) 468, 588
BveI ACCTGC 2 cut(s) 290, 584
Cac8I GCNNGC 2 cut(s) 344, 348
CaiI CAGNNNCTG 1 cut(s) 923
Cfr10I RCCGGY 1 cut(s) 615
CseI GACGC 1 cut(s) 112
Csp6I GTAC 2 cut(s) 94, 532
CspAI ACCGGT 1 cut(s) 615
CviAII CATG 1 cut(s) 343
CviQI GTAC 2 cut(s) 94, 532
DdeI CTNAG 4 cut(s) 117, 249, 541, 720
DpnI GATC 4 cut(s) 57, 153, 479, 525
DpnII GATC 4 cut(s) 55, 151, 477, 523
Eam1104I CTCTTC 1 cut(s) 720
EarI CTCTTC 1 cut(s) 720
Eco130I CCWWGG 3 cut(s) 264, 273, 294
Eco57I CTGAAG 3 cut(s) 192, 861, 900
Eco72I CACGTG 1 cut(s) 639
Eco81I CCTNAGG 1 cut(s) 249
Eco88I CYCGRG 1 cut(s) 184
EcoRII CCWGG 1 cut(s) 363
EcoT14I CCWWGG 3 cut(s) 264, 273, 294
ErhI CCWWGG 3 cut(s) 264, 273, 294
Esp3I CGTCTC 1 cut(s) 95
FaeI CATG 1 cut(s) 346
FaiI YATR 9 cut(s) 136, 138, 224, 344, 380, 605, 621, 716, 911
FalI AAGNNNNNCTT 2 cut(s) 53, 85
FaqI GGGAC 1 cut(s) 229
FatI CATG 1 cut(s) 342
FauNDI CATATG 1 cut(s) 136
FbaI TGATCA 1 cut(s) 523
Fnu4HI GCNGC 6 cut(s) 340, 567, 570, 675, 789, 890
Fsp4HI GCNGC 6 cut(s) 340, 567, 570, 675, 789, 890
FspBI CTAG 2 cut(s) 38, 759
GluI GCNGC 6 cut(s) 340, 567, 570, 675, 789, 890
GsuI CTGGAG 1 cut(s) 669
HapII CCGG 2 cut(s) 616, 929
HgaI GACGC 1 cut(s) 112
Hin1II CATG 1 cut(s) 346
HincII GTYRAC 1 cut(s) 400
HindII GTYRAC 1 cut(s) 400
HinfI GANTC 6 cut(s) 203, 305, 776, 818, 833, 854
HpaII CCGG 2 cut(s) 616, 929
HphI GGTGA 2 cut(s) 314, 771
Hpy166II GTNNAC 2 cut(s) 400, 766
Hpy188I TCNGA 5 cut(s) 528, 544, 775, 832, 859
Hpy188III TCNNGA 4 cut(s) 186, 230, 839, 866
Hpy8I GTNNAC 2 cut(s) 400, 766
HpyCH4III ACNGT 4 cut(s) 16, 243, 493, 583
HpyCH4IV ACGT 2 cut(s) 638, 814
HpyCH4V TGCA 5 cut(s) 350, 569, 593, 677, 889
HpyF10VI GCNNNNNNNGC 5 cut(s) 170, 440, 566, 599, 674
HpyF3I CTNAG 4 cut(s) 117, 249, 541, 720
HpySE526I ACGT 2 cut(s) 638, 814
Hsp92II CATG 1 cut(s) 346
Ksp22I TGATCA 1 cut(s) 523
Kzo9I GATC 4 cut(s) 55, 151, 477, 523
LmnI GCTCC 8 cut(s) 41, 161, 188, 232, 574, 650, 925, 931
Lsp1109I GCAGC 6 cut(s) 351, 553, 581, 661, 800, 901
LweI GCATC 3 cut(s) 364, 437, 452
MaeI CTAG 2 cut(s) 38, 759
MaeII ACGT 2 cut(s) 638, 814
MaeIII GTNAC 3 cut(s) 139, 302, 643
MalI GATC 4 cut(s) 57, 153, 479, 525
MbiI CCGCTC 1 cut(s) 121
MboI GATC 4 cut(s) 55, 151, 477, 523
MboII GAAGA 6 cut(s) 170, 198, 338, 622, 692, 737
MflI RGATCY 2 cut(s) 55, 151
MluCI AATT 1 cut(s) 459
MlyI GAGTC 1 cut(s) 299
MmeI TCCRAC 1 cut(s) 667
MnlI CCTC 5 cut(s) 244, 715, 721, 729, 912
MseI TTAA 2 cut(s) 18, 147
MspA1I CMGCKG 1 cut(s) 572
MspI CCGG 2 cut(s) 616, 929
MspR9I CCNGG 1 cut(s) 365
Mva1269I GAATGC 1 cut(s) 653
MvaI CCWGG 1 cut(s) 365
MwoI GCNNNNNNNGC 5 cut(s) 170, 440, 566, 599, 674
NdeI CATATG 1 cut(s) 136
NdeII GATC 4 cut(s) 55, 151, 477, 523
NlaIII CATG 1 cut(s) 346
NlaIV GGNNCC 3 cut(s) 228, 270, 634
NmuCI GTSAC 2 cut(s) 139, 302
NspI RCATGY 1 cut(s) 346
PaeI GCATGC 1 cut(s) 346
PaqCI CACCTGC 1 cut(s) 290
PcsI WCGNNNNNNNCGW 1 cut(s) 191
PctI GAATGC 1 cut(s) 653
PfeI GAWTC 5 cut(s) 203, 776, 818, 833, 854
PinAI ACCGGT 1 cut(s) 615
PkrI GCNGC 6 cut(s) 341, 568, 571, 676, 790, 891
PleI GAGTC 1 cut(s) 299
PmaCI CACGTG 1 cut(s) 639
PmlI CACGTG 1 cut(s) 639
PpsI GAGTC 1 cut(s) 299
Ppu21I YACGTR 1 cut(s) 639
Psp6I CCWGG 1 cut(s) 363
PspCI CACGTG 1 cut(s) 639
PspGI CCWGG 1 cut(s) 363
PspN4I GGNNCC 3 cut(s) 228, 270, 634
PstI CTGCAG 2 cut(s) 571, 679
PstNI CAGNNNCTG 1 cut(s) 923
PsuI RGATCY 2 cut(s) 55, 151
RsaI GTAC 2 cut(s) 95, 533
RsaNI GTAC 2 cut(s) 94, 532
SaqAI TTAA 2 cut(s) 18, 147
SatI GCNGC 6 cut(s) 340, 567, 570, 675, 789, 890
Sau3AI GATC 4 cut(s) 55, 151, 477, 523
SchI GAGTC 1 cut(s) 299
ScrFI CCNGG 1 cut(s) 365
SfaNI GCATC 3 cut(s) 364, 437, 452
SfcI CTRYAG 3 cut(s) 423, 567, 675
SmlI CTYRAG 3 cut(s) 59, 98, 866
SmoI CTYRAG 3 cut(s) 59, 98, 866
SphI GCATGC 1 cut(s) 346
Sse9I AATT 1 cut(s) 459
SsiI CCGC 3 cut(s) 121, 173, 572
SspMI CTAG 2 cut(s) 38, 759
StyD4I CCNGG 1 cut(s) 363
StyI CCWWGG 3 cut(s) 264, 273, 294
TaaI ACNGT 4 cut(s) 16, 243, 493, 583
TaiI ACGT 2 cut(s) 641, 817
TaqI TCGA 1 cut(s) 878
TasI AATT 1 cut(s) 459
TfiI GAWTC 5 cut(s) 203, 776, 818, 833, 854
Tru1I TTAA 2 cut(s) 18, 147
Tru9I TTAA 2 cut(s) 18, 147
TscAI CASTG 2 cut(s) 475, 588
TseFI GTSAC 2 cut(s) 139, 302
TseI GCWGC 6 cut(s) 339, 566, 569, 674, 788, 889
Tsp45I GTSAC 2 cut(s) 139, 302
TspDTI ATGAA 2 cut(s) 623, 783
TspGWI ACGGA 1 cut(s) 298
TspRI CASTG 2 cut(s) 475, 588
XceI RCATGY 1 cut(s) 346
XspI CTAG 2 cut(s) 38, 759
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.