AT5G53800

RNA-binding protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
5
OG0012497
Physical Location & Seq
Forward (+)
21848035 .. 21850111
2077 bp
Loading structure...
UTR
Exon/CDS
Intron
AT5G53800.1

Sequence Viewer

Length: 1056 bp
ATGGGAAGTGACCGCGACGGTGCTCCGCCGGAGAACACAAAACGAGAGGTTGAAGATAGAGATATCAGAAGAAAATCATCCCGGGAGAAACCGAGTGGTTCTGGAAAGGATTCCGGCGAAGAGAAAGATGTGAGTCGCCGCCGTGAATCGAAGAGGAGAACAAAAGACGGCAACGATTCCGGCTCTGAATCTGGTTTGGAAAGTGGAAGCGAATCGGAGAAGGAAGAGAGACGTAGAAGTAGAAAGGATAGAGGGAAGAGGAAATCAGATCGGAAATCATCTAGGAGTAGGAGAAGACGTCGTGATTATTCGAGTAGTAGCTCAGATTCCGAATCAGAATCGGAGTCGGAATATTCTGATTCTGAGGAGAGTGAGAGTGAAGATGAGAGAAGAAGGAGGAAGAGGAAGAGAAAGGAGAGGGAAGAGGAAGAGAAAGAGAGGAAGAGAAGGAGAAGAGAGAAAGATAAGAAGAAGAGGAACAAGTCTGATAAAGATGGAGATAAGAAGAGGAAGGAGAAGAAGAAGAAGAAGTCTGAGAAAGTGAAGAAAGGAGCTGTTACTGAATCATGGGGCAAGTATGGAATCATCAGAGAAACTGATATGTGGAATAAACGTCCAGAGTTCACAGCATGGTTGCTTGAAGTAAAGAAGGTTAATTTGGAAAGCTTGCCACCTTGGGAAGAGAAGAAAATGTTTAAAGATTTTATGGAGGATCATAATACTGGTACATTTACCTCGAAAAAATACTATGACATTGATGGTTACTATAGACTTAAGTTGGAAAAAGAGATGAAAAAGGGTTTGAAGAAAGCTGGGATTAGTGAACGTACTGTGTTCAATGATGAGGAACAACGCCGACTGGAGATGCAGGAATTACGTGAAAGGCAGAAGGAAGAAGAAGTGTTAGCTCTAAAGCGATCAATGGAAGGTGGAATGGCGCAAGCTATGAAAGAGCAAGCTCGGCTAAAGGAAGAAATGGTGTACTTATACAAGATTGGGGACATGGAGGGTGCAGCTGCTATACAGAGAAGGTTGGATCCGGATGTTCCCATGTGA
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
No domains found.

Protein Analysis

351

Amino Acids

41.79

Weight (kDa)

9.69

Isoelectric Point (pI)

88.6

Instability Index
Protein Domains (Pfam)
No Pfam domains detected for this protein.
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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Orthologous Genes (Group: OG0012497)

Species Orthologous Gene IDs
arabidopsis_thaliana AT5G53800
fragaria_vesca FvH4_3g20100
malus_domestica MD03G1225800.v1.1 MD11G1245300.v1.1 MD11G1245600.v1.1
prunus_persica Prupe.4G183600_v2.0.a1
pyrus_communis pycom03g17360 pycom11g21750
rosa_chinensis RchiOBHm_Chr5g0033901
rosa_laevigata RLG00000033509
rosa_multiflora Rmu_co8447119.1_g000001 Rmu_sc0001150.1_g000015 Rmu_sc0022678.1_g000005
rosa_roxburghii Rroxscaffold_1G00046310
rosa_rugosa Rorug05G0143100
rosa_samantha Rh5AG234000 Rh5BG234600 Rh5DG241500
rosa_wichuraiana Rw5G021530

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AatII GACGTC 1 cut(s) 301
AccII CGCG 1 cut(s) 15
AccIII TCCGGA 1 cut(s) 1039
AciI CCGC 3 cut(s) 13, 26, 139
AclWI GGATC 3 cut(s) 720, 1031, 1044
AcyI GRCGYC 1 cut(s) 298
AfaI GTAC 3 cut(s) 727, 829, 983
AflII CTTAAG 1 cut(s) 773
AgsI TTSAA 4 cut(s) 53, 641, 805, 838
AjuI GAANNNNNNNTTGG 2 cut(s) 641, 673
AluBI AGCT 8 cut(s) 321, 554, 666, 812, 908, 944, 959, 1016
AluI AGCT 8 cut(s) 321, 554, 666, 812, 908, 944, 959, 1016
Alw21I GWGCWC 1 cut(s) 25
Alw26I GTCTC 1 cut(s) 223
AlwI GGATC 3 cut(s) 720, 1031, 1044
Ama87I CYCGRG 1 cut(s) 81
Aor13HI TCCGGA 1 cut(s) 1039
ApeKI GCWGC 2 cut(s) 1013, 1016
Asp700I GAANNNNTTC 1 cut(s) 109
AspLEI GCGC 1 cut(s) 940
AsuC2I CCSGG 2 cut(s) 82, 83
AvaI CYCGRG 1 cut(s) 81
BamHI GGATCC 1 cut(s) 1036
BbsI GAAGAC 1 cut(s) 301
Bbv12I GWGCWC 1 cut(s) 25
BbvI GCAGC 2 cut(s) 1003, 1025
BccI CCATC 2 cut(s) 488, 752
BceAI ACGGC 2 cut(s) 126, 184
BcnI CCSGG 2 cut(s) 82, 83
BcoDI GTCTC 1 cut(s) 223
BfaI CTAG 1 cut(s) 282
BfmI CTRYAG 1 cut(s) 766
BfrI CTTAAG 1 cut(s) 773
BisI GCNGC 3 cut(s) 139, 1014, 1017
BlsI GCNGC 3 cut(s) 140, 1015, 1018
Bme1390I CCNGG 2 cut(s) 82, 83
BmeT110I CYCGRG 1 cut(s) 81
BmiI GGNNCC 1 cut(s) 1038
BmrFI CCNGG 2 cut(s) 82, 83
BmsI GCATC 1 cut(s) 855
BpiI GAAGAC 1 cut(s) 301
BpmI CTGGAG 1 cut(s) 881
BpuMI CCSGG 2 cut(s) 82, 83
BsaAI YACGTR 1 cut(s) 878
BsaHI GRCGYC 1 cut(s) 298
BsaJI CCNNGG 2 cut(s) 81, 674
BsaWI WCCGGW 1 cut(s) 1039
BsaXI ACNNNNNCTCC 2 cut(s) 283, 313
Bse1I ACTGG 2 cut(s) 727, 864
BseAI TCCGGA 1 cut(s) 1039
BseDI CCNNGG 2 cut(s) 81, 674
BseGI GGATG 2 cut(s) 77, 1048
BseMII CTCAG 3 cut(s) 336, 354, 525
BseNI ACTGG 2 cut(s) 727, 864
BseRI GAGGAG 2 cut(s) 169, 380
BseXI GCAGC 2 cut(s) 1003, 1025
BseYI CCCAGC 1 cut(s) 812
BsgI GTGCAG 1 cut(s) 1032
Bsh1236I CGCG 1 cut(s) 15
BsiHKAI GWGCWC 1 cut(s) 25
BsiHKCI CYCGRG 1 cut(s) 81
BsiSI CCGG 5 cut(s) 29, 82, 114, 180, 1040
BslFI GGGAC 1 cut(s) 1013
BsmAI GTCTC 1 cut(s) 223
BsmBI CGTCTC 1 cut(s) 223
BsmFI GGGAC 1 cut(s) 1013
BsoBI CYCGRG 1 cut(s) 81
Bsp1286I GDGCHC 1 cut(s) 25
Bsp13I TCCGGA 1 cut(s) 1039
Bsp143I GATC 4 cut(s) 268, 712, 917, 1036
BspACI CCGC 3 cut(s) 13, 26, 139
BspCNI CTCAG 3 cut(s) 335, 355, 526
BspEI TCCGGA 1 cut(s) 1039
BspFNI CGCG 1 cut(s) 15
BspLI GGNNCC 1 cut(s) 1038
BspPI GGATC 3 cut(s) 720, 1031, 1044
BspTI CTTAAG 1 cut(s) 773
BsrI ACTGG 2 cut(s) 727, 864
BssECI CCNNGG 2 cut(s) 81, 674
BssMI GATC 4 cut(s) 268, 712, 917, 1036
BssNI GRCGYC 1 cut(s) 298
BssT1I CCWWGG 1 cut(s) 674
Bst4CI ACNGT 2 cut(s) 20, 832
BstACI GRCGYC 1 cut(s) 298
BstAFI CTTAAG 1 cut(s) 773
BstBAI YACGTR 1 cut(s) 878
BstC8I GCNNGC 3 cut(s) 668, 942, 957
BstDEI CTNAG 3 cut(s) 322, 363, 534
BstF5I GGATG 2 cut(s) 77, 1048
BstFNI CGCG 1 cut(s) 15
BstHHI GCGC 1 cut(s) 940
BstKTI GATC 4 cut(s) 271, 715, 920, 1039
BstMAI GTCTC 1 cut(s) 223
BstMBI GATC 4 cut(s) 268, 712, 917, 1036
BstMWI GCNNNNNNNGC 1 cut(s) 961
BstSCI CCNGG 2 cut(s) 80, 81
BstSFI CTRYAG 1 cut(s) 766
BstUI CGCG 1 cut(s) 15
BstV1I GCAGC 2 cut(s) 1003, 1025
BstV2I GAAGAC 1 cut(s) 301
BstX2I RGATCY 1 cut(s) 1036
BstYI RGATCY 1 cut(s) 1036
BtsCI GGATG 2 cut(s) 77, 1048
Cac8I GCNNGC 3 cut(s) 668, 942, 957
CfoI GCGC 1 cut(s) 940
Cfr9I CCCGGG 1 cut(s) 81
Csp6I GTAC 3 cut(s) 726, 828, 982
CviAII CATG 4 cut(s) 567, 630, 1003, 1051
CviQI GTAC 3 cut(s) 726, 828, 982
DdeI CTNAG 3 cut(s) 322, 363, 534
DpnI GATC 4 cut(s) 270, 714, 919, 1038
DpnII GATC 4 cut(s) 268, 712, 917, 1036
DraI TTTAAA 1 cut(s) 697
EciI GGCGGA 1 cut(s) 15
Eco130I CCWWGG 1 cut(s) 674
Eco32I GATATC 1 cut(s) 64
Eco88I CYCGRG 1 cut(s) 81
EcoRV GATATC 1 cut(s) 64
EcoT14I CCWWGG 1 cut(s) 674
ErhI CCWWGG 1 cut(s) 674
Esp3I CGTCTC 1 cut(s) 223
FaeI CATG 4 cut(s) 570, 633, 1006, 1054
FaqI GGGAC 1 cut(s) 1013
FatI CATG 4 cut(s) 566, 629, 1002, 1050
Fnu4HI GCNGC 3 cut(s) 139, 1014, 1017
FokI GGATG 1 cut(s) 64
Fsp4HI GCNGC 3 cut(s) 139, 1014, 1017
FspBI CTAG 1 cut(s) 282
GlaI GCGC 1 cut(s) 939
GluI GCNGC 3 cut(s) 139, 1014, 1017
GsaI CCCAGC 1 cut(s) 816
GsuI CTGGAG 1 cut(s) 881
HapII CCGG 5 cut(s) 29, 82, 114, 180, 1040
HhaI GCGC 1 cut(s) 940
Hin1I GRCGYC 1 cut(s) 298
Hin1II CATG 4 cut(s) 570, 633, 1006, 1054
Hin6I GCGC 1 cut(s) 938
HinP1I GCGC 1 cut(s) 938
HindIII AAGCTT 1 cut(s) 664
HpaII CCGG 5 cut(s) 29, 82, 114, 180, 1040
Hpy166II GTNNAC 3 cut(s) 624, 824, 982
Hpy188III TCNNGA 4 cut(s) 102, 302, 617, 1040
Hpy8I GTNNAC 3 cut(s) 624, 824, 982
Hpy99I CGWCG 2 cut(s) 20, 303
HpyAV CCTTC 8 cut(s) 214, 387, 441, 505, 643, 883, 920, 1023
HpyCH4III ACNGT 2 cut(s) 20, 832
HpyCH4IV ACGT 5 cut(s) 232, 298, 613, 826, 877
HpyCH4V TGCA 2 cut(s) 868, 1013
HpyF10VI GCNNNNNNNGC 1 cut(s) 961
HpyF3I CTNAG 3 cut(s) 322, 363, 534
HpySE526I ACGT 5 cut(s) 232, 298, 613, 826, 877
Hsp92I GRCGYC 1 cut(s) 298
Hsp92II CATG 4 cut(s) 570, 633, 1006, 1054
HspAI GCGC 1 cut(s) 938
Kpn2I TCCGGA 1 cut(s) 1039
Kzo9I GATC 4 cut(s) 268, 712, 917, 1036
LmnI GCTCC 2 cut(s) 28, 551
Lsp1109I GCAGC 2 cut(s) 1003, 1025
LweI GCATC 1 cut(s) 855
MaeI CTAG 1 cut(s) 282
MaeII ACGT 5 cut(s) 232, 298, 613, 826, 877
MaeIII GTNAC 3 cut(s) 8, 556, 761
MalI GATC 4 cut(s) 270, 714, 919, 1038
MboI GATC 4 cut(s) 268, 712, 917, 1036
MflI RGATCY 1 cut(s) 1036
MhlI GDGCHC 1 cut(s) 25
MluCI AATT 2 cut(s) 655, 872
MlyI GAGTC 2 cut(s) 142, 353
MmeI TCCRAC 3 cut(s) 327, 759, 1014
MroI TCCGGA 1 cut(s) 1039
MroXI GAANNNNTTC 1 cut(s) 109
MseI TTAA 3 cut(s) 654, 696, 774
MspA1I CMGCKG 1 cut(s) 1016
MspCI CTTAAG 1 cut(s) 773
MspI CCGG 5 cut(s) 29, 82, 114, 180, 1040
MspR9I CCNGG 2 cut(s) 82, 83
MvnI CGCG 1 cut(s) 15
MwoI GCNNNNNNNGC 1 cut(s) 961
NciI CCSGG 2 cut(s) 82, 83
NdeII GATC 4 cut(s) 268, 712, 917, 1036
NlaIII CATG 4 cut(s) 570, 633, 1006, 1054
NlaIV GGNNCC 1 cut(s) 1038
NmeAIII GCCGAG 1 cut(s) 940
NmuCI GTSAC 1 cut(s) 8
PdmI GAANNNNTTC 1 cut(s) 109
PkrI GCNGC 3 cut(s) 140, 1015, 1018
PleI GAGTC 2 cut(s) 141, 352
PpsI GAGTC 2 cut(s) 141, 352
Ppu21I YACGTR 1 cut(s) 878
PspFI CCCAGC 1 cut(s) 812
PspN4I GGNNCC 1 cut(s) 1038
PsuI RGATCY 1 cut(s) 1036
PvuII CAGCTG 1 cut(s) 1016
RsaI GTAC 3 cut(s) 727, 829, 983
RsaNI GTAC 3 cut(s) 726, 828, 982
SaqAI TTAA 3 cut(s) 654, 696, 774
SatI GCNGC 3 cut(s) 139, 1014, 1017
Sau3AI GATC 4 cut(s) 268, 712, 917, 1036
SchI GAGTC 2 cut(s) 142, 353
ScrFI CCNGG 2 cut(s) 82, 83
SduI GDGCHC 1 cut(s) 25
SfaNI GCATC 1 cut(s) 855
SfcI CTRYAG 1 cut(s) 766
SmaI CCCGGG 1 cut(s) 83
SmlI CTYRAG 1 cut(s) 773
SmoI CTYRAG 1 cut(s) 773
Sse9I AATT 2 cut(s) 655, 872
SsiI CCGC 3 cut(s) 13, 26, 139
SspI AATATT 1 cut(s) 353
SspMI CTAG 1 cut(s) 282
StyD4I CCNGG 2 cut(s) 80, 81
StyI CCWWGG 1 cut(s) 674
TaaI ACNGT 2 cut(s) 20, 832
TaiI ACGT 5 cut(s) 235, 301, 616, 829, 880
TaqI TCGA 3 cut(s) 149, 311, 737
TasI AATT 2 cut(s) 655, 872
TatI WGTACW 1 cut(s) 981
TauI GCSGC 1 cut(s) 141
Tru1I TTAA 3 cut(s) 654, 696, 774
Tru9I TTAA 3 cut(s) 654, 696, 774
TseFI GTSAC 1 cut(s) 8
TseI GCWGC 2 cut(s) 1013, 1016
Tsp45I GTSAC 1 cut(s) 8
TspDTI ATGAA 2 cut(s) 806, 962
TspMI CCCGGG 1 cut(s) 81
Vha464I CTTAAG 1 cut(s) 773
XmaI CCCGGG 1 cut(s) 81
XmnI GAANNNNTTC 1 cut(s) 109
XspI CTAG 1 cut(s) 282
ZraI GACGTC 1 cut(s) 299
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.