AT3G62800

Double-stranded RNA binding motif

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
3
OG0001836
Physical Location & Seq
Reverse (-)
23225526 .. 23227512
1987 bp
Loading structure...
UTR
Exon/CDS
Intron
AT3G62800.2

Sequence Viewer

Length: 1068 bp
ATGGATCATGTATACAAAGGTCAACTGCAAGCGTATGCCCTGCAACATAATCTGGAGCTACCAGTGTATGCGAATGAGAGAGAAGGGCCTCCTCATGCTCCTAGATTTAGATGTAATGTTACATTCTGTGGACAGACTTTCCAGAGCTCTGAATTCTTTCCGACACTAAAATCGGCTGAACATGCCGCTGCAAAAATTGCAGTTGCTTCTTTGACGCCACAAAGTCCAGAGGGAATTGATGTTGCCTACAAGAACCTGTTACAAGAAATTGCACAGAAAGAGAGTTCTCTGTTACCATTTTATGCAACTGCTACATCTGGTCCATCGCATGCGCCTACTTTTACTTCAACTGTTGAGTTTGCTGGTAAAGTTTTCAGTGGAGAAGAGGCGAAAACCAAAAAGTTGGCTGAAATGAGCGCTGCTAAAGTTGCATTCATGAGTATCAAAAATGGGAACTCGAACCAGACCGGATCGCCTACTTTGCCTAGTGAGAGACAAGAAGATGTAAATTCAAATGTGAAGAGCAGTCCACAAGAGATCCATTCTCAACCTTCTTCCAAGGTGGTGATGACCCCTGATACCCCATCAAAGGGGATTAAAGTGAATGAAGATGAATTTCCAGATCTTCATGATGCACCAGCCAGTAATGCTAAGGAGATTAACGTTGCTTTGAATGAGCCTGAGAATCCTACAAACGATGGTACTCTTAGTGCACTAACTACTGATGGTATGAAGATGAACATTGCTTCTTCTTCTTTGCCTATACCTCACAATCCTACAAACGTTATTACTCTTAATGCACCAGCTGCCAATGGTATCAAGAGGAACATTGCTGCTTGTTCTTCGTGGATGCCTCAGAATCCCACAAACGATGGTAGTGAAACATCATCATGTGTAGTAGATGAGAGTGAGAAAAAGAAGCTCATAATGGGAACTGGCCACCTGAGTATACCAACTGGCCAACATGTAGTTTGTCGCCCATGGAACCCCGAGATAACTCTTCCTCAAGACGCGGAGATGCTCTTTAGAGATGATAAATTTATAGCCTATCGTCTTGTGAAGCCATAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0002252 GO:0002376 GO:0003674 GO:0003676 GO:0003723 GO:0003725 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006139 GO:0006325 GO:0006342 GO:0006355 GO:0006396 GO:0006725 GO:0006807 GO:0006950 GO:0006952 GO:0006955 GO:0006996 GO:0008150 GO:0008152 GO:0009605 GO:0009607 GO:0009615 GO:0009616 GO:0009889 GO:0009890 GO:0009892 GO:0009987 GO:0010033 GO:0010267 GO:0010467 GO:0010468 GO:0010556 GO:0010558 GO:0010605 GO:0010608 GO:0010629 GO:0014070 GO:0016043 GO:0016070 GO:0016246 GO:0016441 GO:0016458 GO:0019219 GO:0019222 GO:0030422 GO:0031047 GO:0031048 GO:0031050 GO:0031323 GO:0031324 GO:0031326 GO:0031327 GO:0034641 GO:0035194 GO:0035195 GO:0035196 GO:0035821 GO:0040029 GO:0042221 GO:0043170 GO:0043207 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043331 GO:0044003 GO:0044237 GO:0044238 GO:0044403 GO:0044419 GO:0044424 GO:0044464 GO:0045087 GO:0045814 GO:0045892 GO:0045934 GO:0046483 GO:0048519 GO:0048523 GO:0050789 GO:0050794 GO:0050896 GO:0051171 GO:0051172 GO:0051252 GO:0051253 GO:0051276 GO:0051607 GO:0051701 GO:0051704 GO:0051707 GO:0051716 GO:0051817 GO:0052018 GO:0052249 GO:0060145 GO:0060255 GO:0065007 GO:0070887 GO:0070918 GO:0070919 GO:0071310 GO:0071359 GO:0071407 GO:0071704 GO:0071840 GO:0080090 GO:0090304 GO:0097159 GO:0098542 GO:0098586 GO:1901360 GO:1901363 GO:1901698 GO:1901699 GO:1902679 GO:1903506 GO:1903507 GO:2000112 GO:2000113 GO:2001141
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
dsrm

Protein Analysis

355

Amino Acids

38.42

Weight (kDa)

5.72

Isoelectric Point (pI)

54.89

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
dsrm PF00035 5 - 71 8.3e-12 Double-stranded RNA binding motif
dsrm PF00035 83 - 144 1.2e-14 Double-stranded RNA binding motif
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)
AccI GTMKAC 2 cut(s) 12, 949
AccII CGCG 1 cut(s) 1013
AciI CCGC 2 cut(s) 186, 1013
AclI AACGTT 2 cut(s) 663, 783
AclWI GGATC 3 cut(s) 12, 478, 532
AcoI YGGCCR 2 cut(s) 937, 958
AcsI RAATTY 4 cut(s) 152, 508, 614, 1037
AcyI GRCGYC 1 cut(s) 215
AfaI GTAC 1 cut(s) 703
AfeI AGCGCT 1 cut(s) 418
AfiI CCNNNNNNNGG 2 cut(s) 589, 590
AflIII ACRYGT 1 cut(s) 964
AgsI TTSAA 3 cut(s) 348, 513, 673
AluBI AGCT 4 cut(s) 58, 147, 806, 922
AluI AGCT 4 cut(s) 58, 147, 806, 922
Alw21I GWGCWC 2 cut(s) 149, 715
Alw26I GTCTC 1 cut(s) 487
Alw44I GTGCAC 1 cut(s) 711
AlwI GGATC 3 cut(s) 12, 478, 532
Ama87I CYCGRG 1 cut(s) 989
Aor51HI AGCGCT 1 cut(s) 418
AoxI GGCC 3 cut(s) 86, 937, 958
ApaLI GTGCAC 1 cut(s) 711
ApeKI GCWGC 4 cut(s) 188, 419, 806, 833
ApoI RAATTY 4 cut(s) 152, 508, 614, 1037
Asp700I GAANNNNTTC 1 cut(s) 156
AspLEI GCGC 2 cut(s) 334, 419
AspS9I GGNCC 2 cut(s) 86, 320
AsuHPI GGTGA 1 cut(s) 577
AvaI CYCGRG 1 cut(s) 989
AvaII GGWCC 1 cut(s) 320
BaeGI GKGCMC 1 cut(s) 715
BalI TGGCCA 2 cut(s) 939, 960
BanII GRGCYC 1 cut(s) 149
Bbv12I GWGCWC 2 cut(s) 149, 715
BbvI GCAGC 4 cut(s) 175, 406, 793, 820
BccI CCATC 5 cut(s) 331, 592, 692, 719, 866
BcoDI GTCTC 1 cut(s) 487
BfaI CTAG 2 cut(s) 102, 486
BfoI RGCGCY 1 cut(s) 420
BglII AGATCT 1 cut(s) 622
BisI GCNGC 5 cut(s) 186, 189, 420, 807, 834
BlsI GCNGC 5 cut(s) 187, 190, 421, 808, 835
Bme18I GGWCC 1 cut(s) 320
BmeT110I CYCGRG 1 cut(s) 989
BmgT120I GGNCC 2 cut(s) 86, 320
BmiI GGNNCC 1 cut(s) 986
BmsI GCATC 3 cut(s) 622, 840, 1008
BpmI CTGGAG 1 cut(s) 74
Bpu10I CCTNAGC 1 cut(s) 651
BpuEI CTTGAG 1 cut(s) 990
BsaHI GRCGYC 1 cut(s) 215
BsaJI CCNNGG 2 cut(s) 558, 980
BsaWI WCCGGW 1 cut(s) 467
Bsc4I CCNNNNNNNGG 2 cut(s) 589, 590
Bse1I ACTGG 4 cut(s) 62, 642, 940, 961
Bse3DI GCAATG 2 cut(s) 741, 828
BseDI CCNNGG 2 cut(s) 558, 980
BseGI GGATG 1 cut(s) 855
BseLI CCNNNNNNNGG 2 cut(s) 589, 590
BseMI GCAATG 2 cut(s) 741, 828
BseMII CTCAG 3 cut(s) 672, 869, 935
BseNI ACTGG 4 cut(s) 62, 642, 940, 961
BseRI GAGGAG 1 cut(s) 81
BseSI GKGCMC 1 cut(s) 715
BseXI GCAGC 4 cut(s) 175, 406, 793, 820
Bsh1236I CGCG 1 cut(s) 1013
BshFI GGCC 3 cut(s) 88, 939, 960
BsiHKAI GWGCWC 2 cut(s) 149, 715
BsiHKCI CYCGRG 1 cut(s) 989
BsiSI CCGG 1 cut(s) 468
BslI CCNNNNNNNGG 2 cut(s) 589, 590
BsmAI GTCTC 1 cut(s) 487
BsmI GAATGC 1 cut(s) 431
BsnI GGCC 3 cut(s) 88, 939, 960
BsoBI CYCGRG 1 cut(s) 989
Bsp1286I GDGCHC 2 cut(s) 149, 715
Bsp143I GATC 4 cut(s) 4, 470, 537, 622
Bsp19I CCATGG 1 cut(s) 980
BspACI CCGC 2 cut(s) 186, 1013
BspANI GGCC 3 cut(s) 88, 939, 960
BspCNI CTCAG 3 cut(s) 673, 868, 936
BspFNI CGCG 1 cut(s) 1013
BspHI TCATGA 2 cut(s) 435, 628
BspLI GGNNCC 1 cut(s) 986
BspPI GGATC 3 cut(s) 12, 478, 532
BspQI GCTCTTC 1 cut(s) 515
BsrDI GCAATG 2 cut(s) 741, 828
BsrI ACTGG 4 cut(s) 62, 642, 940, 961
BssECI CCNNGG 2 cut(s) 558, 980
BssMI GATC 4 cut(s) 4, 470, 537, 622
BssNAI GTATAC 2 cut(s) 13, 950
BssNI GRCGYC 1 cut(s) 215
BssT1I CCWWGG 2 cut(s) 558, 980
Bst1107I GTATAC 2 cut(s) 13, 950
Bst4CI ACNGT 1 cut(s) 352
Bst6I CTCTTC 3 cut(s) 378, 515, 1005
BstACI GRCGYC 1 cut(s) 215
BstAPI GCANNNNNTGC 2 cut(s) 197, 806
BstC8I GCNNGC 2 cut(s) 30, 330
BstDEI CTNAG 5 cut(s) 651, 681, 707, 855, 944
BstDSI CCRYGG 1 cut(s) 980
BstF5I GGATG 1 cut(s) 855
BstFNI CGCG 1 cut(s) 1013
BstH2I RGCGCY 1 cut(s) 420
BstHHI GCGC 2 cut(s) 334, 419
BstKTI GATC 4 cut(s) 7, 473, 540, 625
BstMAI GTCTC 1 cut(s) 487
BstMBI GATC 4 cut(s) 4, 470, 537, 622
BstMWI GCNNNNNNNGC 6 cut(s) 182, 197, 428, 481, 647, 806
BstNSI RCATGY 3 cut(s) 185, 332, 968
BstSLI GKGCMC 1 cut(s) 715
BstUI CGCG 1 cut(s) 1013
BstV1I GCAGC 4 cut(s) 175, 406, 793, 820
BstX2I RGATCY 2 cut(s) 537, 622
BstXI CCANNNNNNTGG 1 cut(s) 403
BstYI RGATCY 2 cut(s) 537, 622
BstZ17I GTATAC 2 cut(s) 13, 950
BsuRI GGCC 3 cut(s) 88, 939, 960
BtgI CCRYGG 1 cut(s) 980
BtgZI GCGATG 1 cut(s) 309
BtsCI GGATG 1 cut(s) 855
BtsIMutI CAGTG 2 cut(s) 69, 382
Cac8I GCNNGC 2 cut(s) 30, 330
CciI TCATGA 2 cut(s) 435, 628
CfoI GCGC 2 cut(s) 334, 419
Cfr13I GGNCC 2 cut(s) 86, 320
CseI GACGC 2 cut(s) 223, 1019
Csp6I GTAC 1 cut(s) 702
CviAII CATG 9 cut(s) 8, 95, 182, 329, 436, 629, 891, 965, 981
CviQI GTAC 1 cut(s) 702
DdeI CTNAG 5 cut(s) 651, 681, 707, 855, 944
DpnI GATC 4 cut(s) 6, 472, 539, 624
DpnII GATC 4 cut(s) 4, 470, 537, 622
EaeI YGGCCR 2 cut(s) 937, 958
Eam1104I CTCTTC 3 cut(s) 378, 515, 1005
EarI CTCTTC 3 cut(s) 378, 515, 1005
Ecl136II GAGCTC 1 cut(s) 147
Eco130I CCWWGG 2 cut(s) 558, 980
Eco24I GRGCYC 1 cut(s) 149
Eco47I GGWCC 1 cut(s) 320
Eco47III AGCGCT 1 cut(s) 418
Eco53kI GAGCTC 1 cut(s) 147
Eco88I CYCGRG 1 cut(s) 989
EcoICRI GAGCTC 1 cut(s) 147
EcoO109I RGGNCCY 1 cut(s) 86
EcoRI GAATTC 1 cut(s) 152
EcoT14I CCWWGG 2 cut(s) 558, 980
EcoT38I GRGCYC 1 cut(s) 149
ErhI CCWWGG 2 cut(s) 558, 980
FaeI CATG 9 cut(s) 11, 98, 185, 332, 439, 632, 894, 968, 984
FatI CATG 9 cut(s) 7, 94, 181, 328, 435, 628, 890, 964, 980
FblI GTMKAC 2 cut(s) 12, 949
Fnu4HI GCNGC 5 cut(s) 186, 189, 420, 807, 834
FokI GGATG 1 cut(s) 862
FriOI GRGCYC 1 cut(s) 149
Fsp4HI GCNGC 5 cut(s) 186, 189, 420, 807, 834
FspBI CTAG 2 cut(s) 102, 486
GlaI GCGC 2 cut(s) 333, 418
GluI GCNGC 5 cut(s) 186, 189, 420, 807, 834
GsuI CTGGAG 1 cut(s) 74
HaeII RGCGCY 1 cut(s) 420
HaeIII GGCC 3 cut(s) 88, 939, 960
HapII CCGG 1 cut(s) 468
HgaI GACGC 2 cut(s) 223, 1019
HhaI GCGC 2 cut(s) 334, 419
Hin1I GRCGYC 1 cut(s) 215
Hin1II CATG 9 cut(s) 11, 98, 185, 332, 439, 632, 894, 968, 984
Hin6I GCGC 2 cut(s) 332, 417
HinP1I GCGC 2 cut(s) 332, 417
HincII GTYRAC 1 cut(s) 23
HindII GTYRAC 1 cut(s) 23
HinfI GANTC 2 cut(s) 685, 859
HpaII CCGG 1 cut(s) 468
HphI GGTGA 1 cut(s) 577
Hpy166II GTNNAC 6 cut(s) 13, 23, 131, 530, 713, 950
Hpy188I TCNGA 3 cut(s) 151, 162, 858
Hpy188III TCNNGA 8 cut(s) 53, 142, 227, 436, 620, 629, 820, 1007
Hpy8I GTNNAC 6 cut(s) 13, 23, 131, 530, 713, 950
HpyAV CCTTC 2 cut(s) 77, 561
HpyCH4III ACNGT 1 cut(s) 352
HpyCH4IV ACGT 2 cut(s) 663, 783
HpyF10VI GCNNNNNNNGC 6 cut(s) 182, 197, 428, 481, 647, 806
HpyF3I CTNAG 5 cut(s) 651, 681, 707, 855, 944
HpySE526I ACGT 2 cut(s) 663, 783
Hsp92I GRCGYC 1 cut(s) 215
Hsp92II CATG 9 cut(s) 11, 98, 185, 332, 439, 632, 894, 968, 984
HspAI GCGC 2 cut(s) 332, 417
Kzo9I GATC 4 cut(s) 4, 470, 537, 622
LguI GCTCTTC 1 cut(s) 515
LmnI GCTCC 2 cut(s) 55, 103
Lsp1109I GCAGC 4 cut(s) 175, 406, 793, 820
LweI GCATC 3 cut(s) 622, 840, 1008
MaeI CTAG 2 cut(s) 102, 486
MaeII ACGT 2 cut(s) 663, 783
MaeIII GTNAC 3 cut(s) 118, 258, 291
MalI GATC 4 cut(s) 6, 472, 539, 624
MboI GATC 4 cut(s) 4, 470, 537, 622
MflI RGATCY 2 cut(s) 537, 622
MhlI GDGCHC 2 cut(s) 149, 715
MlsI TGGCCA 2 cut(s) 939, 960
MluCI AATT 7 cut(s) 152, 195, 234, 267, 508, 614, 1037
MluNI TGGCCA 2 cut(s) 939, 960
MmeI TCCRAC 1 cut(s) 185
MnlI CCTC 8 cut(s) 99, 102, 223, 379, 777, 816, 864, 1014
Mox20I TGGCCA 2 cut(s) 939, 960
MroXI GAANNNNTTC 1 cut(s) 156
MscI TGGCCA 2 cut(s) 939, 960
MseI TTAA 3 cut(s) 597, 660, 795
MslI CAYNNNNRTG 1 cut(s) 889
Msp20I TGGCCA 2 cut(s) 939, 960
MspA1I CMGCKG 2 cut(s) 188, 806
MspI CCGG 1 cut(s) 468
Mva1269I GAATGC 1 cut(s) 431
MvnI CGCG 1 cut(s) 1013
MwoI GCNNNNNNNGC 6 cut(s) 182, 197, 428, 481, 647, 806
NcoI CCATGG 1 cut(s) 980
NdeII GATC 4 cut(s) 4, 470, 537, 622
NlaIII CATG 9 cut(s) 11, 98, 185, 332, 439, 632, 894, 968, 984
NlaIV GGNNCC 1 cut(s) 986
NspI RCATGY 3 cut(s) 185, 332, 968
PaeI GCATGC 1 cut(s) 332
PagI TCATGA 2 cut(s) 435, 628
PciI ACATGT 1 cut(s) 964
PciSI GCTCTTC 1 cut(s) 515
PctI GAATGC 1 cut(s) 431
PdmI GAANNNNTTC 1 cut(s) 156
PfeI GAWTC 2 cut(s) 685, 859
PkrI GCNGC 5 cut(s) 187, 190, 421, 808, 835
PscI ACATGT 1 cut(s) 964
Psp124BI GAGCTC 1 cut(s) 149
Psp1406I AACGTT 2 cut(s) 663, 783
PspN4I GGNNCC 1 cut(s) 986
PspPI GGNCC 2 cut(s) 86, 320
PsuI RGATCY 2 cut(s) 537, 622
PvuII CAGCTG 1 cut(s) 806
RsaI GTAC 1 cut(s) 703
RsaNI GTAC 1 cut(s) 702
RseI CAYNNNNRTG 1 cut(s) 889
SacI GAGCTC 1 cut(s) 149
SapI GCTCTTC 1 cut(s) 515
SaqAI TTAA 3 cut(s) 597, 660, 795
SatI GCNGC 5 cut(s) 186, 189, 420, 807, 834
Sau3AI GATC 4 cut(s) 4, 470, 537, 622
Sau96I GGNCC 2 cut(s) 86, 320
SduI GDGCHC 2 cut(s) 149, 715
SfaNI GCATC 3 cut(s) 622, 840, 1008
SinI GGWCC 1 cut(s) 320
SmiMI CAYNNNNRTG 1 cut(s) 889
SmlI CTYRAG 1 cut(s) 1005
SmoI CTYRAG 1 cut(s) 1005
SphI GCATGC 1 cut(s) 332
Sse9I AATT 7 cut(s) 152, 195, 234, 267, 508, 614, 1037
SsiI CCGC 2 cut(s) 186, 1013
SspMI CTAG 2 cut(s) 102, 486
SstI GAGCTC 1 cut(s) 149
StyI CCWWGG 2 cut(s) 558, 980
TaaI ACNGT 1 cut(s) 352
TaiI ACGT 2 cut(s) 666, 786
TaqI TCGA 1 cut(s) 458
TasI AATT 7 cut(s) 152, 195, 234, 267, 508, 614, 1037
TauI GCSGC 1 cut(s) 188
TfiI GAWTC 2 cut(s) 685, 859
Tru1I TTAA 3 cut(s) 597, 660, 795
Tru9I TTAA 3 cut(s) 597, 660, 795
TscAI CASTG 2 cut(s) 69, 382
TseI GCWGC 4 cut(s) 188, 419, 806, 833
TspDTI ATGAA 6 cut(s) 424, 617, 621, 627, 746, 752
TspRI CASTG 2 cut(s) 69, 382
VneI GTGCAC 1 cut(s) 711
VpaK11BI GGWCC 1 cut(s) 320
XapI RAATTY 4 cut(s) 152, 508, 614, 1037
XceI RCATGY 3 cut(s) 185, 332, 968
XmiI GTMKAC 2 cut(s) 12, 949
XmnI GAANNNNTTC 1 cut(s) 156
XspI CTAG 2 cut(s) 102, 486
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.