AT3G20890

RNA recognition motif

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
3
OG0011351
Physical Location & Seq
Forward (+)
7319789 .. 7321803
2015 bp
Loading structure...
UTR
Exon/CDS
Intron
AT3G20890.1

Sequence Viewer

Length: 879 bp
ATGTTCTACAGAGGATATGGAGATGGTCCTGATGGGCGTGAGATGGGACCTAAGCGTCAAAGAATGATTGATCAAGGTCCTCCAGGACCATTCTATGGACCTCATCCTAGTTCTGGCTTTATGTATAACCCTTATGGATTTGTTGCTCCTCCTCCACCTCCTCCTTTTCCTGCGGTTCGACTCCGTGGTTTACCCTTTGATTGCGCAGAGCTTGATGTAGTAGAGTTTTTTCATGGTTTGGATGTGGTTGATGTCTTGTTTGTTCACAGGAACAATAAGGTTACTGGAGAAGCCTTTTGCGTTTTGGGTTATCCCCTTCAGGTTGATTTTGCTCTTCAGAAGAATAGACAGAACATGGGAAGGAGATATGTAGAAGTTTTTAGGAGTACAAAACAGGAGTACTATAAGGCTATTGCTAACGAGGTTGCGGAATCTCGTGTCCATGGTATGGCTAGTGGTGGTGGTGGAGGTTTAGGTGGTGGCAATGGAAGTGGAGGTGGAGGTGGAGGTGGTGGCGGTGGAGGTCGAATAAGTGGTGGAAGTTCACCTCGCAGACACGTGCAGAGGGCTAGATCGAGTGATGATGGGAAAGAGGATATTGAACATACAGGTATCTTGAGACTTAGAGGATTACCGTTCTCAGCAGGAAAGGAAGACATACTTGACTTCTTCAAAGATTTCGAGCTGTCTGAAGACTTTGTTCATGTTACTGTTAATGGTGAAGGGAGACCCACTGGGGAAGCTTTTGTGGAGTTTAGGAATGCAGAAGATTCACGAGCTGCAATGGTTAAGGATAGGAAGACGCTTGGCAGCCGTTACATAGAATTGTTTCCTTCATCGGTTGAGGAGTTAGAGGAGGCACTATCAAGAGGAAGATGA
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

292

Amino Acids

31.78

Weight (kDa)

6.2

Isoelectric Point (pI)

55.93

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RRM_1 PF00076 207 - 274 8.5e-10 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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Orthologous Genes (Group: OG0011351)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G20890
fragaria_vesca FvH4_3g28820 FvH4_3g28820
malus_domestica MD03G1174800.v1.1 MD11G1192900.v1.1
prunus_persica Prupe.4G249700_v2.0.a1
pyrus_communis pycom03g13230 pycom11g16840
rosa_chinensis RchiOBHm_Chr5g0052191
rosa_laevigata RLG00000034838
rosa_multiflora Rmu_sc0006157.1_g000008 Rmu_ssc0000098.1_g000023
rosa_roxburghii Rroxscaffold_1G00028000
rosa_rugosa Rorug05G0274300 Rorug05G0274400
rosa_samantha Rh5AG346800 Rh5BG357400 Rh5CG383000 Rh5DG372900
rosa_wichuraiana Rw5G032760

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AasI GACNNNNNNGTC 1 cut(s) 54
Acc16I TGCGCA 1 cut(s) 205
AccB7I CCANNNNNTGG 2 cut(s) 95, 448
AciI CCGC 3 cut(s) 173, 428, 516
AcuI CTGAAG 3 cut(s) 302, 320, 711
AcvI CACGTG 1 cut(s) 559
AfaI GTAC 2 cut(s) 388, 401
AfiI CCNNNNNNNGG 3 cut(s) 95, 113, 448
AflIII ACRYGT 1 cut(s) 556
AgsI TTSAA 2 cut(s) 602, 673
AjnI CCWGG 1 cut(s) 82
AluBI AGCT 4 cut(s) 211, 685, 743, 779
AluI AGCT 4 cut(s) 211, 685, 743, 779
Alw26I GTCTC 2 cut(s) 613, 721
ApeKI GCWGC 2 cut(s) 779, 810
Asp700I GAANNNNTTC 1 cut(s) 828
AspLEI GCGC 1 cut(s) 206
AspS9I GGNCC 5 cut(s) 26, 47, 77, 86, 98
AsuHPI GGTGA 2 cut(s) 537, 731
AvaII GGWCC 5 cut(s) 26, 47, 77, 86, 98
BauI CACGAG 2 cut(s) 435, 774
BbrPI CACGTG 1 cut(s) 559
BbsI GAAGAC 3 cut(s) 660, 699, 806
BbvI GCAGC 2 cut(s) 766, 822
BccI CCATC 4 cut(s) 17, 26, 37, 578
BceAI ACGGC 1 cut(s) 798
BciT130I CCWGG 1 cut(s) 84
BclI TGATCA 1 cut(s) 70
BcoDI GTCTC 2 cut(s) 613, 721
BfaI CTAG 3 cut(s) 108, 453, 570
BfmI CTRYAG 1 cut(s) 7
BisI GCNGC 2 cut(s) 780, 811
BlsI GCNGC 2 cut(s) 781, 812
BmcAI AGTACT 1 cut(s) 401
Bme1390I CCNGG 1 cut(s) 84
Bme18I GGWCC 5 cut(s) 26, 47, 77, 86, 98
BmgT120I GGNCC 5 cut(s) 26, 47, 77, 86, 98
BmiI GGNNCC 1 cut(s) 48
BmrFI CCNGG 1 cut(s) 84
BmrI ACTGGG 1 cut(s) 744
BmuI ACTGGG 1 cut(s) 744
BpiI GAAGAC 3 cut(s) 660, 699, 806
BpmI CTGGAG 2 cut(s) 66, 306
Bpu10I CCTNAGC 1 cut(s) 51
BpuEI CTTGAG 1 cut(s) 637
BsaAI YACGTR 1 cut(s) 559
BsaI GGTCTC 1 cut(s) 721
BsaJI CCNNGG 2 cut(s) 184, 442
Bsc4I CCNNNNNNNGG 3 cut(s) 95, 113, 448
Bse1I ACTGG 2 cut(s) 289, 739
Bse3DI GCAATG 2 cut(s) 490, 789
BseBI CCWGG 1 cut(s) 84
BseDI CCNNGG 2 cut(s) 184, 442
BseGI GGATG 2 cut(s) 103, 247
BseLI CCNNNNNNNGG 3 cut(s) 95, 113, 448
BseMI GCAATG 2 cut(s) 490, 789
BseMII CTCAG 1 cut(s) 654
BseNI ACTGG 2 cut(s) 289, 739
BseRI GAGGAG 5 cut(s) 138, 141, 150, 860, 869
BseXI GCAGC 2 cut(s) 766, 822
BsgI GTGCAG 1 cut(s) 581
BslFI GGGAC 1 cut(s) 60
BslI CCNNNNNNNGG 3 cut(s) 95, 113, 448
BsmAI GTCTC 2 cut(s) 613, 721
BsmFI GGGAC 1 cut(s) 60
BsmI GAATGC 1 cut(s) 766
Bso31I GGTCTC 1 cut(s) 721
Bsp143I GATC 2 cut(s) 70, 572
Bsp19I CCATGG 1 cut(s) 442
BspACI CCGC 3 cut(s) 173, 428, 516
BspCNI CTCAG 1 cut(s) 653
BspLI GGNNCC 1 cut(s) 48
BspQI GCTCTTC 1 cut(s) 339
BspTNI GGTCTC 1 cut(s) 721
BsrDI GCAATG 2 cut(s) 490, 789
BsrI ACTGG 2 cut(s) 289, 739
BssECI CCNNGG 2 cut(s) 184, 442
BssMI GATC 2 cut(s) 70, 572
BssSI CACGAG 2 cut(s) 435, 774
BssT1I CCWWGG 1 cut(s) 442
Bst2BI CACGAG 2 cut(s) 435, 774
Bst2UI CCWGG 1 cut(s) 84
Bst4CI ACNGT 2 cut(s) 636, 712
Bst6I CTCTTC 1 cut(s) 339
BstBAI YACGTR 1 cut(s) 559
BstDEI CTNAG 3 cut(s) 51, 623, 640
BstDSI CCRYGG 2 cut(s) 184, 442
BstF5I GGATG 2 cut(s) 103, 247
BstHHI GCGC 1 cut(s) 206
BstKTI GATC 2 cut(s) 73, 575
BstMAI GTCTC 2 cut(s) 613, 721
BstMBI GATC 2 cut(s) 70, 572
BstNI CCWGG 1 cut(s) 84
BstSCI CCNGG 1 cut(s) 82
BstSFI CTRYAG 1 cut(s) 7
BstV1I GCAGC 2 cut(s) 766, 822
BstV2I GAAGAC 3 cut(s) 660, 699, 806
BtgI CCRYGG 2 cut(s) 184, 442
BtsCI GGATG 2 cut(s) 103, 247
BtsIMutI CAGTG 1 cut(s) 732
CfoI GCGC 1 cut(s) 206
Cfr13I GGNCC 5 cut(s) 26, 47, 77, 86, 98
CseI GACGC 2 cut(s) 44, 811
Csp6I GTAC 2 cut(s) 387, 400
CspCI CAANNNNNGTGG 2 cut(s) 472, 507
CviAII CATG 4 cut(s) 233, 355, 443, 704
CviQI GTAC 2 cut(s) 387, 400
DdeI CTNAG 3 cut(s) 51, 623, 640
DpnI GATC 2 cut(s) 72, 574
DpnII GATC 2 cut(s) 70, 572
DrdI GACNNNNNNGTC 1 cut(s) 54
DseDI GACNNNNNNGTC 1 cut(s) 54
Eam1104I CTCTTC 1 cut(s) 339
EarI CTCTTC 1 cut(s) 339
Eco130I CCWWGG 1 cut(s) 442
Eco31I GGTCTC 1 cut(s) 721
Eco47I GGWCC 5 cut(s) 26, 47, 77, 86, 98
Eco57I CTGAAG 3 cut(s) 302, 320, 711
Eco72I CACGTG 1 cut(s) 559
EcoO109I RGGNCCY 2 cut(s) 47, 77
EcoRII CCWGG 1 cut(s) 82
EcoT14I CCWWGG 1 cut(s) 442
ErhI CCWWGG 1 cut(s) 442
FaeI CATG 4 cut(s) 236, 358, 446, 707
FalI AAGNNNNNCTT 2 cut(s) 645, 677
FaqI GGGAC 1 cut(s) 60
FatI CATG 4 cut(s) 232, 354, 442, 703
FbaI TGATCA 1 cut(s) 70
Fnu4HI GCNGC 2 cut(s) 780, 811
FokI GGATG 2 cut(s) 90, 254
Fsp4HI GCNGC 2 cut(s) 780, 811
FspBI CTAG 3 cut(s) 108, 453, 570
FspI TGCGCA 1 cut(s) 205
GlaI GCGC 1 cut(s) 205
GluI GCNGC 2 cut(s) 780, 811
GsuI CTGGAG 2 cut(s) 66, 306
HgaI GACGC 2 cut(s) 44, 811
HhaI GCGC 1 cut(s) 206
Hin1II CATG 4 cut(s) 236, 358, 446, 707
Hin6I GCGC 1 cut(s) 204
HinP1I GCGC 1 cut(s) 204
HindIII AAGCTT 1 cut(s) 741
HinfI GANTC 3 cut(s) 180, 431, 770
HphI GGTGA 2 cut(s) 537, 731
Hpy166II GTNNAC 3 cut(s) 191, 265, 545
Hpy188I TCNGA 2 cut(s) 339, 691
Hpy188III TCNNGA 4 cut(s) 29, 616, 774, 867
Hpy8I GTNNAC 3 cut(s) 191, 265, 545
HpyAV CCTTC 4 cut(s) 326, 354, 716, 843
HpyCH4III ACNGT 2 cut(s) 636, 712
HpyCH4IV ACGT 1 cut(s) 558
HpyCH4V TGCA 3 cut(s) 562, 764, 782
HpyF3I CTNAG 3 cut(s) 51, 623, 640
HpySE526I ACGT 1 cut(s) 558
Hsp92II CATG 4 cut(s) 236, 358, 446, 707
HspAI GCGC 1 cut(s) 204
Ksp22I TGATCA 1 cut(s) 70
Kzo9I GATC 2 cut(s) 70, 572
LguI GCTCTTC 1 cut(s) 339
LmnI GCTCC 1 cut(s) 151
Lsp1109I GCAGC 2 cut(s) 766, 822
MaeI CTAG 3 cut(s) 108, 453, 570
MaeII ACGT 1 cut(s) 558
MaeIII GTNAC 3 cut(s) 280, 706, 815
MalI GATC 2 cut(s) 72, 574
MboI GATC 2 cut(s) 70, 572
MboII GAAGA 7 cut(s) 326, 352, 661, 665, 704, 779, 811
MluCI AATT 1 cut(s) 824
MlyI GAGTC 1 cut(s) 174
MroXI GAANNNNTTC 1 cut(s) 828
MseI TTAA 2 cut(s) 714, 789
MspR9I CCNGG 1 cut(s) 84
Mva1269I GAATGC 1 cut(s) 766
MvaI CCWGG 1 cut(s) 84
NcoI CCATGG 1 cut(s) 442
NdeII GATC 2 cut(s) 70, 572
NlaIII CATG 4 cut(s) 236, 358, 446, 707
NlaIV GGNNCC 1 cut(s) 48
NsbI TGCGCA 1 cut(s) 205
PciSI GCTCTTC 1 cut(s) 339
PctI GAATGC 1 cut(s) 766
PdmI GAANNNNTTC 1 cut(s) 828
PfeI GAWTC 2 cut(s) 431, 770
PflMI CCANNNNNTGG 2 cut(s) 95, 448
PfoI TCCNGGA 1 cut(s) 82
PkrI GCNGC 2 cut(s) 781, 812
PleI GAGTC 1 cut(s) 174
PmaCI CACGTG 1 cut(s) 559
PmlI CACGTG 1 cut(s) 559
PpsI GAGTC 1 cut(s) 174
Ppu21I YACGTR 1 cut(s) 559
PpuMI RGGWCCY 2 cut(s) 47, 77
Psp5II RGGWCCY 2 cut(s) 47, 77
Psp6I CCWGG 1 cut(s) 82
PspCI CACGTG 1 cut(s) 559
PspGI CCWGG 1 cut(s) 82
PspN4I GGNNCC 1 cut(s) 48
PspPI GGNCC 5 cut(s) 26, 47, 77, 86, 98
PspPPI RGGWCCY 2 cut(s) 47, 77
RsaI GTAC 2 cut(s) 388, 401
RsaNI GTAC 2 cut(s) 387, 400
SapI GCTCTTC 1 cut(s) 339
SaqAI TTAA 2 cut(s) 714, 789
SatI GCNGC 2 cut(s) 780, 811
Sau3AI GATC 2 cut(s) 70, 572
Sau96I GGNCC 5 cut(s) 26, 47, 77, 86, 98
ScaI AGTACT 1 cut(s) 401
SchI GAGTC 1 cut(s) 174
ScrFI CCNGG 1 cut(s) 84
SfcI CTRYAG 1 cut(s) 7
SinI GGWCC 5 cut(s) 26, 47, 77, 86, 98
SmlI CTYRAG 1 cut(s) 616
SmoI CTYRAG 1 cut(s) 616
Sse9I AATT 1 cut(s) 824
SsiI CCGC 3 cut(s) 173, 428, 516
SspMI CTAG 3 cut(s) 108, 453, 570
StyD4I CCNGG 1 cut(s) 82
StyI CCWWGG 1 cut(s) 442
TaaI ACNGT 2 cut(s) 636, 712
TaiI ACGT 1 cut(s) 561
TaqI TCGA 4 cut(s) 178, 526, 575, 681
TasI AATT 1 cut(s) 824
TatI WGTACW 2 cut(s) 386, 399
TfiI GAWTC 2 cut(s) 431, 770
Tru1I TTAA 2 cut(s) 714, 789
Tru9I TTAA 2 cut(s) 714, 789
TscAI CASTG 1 cut(s) 739
TseI GCWGC 2 cut(s) 779, 810
TspDTI ATGAA 3 cut(s) 221, 692, 825
TspGWI ACGGA 1 cut(s) 173
TspRI CASTG 1 cut(s) 739
Van91I CCANNNNNTGG 2 cut(s) 95, 448
VpaK11BI GGWCC 5 cut(s) 26, 47, 77, 86, 98
XmnI GAANNNNTTC 1 cut(s) 828
XspI CTAG 3 cut(s) 108, 453, 570
ZrmI AGTACT 1 cut(s) 401
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.