AT2G39120

Plant organelle RNA recognition domain

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
2
OG0016659
Physical Location & Seq
Forward (+)
16321721 .. 16322957
1237 bp
Loading structure...
UTR
Exon/CDS
Intron
AT2G39120.1

Sequence Viewer

Length: 1164 bp
ATGCTCTCTATTCGCCGCCATGCCAAAACCGTAGCTTCCTCCTGCACCAACCTTACTCAGAAACGAACCTACGTCGACGTTTACATGAAATGGAAGAGAGATCCTTATTTCGACAACATCGAACACATCCTCCGATCATCTCAGCTCAAATCCGTCGTCTCTCTTAAGAACTGTATCGTCCAGGAACCTAATCGCTGCATTCCGATCTCTGCCATCTCCAAGAAGACTCGTCAATTCGATGTATCAACCAAAATCGCTCACTTCTTAAGGAAGTTTCCTTCAATCTTTGAAGAGTTCGTTGGTCCAGAGTATAATCTCCCATGGTTTAGATTGACACCAGAAGCAACAGAACTAGATAGGCAAGAGAGAGTCGTATACCAAACTTCTGCAGATGATTTGCGTGATAGGTTGAAGAAATTGATTCTGATGAGTAAAGATAATGTTTTGCCACTAAGTATAGTTCAAGGAATGAAATGGTATTTAGGTTTACCTGATGATTACTTGCAGTTTCCAGATATGAATTTAGATTCTTCGTTTAGGTTTGTGGATATGGAAGATGGAGTTAAAGGTTTAGCAGTAGATTATAATGGAGGAGATAAGGTTTTGTCTGTGTTGCAGAAGAATGCAATGAAGAAGAGAAGAGGAGAAGTGAGTTTAGAAGAGATTGAGTTTCCTCTGTTTCCATCAAAAGGTTGTAGATTGAGAGTCAAGATTGAAGATTGGTTAATGGAGTTTCAAAAGCTTCCTTATGTATCACCATATGATGATTATTCATGTTTGGATCCAAGTAGTGATATAGCAGAGAAGAGAGTTGTTGGTTTTCTTCATGAATTGCTTTGTCTTTTCGTTGAGCATTCTGCTGAGAGGAAGAAGTTGTTATGTCTCAAGAAGCATTTTGGATTGCCGCAAAAGGTTCATAAGGCGTTTGAGAGACATCCGCAGATTTTCTACTTGTCTATGAAGAATAAAACTTGTACAGCTATTCTTAGAGAGCCTTATAGAGATAAAGCTAGTGTTGAAACACATCCTGTGTTGGGGGTAAGGAAGAAATACATCCAGTTGATGAAGAATTCAGAGTTGATTCTGAAGAGTCGAAGGAATAGTTTCGGGTTTAGGGACGAAGGGGTTGTAGATAAAGATTTGGATTTGGATTTTGAAGGCTAA
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
PORR

Protein Analysis

387

Amino Acids

45.21

Weight (kDa)

9.09

Isoelectric Point (pI)

51.68

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PORR PF11955 32 - 358 4.1e-109 Plant organelle RNA recognition domain
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: OG0016659)

Species Orthologous Gene IDs
arabidopsis_thaliana AT2G39120
fragaria_vesca FvH4_7g08660
malus_domestica MD01G1105000.v1.1
prunus_persica Prupe.2G210300_v2.0.a1
rosa_chinensis RchiOBHm_Chr1g0343651
rosa_laevigata RLG00000028956
rosa_multiflora Rmu_sc0000021.1_g000005 Rmu_sc0007600.1_g000003
rosa_roxburghii Rroxscaffold_4G00310400
rosa_rugosa Rorug01G0168100 Rorug01G0168200
rosa_samantha Rh1AG184100 Rh1CG171000
rosa_wichuraiana Rw1G015260

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 585
AccI GTMKAC 2 cut(s) 75, 375
AciI CCGC 3 cut(s) 16, 905, 938
AclWI GGATC 3 cut(s) 95, 776, 789
AcsI RAATTY 2 cut(s) 520, 1069
AcuI CTGAAG 1 cut(s) 1106
AfaI GTAC 1 cut(s) 976
AfiI CCNNNNNNNGG 2 cut(s) 689, 1034
AflII CTTAAG 2 cut(s) 164, 265
AgsI TTSAA 8 cut(s) 282, 290, 412, 464, 716, 737, 1019, 1157
AjnI CCWGG 1 cut(s) 180
AjuI GAANNNNNNNTTGG 2 cut(s) 282, 314
AloI GAACNNNNNNTCC 2 cut(s) 114, 146
AluBI AGCT 5 cut(s) 35, 145, 742, 980, 1010
AluI AGCT 5 cut(s) 35, 145, 742, 980, 1010
Alw26I GTCTC 3 cut(s) 163, 887, 925
AlwI GGATC 3 cut(s) 95, 776, 789
ApeKI GCWGC 1 cut(s) 195
ApoI RAATTY 2 cut(s) 520, 1069
ArsI GACNNNNNNTTYG 2 cut(s) 141, 173
Asp700I GAANNNNTTC 1 cut(s) 1103
AspS9I GGNCC 1 cut(s) 302
AsuHPI GGTGA 1 cut(s) 747
AvaII GGWCC 1 cut(s) 302
BamHI GGATCC 1 cut(s) 781
BbsI GAAGAC 1 cut(s) 230
BbvI GCAGC 1 cut(s) 182
BccI CCATC 3 cut(s) 221, 551, 691
BciT130I CCWGG 1 cut(s) 182
BcoDI GTCTC 3 cut(s) 163, 887, 925
BfaI CTAG 2 cut(s) 353, 1011
BfmI CTRYAG 1 cut(s) 387
BfrI CTTAAG 2 cut(s) 164, 265
BisI GCNGC 3 cut(s) 16, 196, 905
BlsI GCNGC 3 cut(s) 17, 197, 906
Bme1390I CCNGG 1 cut(s) 182
Bme18I GGWCC 1 cut(s) 302
BmgT120I GGNCC 1 cut(s) 302
BmiI GGNNCC 2 cut(s) 186, 783
BmrFI CCNGG 1 cut(s) 182
BpiI GAAGAC 1 cut(s) 230
BpuEI CTTGAG 1 cut(s) 869
BsaJI CCNNGG 1 cut(s) 320
BsaXI ACNNNNNCTCC 4 cut(s) 114, 144, 585, 615
Bsc4I CCNNNNNNNGG 2 cut(s) 689, 1034
Bse1I ACTGG 1 cut(s) 1057
Bse3DI GCAATG 1 cut(s) 633
BseBI CCWGG 1 cut(s) 182
BseDI CCNNGG 1 cut(s) 320
BseGI GGATG 4 cut(s) 126, 934, 1024, 1053
BseLI CCNNNNNNNGG 2 cut(s) 689, 1034
BseMI GCAATG 1 cut(s) 633
BseMII CTCAG 3 cut(s) 71, 155, 852
BseNI ACTGG 1 cut(s) 1057
BseRI GAGGAG 2 cut(s) 606, 657
BseXI GCAGC 1 cut(s) 182
BsgI GTGCAG 1 cut(s) 28
BslFI GGGAC 1 cut(s) 1130
BslI CCNNNNNNNGG 2 cut(s) 689, 1034
BsmAI GTCTC 3 cut(s) 163, 887, 925
BsmBI CGTCTC 1 cut(s) 163
BsmFI GGGAC 1 cut(s) 1130
BsmI GAATGC 3 cut(s) 198, 628, 853
Bsp1407I TGTACA 1 cut(s) 974
Bsp143I GATC 4 cut(s) 100, 134, 204, 781
Bsp19I CCATGG 1 cut(s) 320
BspACI CCGC 3 cut(s) 16, 905, 938
BspCNI CTCAG 3 cut(s) 70, 154, 853
BspHI TCATGA 1 cut(s) 826
BspLI GGNNCC 2 cut(s) 186, 783
BspMAI CTGCAG 1 cut(s) 391
BspPI GGATC 3 cut(s) 95, 776, 789
BspTI CTTAAG 2 cut(s) 164, 265
BsrDI GCAATG 1 cut(s) 633
BsrGI TGTACA 1 cut(s) 974
BsrI ACTGG 1 cut(s) 1057
BssECI CCNNGG 1 cut(s) 320
BssMI GATC 4 cut(s) 100, 134, 204, 781
BssNAI GTATAC 1 cut(s) 376
BssT1I CCWWGG 1 cut(s) 320
Bst1107I GTATAC 1 cut(s) 376
Bst2UI CCWGG 1 cut(s) 182
Bst4CI ACNGT 2 cut(s) 31, 173
Bst6I CTCTTC 7 cut(s) 89, 285, 629, 634, 654, 800, 1082
BstAFI CTTAAG 2 cut(s) 164, 265
BstAUI TGTACA 1 cut(s) 974
BstDEI CTNAG 5 cut(s) 57, 141, 452, 861, 986
BstDSI CCRYGG 1 cut(s) 320
BstF5I GGATG 4 cut(s) 126, 934, 1024, 1053
BstKTI GATC 4 cut(s) 103, 137, 207, 784
BstMAI GTCTC 3 cut(s) 163, 887, 925
BstMBI GATC 4 cut(s) 100, 134, 204, 781
BstNI CCWGG 1 cut(s) 182
BstSCI CCNGG 1 cut(s) 180
BstSFI CTRYAG 1 cut(s) 387
BstV1I GCAGC 1 cut(s) 182
BstV2I GAAGAC 1 cut(s) 230
BstX2I RGATCY 2 cut(s) 100, 781
BstYI RGATCY 2 cut(s) 100, 781
BstZ17I GTATAC 1 cut(s) 376
BtgI CCRYGG 1 cut(s) 320
BtsCI GGATG 4 cut(s) 126, 934, 1024, 1053
CciI TCATGA 1 cut(s) 826
Cfr13I GGNCC 1 cut(s) 302
Csp6I GTAC 1 cut(s) 975
CviAII CATG 5 cut(s) 20, 85, 321, 774, 827
CviJI RGCY 7 cut(s) 35, 145, 742, 980, 994, 1010, 1161
CviKI_1 RGCY 7 cut(s) 35, 145, 742, 980, 994, 1010, 1161
CviQI GTAC 1 cut(s) 975
DdeI CTNAG 5 cut(s) 57, 141, 452, 861, 986
DpnI GATC 4 cut(s) 102, 136, 206, 783
DpnII GATC 4 cut(s) 100, 134, 204, 781
Eam1104I CTCTTC 7 cut(s) 89, 285, 629, 634, 654, 800, 1082
EarI CTCTTC 7 cut(s) 89, 285, 629, 634, 654, 800, 1082
Eco130I CCWWGG 1 cut(s) 320
Eco47I GGWCC 1 cut(s) 302
Eco57I CTGAAG 1 cut(s) 1106
EcoRI GAATTC 1 cut(s) 1069
EcoRII CCWGG 1 cut(s) 180
EcoT14I CCWWGG 1 cut(s) 320
ErhI CCWWGG 1 cut(s) 320
Esp3I CGTCTC 1 cut(s) 163
FaeI CATG 5 cut(s) 23, 88, 324, 777, 830
FaqI GGGAC 1 cut(s) 1130
FatI CATG 5 cut(s) 19, 84, 320, 773, 826
FauNDI CATATG 1 cut(s) 760
FblI GTMKAC 2 cut(s) 75, 375
Fnu4HI GCNGC 3 cut(s) 16, 196, 905
FokI GGATG 4 cut(s) 113, 921, 1011, 1040
Fsp4HI GCNGC 3 cut(s) 16, 196, 905
FspBI CTAG 2 cut(s) 353, 1011
GluI GCNGC 3 cut(s) 16, 196, 905
Hin1II CATG 5 cut(s) 23, 88, 324, 777, 830
HincII GTYRAC 1 cut(s) 76
HindII GTYRAC 1 cut(s) 76
HindIII AAGCTT 1 cut(s) 740
HinfI GANTC 7 cut(s) 226, 369, 421, 527, 705, 1081, 1090
HphI GGTGA 1 cut(s) 747
Hpy166II GTNNAC 4 cut(s) 76, 82, 376, 488
Hpy188I TCNGA 6 cut(s) 60, 134, 204, 426, 1075, 1086
Hpy188III TCNNGA 5 cut(s) 305, 512, 709, 827, 886
Hpy8I GTNNAC 4 cut(s) 76, 82, 376, 488
Hpy99I CGWCG 3 cut(s) 77, 80, 158
HpyAV CCTTC 4 cut(s) 288, 1089, 1115, 1151
HpyCH4III ACNGT 2 cut(s) 31, 173
HpyCH4IV ACGT 2 cut(s) 72, 78
HpyCH4V TGCA 6 cut(s) 45, 198, 389, 505, 616, 626
HpyF3I CTNAG 5 cut(s) 57, 141, 452, 861, 986
HpySE526I ACGT 2 cut(s) 72, 78
Hsp92II CATG 5 cut(s) 23, 88, 324, 777, 830
Kzo9I GATC 4 cut(s) 100, 134, 204, 781
LpnPI CCDG 9 cut(s) 55, 167, 194, 318, 351, 504, 525, 1041, 1070
Lsp1109I GCAGC 1 cut(s) 182
MaeI CTAG 2 cut(s) 353, 1011
MaeII ACGT 2 cut(s) 72, 78
MalI GATC 4 cut(s) 102, 136, 206, 783
MboI GATC 4 cut(s) 100, 134, 204, 781
MflI RGATCY 2 cut(s) 100, 781
MluCI AATT 5 cut(s) 233, 416, 520, 830, 1069
MlyI GAGTC 4 cut(s) 220, 378, 714, 1099
MnlI CCTC 6 cut(s) 49, 140, 584, 635, 684, 858
MroXI GAANNNNTTC 1 cut(s) 1103
MseI TTAA 4 cut(s) 165, 266, 564, 725
MspCI CTTAAG 2 cut(s) 164, 265
MspR9I CCNGG 1 cut(s) 182
Mva1269I GAATGC 3 cut(s) 198, 628, 853
MvaI CCWGG 1 cut(s) 182
NcoI CCATGG 1 cut(s) 320
NdeI CATATG 1 cut(s) 760
NdeII GATC 4 cut(s) 100, 134, 204, 781
NlaIII CATG 5 cut(s) 23, 88, 324, 777, 830
NlaIV GGNNCC 2 cut(s) 186, 783
PagI TCATGA 1 cut(s) 826
PcsI WCGNNNNNNNCGW 1 cut(s) 117
PctI GAATGC 3 cut(s) 198, 628, 853
PdmI GAANNNNTTC 1 cut(s) 1103
PfeI GAWTC 3 cut(s) 421, 527, 1081
PfoI TCCNGGA 1 cut(s) 180
PkrI GCNGC 3 cut(s) 17, 197, 906
PleI GAGTC 4 cut(s) 220, 377, 713, 1098
PpsI GAGTC 4 cut(s) 220, 377, 713, 1098
PsiI TTATAA 1 cut(s) 585
Psp6I CCWGG 1 cut(s) 180
PspGI CCWGG 1 cut(s) 180
PspN4I GGNNCC 2 cut(s) 186, 783
PspPI GGNCC 1 cut(s) 302
PstI CTGCAG 1 cut(s) 391
PsuI RGATCY 2 cut(s) 100, 781
RsaI GTAC 1 cut(s) 976
RsaNI GTAC 1 cut(s) 975
SalI GTCGAC 1 cut(s) 74
SaqAI TTAA 4 cut(s) 165, 266, 564, 725
SatI GCNGC 3 cut(s) 16, 196, 905
Sau3AI GATC 4 cut(s) 100, 134, 204, 781
Sau96I GGNCC 1 cut(s) 302
SchI GAGTC 4 cut(s) 220, 378, 714, 1099
ScrFI CCNGG 1 cut(s) 182
SfcI CTRYAG 1 cut(s) 387
SgrDI CGTCGACG 1 cut(s) 74
SinI GGWCC 1 cut(s) 302
SmlI CTYRAG 3 cut(s) 164, 265, 884
SmoI CTYRAG 3 cut(s) 164, 265, 884
Sse9I AATT 5 cut(s) 233, 416, 520, 830, 1069
SsiI CCGC 3 cut(s) 16, 905, 938
SspMI CTAG 2 cut(s) 353, 1011
StyD4I CCNGG 1 cut(s) 180
StyI CCWWGG 1 cut(s) 320
TaaI ACNGT 2 cut(s) 31, 173
TaiI ACGT 2 cut(s) 75, 81
TaqI TCGA 5 cut(s) 75, 111, 120, 237, 1093
TasI AATT 5 cut(s) 233, 416, 520, 830, 1069
TatI WGTACW 1 cut(s) 974
TauI GCSGC 2 cut(s) 18, 907
TfiI GAWTC 3 cut(s) 421, 527, 1081
Tru1I TTAA 4 cut(s) 165, 266, 564, 725
Tru9I TTAA 4 cut(s) 165, 266, 564, 725
TseI GCWGC 1 cut(s) 195
TspGWI ACGGA 1 cut(s) 142
Vha464I CTTAAG 2 cut(s) 164, 265
VpaK11BI GGWCC 1 cut(s) 302
XapI RAATTY 2 cut(s) 520, 1069
XmiI GTMKAC 2 cut(s) 75, 375
XmnI GAANNNNTTC 1 cut(s) 1103
XspI CTAG 2 cut(s) 353, 1011
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.