AT4G08940

Plant organelle RNA recognition domain

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
4
OG0016156
Physical Location & Seq
Reverse (-)
5730797 .. 5732195
1399 bp
Loading structure...
UTR
Exon/CDS
Intron
AT4G08940.1

Sequence Viewer

Length: 1188 bp
ATGGCTTGGCTTCGTTTCTTCTCAAGAACCCTAAAATCTCTCCCCCAAATCTCATCTTCTTCCCCAAACCCTAACCCTAATTTCAGAACCTCACCTTTCTCAACCTCATTCCTCATCACGAAAACACCAGACAAATTAAAAAAAAAGCGAAAAAAACCAGAATCCGCCAGAACCAAATCAATCCAACACGAATCAACCAAACTCCCACACTTGGAATCACTCGTTTCACGCGACGCACATTTCCGATTCCTAATCCGATCCAAAGAATTCATCTCAAAGCAACCGGAGCGAATCCTCCGACTAGACGACGCCGGAAAACTCTACCGCGAACTCGGATTCCCTCGCGGTCGTAAAGTTACGAAATTCATACCTAAACATCCTTTGATCTTTCAAACGTATAGACATAGCGATGGGAAGATTTGGTTAGGGTTTACGGAATTTATGGAGGATTTGTTAGATGAAGAGAAAGGTTTAATGGAATCAATGGAGTTAGATAGAGTTAATTGTGTTCGTAAGCTATTGATGATGACGAAAGATAAACGAATCCTGTTGAGTAAAATCCATCACACTCGATTGCTATTCGGTATTCCTGAAGATTTTCGAGACCGGGTTGCGAAATATCCGGATTATTTTCGGGTTGTTACGGGTGGAGATGGGAATAGAGTGCTTGAGTTAGTGAATTGGGACACGAATCTTGCGGTAAGTGAGCTCGAGAGACTGTTTATGATTGACGAAGATAAGGCGAAACGGGTGTTTAAGTTTCCGGTGAAGCATGGGAAGGAGTTGGAGTTGGAAGAGAAGGATACGAGGAAGCTGAATTTGTTGAATACGTTTCCTCTTGTTTCGCCGTATTCGGATGGTTGGAAGCTTGATGTTTGGAGTTTGGAAGCGGAGAAGTATCGCGTTGGGATTGTGCACGAGTTCTTGAACTTGACGTTGGAGAAGAGAGCTTCGATTCATCATATTGTGGAGTTTAAAGATGAGTTTAGTTTGACTAGACAGACTTATCAGATGTTGAAGAAGCAGTCCATGAGTTTTTACTTGGCTGGTACTGAGATGAACTGGACTGTGTTTTTGAAGGATGCTTACGACGAGAATGGTGTTTTGGTTAGTAAAGATCCACAGGTTGTGTTTAATGAAAAGCTCTATAAGTATGCAGATATGCAGCAGATGGAGCAAGTTGGTTAA
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

395

Amino Acids

46.58

Weight (kDa)

9.45

Isoelectric Point (pI)

30.09

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PORR PF11955 67 - 389 3e-98 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: OG0016156)

Species Orthologous Gene IDs
arabidopsis_thaliana AT4G08940
fragaria_vesca FvH4_2g09730 FvH4_2g09730
malus_domestica MD00G1009900.v1.1
prunus_persica Prupe.1G518700_v2.0.a1
pyrus_communis pycom08g15830 pycom15g33270
rosa_chinensis RchiOBHm_Chr7g0238641
rosa_laevigata RLG00000000822
rosa_multiflora Rmu_sc0000023.1_g000009 Rmu_sc0030975.1_g000001
rosa_roxburghii Rroxscaffold_3G00221660
rosa_rugosa Rorug07G0322500
rosa_samantha Rh7BG448100
rosa_wichuraiana Rw7G039810

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccII CGCG 4 cut(s) 231, 327, 345, 903
AccIII TCCGGA 1 cut(s) 622
AciI CCGC 5 cut(s) 165, 325, 345, 698, 890
AclWI GGATC 2 cut(s) 252, 1112
AcsI RAATTY 4 cut(s) 266, 362, 437, 817
AcuI CTGAAG 1 cut(s) 612
AcyI GRCGYC 1 cut(s) 309
AfaI GTAC 1 cut(s) 1051
AfiI CCNNNNNNNGG 1 cut(s) 211
AgsI TTSAA 5 cut(s) 392, 826, 928, 1018, 1078
AjuI GAANNNNNNNTTGG 4 cut(s) 920, 952, 1088, 1120
AloI GAACNNNNNNTCC 2 cut(s) 321, 353
AluBI AGCT 6 cut(s) 517, 709, 814, 868, 950, 1144
AluI AGCT 6 cut(s) 517, 709, 814, 868, 950, 1144
Alw21I GWGCWC 2 cut(s) 711, 918
Alw26I GTCTC 2 cut(s) 597, 709
Alw44I GTGCAC 1 cut(s) 914
AlwI GGATC 2 cut(s) 252, 1112
Ama87I CYCGRG 1 cut(s) 710
Aor13HI TCCGGA 1 cut(s) 622
ApaLI GTGCAC 1 cut(s) 914
ApeKI GCWGC 1 cut(s) 1165
ApoI RAATTY 4 cut(s) 266, 362, 437, 817
ArsI GACNNNNNNTTYG 2 cut(s) 1057, 1089
Asp700I GAANNNNTTC 1 cut(s) 597
AsuC2I CCSGG 1 cut(s) 608
AsuHPI GGTGA 2 cut(s) 84, 778
AvaI CYCGRG 1 cut(s) 710
BaeGI GKGCMC 1 cut(s) 918
BanII GRGCYC 1 cut(s) 711
BarI GAAGNNNNNNTAC 2 cut(s) 1070, 1102
BauI CACGAG 1 cut(s) 917
Bbv12I GWGCWC 2 cut(s) 711, 918
BbvI GCAGC 1 cut(s) 1177
BccI CCATC 5 cut(s) 404, 570, 647, 851, 1165
BceAI ACGGC 1 cut(s) 832
BciVI GTATCC 1 cut(s) 796
BcnI CCSGG 1 cut(s) 608
BcoDI GTCTC 2 cut(s) 597, 709
BfaI CTAG 2 cut(s) 302, 996
BfuI GTATCC 1 cut(s) 796
BisI GCNGC 1 cut(s) 1166
BlsI GCNGC 1 cut(s) 1167
Bme1390I CCNGG 1 cut(s) 608
BmeT110I CYCGRG 1 cut(s) 710
BmrFI CCNGG 1 cut(s) 608
BmsI GCATC 1 cut(s) 1072
BpuEI CTTGAG 2 cut(s) 7, 689
BpuMI CCSGG 1 cut(s) 608
BsaHI GRCGYC 1 cut(s) 309
BsaI GGTCTC 1 cut(s) 597
BsaWI WCCGGW 3 cut(s) 283, 622, 763
BsaXI ACNNNNNCTCC 4 cut(s) 437, 467, 773, 803
Bsc4I CCNNNNNNNGG 1 cut(s) 211
Bse1I ACTGG 1 cut(s) 1067
BseAI TCCGGA 1 cut(s) 622
BseGI GGATG 3 cut(s) 376, 862, 1087
BseLI CCNNNNNNNGG 1 cut(s) 211
BseMII CTCAG 1 cut(s) 1044
BseNI ACTGG 1 cut(s) 1067
BseSI GKGCMC 1 cut(s) 918
BseXI GCAGC 1 cut(s) 1177
Bsh1236I CGCG 4 cut(s) 231, 327, 345, 903
Bsh1285I CGRYCG 1 cut(s) 349
BsiEI CGRYCG 1 cut(s) 349
BsiHKAI GWGCWC 2 cut(s) 711, 918
BsiHKCI CYCGRG 1 cut(s) 710
BsiSI CCGG 5 cut(s) 284, 312, 607, 623, 764
BslFI GGGAC 1 cut(s) 698
BslI CCNNNNNNNGG 1 cut(s) 211
BsmAI GTCTC 2 cut(s) 597, 709
BsmFI GGGAC 1 cut(s) 698
Bso31I GGTCTC 1 cut(s) 597
BsoBI CYCGRG 1 cut(s) 710
Bsp1286I GDGCHC 2 cut(s) 711, 918
Bsp13I TCCGGA 1 cut(s) 622
Bsp143I GATC 3 cut(s) 257, 384, 1117
BspACI CCGC 5 cut(s) 165, 325, 345, 698, 890
BspCNI CTCAG 1 cut(s) 1045
BspEI TCCGGA 1 cut(s) 622
BspFNI CGCG 4 cut(s) 231, 327, 345, 903
BspPI GGATC 2 cut(s) 252, 1112
BspTNI GGTCTC 1 cut(s) 597
BsrI ACTGG 1 cut(s) 1067
BssMI GATC 3 cut(s) 257, 384, 1117
BssNI GRCGYC 1 cut(s) 309
BssSI CACGAG 1 cut(s) 917
Bst2BI CACGAG 1 cut(s) 917
Bst4CI ACNGT 2 cut(s) 720, 1069
Bst6I CTCTTC 3 cut(s) 456, 789, 938
BstACI GRCGYC 1 cut(s) 309
BstDEI CTNAG 1 cut(s) 1053
BstF5I GGATG 3 cut(s) 376, 862, 1087
BstFNI CGCG 4 cut(s) 231, 327, 345, 903
BstKTI GATC 3 cut(s) 260, 387, 1120
BstMAI GTCTC 2 cut(s) 597, 709
BstMBI GATC 3 cut(s) 257, 384, 1117
BstMCI CGRYCG 1 cut(s) 349
BstMWI GCNNNNNNNGC 2 cut(s) 286, 1174
BstSCI CCNGG 1 cut(s) 606
BstSLI GKGCMC 1 cut(s) 918
BstUI CGCG 4 cut(s) 231, 327, 345, 903
BstV1I GCAGC 1 cut(s) 1177
BstX2I RGATCY 1 cut(s) 1117
BstYI RGATCY 1 cut(s) 1117
BsuI GTATCC 1 cut(s) 796
BtgZI GCGATG 1 cut(s) 423
BtsCI GGATG 3 cut(s) 376, 862, 1087
CseI GACGC 2 cut(s) 242, 317
Csp6I GTAC 1 cut(s) 1050
CviAII CATG 2 cut(s) 773, 1030
CviJI RGCY 9 cut(s) 5, 10, 517, 709, 814, 868, 950, 1046, 1144
CviKI_1 RGCY 9 cut(s) 5, 10, 517, 709, 814, 868, 950, 1046, 1144
CviQI GTAC 1 cut(s) 1050
DdeI CTNAG 1 cut(s) 1053
DpnI GATC 3 cut(s) 259, 386, 1119
DpnII GATC 3 cut(s) 257, 384, 1117
DraI TTTAAA 1 cut(s) 976
Eam1104I CTCTTC 3 cut(s) 456, 789, 938
EarI CTCTTC 3 cut(s) 456, 789, 938
EciI GGCGGA 1 cut(s) 154
Ecl136II GAGCTC 1 cut(s) 709
Eco24I GRGCYC 1 cut(s) 711
Eco31I GGTCTC 1 cut(s) 597
Eco53kI GAGCTC 1 cut(s) 709
Eco57I CTGAAG 1 cut(s) 612
Eco88I CYCGRG 1 cut(s) 710
EcoICRI GAGCTC 1 cut(s) 709
EcoRI GAATTC 1 cut(s) 266
EcoT38I GRGCYC 1 cut(s) 711
FaeI CATG 2 cut(s) 776, 1033
FaqI GGGAC 1 cut(s) 698
FatI CATG 2 cut(s) 772, 1029
Fnu4HI GCNGC 1 cut(s) 1166
FokI GGATG 3 cut(s) 363, 869, 1094
FriOI GRGCYC 1 cut(s) 711
Fsp4HI GCNGC 1 cut(s) 1166
FspBI CTAG 2 cut(s) 302, 996
GluI GCNGC 1 cut(s) 1166
HapII CCGG 5 cut(s) 284, 312, 607, 623, 764
HgaI GACGC 2 cut(s) 242, 317
Hin1I GRCGYC 1 cut(s) 309
Hin1II CATG 2 cut(s) 776, 1033
HindIII AAGCTT 1 cut(s) 866
HpaII CCGG 5 cut(s) 284, 312, 607, 623, 764
HphI GGTGA 2 cut(s) 84, 778
Hpy166II GTNNAC 2 cut(s) 432, 916
Hpy188I TCNGA 7 cut(s) 86, 245, 257, 299, 335, 856, 1011
Hpy188III TCNNGA 7 cut(s) 24, 118, 590, 602, 623, 712, 925
Hpy8I GTNNAC 2 cut(s) 432, 916
Hpy99I CGWCG 3 cut(s) 236, 311, 1094
HpyAV CCTTC 3 cut(s) 772, 793, 1072
HpyCH4III ACNGT 2 cut(s) 720, 1069
HpyCH4IV ACGT 3 cut(s) 395, 830, 935
HpyCH4V TGCA 3 cut(s) 916, 1157, 1165
HpyF10VI GCNNNNNNNGC 2 cut(s) 286, 1174
HpyF3I CTNAG 1 cut(s) 1053
HpySE526I ACGT 3 cut(s) 395, 830, 935
Hsp92I GRCGYC 1 cut(s) 309
Hsp92II CATG 2 cut(s) 776, 1033
Kpn2I TCCGGA 1 cut(s) 622
Kzo9I GATC 3 cut(s) 257, 384, 1117
LmnI GCTCC 2 cut(s) 286, 1174
Lsp1109I GCAGC 1 cut(s) 1177
LweI GCATC 1 cut(s) 1072
MaeI CTAG 2 cut(s) 302, 996
MaeII ACGT 3 cut(s) 395, 830, 935
MaeIII GTNAC 2 cut(s) 355, 640
MalI GATC 3 cut(s) 259, 386, 1119
MboI GATC 3 cut(s) 257, 384, 1117
MflI RGATCY 1 cut(s) 1117
MhlI GDGCHC 2 cut(s) 711, 918
MluCI AATT 8 cut(s) 79, 134, 266, 362, 437, 502, 679, 817
MmeI TCCRAC 6 cut(s) 208, 322, 765, 771, 842, 918
MnlI CCTC 8 cut(s) 100, 115, 122, 305, 351, 439, 801, 846
MroI TCCGGA 1 cut(s) 622
MroXI GAANNNNTTC 1 cut(s) 597
MseI TTAA 7 cut(s) 137, 473, 501, 756, 975, 1134, 1186
MslI CAYNNNNRTG 1 cut(s) 408
MspI CCGG 5 cut(s) 284, 312, 607, 623, 764
MspR9I CCNGG 1 cut(s) 608
MvnI CGCG 4 cut(s) 231, 327, 345, 903
MwoI GCNNNNNNNGC 2 cut(s) 286, 1174
NciI CCSGG 1 cut(s) 608
NdeII GATC 3 cut(s) 257, 384, 1117
NlaIII CATG 2 cut(s) 776, 1033
PaeR7I CTCGAG 1 cut(s) 710
PcsI WCGNNNNNNNCGW 1 cut(s) 228
PdmI GAANNNNTTC 1 cut(s) 597
PkrI GCNGC 1 cut(s) 1167
Psp124BI GAGCTC 1 cut(s) 711
PsuI RGATCY 1 cut(s) 1117
RsaI GTAC 1 cut(s) 1051
RsaNI GTAC 1 cut(s) 1050
RseI CAYNNNNRTG 1 cut(s) 408
SacI GAGCTC 1 cut(s) 711
SaqAI TTAA 7 cut(s) 137, 473, 501, 756, 975, 1134, 1186
SatI GCNGC 1 cut(s) 1166
Sau3AI GATC 3 cut(s) 257, 384, 1117
ScrFI CCNGG 1 cut(s) 608
SduI GDGCHC 2 cut(s) 711, 918
SfaNI GCATC 1 cut(s) 1072
Sfr274I CTCGAG 1 cut(s) 710
SlaI CTCGAG 1 cut(s) 710
SmiMI CAYNNNNRTG 1 cut(s) 408
SmlI CTYRAG 3 cut(s) 22, 668, 710
SmoI CTYRAG 3 cut(s) 22, 668, 710
Sse9I AATT 8 cut(s) 79, 134, 266, 362, 437, 502, 679, 817
SsiI CCGC 5 cut(s) 165, 325, 345, 698, 890
SspMI CTAG 2 cut(s) 302, 996
SstI GAGCTC 1 cut(s) 711
StyD4I CCNGG 1 cut(s) 606
TaaI ACNGT 2 cut(s) 720, 1069
TaiI ACGT 3 cut(s) 398, 833, 938
TaqI TCGA 4 cut(s) 571, 601, 711, 953
TasI AATT 8 cut(s) 79, 134, 266, 362, 437, 502, 679, 817
Tru1I TTAA 7 cut(s) 137, 473, 501, 756, 975, 1134, 1186
Tru9I TTAA 7 cut(s) 137, 473, 501, 756, 975, 1134, 1186
TseI GCWGC 1 cut(s) 1165
TspDTI ATGAA 6 cut(s) 259, 355, 474, 947, 1073, 1152
TspGWI ACGGA 1 cut(s) 449
VneI GTGCAC 1 cut(s) 914
XapI RAATTY 4 cut(s) 266, 362, 437, 817
XhoI CTCGAG 1 cut(s) 710
XmnI GAANNNNTTC 1 cut(s) 597
XspI CTAG 2 cut(s) 302, 996
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.