AT1G06440

Plant organelle RNA recognition domain

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
1
OG0017100
Physical Location & Seq
Reverse (-)
1963301 .. 1965209
1909 bp
Loading structure...
UTR
Exon/CDS
Intron
AT1G06440.1

Sequence Viewer

Length: 1173 bp
ATGAGGTTCCTCCTCATGAGATCACTTCTGGTTCACCCATGTGGTGGCTCCATCATCAATGTCCGATCAACGACTACGTCTGCTCAATATGTAGCTTCCAGATCAAGAGACCCTGTTTTCGAGAAGCTCATGGACAAATACAAGAACCTTCTCAAGGTCATTGCCATACAAGACCTTACCCTCGCCAATCCAACAGCTGATCCTCCCTCTCTATCCATTGAGTTTCTCTCCAGGCTCTCCCAGAAGCTCCACCTTAATCGTGGCGCTGCTTCTTTCCTGCGAAAGTATCCTCACATCTTTCATGTCTTGTATGATCCTGTGAAAGCTGAGCCCTTTTGCAGGTTAACTGATGTAGCCATGGAGATTTCTCGCCAAGAGGCTTTGGCTATCACTGCTACTTTGTCTCTTGTTGTTGACCGGTTGGTTAGGCTCTTGTCTATGTCCATATCAAAGTCCATTCCGCTTCGTGCGGTTTTTAAGGTTTGGAGAGAACTTGGGCTCCCAGATGATTTTGAGGACTCTGTGATCTCAAAGAACCCTCATCTTTTTAAGCTTAGTGATGGTCATGAATCCAACACCCATATCTTAGAGCTGGTTCAGGAAGAAGAGAAAAGACTGGAATTTGAGGCCGCGGTTGAGAAATGGAGGGTGGTTGAGTGTTCTAAGGAGGATTGCAGTGTCGATAGAACCGAGATTCAGTTTAGTTTCAAACATAGTTACCCACCAGGAATGAGACTGAGCAAGACATTTAAGGCTAAAGTTAAGGAATGGCAGAGGCTGCCTTACGTAGGGCCATACGAGGACATGGTTGGTAAGAAGAAGAGTAGATCCGGTGTGATGGGAATAGAGAAAAGAGCGGTTGCGATTGCTCACGAGTTCCTGAATCTGACTGTAGAGAAGATGGTGGAGGTAGAAAAGATCAGCCATTTCAGAAAATGTTTTGGGATTGATTTGAACATAAGAGATTTGTTCTTGGATCACCCGGGCATGTTTTATGTGTCAACTAAAGGGAAAAGACACACTGTCTTTCTCAGAGAGGCTTATGAAAGAGGACGTTTGATTGATCCAAATCCTGTTTACGATGCGAGGAGGAAGCTTCTTGACCTTGTTCTCTTGGGACGCCATGCTGCTTTATCAGAATCTGGGAACACTAGTATGTCTGAACAAGAATGA
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

390

Amino Acids

44.69

Weight (kDa)

9.17

Isoelectric Point (pI)

40.85

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PORR PF11955 36 - 374 1.6e-106 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: OG0017100)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G06440
fragaria_vesca FvH4_3g11420 FvH4_3g11420 FvH4_3g11420
prunus_persica Prupe.4G102100_v2.0.a1
rosa_laevigata RLG00000032356
rosa_multiflora Rmu_sc0004464.1_g000003
rosa_rugosa Rorug05G0041900
rosa_samantha Rh5AG135200 Rh5BG133800 Rh5CG145600 Rh5DG135200
rosa_wichuraiana Rw5G011810

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc36I ACCTGC 1 cut(s) 330
AccB7I CCANNNNNTGG 1 cut(s) 44
AccBSI CCGCTC 1 cut(s) 857
AccII CGCG 1 cut(s) 632
AciI CCGC 5 cut(s) 461, 470, 630, 632, 857
AclWI GGATC 5 cut(s) 194, 308, 822, 984, 1058
AcsI RAATTY 1 cut(s) 620
AcyI GRCGYC 1 cut(s) 1120
AfiI CCNNNNNNNGG 4 cut(s) 44, 154, 339, 788
AgeI ACCGGT 1 cut(s) 417
AgsI TTSAA 2 cut(s) 709, 955
AhdI GACNNNNNGTC 1 cut(s) 1022
AhlI ACTAGT 1 cut(s) 1151
AjnI CCWGG 2 cut(s) 230, 724
AleI CACNNNNGTG 1 cut(s) 39
AloI GAACNNNNNNTCC 2 cut(s) 483, 515
AluBI AGCT 8 cut(s) 95, 127, 197, 247, 326, 553, 592, 1096
AluI AGCT 8 cut(s) 95, 127, 197, 247, 326, 553, 592, 1096
Alw26I GTCTC 3 cut(s) 102, 408, 727
AlwI GGATC 5 cut(s) 194, 308, 822, 984, 1058
AlwNI CAGNNNCTG 2 cut(s) 778, 1142
Ama87I CYCGRG 1 cut(s) 982
AoxI GGCC 2 cut(s) 627, 791
ApeKI GCWGC 3 cut(s) 266, 778, 1127
ApoI RAATTY 1 cut(s) 620
ArsI GACNNNNNNTTYG 2 cut(s) 101, 133
AsiGI ACCGGT 1 cut(s) 417
AspLEI GCGC 1 cut(s) 266
AspS9I GGNCC 1 cut(s) 791
AsuC2I CCSGG 2 cut(s) 983, 984
AsuHPI GGTGA 2 cut(s) 26, 971
AvaI CYCGRG 1 cut(s) 982
BanII GRGCYC 2 cut(s) 333, 501
BauI CACGAG 1 cut(s) 872
BbvI GCAGC 3 cut(s) 253, 765, 1114
BccI CCATC 4 cut(s) 59, 554, 832, 895
BciT130I CCWGG 2 cut(s) 232, 726
BciVI GTATCC 1 cut(s) 297
BcnI CCSGG 2 cut(s) 983, 984
BcoDI GTCTC 3 cut(s) 102, 408, 727
BcuI ACTAGT 1 cut(s) 1151
BfaI CTAG 1 cut(s) 1152
BfmI CTRYAG 1 cut(s) 891
BfoI RGCGCY 1 cut(s) 267
BfuAI ACCTGC 1 cut(s) 330
BfuI GTATCC 1 cut(s) 297
BisI GCNGC 4 cut(s) 267, 630, 779, 1128
BlpI GCTNAGC 1 cut(s) 327
BlsI GCNGC 4 cut(s) 268, 631, 780, 1129
Bme1390I CCNGG 4 cut(s) 232, 726, 983, 984
BmeRI GACNNNNNGTC 1 cut(s) 1022
BmeT110I CYCGRG 1 cut(s) 982
BmgT120I GGNCC 1 cut(s) 791
BmiI GGNNCC 3 cut(s) 8, 49, 500
BmrFI CCNGG 4 cut(s) 232, 726, 983, 984
BmsI GCATC 1 cut(s) 1072
BplI GAGNNNNNCTC 2 cut(s) 212, 244
BpmI CTGGAG 1 cut(s) 214
Bpu1102I GCTNAGC 1 cut(s) 327
BpuEI CTTGAG 1 cut(s) 137
BpuMI CCSGG 2 cut(s) 983, 984
BsaAI YACGTR 1 cut(s) 787
BsaBI GATNNNNATC 1 cut(s) 1068
BsaHI GRCGYC 1 cut(s) 1120
BsaI GGTCTC 1 cut(s) 102
BsaJI CCNNGG 3 cut(s) 357, 630, 982
BsaWI WCCGGW 2 cut(s) 417, 830
BsaXI ACNNNNNCTCC 2 cut(s) 483, 513
Bsc4I CCNNNNNNNGG 4 cut(s) 44, 154, 339, 788
Bse118I RCCGGY 1 cut(s) 417
Bse1I ACTGG 1 cut(s) 621
Bse3DI GCAATG 1 cut(s) 159
Bse8I GATNNNNATC 1 cut(s) 1068
BseBI CCWGG 2 cut(s) 232, 726
BseDI CCNNGG 3 cut(s) 357, 630, 982
BseJI GATNNNNATC 1 cut(s) 1068
BseLI CCNNNNNNNGG 4 cut(s) 44, 154, 339, 788
BseMI GCAATG 1 cut(s) 159
BseMII CTCAG 3 cut(s) 318, 728, 1045
BseNI ACTGG 1 cut(s) 621
BseRI GAGGAG 1 cut(s) 1102
BseXI GCAGC 3 cut(s) 253, 765, 1114
Bsh1236I CGCG 1 cut(s) 632
BshFI GGCC 2 cut(s) 629, 793
BshTI ACCGGT 1 cut(s) 417
BsiHKCI CYCGRG 1 cut(s) 982
BsiSI CCGG 3 cut(s) 418, 831, 983
BslFI GGGAC 1 cut(s) 1131
BslI CCNNNNNNNGG 4 cut(s) 44, 154, 339, 788
BsmAI GTCTC 3 cut(s) 102, 408, 727
BsmFI GGGAC 1 cut(s) 1131
BsnI GGCC 2 cut(s) 629, 793
Bso31I GGTCTC 1 cut(s) 102
BsoBI CYCGRG 1 cut(s) 982
Bsp1286I GDGCHC 2 cut(s) 333, 501
Bsp1720I GCTNAGC 1 cut(s) 327
Bsp19I CCATGG 1 cut(s) 357
BspACI CCGC 5 cut(s) 461, 470, 630, 632, 857
BspANI GGCC 2 cut(s) 629, 793
BspCNI CTCAG 3 cut(s) 319, 729, 1044
BspFNI CGCG 1 cut(s) 632
BspHI TCATGA 2 cut(s) 15, 565
BspLI GGNNCC 3 cut(s) 8, 49, 500
BspMI ACCTGC 1 cut(s) 330
BspPI GGATC 5 cut(s) 194, 308, 822, 984, 1058
BspTNI GGTCTC 1 cut(s) 102
BsrBI CCGCTC 1 cut(s) 857
BsrDI GCAATG 1 cut(s) 159
BsrFI RCCGGY 1 cut(s) 417
BsrI ACTGG 1 cut(s) 621
BssAI RCCGGY 1 cut(s) 417
BssECI CCNNGG 3 cut(s) 357, 630, 982
BssNI GRCGYC 1 cut(s) 1120
BssSI CACGAG 1 cut(s) 872
BssT1I CCWWGG 1 cut(s) 357
Bst2BI CACGAG 1 cut(s) 872
Bst2UI CCWGG 2 cut(s) 232, 726
Bst4CI ACNGT 2 cut(s) 892, 1024
Bst6I CTCTTC 2 cut(s) 600, 815
BstACI GRCGYC 1 cut(s) 1120
BstAPI GCANNNNNTGC 1 cut(s) 778
BstBAI YACGTR 1 cut(s) 787
BstDEI CTNAG 6 cut(s) 327, 554, 586, 663, 737, 1031
BstDSI CCRYGG 2 cut(s) 357, 630
BstENI CCTNNNNNAGG 3 cut(s) 152, 337, 786
BstFNI CGCG 1 cut(s) 632
BstH2I RGCGCY 1 cut(s) 267
BstHHI GCGC 1 cut(s) 266
BstMAI GTCTC 3 cut(s) 102, 408, 727
BstMWI GCNNNNNNNGC 2 cut(s) 392, 778
BstNI CCWGG 2 cut(s) 232, 726
BstNSI RCATGY 1 cut(s) 991
BstSCI CCNGG 4 cut(s) 230, 724, 981, 982
BstSFI CTRYAG 1 cut(s) 891
BstSNI TACGTA 1 cut(s) 787
BstUI CGCG 1 cut(s) 632
BstV1I GCAGC 3 cut(s) 253, 765, 1114
BstX2I RGATCY 1 cut(s) 827
BstYI RGATCY 1 cut(s) 827
BsuI GTATCC 1 cut(s) 297
BsuRI GGCC 2 cut(s) 629, 793
BtgI CCRYGG 2 cut(s) 357, 630
BtsI GCAGTG 2 cut(s) 390, 682
BtsIMutI CAGTG 3 cut(s) 390, 682, 1020
BveI ACCTGC 1 cut(s) 330
CaiI CAGNNNCTG 2 cut(s) 778, 1142
CciI TCATGA 2 cut(s) 15, 565
CfoI GCGC 1 cut(s) 266
Cfr10I RCCGGY 1 cut(s) 417
Cfr13I GGNCC 1 cut(s) 791
Cfr42I CCGCGG 1 cut(s) 633
Cfr9I CCCGGG 1 cut(s) 982
CseI GACGC 1 cut(s) 1128
CspAI ACCGGT 1 cut(s) 417
CviAII CATG 9 cut(s) 16, 39, 130, 302, 358, 566, 805, 988, 1124
DdeI CTNAG 6 cut(s) 327, 554, 586, 663, 737, 1031
DriI GACNNNNNGTC 1 cut(s) 1022
Eam1104I CTCTTC 2 cut(s) 600, 815
Eam1105I GACNNNNNGTC 1 cut(s) 1022
EarI CTCTTC 2 cut(s) 600, 815
Eco105I TACGTA 1 cut(s) 787
Eco130I CCWWGG 1 cut(s) 357
Eco24I GRGCYC 2 cut(s) 333, 501
Eco31I GGTCTC 1 cut(s) 102
Eco88I CYCGRG 1 cut(s) 982
EcoNI CCTNNNNNAGG 3 cut(s) 152, 337, 786
EcoRII CCWGG 2 cut(s) 230, 724
EcoT14I CCWWGG 1 cut(s) 357
EcoT38I GRGCYC 2 cut(s) 333, 501
ErhI CCWWGG 1 cut(s) 357
FaeI CATG 9 cut(s) 19, 42, 133, 305, 361, 569, 808, 991, 1127
FaqI GGGAC 1 cut(s) 1131
FatI CATG 9 cut(s) 15, 38, 129, 301, 357, 565, 804, 987, 1123
Fnu4HI GCNGC 4 cut(s) 267, 630, 779, 1128
FriOI GRGCYC 2 cut(s) 333, 501
Fsp4HI GCNGC 4 cut(s) 267, 630, 779, 1128
FspBI CTAG 1 cut(s) 1152
GlaI GCGC 1 cut(s) 265
GluI GCNGC 4 cut(s) 267, 630, 779, 1128
GsuI CTGGAG 1 cut(s) 214
HaeII RGCGCY 1 cut(s) 267
HaeIII GGCC 2 cut(s) 629, 793
HapII CCGG 3 cut(s) 418, 831, 983
HgaI GACGC 1 cut(s) 1128
HhaI GCGC 1 cut(s) 266
Hin1I GRCGYC 1 cut(s) 1120
Hin1II CATG 9 cut(s) 19, 42, 133, 305, 361, 569, 808, 991, 1127
Hin6I GCGC 1 cut(s) 264
HinP1I GCGC 1 cut(s) 264
HincII GTYRAC 3 cut(s) 345, 415, 1002
HindII GTYRAC 3 cut(s) 345, 415, 1002
HindIII AAGCTT 2 cut(s) 551, 1094
HinfI GANTC 5 cut(s) 518, 569, 694, 883, 1139
HpaI GTTAAC 1 cut(s) 345
HpaII CCGG 3 cut(s) 418, 831, 983
HphI GGTGA 2 cut(s) 26, 971
Hpy166II GTNNAC 5 cut(s) 34, 345, 415, 1002, 1078
Hpy188I TCNGA 6 cut(s) 65, 888, 932, 1034, 1138, 1162
Hpy188III TCNNGA 9 cut(s) 16, 99, 105, 121, 566, 599, 872, 880, 1100
Hpy8I GTNNAC 5 cut(s) 34, 345, 415, 1002, 1078
HpyAV CCTTC 1 cut(s) 158
HpyCH4III ACNGT 2 cut(s) 892, 1024
HpyCH4IV ACGT 3 cut(s) 77, 786, 1054
HpyCH4V TGCA 2 cut(s) 339, 675
HpyF10VI GCNNNNNNNGC 2 cut(s) 392, 778
HpyF3I CTNAG 6 cut(s) 327, 554, 586, 663, 737, 1031
HpySE526I ACGT 3 cut(s) 77, 786, 1054
Hsp92I GRCGYC 1 cut(s) 1120
Hsp92II CATG 9 cut(s) 19, 42, 133, 305, 361, 569, 808, 991, 1127
HspAI GCGC 1 cut(s) 264
KspAI GTTAAC 1 cut(s) 345
KspI CCGCGG 1 cut(s) 633
LmnI GCTCC 3 cut(s) 53, 252, 504
Lsp1109I GCAGC 3 cut(s) 253, 765, 1114
LweI GCATC 1 cut(s) 1072
MaeI CTAG 1 cut(s) 1152
MaeII ACGT 3 cut(s) 77, 786, 1054
MaeIII GTNAC 1 cut(s) 716
MbiI CCGCTC 1 cut(s) 857
MboII GAAGA 5 cut(s) 614, 617, 829, 832, 910
MflI RGATCY 1 cut(s) 827
MhlI GDGCHC 2 cut(s) 333, 501
MluCI AATT 1 cut(s) 620
MlyI GAGTC 1 cut(s) 512
MmeI TCCRAC 2 cut(s) 215, 597
MseI TTAA 6 cut(s) 255, 344, 477, 549, 750, 762
MslI CAYNNNNRTG 2 cut(s) 39, 1154
MspA1I CMGCKG 2 cut(s) 197, 632
MspI CCGG 3 cut(s) 418, 831, 983
MspR9I CCNGG 4 cut(s) 232, 726, 983, 984
MvaI CCWGG 2 cut(s) 232, 726
MvnI CGCG 1 cut(s) 632
MwoI GCNNNNNNNGC 2 cut(s) 392, 778
NciI CCSGG 2 cut(s) 983, 984
NcoI CCATGG 1 cut(s) 357
NlaIII CATG 9 cut(s) 19, 42, 133, 305, 361, 569, 808, 991, 1127
NlaIV GGNNCC 3 cut(s) 8, 49, 500
NspI RCATGY 1 cut(s) 991
OliI CACNNNNGTG 1 cut(s) 39
PagI TCATGA 2 cut(s) 15, 565
PcsI WCGNNNNNNNCGW 1 cut(s) 687
PfeI GAWTC 4 cut(s) 569, 694, 883, 1139
PflFI GACNNNGTC 1 cut(s) 76
PflMI CCANNNNNTGG 1 cut(s) 44
PinAI ACCGGT 1 cut(s) 417
PkrI GCNGC 4 cut(s) 268, 631, 780, 1129
PleI GAGTC 1 cut(s) 512
PpsI GAGTC 1 cut(s) 512
Ppu21I YACGTR 1 cut(s) 787
Psp6I CCWGG 2 cut(s) 230, 724
PspGI CCWGG 2 cut(s) 230, 724
PspN4I GGNNCC 3 cut(s) 8, 49, 500
PspPI GGNCC 1 cut(s) 791
PstNI CAGNNNCTG 2 cut(s) 778, 1142
PsuI RGATCY 1 cut(s) 827
PsyI GACNNNGTC 1 cut(s) 76
PvuII CAGCTG 1 cut(s) 197
RseI CAYNNNNRTG 2 cut(s) 39, 1154
SacII CCGCGG 1 cut(s) 633
SaqAI TTAA 6 cut(s) 255, 344, 477, 549, 750, 762
SatI GCNGC 4 cut(s) 267, 630, 779, 1128
Sau96I GGNCC 1 cut(s) 791
SchI GAGTC 1 cut(s) 512
ScrFI CCNGG 4 cut(s) 232, 726, 983, 984
SduI GDGCHC 2 cut(s) 333, 501
SfaNI GCATC 1 cut(s) 1072
SfcI CTRYAG 1 cut(s) 891
Sfr303I CCGCGG 1 cut(s) 633
SgrBI CCGCGG 1 cut(s) 633
SmaI CCCGGG 1 cut(s) 984
SmiMI CAYNNNNRTG 2 cut(s) 39, 1154
SmlI CTYRAG 1 cut(s) 152
SmoI CTYRAG 1 cut(s) 152
SnaBI TACGTA 1 cut(s) 787
SpeI ACTAGT 1 cut(s) 1151
Sse9I AATT 1 cut(s) 620
SsiI CCGC 5 cut(s) 461, 470, 630, 632, 857
SspMI CTAG 1 cut(s) 1152
StyD4I CCNGG 4 cut(s) 230, 724, 981, 982
StyI CCWWGG 1 cut(s) 357
TaaI ACNGT 2 cut(s) 892, 1024
TaiI ACGT 3 cut(s) 80, 789, 1057
TaqI TCGA 2 cut(s) 120, 681
TasI AATT 1 cut(s) 620
TauI GCSGC 1 cut(s) 632
TfiI GAWTC 4 cut(s) 569, 694, 883, 1139
Tru1I TTAA 6 cut(s) 255, 344, 477, 549, 750, 762
Tru9I TTAA 6 cut(s) 255, 344, 477, 549, 750, 762
TscAI CASTG 3 cut(s) 397, 682, 1027
TseI GCWGC 3 cut(s) 266, 778, 1127
TspDTI ATGAA 3 cut(s) 290, 582, 1059
TspMI CCCGGG 1 cut(s) 982
TspRI CASTG 3 cut(s) 397, 682, 1027
Tth111I GACNNNGTC 1 cut(s) 76
Van91I CCANNNNNTGG 1 cut(s) 44
XagI CCTNNNNNAGG 3 cut(s) 152, 337, 786
XapI RAATTY 1 cut(s) 620
XceI RCATGY 1 cut(s) 991
XcmI CCANNNNNNNNNTGG 1 cut(s) 257
XmaI CCCGGG 1 cut(s) 982
XspI CTAG 1 cut(s) 1152
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.