Rh5AG232600

Plant organelle RNA recognition domain

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5A
OG0009357
Physical Location & Seq
Forward (+)
28097623 .. 28099005
1383 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5AG232600.1

Sequence Viewer

Length: 1383 bp
ATGAACATCTTCTTCACCTATTCCTCCCATTTCCTCAAACCCAGCTCCAAAACCCTCCACCCCATCCCTCTCCTCCTCCACAACCTCACCTCCACCAGACCCATCTCCAAATCCACCTCCATCCCCAAGAAAATGGACCGCGTCCGCGACCACGGCTACGACAACTACATGGAAATCGAGAAGAAGATCCGCAAAGTCCTCAAATTCCAGGCCCTCATTCTCTCCCAGCCCCACCAGATCATCCAAGCCTCTCGCCTCGACATGCTCGCCCGCCGCCTCGGCTTCAAGCAGCACGAGGCCGCCGCCTTCGTCCTCAAGTTCCCTCACGTCTTCGAGATTTACGAGCACCCGGTTCAGCGGGTCCTCTATTGCCGGCTGACCCGAAAAGCCCACCTCCAAATCGAGCAGGAGAAGCGGGCCCTGGCGGCCCAGGTCCCCGACGCCGTGACCCGGCTCAGGAAGCTGGTGATGATGTCCAACACGGGTCGGATCCGGCTCGAGCATGTTCGGATTGCCAGGTATGAATTCGGGCTACCCGATGATTTCGAATACTCTGTAGTTCTCAAGTACCCTGAGTATTTCAGATTGTTTGATGCTGATGAGAGTAGGAGTAAGTACATTGAGGTAGTTGAGAAGGACCCAAGTTTATCTGTTTGTGCTATAGAGAAGCTTAGGGAGAGAGAGTATAGGGAGAAGGGGGTTGATGCTGAGGATATAAGGTTTTCATTCATTGTGAATTTTCCGCCGGGGTTTAAGATAGGGAAGTATTATAGGATTGCGGTGTGGAAATGGCAGAGAGTGCCGTATTGGAGTCCTTATGAGGATGTTTCGGGGTATGACATGAGGTCGCTTGAGGCGCAGAAGAGGATGGAGAAGAGGGCCGTGGCGGTGATTCATGAGCTGTTGAATTTGACCGTGGAGAAGAAGATTACGTTGGAGAGGATTGCGCATTTTAGAATGGCGATGAATCTGCCGAAGAAGTTGAAGGAGTTTCTTCTGCAGCATCAGGGGATTTTCTACATTTCGACTAGGGGGAATCACGGGAAGCTGCATACGGTGTTTCTTAGGGAGGCTTATAGGAAGGGTGAGTTGGTAGAGCCGAATGATTTGTATTTGGCGAGAAGAAAGTTGGCTGAGTTGGTGTTGATGAGCCCAAGGAAGGCGAAAATGGATAGTGAATTGGTTAGTTACCATAGAGACTGGGGAGATGATGAGAGGGGGTTCGTTGGAAGAGAATGTGTTGAGAATGCTTTTGAAGATTTTGGGGGTTGCAATGATGATAGGCAGAGGAGGGACTCAAATGCGGGTGATGATTATGACTCCGATACAGACGATGGTTCTGATAAAACTCTGGATGAAAAGGATGTCTGTGTAACGGATTGA

Protein Analysis

460

Amino Acids

54.13

Weight (kDa)

9.02

Isoelectric Point (pI)

37.33

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PORR PF11955 48 - 385 1.4e-112 Plant organelle RNA recognition domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc16I TGCGCA 1 cut(s) 948
AccII CGCG 2 cut(s) 141, 147
AclWI GGATC 3 cut(s) 181, 484, 497
AcsI RAATTY 4 cut(s) 203, 524, 736, 907
AcyI GRCGYC 1 cut(s) 441
AfaI GTAC 2 cut(s) 569, 617
AfiI CCNNNNNNNGG 3 cut(s) 450, 456, 1159
AgsI TTSAA 4 cut(s) 286, 907, 985, 1256
AhdI GACNNNNNGTC 1 cut(s) 844
AjiI CACGTC 1 cut(s) 328
AjnI CCWGG 4 cut(s) 207, 420, 429, 515
AjuI GAANNNNNNNTTGG 4 cut(s) 917, 949, 1073, 1105
AluBI AGCT 5 cut(s) 45, 463, 670, 901, 1048
AluI AGCT 5 cut(s) 45, 463, 670, 901, 1048
Alw21I GWGCWC 1 cut(s) 348
Alw26I GTCTC 1 cut(s) 1191
AlwI GGATC 3 cut(s) 181, 484, 497
Ama87I CYCGRG 1 cut(s) 497
AoxI GGCC 5 cut(s) 210, 297, 417, 426, 879
ApaI GGGCCC 1 cut(s) 421
ApeKI GCWGC 3 cut(s) 289, 1000, 1048
ApoI RAATTY 4 cut(s) 203, 524, 736, 907
Asp700I GAANNNNTTC 1 cut(s) 8
AspLEI GCGC 2 cut(s) 859, 949
AspS9I GGNCC 9 cut(s) 136, 211, 361, 417, 418, 427, 433, 637, 879
AsuC2I CCSGG 3 cut(s) 350, 451, 747
AsuHPI GGTGA 6 cut(s) 7, 79, 478, 901, 1097, 1319
AsuII TTCGAA 1 cut(s) 546
AvaI CYCGRG 1 cut(s) 497
AvaII GGWCC 4 cut(s) 136, 361, 433, 637
BaeGI GKGCMC 1 cut(s) 421
BamHI GGATCC 1 cut(s) 489
BanII GRGCYC 2 cut(s) 421, 1154
BauI CACGAG 1 cut(s) 293
BbsI GAAGAC 1 cut(s) 322
Bbv12I GWGCWC 1 cut(s) 348
BbvCI CCTCAGC 1 cut(s) 708
BbvI GCAGC 3 cut(s) 301, 1012, 1035
BccI CCATC 5 cut(s) 71, 110, 128, 862, 1328
BceAI ACGGC 4 cut(s) 169, 428, 787, 866
BcgI CGANNNNNNTGC 2 cut(s) 952, 986
BciT130I CCWGG 4 cut(s) 209, 422, 431, 517
BcnI CCSGG 3 cut(s) 350, 451, 747
BcoDI GTCTC 1 cut(s) 1191
BfaI CTAG 1 cut(s) 1029
BfmI CTRYAG 3 cut(s) 555, 660, 998
BglI GCCNNNNNGGC 2 cut(s) 279, 425
BisI GCNGC 7 cut(s) 274, 290, 300, 303, 426, 1001, 1049
BlsI GCNGC 7 cut(s) 275, 291, 301, 304, 427, 1002, 1050
Bme1390I CCNGG 7 cut(s) 209, 350, 422, 431, 451, 517, 747
Bme18I GGWCC 4 cut(s) 136, 361, 433, 637
BmeRI GACNNNNNGTC 1 cut(s) 844
BmeT110I CYCGRG 1 cut(s) 497
BmgBI CACGTC 1 cut(s) 328
BmgT120I GGNCC 9 cut(s) 136, 211, 361, 417, 418, 427, 433, 637, 879
BmiI GGNNCC 5 cut(s) 362, 419, 435, 491, 639
BmrFI CCNGG 7 cut(s) 209, 350, 422, 431, 451, 517, 747
BmrI ACTGGG 1 cut(s) 1210
BmsI GCATC 3 cut(s) 583, 694, 1012
BmuI ACTGGG 1 cut(s) 1210
BpiI GAAGAC 1 cut(s) 322
Bpu10I CCTNAGC 3 cut(s) 455, 671, 708
Bpu14I TTCGAA 1 cut(s) 546
BpuEI CTTGAG 3 cut(s) 299, 548, 872
BpuMI CCSGG 3 cut(s) 350, 451, 747
BsaHI GRCGYC 1 cut(s) 441
BsaJI CCNNGG 8 cut(s) 151, 277, 420, 429, 746, 882, 915, 1154
BsaXI ACNNNNNCTCC 4 cut(s) 74, 104, 668, 698
Bsc4I CCNNNNNNNGG 3 cut(s) 450, 456, 1159
Bse118I RCCGGY 1 cut(s) 372
Bse1I ACTGG 1 cut(s) 1205
Bse3DI GCAATG 1 cut(s) 1279
BseBI CCWGG 4 cut(s) 209, 422, 431, 517
BseDI CCNNGG 8 cut(s) 151, 277, 420, 429, 746, 882, 915, 1154
BseGI GGATG 7 cut(s) 63, 120, 240, 829, 873, 1360, 1369
BseLI CCNNNNNNNGG 3 cut(s) 450, 456, 1159
BseMI GCAATG 1 cut(s) 1279
BseMII CTCAG 4 cut(s) 469, 564, 699, 1125
BseNI ACTGG 1 cut(s) 1205
BseRI GAGGAG 3 cut(s) 62, 65, 1303
BseSI GKGCMC 1 cut(s) 421
BseXI GCAGC 3 cut(s) 301, 1012, 1035
BseYI CCCAGC 2 cut(s) 41, 225
Bsh1236I CGCG 2 cut(s) 141, 147
BshFI GGCC 5 cut(s) 212, 299, 419, 428, 881
BsiHKAI GWGCWC 1 cut(s) 348
BsiHKCI CYCGRG 1 cut(s) 497
BsiSI CCGG 5 cut(s) 350, 373, 451, 493, 746
BslFI GGGAC 2 cut(s) 419, 1307
BslI CCNNNNNNNGG 3 cut(s) 450, 456, 1159
BsmAI GTCTC 1 cut(s) 1191
BsmFI GGGAC 2 cut(s) 419, 1307
BsmI GAATGC 1 cut(s) 1252
BsnI GGCC 5 cut(s) 212, 299, 419, 428, 881
BsoBI CYCGRG 1 cut(s) 497
Bsp119I TTCGAA 1 cut(s) 546
Bsp120I GGGCCC 1 cut(s) 417
Bsp1286I GDGCHC 3 cut(s) 348, 421, 1154
Bsp143I GATC 3 cut(s) 186, 237, 489
BspANI GGCC 5 cut(s) 212, 299, 419, 428, 881
BspCNI CTCAG 4 cut(s) 468, 565, 700, 1126
BspFNI CGCG 2 cut(s) 141, 147
BspHI TCATGA 1 cut(s) 895
BspLI GGNNCC 5 cut(s) 362, 419, 435, 491, 639
BspMAI CTGCAG 1 cut(s) 1002
BspPI GGATC 3 cut(s) 181, 484, 497
BspT104I TTCGAA 1 cut(s) 546
BsrDI GCAATG 1 cut(s) 1279
BsrFI RCCGGY 1 cut(s) 372
BsrI ACTGG 1 cut(s) 1205
BssAI RCCGGY 1 cut(s) 372
BssECI CCNNGG 8 cut(s) 151, 277, 420, 429, 746, 882, 915, 1154
BssMI GATC 3 cut(s) 186, 237, 489
BssNI GRCGYC 1 cut(s) 441
BssSI CACGAG 1 cut(s) 293
BssT1I CCWWGG 1 cut(s) 1154
Bst2BI CACGAG 1 cut(s) 293
Bst2UI CCWGG 4 cut(s) 209, 422, 431, 517
Bst4CI ACNGT 2 cut(s) 916, 1057
Bst6I CTCTTC 3 cut(s) 857, 869, 1225
BstACI GRCGYC 1 cut(s) 441
BstAPI GCANNNNNTGC 1 cut(s) 799
BstBI TTCGAA 1 cut(s) 546
BstC8I GCNNGC 4 cut(s) 267, 271, 374, 417
BstDEI CTNAG 6 cut(s) 455, 573, 671, 708, 1064, 1134
BstDSI CCRYGG 3 cut(s) 151, 882, 915
BstF5I GGATG 7 cut(s) 63, 120, 240, 829, 873, 1360, 1369
BstFNI CGCG 2 cut(s) 141, 147
BstHHI GCGC 2 cut(s) 859, 949
BstKTI GATC 3 cut(s) 189, 240, 492
BstMAI GTCTC 1 cut(s) 1191
BstMBI GATC 3 cut(s) 186, 237, 489
BstMWI GCNNNNNNNGC 7 cut(s) 153, 279, 412, 425, 460, 799, 856
BstNI CCWGG 4 cut(s) 209, 422, 431, 517
BstNSI RCATGY 2 cut(s) 265, 506
BstSCI CCNGG 7 cut(s) 207, 348, 420, 429, 449, 515, 745
BstSFI CTRYAG 3 cut(s) 555, 660, 998
BstSLI GKGCMC 1 cut(s) 421
BstUI CGCG 2 cut(s) 141, 147
BstV1I GCAGC 3 cut(s) 301, 1012, 1035
BstV2I GAAGAC 1 cut(s) 322
BstX2I RGATCY 2 cut(s) 186, 489
BstXI CCANNNNNNTGG 1 cut(s) 133
BstYI RGATCY 2 cut(s) 186, 489
BsuRI GGCC 5 cut(s) 212, 299, 419, 428, 881
BtgI CCRYGG 3 cut(s) 151, 882, 915
BtgZI GCGATG 1 cut(s) 977
BtrI CACGTC 1 cut(s) 328
BtsCI GGATG 7 cut(s) 63, 120, 240, 829, 873, 1360, 1369
Cac8I GCNNGC 4 cut(s) 267, 271, 374, 417
CciI TCATGA 1 cut(s) 895
CfoI GCGC 2 cut(s) 859, 949
Cfr10I RCCGGY 1 cut(s) 372
Cfr13I GGNCC 9 cut(s) 136, 211, 361, 417, 418, 427, 433, 637, 879
CseI GACGC 2 cut(s) 130, 449
Csp6I GTAC 2 cut(s) 568, 616
CviAII CATG 5 cut(s) 169, 262, 503, 841, 896
CviQI GTAC 2 cut(s) 568, 616
DdeI CTNAG 6 cut(s) 455, 573, 671, 708, 1064, 1134
DpnI GATC 3 cut(s) 188, 239, 491
DpnII GATC 3 cut(s) 186, 237, 489
DriI GACNNNNNGTC 1 cut(s) 844
Eam1104I CTCTTC 3 cut(s) 857, 869, 1225
Eam1105I GACNNNNNGTC 1 cut(s) 844
EarI CTCTTC 3 cut(s) 857, 869, 1225
EciI GGCGGA 1 cut(s) 732
Eco130I CCWWGG 1 cut(s) 1154
Eco24I GRGCYC 2 cut(s) 421, 1154
Eco47I GGWCC 4 cut(s) 136, 361, 433, 637
Eco88I CYCGRG 1 cut(s) 497
EcoO109I RGGNCCY 5 cut(s) 211, 361, 418, 433, 637
EcoRI GAATTC 1 cut(s) 524
EcoRII CCWGG 4 cut(s) 207, 420, 429, 515
EcoT14I CCWWGG 1 cut(s) 1154
EcoT38I GRGCYC 2 cut(s) 421, 1154
ErhI CCWWGG 1 cut(s) 1154
FaeI CATG 5 cut(s) 172, 265, 506, 844, 899
FaqI GGGAC 2 cut(s) 419, 1307
FatI CATG 5 cut(s) 168, 261, 502, 840, 895
FauI CCCGC 4 cut(s) 278, 351, 408, 1297
Fnu4HI GCNGC 7 cut(s) 274, 290, 300, 303, 426, 1001, 1049
FokI GGATG 7 cut(s) 50, 107, 227, 836, 880, 1367, 1376
FriOI GRGCYC 2 cut(s) 421, 1154
Fsp4HI GCNGC 7 cut(s) 274, 290, 300, 303, 426, 1001, 1049
FspBI CTAG 1 cut(s) 1029
FspI TGCGCA 1 cut(s) 948
GlaI GCGC 2 cut(s) 858, 948
GluI GCNGC 7 cut(s) 274, 290, 300, 303, 426, 1001, 1049
GsaI CCCAGC 2 cut(s) 45, 229
HaeIII GGCC 5 cut(s) 212, 299, 419, 428, 881
HapII CCGG 5 cut(s) 350, 373, 451, 493, 746
HgaI GACGC 2 cut(s) 130, 449
HhaI GCGC 2 cut(s) 859, 949
Hin1I GRCGYC 1 cut(s) 441
Hin1II CATG 5 cut(s) 172, 265, 506, 844, 899
Hin6I GCGC 2 cut(s) 857, 947
HinP1I GCGC 2 cut(s) 857, 947
HindIII AAGCTT 1 cut(s) 668
HinfI GANTC 6 cut(s) 811, 892, 967, 1036, 1295, 1319
HpaII CCGG 5 cut(s) 350, 373, 451, 493, 746
HphI GGTGA 6 cut(s) 7, 79, 478, 901, 1097, 1319
Hpy188I TCNGA 5 cut(s) 489, 510, 584, 1324, 1342
Hpy188III TCNNGA 5 cut(s) 178, 334, 457, 896, 1352
Hpy99I CGWCG 1 cut(s) 443
HpyAV CCTTC 6 cut(s) 316, 628, 688, 979, 1075, 1153
HpyCH4III ACNGT 2 cut(s) 916, 1057
HpyCH4IV ACGT 2 cut(s) 327, 932
HpyCH4V TGCA 3 cut(s) 1000, 1051, 1272
HpyF10VI GCNNNNNNNGC 7 cut(s) 153, 279, 412, 425, 460, 799, 856
HpyF3I CTNAG 6 cut(s) 455, 573, 671, 708, 1064, 1134
HpySE526I ACGT 2 cut(s) 327, 932
Hsp92I GRCGYC 1 cut(s) 441
Hsp92II CATG 5 cut(s) 172, 265, 506, 844, 899
HspAI GCGC 2 cut(s) 857, 947
KroI GCCGGC 1 cut(s) 372
KroNI GCCGGC 1 cut(s) 374
Kzo9I GATC 3 cut(s) 186, 237, 489
LmnI GCTCC 1 cut(s) 50
Lsp1109I GCAGC 3 cut(s) 301, 1012, 1035
LweI GCATC 3 cut(s) 583, 694, 1012
MaeI CTAG 1 cut(s) 1029
MaeII ACGT 2 cut(s) 327, 932
MaeIII GTNAC 3 cut(s) 445, 1187, 1372
MalI GATC 3 cut(s) 188, 239, 491
MboI GATC 3 cut(s) 186, 237, 489
MflI RGATCY 2 cut(s) 186, 489
MhlI GDGCHC 3 cut(s) 348, 421, 1154
MluCI AATT 5 cut(s) 203, 524, 736, 907, 1178
MlyI GAGTC 3 cut(s) 820, 1289, 1313
MmeI TCCRAC 4 cut(s) 467, 501, 915, 1207
MroNI GCCGGC 1 cut(s) 372
MroXI GAANNNNTTC 1 cut(s) 8
MseI TTAA 1 cut(s) 753
MspA1I CMGCKG 1 cut(s) 358
MspI CCGG 5 cut(s) 350, 373, 451, 493, 746
MspR9I CCNGG 7 cut(s) 209, 350, 422, 431, 451, 517, 747
Mva1269I GAATGC 1 cut(s) 1252
MvaI CCWGG 4 cut(s) 209, 422, 431, 517
MvnI CGCG 2 cut(s) 141, 147
MwoI GCNNNNNNNGC 7 cut(s) 153, 279, 412, 425, 460, 799, 856
NaeI GCCGGC 1 cut(s) 374
NciI CCSGG 3 cut(s) 350, 451, 747
NdeII GATC 3 cut(s) 186, 237, 489
NgoMIV GCCGGC 1 cut(s) 372
NlaIII CATG 5 cut(s) 172, 265, 506, 844, 899
NlaIV GGNNCC 5 cut(s) 362, 419, 435, 491, 639
NmeAIII GCCGAG 1 cut(s) 258
NmuCI GTSAC 1 cut(s) 445
NsbI TGCGCA 1 cut(s) 948
NspI RCATGY 2 cut(s) 265, 506
NspV TTCGAA 1 cut(s) 546
PaeR7I CTCGAG 1 cut(s) 497
PagI TCATGA 1 cut(s) 895
PcsI WCGNNNNNNNCGW 2 cut(s) 339, 534
PctI GAATGC 1 cut(s) 1252
PdiI GCCGGC 1 cut(s) 374
PdmI GAANNNNTTC 1 cut(s) 8
PfeI GAWTC 3 cut(s) 892, 967, 1036
PflFI GACNNNGTC 1 cut(s) 140
PkrI GCNGC 7 cut(s) 275, 291, 301, 304, 427, 1002, 1050
PleI GAGTC 3 cut(s) 819, 1289, 1313
PpsI GAGTC 3 cut(s) 819, 1289, 1313
PpuMI RGGWCCY 3 cut(s) 361, 433, 637
Psp5II RGGWCCY 3 cut(s) 361, 433, 637
Psp6I CCWGG 4 cut(s) 207, 420, 429, 515
PspFI CCCAGC 2 cut(s) 41, 225
PspGI CCWGG 4 cut(s) 207, 420, 429, 515
PspN4I GGNNCC 5 cut(s) 362, 419, 435, 491, 639
PspOMI GGGCCC 1 cut(s) 417
PspPI GGNCC 9 cut(s) 136, 211, 361, 417, 418, 427, 433, 637, 879
PspPPI RGGWCCY 3 cut(s) 361, 433, 637
PspXI VCTCGAGB 1 cut(s) 497
PstI CTGCAG 1 cut(s) 1002
PsuI RGATCY 2 cut(s) 186, 489
PsyI GACNNNGTC 1 cut(s) 140
RsaI GTAC 2 cut(s) 569, 617
RsaNI GTAC 2 cut(s) 568, 616
SaqAI TTAA 1 cut(s) 753
SatI GCNGC 7 cut(s) 274, 290, 300, 303, 426, 1001, 1049
Sau3AI GATC 3 cut(s) 186, 237, 489
Sau96I GGNCC 9 cut(s) 136, 211, 361, 417, 418, 427, 433, 637, 879
SchI GAGTC 3 cut(s) 820, 1289, 1313
ScrFI CCNGG 7 cut(s) 209, 350, 422, 431, 451, 517, 747
SduI GDGCHC 3 cut(s) 348, 421, 1154
SfaNI GCATC 3 cut(s) 583, 694, 1012
SfcI CTRYAG 3 cut(s) 555, 660, 998
SfiI GGCCNNNNNGGCC 1 cut(s) 425
Sfr274I CTCGAG 1 cut(s) 497
SfuI TTCGAA 1 cut(s) 546
SinI GGWCC 4 cut(s) 136, 361, 433, 637
SlaI CTCGAG 1 cut(s) 497
SmlI CTYRAG 4 cut(s) 314, 497, 563, 851
SmoI CTYRAG 4 cut(s) 314, 497, 563, 851
Sse9I AATT 5 cut(s) 203, 524, 736, 907, 1178
SspMI CTAG 1 cut(s) 1029
StyD4I CCNGG 7 cut(s) 207, 348, 420, 429, 449, 515, 745
StyI CCWWGG 1 cut(s) 1154
TaaI ACNGT 2 cut(s) 916, 1057
TaiI ACGT 2 cut(s) 330, 935
TaqI TCGA 7 cut(s) 177, 258, 333, 402, 498, 546, 1025
TasI AATT 5 cut(s) 203, 524, 736, 907, 1178
TatI WGTACW 1 cut(s) 615
TauI GCSGC 4 cut(s) 276, 302, 305, 428
TfiI GAWTC 3 cut(s) 892, 967, 1036
Tru1I TTAA 1 cut(s) 753
Tru9I TTAA 1 cut(s) 753
TseFI GTSAC 1 cut(s) 445
TseI GCWGC 3 cut(s) 289, 1000, 1048
Tsp45I GTSAC 1 cut(s) 445
TspDTI ATGAA 7 cut(s) 17, 537, 714, 718, 884, 980, 1371
Tth111I GACNNNGTC 1 cut(s) 140
VpaK11BI GGWCC 4 cut(s) 136, 361, 433, 637
XapI RAATTY 4 cut(s) 203, 524, 736, 907
XceI RCATGY 2 cut(s) 265, 506
XhoI CTCGAG 1 cut(s) 497
XmnI GAANNNNTTC 1 cut(s) 8
XspI CTAG 1 cut(s) 1029
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.