Rh1CG171000

Plant organelle RNA recognition domain

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr1C
OG0016659
Physical Location & Seq
Reverse (-)
37553321 .. 37557576
4256 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh1CG171000.1

Sequence Viewer

Length: 1302 bp
ATGTTACTGACCAAACCCACTTCCAAAACCCTGAGAAAGCTACTCTTCCCTTATCAAAATTCAATCTTGTCCTCCTTGTACCAACCCCAAAACCCTGCTTACACACACACCCAGAAATCCAACTATGTTAATGTCTACATGAAATGGAAGAAAGACTCGTACTTTGACTCCATTGAGCACATCGACAAGTCCATAGTGCTTAAACCCATCATCAACATCAAGAACTGCATTACTGAAGATCCCAATGGCTGTATCCCAGTCTATGCAGTGTCCAAAAGGGGTTTTCAATTAGATGTACCCATGAAGGTTGCCAAGTTTTTGAGGAAATACCCATCAATCTTTGAGGAGTTTGCTGGTGAATACAATCATCCCTGGTTTAAATTGACCCCAGAAGCAGCTGAGATTGATAGGGTGGAGAAGAGGGTTTATGAGGATTGTAGGGTGGATTTGAGGTATAGGCTGAAAAAGTTGATTTTGATGAGCAAAGAAAAGGTTTTGCCTTTGAAAATTATCCAGGGGATGGAGTGGTTTTTGGGTTTGCCTGATGATTTTTTGCACTACCCGGAAAAGAATCTGGATGGGTCTTTTCGGTTTGTGACAATGGAAGATGGGTTAGAGGGATTAGCTGTTGACAGTGGTGAAAAGGTCTTGTCTGTCGTGCAAAGGAATGCAATGAAAAAAGGGGTGTATTCTGGAGCTCCAACAGAGGCAATTGAGTTCCCGCTTTTCCCTTCCAAGGGTTTGAGGTTGAGGAACAAGATTGAAGATTGGTTAAAGGAGTTTCAGAAACTTCCCTATGTTTCACCTTATGAGGATTTTTCACATTTACTGCCAGATACTGATGCATCCGAGAAACGAGTTGTGGGGCTTCTTCATGAGTTGCTTAGTCTATTTGTTGAGCATTCAGCAGAGAGGAAGAAGCTCAAGTGTCTTAAGAAGTATATGGGACTGCCGCAGAAAGTGCACAGAGCATTTGAGAGACATCCTGGGATTTTCTATTTGTCATTTAAGAACAAGACTTGTACGGTAATTCTTAAAGAGGCTTACTGTGATGAGTCTGCTATTGAGAAGCATCCACTTTTGGAAGTGAGGAAAAAGTATATTAGATTGATGAGGGAGTCGGCAGTGATCTTGAAGAATAGGAGAGTGAATGGCCGGTTGGCTGGTGGTGGGAATATGGAGCCGGATTTGGATTTGGATTTGGAACCTAAGATTGAAGACAGAGGAGATGGAGGGAATACAGAGGTGGACTTGGATTTGGATTCTGAGAATGACCAAAGAGATGGAGAGTGTTCTCAGTAA
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

433

Amino Acids

50.14

Weight (kDa)

8.42

Isoelectric Point (pI)

41.51

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PORR PF11955 50 - 374 2.7e-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: 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)
AccB7I CCANNNNNTGG 1 cut(s) 520
AccI GTMKAC 1 cut(s) 135
AciI CCGC 2 cut(s) 722, 953
AclWI GGATC 1 cut(s) 233
AcoI YGGCCR 1 cut(s) 1153
AcsI RAATTY 1 cut(s) 58
AcuI CTGAAG 1 cut(s) 255
AfaI GTAC 4 cut(s) 80, 161, 297, 1024
AfiI CCNNNNNNNGG 3 cut(s) 520, 736, 737
AflII CTTAAG 1 cut(s) 932
AgsI TTSAA 6 cut(s) 63, 287, 505, 764, 1135, 1217
AjnI CCWGG 3 cut(s) 371, 513, 985
AjuI GAANNNNNNNTTGG 2 cut(s) 1142, 1174
AluBI AGCT 5 cut(s) 40, 398, 626, 698, 922
AluI AGCT 5 cut(s) 40, 398, 626, 698, 922
Alw21I GWGCWC 3 cut(s) 180, 700, 966
Alw26I GTCTC 1 cut(s) 973
Alw44I GTGCAC 1 cut(s) 962
AlwI GGATC 1 cut(s) 233
AlwNI CAGNNNCTG 1 cut(s) 839
AoxI GGCC 1 cut(s) 1153
ApaLI GTGCAC 1 cut(s) 962
ApeKI GCWGC 1 cut(s) 395
ApoI RAATTY 1 cut(s) 58
ArsI GACNNNNNNTTYG 2 cut(s) 146, 178
AsuC2I CCSGG 1 cut(s) 563
AsuHPI GGTGA 3 cut(s) 368, 650, 795
BaeGI GKGCMC 1 cut(s) 966
BanII GRGCYC 1 cut(s) 700
BbsI GAAGAC 1 cut(s) 1224
Bbv12I GWGCWC 3 cut(s) 180, 700, 966
BbvI GCAGC 1 cut(s) 407
BccI CCATC 7 cut(s) 215, 340, 514, 572, 602, 1223, 1277
BciT130I CCWGG 3 cut(s) 373, 515, 987
BciVI GTATCC 1 cut(s) 263
BcnI CCSGG 1 cut(s) 563
BcoDI GTCTC 1 cut(s) 973
BfrI CTTAAG 1 cut(s) 932
BfuI GTATCC 1 cut(s) 263
BisI GCNGC 2 cut(s) 396, 953
BlsI GCNGC 2 cut(s) 397, 954
Bme1390I CCNGG 4 cut(s) 373, 515, 563, 987
BmiI GGNNCC 2 cut(s) 1182, 1206
BmrFI CCNGG 4 cut(s) 373, 515, 563, 987
BmrI ACTGGG 1 cut(s) 251
BmsI GCATC 3 cut(s) 832, 854, 1081
BmuI ACTGGG 1 cut(s) 251
BpiI GAAGAC 1 cut(s) 1224
BpmI CTGGAG 1 cut(s) 714
BpuEI CTTGAG 1 cut(s) 908
BpuMI CCSGG 1 cut(s) 563
BsaJI CCNNGG 4 cut(s) 371, 514, 735, 986
BsaXI ACNNNNNCTCC 2 cut(s) 152, 182
Bsc4I CCNNNNNNNGG 3 cut(s) 520, 736, 737
Bse118I RCCGGY 1 cut(s) 1155
Bse1I ACTGG 1 cut(s) 257
Bse3DI GCAATG 1 cut(s) 678
BseBI CCWGG 3 cut(s) 373, 515, 987
BseDI CCNNGG 4 cut(s) 371, 514, 735, 986
BseGI GGATG 6 cut(s) 367, 525, 583, 845, 982, 1072
BseLI CCNNNNNNNGG 3 cut(s) 520, 736, 737
BseMI GCAATG 1 cut(s) 678
BseMII CTCAG 3 cut(s) 23, 390, 1257
BseNI ACTGG 1 cut(s) 257
BseRI GAGGAG 2 cut(s) 359, 1239
BseSI GKGCMC 1 cut(s) 966
BseXI GCAGC 1 cut(s) 407
BshFI GGCC 1 cut(s) 1155
BsiHKAI GWGCWC 3 cut(s) 180, 700, 966
BsiSI CCGG 3 cut(s) 563, 1156, 1184
BslFI GGGAC 1 cut(s) 960
BslI CCNNNNNNNGG 3 cut(s) 520, 736, 737
BsmAI GTCTC 1 cut(s) 973
BsmFI GGGAC 1 cut(s) 960
BsmI GAATGC 2 cut(s) 673, 901
BsnI GGCC 1 cut(s) 1155
Bsp1286I GDGCHC 3 cut(s) 180, 700, 966
Bsp143I GATC 2 cut(s) 238, 1128
BspACI CCGC 2 cut(s) 722, 953
BspANI GGCC 1 cut(s) 1155
BspCNI CTCAG 3 cut(s) 24, 391, 1258
BspHI TCATGA 1 cut(s) 874
BspLI GGNNCC 2 cut(s) 1182, 1206
BspPI GGATC 1 cut(s) 233
BspTI CTTAAG 1 cut(s) 932
BsrDI GCAATG 1 cut(s) 678
BsrFI RCCGGY 1 cut(s) 1155
BsrI ACTGG 1 cut(s) 257
BssAI RCCGGY 1 cut(s) 1155
BssECI CCNNGG 4 cut(s) 371, 514, 735, 986
BssMI GATC 2 cut(s) 238, 1128
BssT1I CCWWGG 1 cut(s) 735
Bst2UI CCWGG 3 cut(s) 373, 515, 987
Bst4CI ACNGT 3 cut(s) 635, 1027, 1049
Bst6I CTCTTC 2 cut(s) 50, 413
BstAFI CTTAAG 1 cut(s) 932
BstAPI GCANNNNNTGC 1 cut(s) 961
BstDEI CTNAG 6 cut(s) 32, 399, 884, 1209, 1266, 1296
BstF5I GGATG 6 cut(s) 367, 525, 583, 845, 982, 1072
BstKTI GATC 2 cut(s) 241, 1131
BstMAI GTCTC 1 cut(s) 973
BstMBI GATC 2 cut(s) 238, 1128
BstMWI GCNNNNNNNGC 1 cut(s) 961
BstNI CCWGG 3 cut(s) 373, 515, 987
BstSCI CCNGG 4 cut(s) 371, 513, 561, 985
BstSLI GKGCMC 1 cut(s) 966
BstV1I GCAGC 1 cut(s) 407
BstV2I GAAGAC 1 cut(s) 1224
BstX2I RGATCY 1 cut(s) 238
BstXI CCANNNNNNTGG 1 cut(s) 1283
BstYI RGATCY 1 cut(s) 238
BsuI GTATCC 1 cut(s) 263
BsuRI GGCC 1 cut(s) 1155
BtsCI GGATG 6 cut(s) 367, 525, 583, 845, 982, 1072
BtsI GCAGTG 2 cut(s) 273, 1131
BtsIMutI CAGTG 3 cut(s) 273, 640, 1131
CaiI CAGNNNCTG 1 cut(s) 839
CciI TCATGA 1 cut(s) 874
Cfr10I RCCGGY 1 cut(s) 1155
Csp6I GTAC 4 cut(s) 79, 160, 296, 1023
CviAII CATG 3 cut(s) 139, 301, 875
CviQI GTAC 4 cut(s) 79, 160, 296, 1023
DdeI CTNAG 6 cut(s) 32, 399, 884, 1209, 1266, 1296
DpnI GATC 2 cut(s) 240, 1130
DpnII GATC 2 cut(s) 238, 1128
DraI TTTAAA 1 cut(s) 379
EaeI YGGCCR 1 cut(s) 1153
Eam1104I CTCTTC 2 cut(s) 50, 413
EarI CTCTTC 2 cut(s) 50, 413
Ecl136II GAGCTC 1 cut(s) 698
Eco130I CCWWGG 1 cut(s) 735
Eco24I GRGCYC 1 cut(s) 700
Eco53kI GAGCTC 1 cut(s) 698
Eco57I CTGAAG 1 cut(s) 255
EcoICRI GAGCTC 1 cut(s) 698
EcoRII CCWGG 3 cut(s) 371, 513, 985
EcoT14I CCWWGG 1 cut(s) 735
EcoT22I ATGCAT 1 cut(s) 847
EcoT38I GRGCYC 1 cut(s) 700
ErhI CCWWGG 1 cut(s) 735
FaeI CATG 3 cut(s) 142, 304, 878
FalI AAGNNNNNCTT 2 cut(s) 29, 61
FaqI GGGAC 1 cut(s) 960
FatI CATG 3 cut(s) 138, 300, 874
FauI CCCGC 1 cut(s) 729
FblI GTMKAC 1 cut(s) 135
Fnu4HI GCNGC 2 cut(s) 396, 953
FokI GGATG 6 cut(s) 354, 532, 590, 832, 969, 1059
FriOI GRGCYC 1 cut(s) 700
Fsp4HI GCNGC 2 cut(s) 396, 953
GluI GCNGC 2 cut(s) 396, 953
GsuI CTGGAG 1 cut(s) 714
HaeIII GGCC 1 cut(s) 1155
HapII CCGG 3 cut(s) 563, 1156, 1184
Hin1II CATG 3 cut(s) 142, 304, 878
HincII GTYRAC 1 cut(s) 631
HindII GTYRAC 1 cut(s) 631
HinfI GANTC 6 cut(s) 155, 167, 571, 1055, 1118, 1262
HpaII CCGG 3 cut(s) 563, 1156, 1184
HphI GGTGA 3 cut(s) 368, 650, 795
Hpy166II GTNNAC 4 cut(s) 136, 631, 964, 1249
Hpy188I TCNGA 3 cut(s) 786, 850, 1267
Hpy188III TCNNGA 5 cut(s) 220, 575, 693, 875, 1132
Hpy8I GTNNAC 4 cut(s) 136, 631, 964, 1249
HpyAV CCTTC 2 cut(s) 298, 741
HpyCH4III ACNGT 3 cut(s) 635, 1027, 1049
HpyCH4V TGCA 7 cut(s) 228, 266, 556, 661, 671, 845, 964
HpyF10VI GCNNNNNNNGC 1 cut(s) 961
HpyF3I CTNAG 6 cut(s) 32, 399, 884, 1209, 1266, 1296
Hsp92II CATG 3 cut(s) 142, 304, 878
Kzo9I GATC 2 cut(s) 238, 1128
LmnI GCTCC 3 cut(s) 695, 703, 1180
Lsp1109I GCAGC 1 cut(s) 407
LweI GCATC 3 cut(s) 832, 854, 1081
MaeIII GTNAC 2 cut(s) 3, 595
MalI GATC 2 cut(s) 240, 1130
MboI GATC 2 cut(s) 238, 1128
MfeI CAATTG 1 cut(s) 711
MflI RGATCY 1 cut(s) 238
MhlI GDGCHC 3 cut(s) 180, 700, 966
MluCI AATT 6 cut(s) 58, 287, 380, 507, 711, 1029
MlyI GAGTC 4 cut(s) 149, 161, 1064, 1127
MmeI TCCRAC 2 cut(s) 144, 725
Mph1103I ATGCAT 1 cut(s) 847
MseI TTAA 7 cut(s) 129, 201, 378, 773, 933, 1008, 1035
MspA1I CMGCKG 1 cut(s) 398
MspCI CTTAAG 1 cut(s) 932
MspI CCGG 3 cut(s) 563, 1156, 1184
MspR9I CCNGG 4 cut(s) 373, 515, 563, 987
MunI CAATTG 1 cut(s) 711
Mva1269I GAATGC 2 cut(s) 673, 901
MvaI CCWGG 3 cut(s) 373, 515, 987
MwoI GCNNNNNNNGC 1 cut(s) 961
NciI CCSGG 1 cut(s) 563
NdeII GATC 2 cut(s) 238, 1128
NlaIII CATG 3 cut(s) 142, 304, 878
NlaIV GGNNCC 2 cut(s) 1182, 1206
NmuCI GTSAC 1 cut(s) 595
NsiI ATGCAT 1 cut(s) 847
PagI TCATGA 1 cut(s) 874
PctI GAATGC 2 cut(s) 673, 901
PfeI GAWTC 2 cut(s) 571, 1262
PflMI CCANNNNNTGG 1 cut(s) 520
PkrI GCNGC 2 cut(s) 397, 954
PleI GAGTC 4 cut(s) 149, 161, 1063, 1126
PpsI GAGTC 4 cut(s) 149, 161, 1063, 1126
Psp124BI GAGCTC 1 cut(s) 700
Psp6I CCWGG 3 cut(s) 371, 513, 985
PspGI CCWGG 3 cut(s) 371, 513, 985
PspN4I GGNNCC 2 cut(s) 1182, 1206
PstNI CAGNNNCTG 1 cut(s) 839
PsuI RGATCY 1 cut(s) 238
PvuII CAGCTG 1 cut(s) 398
RsaI GTAC 4 cut(s) 80, 161, 297, 1024
RsaNI GTAC 4 cut(s) 79, 160, 296, 1023
SacI GAGCTC 1 cut(s) 700
SaqAI TTAA 7 cut(s) 129, 201, 378, 773, 933, 1008, 1035
SatI GCNGC 2 cut(s) 396, 953
Sau3AI GATC 2 cut(s) 238, 1128
SchI GAGTC 4 cut(s) 149, 161, 1064, 1127
ScrFI CCNGG 4 cut(s) 373, 515, 563, 987
SduI GDGCHC 3 cut(s) 180, 700, 966
SfaNI GCATC 3 cut(s) 832, 854, 1081
SmlI CTYRAG 2 cut(s) 923, 932
SmoI CTYRAG 2 cut(s) 923, 932
Sse9I AATT 6 cut(s) 58, 287, 380, 507, 711, 1029
SsiI CCGC 2 cut(s) 722, 953
SstI GAGCTC 1 cut(s) 700
StyD4I CCNGG 4 cut(s) 371, 513, 561, 985
StyI CCWWGG 1 cut(s) 735
TaaI ACNGT 3 cut(s) 635, 1027, 1049
TaqI TCGA 1 cut(s) 183
TasI AATT 6 cut(s) 58, 287, 380, 507, 711, 1029
TauI GCSGC 1 cut(s) 955
TfiI GAWTC 2 cut(s) 571, 1262
Tru1I TTAA 7 cut(s) 129, 201, 378, 773, 933, 1008, 1035
Tru9I TTAA 7 cut(s) 129, 201, 378, 773, 933, 1008, 1035
TscAI CASTG 3 cut(s) 273, 640, 1131
TseFI GTSAC 1 cut(s) 595
TseI GCWGC 1 cut(s) 395
Tsp45I GTSAC 1 cut(s) 595
TspDTI ATGAA 4 cut(s) 155, 317, 689, 863
TspRI CASTG 3 cut(s) 273, 640, 1131
Van91I CCANNNNNTGG 1 cut(s) 520
Vha464I CTTAAG 1 cut(s) 932
VneI GTGCAC 1 cut(s) 962
XapI RAATTY 1 cut(s) 58
XmiI GTMKAC 1 cut(s) 135
Zsp2I ATGCAT 1 cut(s) 847
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.