Rroxscaffold_7G00194800

Ribosomal protein S1-like RNA-binding domain

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000007
OG0013437
Physical Location & Seq
Forward (+)
36892592 .. 36898402
5811 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_7G00194800.1

Sequence Viewer

Length: 1539 bp
ATGCTACTCCTTGTCCACCCCTGTAAGTCTCTCTCTTTTCCCGACTCCCCACCACCGCTTAACATCTTCAACACACTAAGACCAACCATCCCAAATTACTCGATTCCCAAACCTCCAACTCATACCTCATTTGGGTTTCCTACAAGACTCGTAATTTCCAAGATTTTCCCACTTCGGAGAAGTTCGGCCATCGCGTTTTGCTCTAGGAATGATGTTTTCGATGTTTTTCCGAGTACCCATCAGGCGAACGGAGTGGAAATGGAAGAAAACGAAGAGCTTGAGTTGCTAAACAAGCCTTCCCCAGTTCCTATGGATAATGGGTCTGCTTCAGAAGTAGATAAAGAATCGGTAAAAAACGAGGCTTTAGCGCCTTTTTTGAAGTTTTTCACGCCAAGAGATTCAGTGGAGGAAGTAGAAGAAAAGGGAGGTGATGAAGTAGAAGTGTTTGAGGAGAAAAGTGAAGTGGATGATGAAAATGAGGAGGTTGAGAAGGTTAGTGTTGAGTACTATGAACCGAAACCGGGTGATTTTGTGGTTGGTGTTGTTGTGTCGGGTAATGAGAATAAGCTTGATGTGAATGTTGGGGCAGACTTACTAGGTACAATGTTGACTAAGGAGGTGTTACCTTTGTATGACAAAGAGATGGAATACTTGCTTTGTGATACAAGTTATGGTGTCGAGGAATTTATGGTTCGAGGGAAGATGGGAATTGTCAAGAGTGAAGCTGTGAGCGGGGCACCAATGCCGGGGAAGCCTGTTGTGGAAACTGGAACTATTTTGTTTGCTGAGGTTCTTGGGAGAACGCTCAGCGGTCGGCCCTTGCTTTCGACAAGGCGGCTCTTCCGCAGGATTGCTTGGCACCGAGTGAGGCAGATAAAGCAACTCAATGAACCTATCAGCGTTAGAATTACAGAATGGAATACTGGAGGCCTTCTTACGAGAATTGAGGGTTTGCGAGCTTTCCTTCCAAAAGCTGAGTTAATGAGCAGAGTGAACAACTTTATGGAGCTGAAAGAGAACGTGGGATGCCAGATGTATGTGCAGATCACTCGAATAGACGAAGCCAAGAATGACTTAGTATTGAGTGAAAGGGAAGCTTGGGAAATGTTAAACCTTAGAGAGGGAACACTCTTAGAAGGGACTGTTAAGAAAATTTTTCCTTATGGAGCCCAAGTCAGGATAGGTGAAACTAACAGAAGTGGCCTGCTGCATATCTCAAACATCACTCGTGCTCGAATTACTTCTGTTGGCGACCTACTTTCTGTTAATGAGAAGATCAAAGTTCTAGTGGTGAAGTCGATGTTTCCTGATAAAATATCTCTCAGCATTGCAGACCTTGAGAGCGAGCCTGGCCTCTTTGTATCAAACAAAGAGAAATTTTTTTCAGAGGCTGAATTGATGGCAAAAAGTATAGGCAAAAGCTGCCTGCTGTTCTATCTCGTAGTAATGAAAACGAAGCCAAGGCTTAAGGTTGCCCTATGGTATCTGAAATATGAAGAGGACTGTTTGACTGCCCACCATGCTTCTCACATCCCTTAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko03010 map03010
Pfam Domains
Protein Families
S1

Protein Analysis

512

Amino Acids

57.56

Weight (kDa)

5.44

Isoelectric Point (pI)

40.17

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
S1 PF00575 373 - 432 2.2e-08 S1 RNA binding 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: OG0013437)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G71720 AT1G71720
fragaria_vesca FvH4_2g12900
malus_domestica MD05G1034600.v1.1
prunus_persica Prupe.8G042900_v2.0.a1 Prupe.8G042900_v2.0.a1
pyrus_communis pycom05g02520
rosa_chinensis RchiOBHm_Chr6g0274001
rosa_laevigata RLG00000013585
rosa_multiflora Rmu_sc0000045.1_g000088 Rmu_sc0002247.1_g000020
rosa_roxburghii Rroxscaffold_7G00194800
rosa_rugosa Rorug06G0078200
rosa_samantha Rh6AG193800 Rh6BG197400 Rh6CG197300 Rh6DG189200
rosa_wichuraiana Rw6G016900

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 2 cut(s) 736, 858
AccBSI CCGCTC 1 cut(s) 732
AccII CGCG 1 cut(s) 194
AciI CCGC 5 cut(s) 56, 732, 810, 835, 844
AcoI YGGCCR 1 cut(s) 186
AcsI RAATTY 3 cut(s) 683, 1152, 1376
AcuI CTGAAG 1 cut(s) 312
AdeI CACNNNGTG 1 cut(s) 865
AfaI GTAC 3 cut(s) 235, 506, 601
AfiI CCNNNNNNNGG 5 cut(s) 132, 521, 746, 1120, 1176
AflII CTTAAG 1 cut(s) 1466
AgsI TTSAA 2 cut(s) 70, 379
AjnI CCWGG 1 cut(s) 1348
AluBI AGCT 8 cut(s) 277, 568, 725, 959, 974, 1009, 1097, 1422
AluI AGCT 8 cut(s) 277, 568, 725, 959, 974, 1009, 1097, 1422
Alw21I GWGCWC 1 cut(s) 1234
Alw26I GTCTC 1 cut(s) 33
AlwNI CAGNNNCTG 1 cut(s) 1391
AoxI GGCC 5 cut(s) 186, 815, 928, 1201, 1351
ApeKI GCWGC 2 cut(s) 1207, 1422
ApoI RAATTY 3 cut(s) 683, 1152, 1376
Asp700I GAANNNNTTC 2 cut(s) 383, 1240
AspLEI GCGC 1 cut(s) 370
AspS9I GGNCC 1 cut(s) 816
AsuC2I CCSGG 2 cut(s) 522, 747
AsuHPI GGTGA 4 cut(s) 440, 536, 1196, 1303
BaeGI GKGCMC 1 cut(s) 739
BanI GGYRCC 2 cut(s) 736, 858
BanII GRGCYC 1 cut(s) 1171
BauI CACGAG 1 cut(s) 1227
Bbv12I GWGCWC 1 cut(s) 1234
BbvCI CCTCAGC 1 cut(s) 786
BbvI GCAGC 2 cut(s) 1194, 1409
BccI CCATC 6 cut(s) 95, 197, 246, 637, 697, 1393
BcgI CGANNNNNNTGC 2 cut(s) 1031, 1065
BciT130I CCWGG 1 cut(s) 1350
BcnI CCSGG 2 cut(s) 522, 747
BcoDI GTCTC 1 cut(s) 33
BfaI CTAG 3 cut(s) 204, 596, 1286
BfoI RGCGCY 1 cut(s) 371
BfrI CTTAAG 1 cut(s) 1466
BisI GCNGC 3 cut(s) 836, 1208, 1423
BlpI GCTNAGC 1 cut(s) 806
BlsI GCNGC 3 cut(s) 837, 1209, 1424
BmcAI AGTACT 1 cut(s) 506
Bme1390I CCNGG 3 cut(s) 522, 747, 1350
BmgT120I GGNCC 1 cut(s) 816
BmiI GGNNCC 3 cut(s) 738, 860, 1168
BmrFI CCNGG 3 cut(s) 522, 747, 1350
BmrI ACTGGG 1 cut(s) 296
BmsI GCATC 1 cut(s) 1016
BmuI ACTGGG 1 cut(s) 296
BpmI CTGGAG 1 cut(s) 945
Bpu10I CCTNAGC 1 cut(s) 786
Bpu1102I GCTNAGC 1 cut(s) 806
BpuEI CTTGAG 2 cut(s) 299, 1358
BpuMI CCSGG 2 cut(s) 522, 747
BsaJI CCNNGG 2 cut(s) 746, 1460
BsaXI ACNNNNNCTCC 2 cut(s) 1158, 1188
Bsc4I CCNNNNNNNGG 5 cut(s) 132, 521, 746, 1120, 1176
Bse1I ACTGG 3 cut(s) 302, 772, 928
Bse3DI GCAATG 1 cut(s) 1326
BseBI CCWGG 1 cut(s) 1350
BseDI CCNNGG 2 cut(s) 746, 1460
BseGI GGATG 4 cut(s) 87, 472, 1031, 1530
BseLI CCNNNNNNNGG 5 cut(s) 132, 521, 746, 1120, 1176
BseMI GCAATG 1 cut(s) 1326
BseMII CTCAG 4 cut(s) 777, 820, 966, 1336
BseNI ACTGG 3 cut(s) 302, 772, 928
BseRI GAGGAG 2 cut(s) 464, 494
BseSI GKGCMC 1 cut(s) 739
BseXI GCAGC 2 cut(s) 1194, 1409
BsgI GTGCAG 1 cut(s) 1061
Bsh1236I CGCG 1 cut(s) 194
Bsh1285I CGRYCG 1 cut(s) 814
BshFI GGCC 5 cut(s) 188, 817, 930, 1203, 1353
BshNI GGYRCC 2 cut(s) 736, 858
BsiEI CGRYCG 1 cut(s) 814
BsiHKAI GWGCWC 1 cut(s) 1234
BsiSI CCGG 2 cut(s) 521, 746
BslFI GGGAC 1 cut(s) 1153
BslI CCNNNNNNNGG 5 cut(s) 132, 521, 746, 1120, 1176
BsmAI GTCTC 1 cut(s) 33
BsmFI GGGAC 1 cut(s) 1153
BsnI GGCC 5 cut(s) 188, 817, 930, 1203, 1353
Bsp1286I GDGCHC 3 cut(s) 739, 1171, 1234
Bsp143I GATC 2 cut(s) 1044, 1275
Bsp1720I GCTNAGC 1 cut(s) 806
BspACI CCGC 5 cut(s) 56, 732, 810, 835, 844
BspANI GGCC 5 cut(s) 188, 817, 930, 1203, 1353
BspCNI CTCAG 4 cut(s) 778, 819, 967, 1335
BspFNI CGCG 1 cut(s) 194
BspLI GGNNCC 3 cut(s) 738, 860, 1168
BspQI GCTCTTC 2 cut(s) 267, 845
BspT107I GGYRCC 2 cut(s) 736, 858
BspTI CTTAAG 1 cut(s) 1466
BsrBI CCGCTC 1 cut(s) 732
BsrDI GCAATG 1 cut(s) 1326
BsrI ACTGG 3 cut(s) 302, 772, 928
BssECI CCNNGG 2 cut(s) 746, 1460
BssMI GATC 2 cut(s) 1044, 1275
BssSI CACGAG 1 cut(s) 1227
BssT1I CCWWGG 1 cut(s) 1460
Bst2BI CACGAG 1 cut(s) 1227
Bst2UI CCWGG 1 cut(s) 1350
Bst4CI ACNGT 2 cut(s) 1144, 1505
Bst6I CTCTTC 3 cut(s) 267, 845, 1491
BstAFI CTTAAG 1 cut(s) 1466
BstAPI GCANNNNNTGC 1 cut(s) 1422
BstC8I GCNNGC 4 cut(s) 957, 1205, 1346, 1427
BstDEI CTNAG 9 cut(s) 77, 612, 786, 806, 975, 1075, 1115, 1132, 1322
BstENI CCTNNNNNAGG 1 cut(s) 1118
BstF5I GGATG 4 cut(s) 87, 472, 1031, 1530
BstFNI CGCG 1 cut(s) 194
BstH2I RGCGCY 1 cut(s) 371
BstHHI GCGC 1 cut(s) 370
BstKTI GATC 2 cut(s) 1047, 1278
BstMAI GTCTC 1 cut(s) 33
BstMBI GATC 2 cut(s) 1044, 1275
BstMCI CGRYCG 1 cut(s) 814
BstMWI GCNNNNNNNGC 7 cut(s) 283, 292, 751, 877, 1350, 1422, 1520
BstNI CCWGG 1 cut(s) 1350
BstSCI CCNGG 3 cut(s) 520, 745, 1348
BstSLI GKGCMC 1 cut(s) 739
BstUI CGCG 1 cut(s) 194
BstV1I GCAGC 2 cut(s) 1194, 1409
BsuRI GGCC 5 cut(s) 188, 817, 930, 1203, 1353
BtgZI GCGATG 1 cut(s) 175
BtsCI GGATG 4 cut(s) 87, 472, 1031, 1530
BtsIMutI CAGTG 1 cut(s) 408
Cac8I GCNNGC 4 cut(s) 957, 1205, 1346, 1427
CaiI CAGNNNCTG 1 cut(s) 1391
CfoI GCGC 1 cut(s) 370
Cfr13I GGNCC 1 cut(s) 816
Csp6I GTAC 3 cut(s) 234, 505, 600
CviAII CATG 1 cut(s) 1520
CviQI GTAC 3 cut(s) 234, 505, 600
DdeI CTNAG 9 cut(s) 77, 612, 786, 806, 975, 1075, 1115, 1132, 1322
DpnI GATC 2 cut(s) 1046, 1277
DpnII GATC 2 cut(s) 1044, 1275
DraIII CACNNNGTG 1 cut(s) 865
EaeI YGGCCR 1 cut(s) 186
Eam1104I CTCTTC 3 cut(s) 267, 845, 1491
EarI CTCTTC 3 cut(s) 267, 845, 1491
Eco130I CCWWGG 1 cut(s) 1460
Eco147I AGGCCT 1 cut(s) 930
Eco24I GRGCYC 1 cut(s) 1171
Eco57I CTGAAG 1 cut(s) 312
EcoNI CCTNNNNNAGG 1 cut(s) 1118
EcoRII CCWGG 1 cut(s) 1348
EcoT14I CCWWGG 1 cut(s) 1460
EcoT38I GRGCYC 1 cut(s) 1171
ErhI CCWWGG 1 cut(s) 1460
FaeI CATG 1 cut(s) 1523
FalI AAGNNNNNCTT 4 cut(s) 1058, 1090, 1081, 1113
FaqI GGGAC 1 cut(s) 1153
FatI CATG 1 cut(s) 1519
FauI CCCGC 1 cut(s) 725
Fnu4HI GCNGC 3 cut(s) 836, 1208, 1423
FokI GGATG 4 cut(s) 74, 479, 1038, 1517
FriOI GRGCYC 1 cut(s) 1171
Fsp4HI GCNGC 3 cut(s) 836, 1208, 1423
FspBI CTAG 3 cut(s) 204, 596, 1286
GlaI GCGC 1 cut(s) 369
GluI GCNGC 3 cut(s) 836, 1208, 1423
GsuI CTGGAG 1 cut(s) 945
HaeII RGCGCY 1 cut(s) 371
HaeIII GGCC 5 cut(s) 188, 817, 930, 1203, 1353
HapII CCGG 2 cut(s) 521, 746
HhaI GCGC 1 cut(s) 370
Hin1II CATG 1 cut(s) 1523
Hin6I GCGC 1 cut(s) 368
HinP1I GCGC 1 cut(s) 368
HincII GTYRAC 1 cut(s) 609
HindII GTYRAC 1 cut(s) 609
HindIII AAGCTT 2 cut(s) 566, 1095
HinfI GANTC 5 cut(s) 44, 103, 147, 344, 398
HpaII CCGG 2 cut(s) 521, 746
HphI GGTGA 4 cut(s) 440, 536, 1196, 1303
Hpy166II GTNNAC 3 cut(s) 16, 609, 994
Hpy188I TCNGA 5 cut(s) 177, 231, 331, 1387, 1488
Hpy188III TCNNGA 4 cut(s) 41, 715, 1177, 1307
Hpy8I GTNNAC 3 cut(s) 16, 609, 994
HpyAV CCTTC 5 cut(s) 306, 484, 941, 974, 1130
HpyCH4III ACNGT 2 cut(s) 1144, 1505
HpyCH4IV ACGT 1 cut(s) 1020
HpyCH4V TGCA 3 cut(s) 1042, 1210, 1331
HpyF10VI GCNNNNNNNGC 7 cut(s) 283, 292, 751, 877, 1350, 1422, 1520
HpyF3I CTNAG 9 cut(s) 77, 612, 786, 806, 975, 1075, 1115, 1132, 1322
HpySE526I ACGT 1 cut(s) 1020
Hsp92II CATG 1 cut(s) 1523
HspAI GCGC 1 cut(s) 368
Kzo9I GATC 2 cut(s) 1044, 1275
LguI GCTCTTC 2 cut(s) 267, 845
LmnI GCTCC 2 cut(s) 1006, 1166
Lsp1109I GCAGC 2 cut(s) 1194, 1409
LweI GCATC 1 cut(s) 1016
MaeI CTAG 3 cut(s) 204, 596, 1286
MaeII ACGT 1 cut(s) 1020
MaeIII GTNAC 1 cut(s) 621
MalI GATC 2 cut(s) 1046, 1277
MbiI CCGCTC 1 cut(s) 732
MboI GATC 2 cut(s) 1044, 1275
MboII GAAGA 8 cut(s) 58, 275, 284, 428, 712, 832, 1285, 1508
MhlI GDGCHC 3 cut(s) 739, 1171, 1234
MlyI GAGTC 2 cut(s) 38, 141
MmeI TCCRAC 1 cut(s) 140
MroXI GAANNNNTTC 2 cut(s) 383, 1240
MseI TTAA 7 cut(s) 60, 980, 1109, 1146, 1266, 1467, 1537
MspA1I CMGCKG 1 cut(s) 810
MspCI CTTAAG 1 cut(s) 1466
MspI CCGG 2 cut(s) 521, 746
MspR9I CCNGG 3 cut(s) 522, 747, 1350
MvaI CCWGG 1 cut(s) 1350
MvnI CGCG 1 cut(s) 194
MwoI GCNNNNNNNGC 7 cut(s) 283, 292, 751, 877, 1350, 1422, 1520
NciI CCSGG 2 cut(s) 522, 747
NdeII GATC 2 cut(s) 1044, 1275
NlaIII CATG 1 cut(s) 1523
NlaIV GGNNCC 3 cut(s) 738, 860, 1168
PceI AGGCCT 1 cut(s) 930
PciSI GCTCTTC 2 cut(s) 267, 845
PcsI WCGNNNNNNNCGW 1 cut(s) 191
PdmI GAANNNNTTC 2 cut(s) 383, 1240
PfeI GAWTC 3 cut(s) 103, 344, 398
PkrI GCNGC 3 cut(s) 837, 1209, 1424
PleI GAGTC 2 cut(s) 38, 141
PpsI GAGTC 2 cut(s) 38, 141
Psp6I CCWGG 1 cut(s) 1348
PspGI CCWGG 1 cut(s) 1348
PspN4I GGNNCC 3 cut(s) 738, 860, 1168
PspPI GGNCC 1 cut(s) 816
PstNI CAGNNNCTG 1 cut(s) 1391
RsaI GTAC 3 cut(s) 235, 506, 601
RsaNI GTAC 3 cut(s) 234, 505, 600
SapI GCTCTTC 2 cut(s) 267, 845
SaqAI TTAA 7 cut(s) 60, 980, 1109, 1146, 1266, 1467, 1537
SatI GCNGC 3 cut(s) 836, 1208, 1423
Sau3AI GATC 2 cut(s) 1044, 1275
Sau96I GGNCC 1 cut(s) 816
ScaI AGTACT 1 cut(s) 506
SchI GAGTC 2 cut(s) 38, 141
ScrFI CCNGG 3 cut(s) 522, 747, 1350
SduI GDGCHC 3 cut(s) 739, 1171, 1234
SfaNI GCATC 1 cut(s) 1016
SmlI CTYRAG 3 cut(s) 278, 1337, 1466
SmoI CTYRAG 3 cut(s) 278, 1337, 1466
SseBI AGGCCT 1 cut(s) 930
SsiI CCGC 5 cut(s) 56, 732, 810, 835, 844
SspMI CTAG 3 cut(s) 204, 596, 1286
StuI AGGCCT 1 cut(s) 930
StyD4I CCNGG 3 cut(s) 520, 745, 1348
StyI CCWWGG 1 cut(s) 1460
TaaI ACNGT 2 cut(s) 1144, 1505
TaiI ACGT 1 cut(s) 1023
TaqI TCGA 8 cut(s) 101, 219, 678, 694, 827, 1051, 1234, 1298
TatI WGTACW 1 cut(s) 504
TauI GCSGC 1 cut(s) 838
TfiI GAWTC 3 cut(s) 103, 344, 398
Tru1I TTAA 7 cut(s) 60, 980, 1109, 1146, 1266, 1467, 1537
Tru9I TTAA 7 cut(s) 60, 980, 1109, 1146, 1266, 1467, 1537
TscAI CASTG 1 cut(s) 408
TseI GCWGC 2 cut(s) 1207, 1422
TspDTI ATGAA 6 cut(s) 447, 486, 525, 903, 1463, 1509
TspGWI ACGGA 1 cut(s) 264
TspRI CASTG 1 cut(s) 408
Vha464I CTTAAG 1 cut(s) 1466
XagI CCTNNNNNAGG 1 cut(s) 1118
XapI RAATTY 3 cut(s) 683, 1152, 1376
XmnI GAANNNNTTC 2 cut(s) 383, 1240
XspI CTAG 3 cut(s) 204, 596, 1286
ZrmI AGTACT 1 cut(s) 506
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.