Rh5AG196100

No description available

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5A
OG0000268
Physical Location & Seq
Reverse (-)
22792348 .. 22795008
2661 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5AG196100.1

Sequence Viewer

Length: 1380 bp
ATGGCGCCGAAGAAAATAAAAGACGACAAAGCAATCAATTCTGGTGAAGCGGCCAAAAACAAGAAGGTGACGGTTGGCCGATATGCGCTCAACCGATACCTGAAAATTCAAGCTGATGAGAAAAAGGCAAAGATAGATAATAAGTTCAGAAAAGAGGTTGCTTTTCAATGGCATACGTTGAACCCTAATCAGAAGGGCGAATATTTTGTTCCAAACTCGAATGATTCCAATGCAATTCCTAAGTGTGCGGTCTTTCAAGCAGAAGAAATCAAGATACATGTGCGGTTGCGTCCTCTTTTTACACTTTATTATTACAATATTGTTGCATATGGGAGAGCTCTTATAGATTATTCAAGGCCTCCTATTACTGTTTGGGGTGAAAAGGAGTCATCAAAATTAATTAAGTGGATCTCAAAAAAAGGAGGTTATGAAAGTCTTGATGTTAATCTAGTTCCCAAAATTGATATTGTGAAGACACATGAGCATGAAGTGGGAGATATGTATGCTTTGAAAAATGATGTAGAATCTTTGAAGAATGCTGTTTGTAATATTGACAAATCAGTTGACGAGCTGAAAGGTGTTGTTGGTACCATTCTTCCAAATGTTGTGGGAGAGCTAAAAGGTGTTTTTGGTAGTAATACGATGACAAACGCTTTGGGGGATTTGAAAGAGGAATTTTTCAAAGTGATAAATGAACTGAAAGAGCATGAAGTGGGAGATATGTCTACTTTGAAAAATGATATAGAATCTTTAAAGAATGTTGTTTGTAATATTGACAAATCAGTTGATGAGCTGAAAGGTGTTGTTGGTACCATTCTTCCAAATGTTGTGGGAGAGCTGAAAGGTGTTTTTGGTAGTAATACGATGACAAACGCTTTGGGGGACCTGAAAGAGGAATTTTTCAAAGCGATAAATGAACTGAAAGAGCCATATGTCAAGGAAGATCTAGTTGCTTCTTCATGTCAGATATTAAGCGAAGATGACATTGAGCCACCAAATATCGAGGTCAAGGCTAGGGAACCTAGCACCAAAAAAACAATTATAAAGAAGGGGGCCTCATCGAATGATATTAGTCCAAAGAATCTTCGACGCACTGTTGAAAGAAAGCCTGGCCATCAAATCTCAAGTCCATTTGTGCATTTAGGGAAGTTGGAAGTGATGGGGAATAAAATAGATCTTTTAACTACAAAACTTATGGAGGATAAGCCAAGAAAGCTGCAAGATATTAGTCCTTTCACAGGGTGTCGTGATCTTTATGATGACGACGTATATTTGATCGCGTTTGTATTTCTGGAATCAGAAGATCTAGATTTCAGAATTTTTCAAACTGATTATGAACATCTTGACCGTTCGGCAATGAAATGCCTAGAGCCAGGGTGA
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
HMG_box

Protein Analysis

459

Amino Acids

51.72

Weight (kDa)

6.32

Isoelectric Point (pI)

31.58

Instability Index
Protein Domains (Pfam)
No Pfam domains detected for this protein.
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: OG0000268)

Species Orthologous Gene IDs
fragaria_vesca FvH4_1g23642 FvH4_2g09911 FvH4_2g09911 FvH4_2g09911 FvH4_3g18421 FvH4_4g05321 FvH4_6g28332 FvH4_7g31231
prunus_persica Prupe.2G063700_v2.0.a1 Prupe.5G238300_v2.0.a1 Prupe.6G153700_v2.0.a1 Prupe.7G017400_v2.0.a1 Prupe.7G070100_v2.0.a1 Prupe.7G070100_v2.0.a1
rosa_chinensis RchiOBHm_Chr1g0345471 RchiOBHm_Chr1g0366901 RchiOBHm_Chr2g0162601 RchiOBHm_Chr6g0266661 RchiOBHm_Chr6g0266671
rosa_laevigata RLG00000005047 RLG00000007971 RLG00000008530 RLG00000009009 RLG00000009046 RLG00000014086 RLG00000017162 RLG00000017163 RLG00000017440 RLG00000019098 RLG00000022623 RLG00000024566 RLG00000027733 RLG00000029878 RLG00000029945 RLG00000030127 RLG00000030157 RLG00000031078 RLG00000031080 RLG00000034338 RLG00000034670
rosa_multiflora Rmu_sc0002106.1_g000007 Rmu_sc0002531.1_g000064 Rmu_sc0003433.1_g000005 Rmu_sc0004704.1_g000001 Rmu_sc0004704.1_g000002 Rmu_sc0004888.1_g000042 Rmu_sc0005599.1_g000031 Rmu_sc0006413.1_g000014 Rmu_sc0006413.1_g000018
rosa_roxburghii Rroxscaffold_1G00031940 Rroxscaffold_1G00032500 Rroxscaffold_1G00074770 Rroxscaffold_1G00074780 Rroxscaffold_1G00075150 Rroxscaffold_2G00125060 Rroxscaffold_2G00125070 Rroxscaffold_2G00125800 Rroxscaffold_2G00125820 Rroxscaffold_2G00139560 Rroxscaffold_2G00140550 Rroxscaffold_4G00314090 Rroxscaffold_6G00390050 Rroxscaffold_6G00390520 Rroxscaffold_6G00390530 Rroxscaffold_6G00428030 Rroxscaffold_7G00201570 Rroxscaffold_7G00201580 Rroxscaffold_7G00207070 Rroxscaffold_7G00207080 Rroxscaffold_7G00207240
rosa_rugosa Rorug01G0408000 Rorug01G0408100 Rorug01G0408100 Rorug01G0408200 Rorug02G0155200 Rorug02G0181500 Rorug02G0288400 Rorug03G0208600 Rorug03G0272300 Rorug06G0005500 Rorug06G0005600 Rorug06G0026300.1 Rorug06G0026400 Rorug06G0026500 Rorug06G0026600 Rorug06G0026600 Rorug06G0026600 Rorug06G0145800 Rorug07G0305200
rosa_samantha Rh1AG062100 Rh1BG131900 Rh1BG157000 Rh1CG021100 Rh1CG321600 Rh1DG188200 Rh2DG388300 Rh3AG320500 Rh3BG355400 Rh3CG352400 Rh3CG353200 Rh4AG045800 Rh4DG171700 Rh5AG196000 Rh5AG196100 Rh5CG346800 Rh6BG147600 Rh6BG147700 Rh6CG143200 Rh6CG143500 Rh6CG174600 Rh6CG391800 Rh6DG132100 Rh6DG132300 Rh6DG167100 Rh6DG167200 Rh7AG211600 Rh7BG307000 Rh7BG307300 Rh7BG398300
rosa_wichuraiana Rw0G001830 Rw0G001840 Rw0G018160 Rw0G018170 Rw3G028040 Rw5G017860 Rw5G026710 Rw6G012630 Rw6G012650 Rw6G012780 Rw6G012800 Rw7G019130

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 1043
Acc65I GGTACC 2 cut(s) 587, 809
AccB1I GGYRCC 3 cut(s) 4, 587, 809
AccI GTMKAC 1 cut(s) 725
AccII CGCG 1 cut(s) 1280
AciI CCGC 3 cut(s) 50, 248, 283
AclWI GGATC 1 cut(s) 416
AcoI YGGCCR 3 cut(s) 51, 76, 1111
AcsI RAATTY 4 cut(s) 105, 674, 896, 1317
AcyI GRCGYC 1 cut(s) 5
AdeI CACNNNGTG 1 cut(s) 1242
AfaI GTAC 2 cut(s) 589, 811
AfiI CCNNNNNNNGG 2 cut(s) 892, 1238
AflIII ACRYGT 1 cut(s) 277
AjnI CCWGG 2 cut(s) 1108, 1372
AluBI AGCT 7 cut(s) 113, 338, 571, 616, 793, 838, 1216
AluI AGCT 7 cut(s) 113, 338, 571, 616, 793, 838, 1216
Alw21I GWGCWC 1 cut(s) 340
AlwI GGATC 1 cut(s) 416
AoxI GGCC 5 cut(s) 51, 76, 356, 1053, 1111
ApeKI GCWGC 1 cut(s) 1216
ApoI RAATTY 4 cut(s) 105, 674, 896, 1317
ArsI GACNNNNNNTTYG 6 cut(s) 637, 669, 859, 891, 1111, 1143
AseI ATTAAT 1 cut(s) 398
Asp718I GGTACC 2 cut(s) 587, 809
AspLEI GCGC 2 cut(s) 7, 88
AspS9I GGNCC 2 cut(s) 883, 1053
AsuHPI GGTGA 3 cut(s) 56, 79, 389
AvaII GGWCC 1 cut(s) 883
BalI TGGCCA 1 cut(s) 1113
BanI GGYRCC 3 cut(s) 4, 587, 809
BanII GRGCYC 1 cut(s) 340
BbsI GAAGAC 1 cut(s) 479
Bbv12I GWGCWC 1 cut(s) 340
BbvI GCAGC 1 cut(s) 1203
BccI CCATC 2 cut(s) 1122, 1153
BciT130I CCWGG 2 cut(s) 1110, 1374
BfaI CTAG 6 cut(s) 449, 947, 1014, 1023, 1307, 1367
BfoI RGCGCY 1 cut(s) 8
BglII AGATCT 3 cut(s) 943, 1174, 1303
BisI GCNGC 2 cut(s) 51, 1217
BlsI GCNGC 2 cut(s) 52, 1218
Bme1390I CCNGG 2 cut(s) 1110, 1374
Bme18I GGWCC 1 cut(s) 883
BmgT120I GGNCC 2 cut(s) 883, 1053
BmiI GGNNCC 6 cut(s) 6, 589, 811, 884, 1020, 1054
BmrFI CCNGG 2 cut(s) 1110, 1374
BpiI GAAGAC 1 cut(s) 479
BpuEI CTTGAG 1 cut(s) 1108
BsaBI GATNNNNATC 1 cut(s) 444
BsaHI GRCGYC 1 cut(s) 5
BsaJI CCNNGG 1 cut(s) 1373
Bsc4I CCNNNNNNNGG 2 cut(s) 892, 1238
Bse3DI GCAATG 1 cut(s) 1362
Bse8I GATNNNNATC 1 cut(s) 444
BseBI CCWGG 2 cut(s) 1110, 1374
BseDI CCNNGG 1 cut(s) 1373
BseJI GATNNNNATC 1 cut(s) 444
BseLI CCNNNNNNNGG 2 cut(s) 892, 1238
BseMI GCAATG 1 cut(s) 1362
BseXI GCAGC 1 cut(s) 1203
Bsh1236I CGCG 1 cut(s) 1280
BshFI GGCC 5 cut(s) 53, 78, 358, 1055, 1113
BshNI GGYRCC 3 cut(s) 4, 587, 809
BsiHKAI GWGCWC 1 cut(s) 340
BslFI GGGAC 1 cut(s) 896
BslI CCNNNNNNNGG 2 cut(s) 892, 1238
BsmFI GGGAC 1 cut(s) 896
BsmI GAATGC 1 cut(s) 541
BsnI GGCC 5 cut(s) 53, 78, 358, 1055, 1113
Bsp1286I GDGCHC 1 cut(s) 340
Bsp143I GATC 6 cut(s) 408, 943, 1174, 1249, 1275, 1303
BspACI CCGC 3 cut(s) 50, 248, 283
BspANI GGCC 5 cut(s) 53, 78, 358, 1055, 1113
BspFNI CGCG 1 cut(s) 1280
BspLI GGNNCC 6 cut(s) 6, 589, 811, 884, 1020, 1054
BspPI GGATC 1 cut(s) 416
BspT107I GGYRCC 3 cut(s) 4, 587, 809
BsrDI GCAATG 1 cut(s) 1362
BssECI CCNNGG 1 cut(s) 1373
BssMI GATC 6 cut(s) 408, 943, 1174, 1249, 1275, 1303
BssNI GRCGYC 1 cut(s) 5
Bst2UI CCWGG 2 cut(s) 1110, 1374
Bst4CI ACNGT 4 cut(s) 73, 370, 1096, 1349
BstACI GRCGYC 1 cut(s) 5
BstDEI CTNAG 1 cut(s) 240
BstENI CCTNNNNNAGG 2 cut(s) 890, 1236
BstFNI CGCG 1 cut(s) 1280
BstH2I RGCGCY 1 cut(s) 8
BstHHI GCGC 2 cut(s) 7, 88
BstKTI GATC 6 cut(s) 411, 946, 1177, 1252, 1278, 1306
BstMBI GATC 6 cut(s) 408, 943, 1174, 1249, 1275, 1303
BstMWI GCNNNNNNNGC 1 cut(s) 1213
BstNI CCWGG 2 cut(s) 1110, 1374
BstNSI RCATGY 1 cut(s) 281
BstSCI CCNGG 2 cut(s) 1108, 1372
BstUI CGCG 1 cut(s) 1280
BstV1I GCAGC 1 cut(s) 1203
BstV2I GAAGAC 1 cut(s) 479
BstX2I RGATCY 4 cut(s) 408, 943, 1174, 1303
BstYI RGATCY 4 cut(s) 408, 943, 1174, 1303
BsuRI GGCC 5 cut(s) 53, 78, 358, 1055, 1113
BtsIMutI CAGTG 1 cut(s) 1092
CfoI GCGC 2 cut(s) 7, 88
Cfr13I GGNCC 2 cut(s) 883, 1053
CseI GACGC 2 cut(s) 278, 1098
Csp6I GTAC 2 cut(s) 588, 810
CspCI CAANNNNNGTGG 4 cut(s) 588, 623, 810, 845
CviAII CATG 5 cut(s) 278, 479, 485, 707, 960
CviQI GTAC 2 cut(s) 588, 810
DdeI CTNAG 1 cut(s) 240
DinI GGCGCC 1 cut(s) 6
DpnI GATC 6 cut(s) 410, 945, 1176, 1251, 1277, 1305
DpnII GATC 6 cut(s) 408, 943, 1174, 1249, 1275, 1303
DraI TTTAAA 1 cut(s) 753
DraIII CACNNNGTG 1 cut(s) 1242
EaeI YGGCCR 3 cut(s) 51, 76, 1111
Ecl136II GAGCTC 1 cut(s) 338
Eco147I AGGCCT 1 cut(s) 358
Eco24I GRGCYC 1 cut(s) 340
Eco47I GGWCC 1 cut(s) 883
Eco53kI GAGCTC 1 cut(s) 338
EcoICRI GAGCTC 1 cut(s) 338
EcoNI CCTNNNNNAGG 2 cut(s) 890, 1236
EcoO109I RGGNCCY 2 cut(s) 883, 1053
EcoRII CCWGG 2 cut(s) 1108, 1372
EcoT38I GRGCYC 1 cut(s) 340
EgeI GGCGCC 1 cut(s) 6
EheI GGCGCC 1 cut(s) 6
FaeI CATG 5 cut(s) 281, 482, 488, 710, 963
FaqI GGGAC 1 cut(s) 896
FatI CATG 5 cut(s) 277, 478, 484, 706, 959
FauNDI CATATG 2 cut(s) 328, 931
FblI GTMKAC 1 cut(s) 725
Fnu4HI GCNGC 2 cut(s) 51, 1217
FriOI GRGCYC 1 cut(s) 340
Fsp4HI GCNGC 2 cut(s) 51, 1217
FspBI CTAG 6 cut(s) 449, 947, 1014, 1023, 1307, 1367
GlaI GCGC 2 cut(s) 6, 87
GluI GCNGC 2 cut(s) 51, 1217
HaeII RGCGCY 1 cut(s) 8
HaeIII GGCC 5 cut(s) 53, 78, 358, 1055, 1113
HgaI GACGC 2 cut(s) 278, 1098
HhaI GCGC 2 cut(s) 7, 88
Hin1I GRCGYC 1 cut(s) 5
Hin1II CATG 5 cut(s) 281, 482, 488, 710, 963
Hin6I GCGC 2 cut(s) 5, 86
HinP1I GCGC 2 cut(s) 5, 86
HincII GTYRAC 1 cut(s) 565
HindII GTYRAC 1 cut(s) 565
HinfI GANTC 6 cut(s) 224, 386, 524, 746, 1081, 1295
HphI GGTGA 3 cut(s) 56, 79, 389
Hpy166II GTNNAC 2 cut(s) 565, 726
Hpy188I TCNGA 5 cut(s) 149, 192, 966, 1300, 1316
Hpy188III TCNNGA 6 cut(s) 271, 437, 1247, 1292, 1307, 1343
Hpy8I GTNNAC 2 cut(s) 565, 726
Hpy99I CGWCG 2 cut(s) 1092, 1268
HpyAV CCTTC 3 cut(s) 58, 187, 1042
HpyCH4III ACNGT 4 cut(s) 73, 370, 1096, 1349
HpyCH4IV ACGT 2 cut(s) 176, 1266
HpyCH4V TGCA 4 cut(s) 233, 326, 1138, 1219
HpyF10VI GCNNNNNNNGC 1 cut(s) 1213
HpyF3I CTNAG 1 cut(s) 240
HpySE526I ACGT 2 cut(s) 176, 1266
Hsp92I GRCGYC 1 cut(s) 5
Hsp92II CATG 5 cut(s) 281, 482, 488, 710, 963
HspAI GCGC 2 cut(s) 5, 86
KasI GGCGCC 1 cut(s) 4
KpnI GGTACC 2 cut(s) 591, 813
Kzo9I GATC 6 cut(s) 408, 943, 1174, 1249, 1275, 1303
LpnPI CCDG 8 cut(s) 27, 113, 899, 1095, 1122, 1224, 1277, 1359
Lsp1109I GCAGC 1 cut(s) 1203
MaeI CTAG 6 cut(s) 449, 947, 1014, 1023, 1307, 1367
MaeII ACGT 2 cut(s) 176, 1266
MaeIII GTNAC 1 cut(s) 67
MalI GATC 6 cut(s) 410, 945, 1176, 1251, 1277, 1305
MboI GATC 6 cut(s) 408, 943, 1174, 1249, 1275, 1303
MflI RGATCY 4 cut(s) 408, 943, 1174, 1303
MhlI GDGCHC 1 cut(s) 340
MlsI TGGCCA 1 cut(s) 1113
MluNI TGGCCA 1 cut(s) 1113
Mly113I GGCGCC 1 cut(s) 5
MlyI GAGTC 1 cut(s) 395
MmeI TCCRAC 1 cut(s) 1131
MnlI CCTC 9 cut(s) 148, 303, 369, 416, 664, 886, 997, 1066, 1192
Mox20I TGGCCA 1 cut(s) 1113
MscI TGGCCA 1 cut(s) 1113
MseI TTAA 6 cut(s) 398, 402, 444, 752, 971, 1181
MslI CAYNNNNRTG 1 cut(s) 483
Msp20I TGGCCA 1 cut(s) 1113
MspR9I CCNGG 2 cut(s) 1110, 1374
Mva1269I GAATGC 1 cut(s) 541
MvaI CCWGG 2 cut(s) 1110, 1374
MvnI CGCG 1 cut(s) 1280
MwoI GCNNNNNNNGC 1 cut(s) 1213
NarI GGCGCC 1 cut(s) 5
NdeI CATATG 2 cut(s) 328, 931
NdeII GATC 6 cut(s) 408, 943, 1174, 1249, 1275, 1303
NlaIII CATG 5 cut(s) 281, 482, 488, 710, 963
NlaIV GGNNCC 6 cut(s) 6, 589, 811, 884, 1020, 1054
NmuCI GTSAC 1 cut(s) 67
NspI RCATGY 1 cut(s) 281
PacI TTAATTAA 1 cut(s) 402
PceI AGGCCT 1 cut(s) 358
PciI ACATGT 1 cut(s) 277
PctI GAATGC 1 cut(s) 541
PfeI GAWTC 5 cut(s) 224, 524, 746, 1081, 1295
PkrI GCNGC 2 cut(s) 52, 1218
PleI GAGTC 1 cut(s) 394
PluTI GGCGCC 1 cut(s) 8
PpsI GAGTC 1 cut(s) 394
PpuMI RGGWCCY 1 cut(s) 883
PscI ACATGT 1 cut(s) 277
PshBI ATTAAT 1 cut(s) 398
PsiI TTATAA 1 cut(s) 1043
Psp124BI GAGCTC 1 cut(s) 340
Psp5II RGGWCCY 1 cut(s) 883
Psp6I CCWGG 2 cut(s) 1108, 1372
PspGI CCWGG 2 cut(s) 1108, 1372
PspN4I GGNNCC 6 cut(s) 6, 589, 811, 884, 1020, 1054
PspPI GGNCC 2 cut(s) 883, 1053
PspPPI RGGWCCY 1 cut(s) 883
PsuI RGATCY 4 cut(s) 408, 943, 1174, 1303
RsaI GTAC 2 cut(s) 589, 811
RsaNI GTAC 2 cut(s) 588, 810
RseI CAYNNNNRTG 1 cut(s) 483
SacI GAGCTC 1 cut(s) 340
SaqAI TTAA 6 cut(s) 398, 402, 444, 752, 971, 1181
SatI GCNGC 2 cut(s) 51, 1217
Sau3AI GATC 6 cut(s) 408, 943, 1174, 1249, 1275, 1303
Sau96I GGNCC 2 cut(s) 883, 1053
SchI GAGTC 1 cut(s) 395
ScrFI CCNGG 2 cut(s) 1110, 1374
SduI GDGCHC 1 cut(s) 340
SfoI GGCGCC 1 cut(s) 6
SinI GGWCC 1 cut(s) 883
SmiMI CAYNNNNRTG 1 cut(s) 483
SmlI CTYRAG 1 cut(s) 1123
SmoI CTYRAG 1 cut(s) 1123
SseBI AGGCCT 1 cut(s) 358
SsiI CCGC 3 cut(s) 50, 248, 283
SspDI GGCGCC 1 cut(s) 4
SspI AATATT 4 cut(s) 203, 319, 550, 772
SspMI CTAG 6 cut(s) 449, 947, 1014, 1023, 1307, 1367
SstI GAGCTC 1 cut(s) 340
StuI AGGCCT 1 cut(s) 358
StyD4I CCNGG 2 cut(s) 1108, 1372
TaaI ACNGT 4 cut(s) 73, 370, 1096, 1349
TaiI ACGT 2 cut(s) 179, 1269
TaqI TCGA 4 cut(s) 218, 1002, 1061, 1087
TauI GCSGC 1 cut(s) 53
TfiI GAWTC 5 cut(s) 224, 524, 746, 1081, 1295
Tru1I TTAA 6 cut(s) 398, 402, 444, 752, 971, 1181
Tru9I TTAA 6 cut(s) 398, 402, 444, 752, 971, 1181
TscAI CASTG 1 cut(s) 1099
TseFI GTSAC 1 cut(s) 67
TseI GCWGC 1 cut(s) 1216
Tsp45I GTSAC 1 cut(s) 67
TspDTI ATGAA 8 cut(s) 444, 501, 708, 723, 930, 948, 1350, 1373
TspRI CASTG 1 cut(s) 1099
VpaK11BI GGWCC 1 cut(s) 883
VspI ATTAAT 1 cut(s) 398
XagI CCTNNNNNAGG 2 cut(s) 890, 1236
XapI RAATTY 4 cut(s) 105, 674, 896, 1317
XbaI TCTAGA 1 cut(s) 1306
XceI RCATGY 1 cut(s) 281
XmiI GTMKAC 1 cut(s) 725
XspI CTAG 6 cut(s) 449, 947, 1014, 1023, 1307, 1367
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.