Rh6AG139900

No description available

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr6A
OG0000269
Physical Location & Seq
Reverse (-)
21544260 .. 21546050
1791 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh6AG139900.1

Sequence Viewer

Length: 1260 bp
ATGTTTCAGTTTCGAGTTGAGATATCTCAAAAATGGAAAGAGCTTCCAGTTGAAGAGAATGAGCAGTATGTAGTGACTGATCGATGTGGTCAGTCATCAGTTTCTGAGGAAGAGTTGCTTGAGTTGGTTCAGATTGATACCCGTTGCTCTCCAGACCGCTTCAGGTCTTTGGTTGCAGATTTTAGTGATGAGAAAAAGGTAGCCTGTTCAGCAATTGGATTTGATGTGTTGTTGAAGATGTCAGGAAGGAAAATTCACCACTCTATGTTGCCTGTCCTTGTGGACTCCGTAGACCCCAATGCATATACTAGAACTATGCACGAAAAGGAGATTGAAATGGATGGAAGTGACTTTGAAAATGTGATGGGGTTGAAGAATGCTGGGTCAGAGGTCGACTTTAAAGGTTCCACTAATGATCACCCTGAGTTGATGGGGATAATAAACTCCTTGTGTGGGAAGGATAAGAAGATCAGTTTAAGGGACGTGCAGAACTACCTGAAGGATACAGAAGAAGTTGACAACAAGTTCAAGCGCCTGTTTGTGCTGTTCACAATGAGCACCATCCTTAGCTCATCTGCCTCACTGACGATACCAAAGAAGTGGCTGCTGGCCCTGAAGGACACTCGCCTGATTAGCTCTTTAAACTGGGCTGATTACTCATTTAAATGTTTGATGGAGGCCATCGGAAAACTGCTTAAATGGGTGAACAAGCAAGGTGGTTTGCTGGATGAAAATGTTATTGTGGCAAAGGTTGGTGATCATGTTGGTAGTGGAGATCAGACCAAAGCATATGGGGTGATTAAGAAAGAAATGTGTGACTTGGCTGCTAAAGTGAATGGGTTGGAAAATAATATGTGCAATCTGAGAGATGATATGATGGGAAAGATGGACAAAGTCTTGAGTATGCTGAACACTCTGACTACACAAAATATGAGTGTCAATGAGAACCTTCAAACTGATGGCTTAACAGAAAAAGTGTTACAGGTACATGGGGAAGACTTGCAACCAAAAAAGAAGACCTCCTTGATTTGCCTATCTGACTCAATATCTATAGTCAGCCCACTGAAAAGTATGAAAAAAGTTGATGCCAACCCCACGACCAAGAGTAATATAGAGAAGATCGGTAACTTCAAAGTCAAGGGAGATCGGGAGGAGGCTGACAAAGGAGTGCTCAGGTTTGTTTATGATGTGTCAGCTGAAGAGAAGGAGACCATTGTGGATAGTGAAAATTTCTTCACTAGTCGAAAAGCAGTTTGGTAA
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

419

Amino Acids

47.13

Weight (kDa)

5.52

Isoelectric Point (pI)

31.71

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
DUF1985 PF09331 109 - 226 1e-05 Domain of unknown function (DUF1985)
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
Loading...
Style Settings
Image
Tree File
Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0000269)

Species Orthologous Gene IDs
fragaria_vesca FvH4_1g29141 FvH4_1g29142 FvH4_2g04882 FvH4_2g04883 FvH4_2g07612 FvH4_3g26550 FvH4_3g26551 FvH4_3g31781 FvH4_3g31810 FvH4_3g31812 FvH4_4g08580 FvH4_4g08581 FvH4_4g08649 FvH4_4g08910 FvH4_4g10124 FvH4_4g10125 FvH4_4g28760 FvH4_5g16042 FvH4_5g24070 FvH4_5g30680 FvH4_5g37871 FvH4_5g37872 FvH4_7g03531 FvH4_7g12891 FvH4_7g12892 FvH4_7g12893
rosa_chinensis RchiOBHm_Chr7g0204351
rosa_laevigata RLG00000001882 RLG00000002339 RLG00000004189 RLG00000009211 RLG00000009212 RLG00000013650 RLG00000019919 RLG00000019920 RLG00000019921 RLG00000020177 RLG00000020178 RLG00000023368 RLG00000028208 RLG00000029086 RLG00000029688 RLG00000032551 RLG00000034335 RLG00000034807
rosa_multiflora Rmu_sc0000308.1_g000017 Rmu_sc0000308.1_g000018 Rmu_sc0003422.1_g000004 Rmu_sc0003776.1_g000026 Rmu_sc0005399.1_g000010 Rmu_sc0005399.1_g000012 Rmu_sc0009924.1_g000004
rosa_roxburghii Rroxscaffold_1G00053720 Rroxscaffold_1G00053730 Rroxscaffold_1G00054020 Rroxscaffold_2G00133470 Rroxscaffold_2G00133480 Rroxscaffold_3G00229920 Rroxscaffold_3G00229930 Rroxscaffold_3G00229940 Rroxscaffold_3G00245890 Rroxscaffold_3G00245900 Rroxscaffold_4G00317860 Rroxscaffold_5G00346620 Rroxscaffold_6G00396640 Rroxscaffold_6G00396930 Rroxscaffold_6G00396940 Rroxscaffold_6G00401510 Rroxscaffold_7G00201920 Rroxscaffold_7G00201930 Rroxscaffold_7G00201940
rosa_rugosa Rorug01G0116700 Rorug01G0116700 Rorug04G0072900 Rorug04G0073000 Rorug04G0112000 Rorug07G0258800
rosa_samantha Rh1AG123800 Rh1AG297000 Rh1DG057400 Rh1DG057500 Rh1DG129000 Rh2BG298000 Rh2BG471200 Rh2BG471300 Rh2BG471400 Rh2BG621400 Rh3CG245500 Rh3CG245600 Rh4DG157200 Rh4DG157300 Rh4DG157400 Rh4DG157500 Rh4DG157600 Rh4DG157700 Rh5DG402200 Rh6AG050900 Rh6AG051000 Rh6AG088400 Rh6AG088500 Rh6AG088600 Rh6AG088700 Rh6AG139800 Rh6AG139900 Rh6AG140000 Rh6CG077200 Rh6CG077300 Rh6CG077400 Rh6CG077500 Rh7CG225300 Rh7CG225400 Rh7CG225500 Rh7CG225600 Rh7CG267500 Rh7CG267600 Rh7CG267800 Rh7CG267900 Rh7CG338700 Rh7CG338800 Rh7CG338900 Rh7CG430900 Rh7CG431000 Rh7CG431100 Rh7DG219700 Rh7DG219800 Rh7DG219900 Rh7DG220000 Rh7DG257600 Rh7DG271500 Rh7DG367700 Rh7DG408600

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccI GTMKAC 2 cut(s) 291, 393
AciI CCGC 1 cut(s) 157
AcsI RAATTY 2 cut(s) 252, 1228
AcuI CTGAAG 4 cut(s) 145, 518, 635, 1218
AfaI GTAC 1 cut(s) 987
AfiI CCNNNNNNNGG 1 cut(s) 453
AgsI TTSAA 8 cut(s) 53, 235, 335, 356, 373, 529, 953, 1132
AhlI ACTAGT 1 cut(s) 1238
AjiI CACGTC 1 cut(s) 484
AjuI GAANNNNNNNTTGG 1 cut(s) 1237
AluBI AGCT 4 cut(s) 43, 570, 636, 1196
AluI AGCT 4 cut(s) 43, 570, 636, 1196
Alw21I GWGCWC 2 cut(s) 560, 1173
Alw26I GTCTC 1 cut(s) 1202
AlwNI CAGNNNCTG 1 cut(s) 104
AoxI GGCC 2 cut(s) 609, 678
ApeKI GCWGC 2 cut(s) 604, 824
ApoI RAATTY 2 cut(s) 252, 1228
AspLEI GCGC 1 cut(s) 534
AspS9I GGNCC 1 cut(s) 610
AsuHPI GGTGA 5 cut(s) 248, 410, 715, 767, 808
BbsI GAAGAC 2 cut(s) 1002, 1022
Bbv12I GWGCWC 2 cut(s) 560, 1173
BbvI GCAGC 2 cut(s) 591, 811
BccI CCATC 9 cut(s) 335, 358, 424, 569, 667, 689, 871, 880, 953
BciVI GTATCC 1 cut(s) 496
BclI TGATCA 2 cut(s) 415, 757
BcoDI GTCTC 1 cut(s) 1202
BcuI ACTAGT 1 cut(s) 1238
BfaI CTAG 2 cut(s) 309, 1239
BfmI CTRYAG 1 cut(s) 1050
BfoI RGCGCY 1 cut(s) 535
BfuI GTATCC 1 cut(s) 496
BisI GCNGC 2 cut(s) 605, 825
BlsI GCNGC 2 cut(s) 606, 826
BmgBI CACGTC 1 cut(s) 484
BmgT120I GGNCC 1 cut(s) 610
BmiI GGNNCC 1 cut(s) 406
BmrI ACTGGG 1 cut(s) 655
BmsI GCATC 1 cut(s) 1075
BmuI ACTGGG 1 cut(s) 655
BpiI GAAGAC 2 cut(s) 1002, 1022
BpmI CTGGAG 1 cut(s) 135
Bpu10I CCTNAGC 2 cut(s) 566, 1172
BpuEI CTTGAG 2 cut(s) 140, 919
Bsa29I ATCGAT 1 cut(s) 82
BsaI GGTCTC 1 cut(s) 1202
Bsc4I CCNNNNNNNGG 1 cut(s) 453
Bse1I ACTGG 2 cut(s) 47, 650
BseCI ATCGAT 1 cut(s) 82
BseGI GGATG 3 cut(s) 346, 561, 733
BseLI CCNNNNNNNGG 1 cut(s) 453
BseMII CTCAG 4 cut(s) 96, 414, 854, 1186
BseNI ACTGG 2 cut(s) 47, 650
BseRI GAGGAG 1 cut(s) 1166
BseXI GCAGC 2 cut(s) 591, 811
BseYI CCCAGC 1 cut(s) 380
BsgI GTGCAG 1 cut(s) 506
BshFI GGCC 2 cut(s) 611, 680
BshVI ATCGAT 1 cut(s) 82
BsiHKAI GWGCWC 2 cut(s) 560, 1173
BslFI GGGAC 1 cut(s) 494
BslI CCNNNNNNNGG 1 cut(s) 453
BsmAI GTCTC 1 cut(s) 1202
BsmFI GGGAC 1 cut(s) 494
BsmI GAATGC 1 cut(s) 382
BsnI GGCC 2 cut(s) 611, 680
Bso31I GGTCTC 1 cut(s) 1202
Bsp1286I GDGCHC 2 cut(s) 560, 1173
Bsp143I GATC 7 cut(s) 79, 415, 468, 757, 775, 1119, 1144
BspACI CCGC 1 cut(s) 157
BspANI GGCC 2 cut(s) 611, 680
BspCNI CTCAG 4 cut(s) 97, 415, 855, 1185
BspDI ATCGAT 1 cut(s) 82
BspLI GGNNCC 1 cut(s) 406
BspTNI GGTCTC 1 cut(s) 1202
BsrI ACTGG 2 cut(s) 47, 650
BssMI GATC 7 cut(s) 79, 415, 468, 757, 775, 1119, 1144
Bst6I CTCTTC 3 cut(s) 48, 105, 1194
BstC8I GCNNGC 1 cut(s) 609
BstDEI CTNAG 5 cut(s) 105, 423, 566, 863, 1172
BstF5I GGATG 3 cut(s) 346, 561, 733
BstH2I RGCGCY 1 cut(s) 535
BstHHI GCGC 1 cut(s) 534
BstKTI GATC 7 cut(s) 82, 418, 471, 760, 778, 1122, 1147
BstMAI GTCTC 1 cut(s) 1202
BstMBI GATC 7 cut(s) 79, 415, 468, 757, 775, 1119, 1144
BstMWI GCNNNNNNNGC 2 cut(s) 209, 633
BstSFI CTRYAG 1 cut(s) 1050
BstV1I GCAGC 2 cut(s) 591, 811
BstV2I GAAGAC 2 cut(s) 1002, 1022
BstXI CCANNNNNNTGG 1 cut(s) 600
Bsu15I ATCGAT 1 cut(s) 82
BsuI GTATCC 1 cut(s) 496
BsuRI GGCC 2 cut(s) 611, 680
BsuTUI ATCGAT 1 cut(s) 82
BtrI CACGTC 1 cut(s) 484
BtsCI GGATG 3 cut(s) 346, 561, 733
BtsIMutI CAGTG 2 cut(s) 581, 1061
Cac8I GCNNGC 1 cut(s) 609
CaiI CAGNNNCTG 1 cut(s) 104
CfoI GCGC 1 cut(s) 534
Cfr13I GGNCC 1 cut(s) 610
ClaI ATCGAT 1 cut(s) 82
Csp6I GTAC 1 cut(s) 986
CspCI CAANNNNNGTGG 2 cut(s) 697, 732
CviAII CATG 2 cut(s) 761, 989
CviQI GTAC 1 cut(s) 986
DdeI CTNAG 5 cut(s) 105, 423, 566, 863, 1172
DpnI GATC 7 cut(s) 81, 417, 470, 759, 777, 1121, 1146
DpnII GATC 7 cut(s) 79, 415, 468, 757, 775, 1119, 1144
DraI TTTAAA 3 cut(s) 400, 642, 664
Eam1104I CTCTTC 3 cut(s) 48, 105, 1194
EarI CTCTTC 3 cut(s) 48, 105, 1194
Eco31I GGTCTC 1 cut(s) 1202
Eco32I GATATC 1 cut(s) 24
Eco57I CTGAAG 4 cut(s) 145, 518, 635, 1218
EcoRV GATATC 1 cut(s) 24
EcoT22I ATGCAT 1 cut(s) 304
FaeI CATG 2 cut(s) 764, 992
FalI AAGNNNNNCTT 4 cut(s) 102, 134, 1007, 1039
FaqI GGGAC 1 cut(s) 494
FatI CATG 2 cut(s) 760, 988
FauNDI CATATG 1 cut(s) 790
FbaI TGATCA 2 cut(s) 415, 757
FblI GTMKAC 2 cut(s) 291, 393
Fnu4HI GCNGC 2 cut(s) 605, 825
FokI GGATG 3 cut(s) 353, 548, 740
Fsp4HI GCNGC 2 cut(s) 605, 825
FspBI CTAG 2 cut(s) 309, 1239
GlaI GCGC 1 cut(s) 533
GluI GCNGC 2 cut(s) 605, 825
GsaI CCCAGC 1 cut(s) 384
GsuI CTGGAG 1 cut(s) 135
HaeII RGCGCY 1 cut(s) 535
HaeIII GGCC 2 cut(s) 611, 680
HhaI GCGC 1 cut(s) 534
Hin1II CATG 2 cut(s) 764, 992
Hin6I GCGC 1 cut(s) 532
HinP1I GCGC 1 cut(s) 532
HincII GTYRAC 2 cut(s) 394, 517
HindII GTYRAC 2 cut(s) 394, 517
HinfI GANTC 2 cut(s) 284, 1040
HphI GGTGA 5 cut(s) 248, 410, 715, 767, 808
Hpy166II GTNNAC 6 cut(s) 283, 292, 394, 517, 549, 706
Hpy188I TCNGA 8 cut(s) 106, 132, 388, 686, 780, 864, 918, 1039
Hpy188III TCNNGA 4 cut(s) 152, 243, 898, 1148
Hpy8I GTNNAC 6 cut(s) 283, 292, 394, 517, 549, 706
HpyAV CCTTC 6 cut(s) 240, 451, 493, 610, 959, 1198
HpyCH4IV ACGT 1 cut(s) 483
HpyCH4V TGCA 6 cut(s) 176, 302, 319, 487, 858, 1003
HpyF10VI GCNNNNNNNGC 2 cut(s) 209, 633
HpyF3I CTNAG 5 cut(s) 105, 423, 566, 863, 1172
HpySE526I ACGT 1 cut(s) 483
Hsp92II CATG 2 cut(s) 764, 992
HspAI GCGC 1 cut(s) 532
Ksp22I TGATCA 2 cut(s) 415, 757
Kzo9I GATC 7 cut(s) 79, 415, 468, 757, 775, 1119, 1144
Lsp1109I GCAGC 2 cut(s) 591, 811
LweI GCATC 1 cut(s) 1075
MaeI CTAG 2 cut(s) 309, 1239
MaeII ACGT 1 cut(s) 483
MaeIII GTNAC 5 cut(s) 73, 347, 815, 978, 1124
MalI GATC 7 cut(s) 81, 417, 470, 759, 777, 1121, 1146
MboI GATC 7 cut(s) 79, 415, 468, 757, 775, 1119, 1144
MfeI CAATTG 1 cut(s) 213
MhlI GDGCHC 2 cut(s) 560, 1173
MluCI AATT 3 cut(s) 213, 252, 1228
MlyI GAGTC 2 cut(s) 278, 1034
MmeI TCCRAC 1 cut(s) 822
MnlI CCTC 7 cut(s) 100, 382, 589, 670, 1030, 1144, 1147
Mph1103I ATGCAT 1 cut(s) 304
MseI TTAA 7 cut(s) 399, 476, 641, 663, 696, 801, 965
MslI CAYNNNNRTG 1 cut(s) 664
MspA1I CMGCKG 1 cut(s) 1196
MunI CAATTG 1 cut(s) 213
Mva1269I GAATGC 1 cut(s) 382
MwoI GCNNNNNNNGC 2 cut(s) 209, 633
NdeI CATATG 1 cut(s) 790
NdeII GATC 7 cut(s) 79, 415, 468, 757, 775, 1119, 1144
NlaIII CATG 2 cut(s) 764, 992
NlaIV GGNNCC 1 cut(s) 406
NmuCI GTSAC 3 cut(s) 73, 347, 815
NsiI ATGCAT 1 cut(s) 304
PctI GAATGC 1 cut(s) 382
PflFI GACNNNGTC 1 cut(s) 893
PkrI GCNGC 2 cut(s) 606, 826
PleI GAGTC 2 cut(s) 278, 1034
PpsI GAGTC 2 cut(s) 278, 1034
PspFI CCCAGC 1 cut(s) 380
PspN4I GGNNCC 1 cut(s) 406
PspPI GGNCC 1 cut(s) 610
PstNI CAGNNNCTG 1 cut(s) 104
PsyI GACNNNGTC 1 cut(s) 893
PvuII CAGCTG 1 cut(s) 1196
RsaI GTAC 1 cut(s) 987
RsaNI GTAC 1 cut(s) 986
RseI CAYNNNNRTG 1 cut(s) 664
SalI GTCGAC 1 cut(s) 392
SaqAI TTAA 7 cut(s) 399, 476, 641, 663, 696, 801, 965
SatI GCNGC 2 cut(s) 605, 825
Sau3AI GATC 7 cut(s) 79, 415, 468, 757, 775, 1119, 1144
Sau96I GGNCC 1 cut(s) 610
SchI GAGTC 2 cut(s) 278, 1034
SduI GDGCHC 2 cut(s) 560, 1173
SfaNI GCATC 1 cut(s) 1075
SfcI CTRYAG 1 cut(s) 1050
SmiI ATTTAAAT 1 cut(s) 664
SmiMI CAYNNNNRTG 1 cut(s) 664
SmlI CTYRAG 2 cut(s) 119, 898
SmoI CTYRAG 2 cut(s) 119, 898
SpeI ACTAGT 1 cut(s) 1238
Sse9I AATT 3 cut(s) 213, 252, 1228
SsiI CCGC 1 cut(s) 157
SspMI CTAG 2 cut(s) 309, 1239
SwaI ATTTAAAT 1 cut(s) 664
TaiI ACGT 1 cut(s) 486
TaqI TCGA 4 cut(s) 13, 82, 393, 1243
TasI AATT 3 cut(s) 213, 252, 1228
Tru1I TTAA 7 cut(s) 399, 476, 641, 663, 696, 801, 965
Tru9I TTAA 7 cut(s) 399, 476, 641, 663, 696, 801, 965
TscAI CASTG 2 cut(s) 588, 1068
TseFI GTSAC 3 cut(s) 73, 347, 815
TseI GCWGC 2 cut(s) 604, 824
Tsp45I GTSAC 3 cut(s) 73, 347, 815
TspDTI ATGAA 2 cut(s) 744, 1088
TspGWI ACGGA 1 cut(s) 277
TspRI CASTG 2 cut(s) 588, 1068
Tth111I GACNNNGTC 1 cut(s) 893
XapI RAATTY 2 cut(s) 252, 1228
XmiI GTMKAC 2 cut(s) 291, 393
XspI CTAG 2 cut(s) 309, 1239
Zsp2I ATGCAT 1 cut(s) 304
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.