Rh5DG402200

No description available

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5D
OG0000269
Physical Location & Seq
Forward (+)
63726098 .. 63727261
1164 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5DG402200.1

Sequence Viewer

Length: 1164 bp
ATGTTTCAGTTTCGAGTTGAGATATCTCAAAAATGGAAAGAGCTTCCAGCTAAAGAGAAGGAACAGTATGTAGTGACTGATCGATGTGGTCAGTCATCAGTTTCTGAGGAAGAGTTGCTTGAGTTGGTTCGGATTGATACCCGTTGCTCTCCAGACCGCTTCAGGTCTTTAGTTGCAGACTTTAGCAATGAGAAAAAGGCAGCCTGTTCAGCAATTGGATTTGATGTGTTGTTGAAGATGTCAGGAAGGAAAATTCACCACTCTATGTTGCGTGTCCTTGTGGACTCCGTAGACCCCAATGCATGTACTATAACTATGCACGGAAAGAAGATTGAAATGGATGCAAGTAACTTTGAAAATGTGATGGGGTTGAAGAATGTTGGGTCCGAGGTTGACTTTAAAGGTTCCACTAATGATCACCCTAAGTTGATGGTGATAATAAACTCCTTGTGTGGGAAGGATAAGAAGATCAGTTTAAGAGATATGCAGAACTACCTGAAGGATACAGAAAAAGTTGACAACAAGTACAAGCACCTGTTTGTGCTGTTCACAATGAGCACCATCCTTAGCCTATCTGCCTCACTGACGATACCAAAGAAGTGGCTGTTGGCCCTAAAGGACACTCGCCTGATTAGCTCTTTAAACTGGGCTGATTACTCATTCAAATGTTTGATGGAGGCCATCGTCAGTTTCAAAAAAGACTCTCAGTCTTATTGTAGCGGTTGTGTCCTGTTTCTGCAACTGTTCTATTTTGATTGTGTTTCACATGGGAAGACCATTGTGGACAAGTCGTTGTACCCAGTTGAAGCTTGGGGGGACCATGAAACGGGCAAACTGCTCAAATGGGTGAACAAGCAAGGTGGTTTGCTGGATGAAAATGTTCTTGTGGCAAAGGTTGGCGATCGTGTTGGTAGTGGAGATCAGGCCAAAGCATATGGGGTGATTACGAAAGAAATGTCTGACTTGGCTGCTAAAGTGAATGGGTTGGAAAATAATATGTGCAATCTGAGAGATGATATGATGGGAAAGATGGACAAAGTCTTGAGTATGCTGGACACTCTGACTGCGCAAAATGTGAATGTCAATCAGAACCTTCAAACTCATGGCTTAGCAGAAAAAGTAAGCCCCAAGAAAGTTTCAAAAAAGAAAGCTGGAGAGCAATAG
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

387

Amino Acids

43.47

Weight (kDa)

8.63

Isoelectric Point (pI)

26.18

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
DUF1985 PF09331 100 - 226 2e-06 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)
Acc16I TGCGCA 1 cut(s) 1068
AccI GTMKAC 1 cut(s) 291
AciI CCGC 2 cut(s) 157, 720
AcsI RAATTY 1 cut(s) 252
AcuI CTGAAG 2 cut(s) 145, 518
AfaI GTAC 3 cut(s) 307, 527, 797
AfiI CCNNNNNNNGG 2 cut(s) 453, 826
AgsI TTSAA 9 cut(s) 235, 335, 356, 373, 664, 694, 806, 1097, 1140
AhdI GACNNNNNGTC 1 cut(s) 706
AjuI GAANNNNNNNTTGG 2 cut(s) 590, 622
AluBI AGCT 5 cut(s) 43, 50, 636, 809, 1151
AluI AGCT 5 cut(s) 43, 50, 636, 809, 1151
Alw21I GWGCWC 1 cut(s) 560
AlwNI CAGNNNCTG 1 cut(s) 104
AoxI GGCC 3 cut(s) 609, 678, 924
ApeKI GCWGC 2 cut(s) 200, 968
ApoI RAATTY 1 cut(s) 252
ArsI GACNNNNNNTTYG 2 cut(s) 941, 973
Asp700I GAANNNNTTC 1 cut(s) 879
AspLEI GCGC 1 cut(s) 1069
AspS9I GGNCC 3 cut(s) 384, 610, 817
AsuHPI GGTGA 5 cut(s) 248, 410, 445, 859, 952
AvaII GGWCC 2 cut(s) 384, 817
BbsI GAAGAC 1 cut(s) 779
Bbv12I GWGCWC 1 cut(s) 560
BbvI GCAGC 2 cut(s) 212, 955
BccI CCATC 7 cut(s) 358, 424, 569, 667, 689, 1015, 1024
BciVI GTATCC 1 cut(s) 496
BclI TGATCA 1 cut(s) 415
BfuI GTATCC 1 cut(s) 496
BisI GCNGC 2 cut(s) 201, 969
BlpI GCTNAGC 1 cut(s) 1108
BlsI GCNGC 2 cut(s) 202, 970
Bme18I GGWCC 2 cut(s) 384, 817
BmeRI GACNNNNNGTC 1 cut(s) 706
BmgT120I GGNCC 3 cut(s) 384, 610, 817
BmiI GGNNCC 3 cut(s) 385, 406, 818
BmrI ACTGGG 2 cut(s) 655, 794
BmsI GCATC 1 cut(s) 331
BmuI ACTGGG 2 cut(s) 655, 794
BpiI GAAGAC 1 cut(s) 779
BpmI CTGGAG 1 cut(s) 135
Bpu10I CCTNAGC 1 cut(s) 566
Bpu1102I GCTNAGC 1 cut(s) 1108
BpuEI CTTGAG 2 cut(s) 140, 1063
Bsa29I ATCGAT 1 cut(s) 82
BsaJI CCNNGG 1 cut(s) 387
Bsc4I CCNNNNNNNGG 2 cut(s) 453, 826
Bse1I ACTGG 2 cut(s) 650, 800
Bse3DI GCAATG 1 cut(s) 193
BseCI ATCGAT 1 cut(s) 82
BseDI CCNNGG 1 cut(s) 387
BseGI GGATG 3 cut(s) 346, 561, 877
BseLI CCNNNNNNNGG 2 cut(s) 453, 826
BseMI GCAATG 1 cut(s) 193
BseMII CTCAG 3 cut(s) 96, 719, 998
BseNI ACTGG 2 cut(s) 650, 800
BseXI GCAGC 2 cut(s) 212, 955
Bsh1285I CGRYCG 1 cut(s) 904
BshFI GGCC 3 cut(s) 611, 680, 926
BshVI ATCGAT 1 cut(s) 82
BsiEI CGRYCG 1 cut(s) 904
BsiHKAI GWGCWC 1 cut(s) 560
BslFI GGGAC 1 cut(s) 830
BslI CCNNNNNNNGG 2 cut(s) 453, 826
BsmFI GGGAC 1 cut(s) 830
BsnI GGCC 3 cut(s) 611, 680, 926
Bsp1286I GDGCHC 1 cut(s) 560
Bsp143I GATC 5 cut(s) 79, 415, 468, 901, 919
Bsp1720I GCTNAGC 1 cut(s) 1108
BspACI CCGC 2 cut(s) 157, 720
BspANI GGCC 3 cut(s) 611, 680, 926
BspCNI CTCAG 3 cut(s) 97, 718, 999
BspDI ATCGAT 1 cut(s) 82
BspLI GGNNCC 3 cut(s) 385, 406, 818
BsrDI GCAATG 1 cut(s) 193
BsrI ACTGG 2 cut(s) 650, 800
BssECI CCNNGG 1 cut(s) 387
BssMI GATC 5 cut(s) 79, 415, 468, 901, 919
Bst4CI ACNGT 2 cut(s) 66, 744
Bst6I CTCTTC 1 cut(s) 105
BstDEI CTNAG 6 cut(s) 105, 423, 566, 705, 1007, 1108
BstF5I GGATG 3 cut(s) 346, 561, 877
BstHHI GCGC 1 cut(s) 1069
BstKTI GATC 5 cut(s) 82, 418, 471, 904, 922
BstMBI GATC 5 cut(s) 79, 415, 468, 901, 919
BstMCI CGRYCG 1 cut(s) 904
BstMWI GCNNNNNNNGC 2 cut(s) 209, 633
BstNSI RCATGY 1 cut(s) 306
BstV1I GCAGC 2 cut(s) 212, 955
BstV2I GAAGAC 1 cut(s) 779
BstXI CCANNNNNNTGG 1 cut(s) 600
Bsu15I ATCGAT 1 cut(s) 82
BsuI GTATCC 1 cut(s) 496
BsuRI GGCC 3 cut(s) 611, 680, 926
BsuTUI ATCGAT 1 cut(s) 82
BtsCI GGATG 3 cut(s) 346, 561, 877
BtsIMutI CAGTG 1 cut(s) 581
CaiI CAGNNNCTG 1 cut(s) 104
CfoI GCGC 1 cut(s) 1069
Cfr13I GGNCC 3 cut(s) 384, 610, 817
ClaI ATCGAT 1 cut(s) 82
Csp6I GTAC 3 cut(s) 306, 526, 796
CspCI CAANNNNNGTGG 2 cut(s) 841, 876
CviAII CATG 4 cut(s) 303, 767, 821, 1103
CviQI GTAC 3 cut(s) 306, 526, 796
DdeI CTNAG 6 cut(s) 105, 423, 566, 705, 1007, 1108
DpnI GATC 5 cut(s) 81, 417, 470, 903, 921
DpnII GATC 5 cut(s) 79, 415, 468, 901, 919
DraI TTTAAA 2 cut(s) 400, 642
DriI GACNNNNNGTC 1 cut(s) 706
Eam1104I CTCTTC 1 cut(s) 105
Eam1105I GACNNNNNGTC 1 cut(s) 706
EarI CTCTTC 1 cut(s) 105
Eco32I GATATC 1 cut(s) 24
Eco47I GGWCC 2 cut(s) 384, 817
Eco57I CTGAAG 2 cut(s) 145, 518
EcoRV GATATC 1 cut(s) 24
EcoT22I ATGCAT 1 cut(s) 304
FaeI CATG 4 cut(s) 306, 770, 824, 1106
FalI AAGNNNNNCTT 2 cut(s) 102, 134
FaqI GGGAC 1 cut(s) 830
FatI CATG 4 cut(s) 302, 766, 820, 1102
FauNDI CATATG 1 cut(s) 934
FbaI TGATCA 1 cut(s) 415
FblI GTMKAC 1 cut(s) 291
Fnu4HI GCNGC 2 cut(s) 201, 969
FokI GGATG 3 cut(s) 353, 548, 884
Fsp4HI GCNGC 2 cut(s) 201, 969
FspI TGCGCA 1 cut(s) 1068
GlaI GCGC 1 cut(s) 1068
GluI GCNGC 2 cut(s) 201, 969
GsuI CTGGAG 1 cut(s) 135
HaeIII GGCC 3 cut(s) 611, 680, 926
HhaI GCGC 1 cut(s) 1069
Hin1II CATG 4 cut(s) 306, 770, 824, 1106
Hin6I GCGC 1 cut(s) 1067
HinP1I GCGC 1 cut(s) 1067
HincII GTYRAC 2 cut(s) 394, 517
HindII GTYRAC 2 cut(s) 394, 517
HindIII AAGCTT 1 cut(s) 807
HinfI GANTC 2 cut(s) 284, 701
HphI GGTGA 5 cut(s) 248, 410, 445, 859, 952
Hpy166II GTNNAC 7 cut(s) 283, 292, 394, 517, 549, 784, 850
Hpy188I TCNGA 7 cut(s) 106, 132, 388, 961, 1008, 1062, 1089
Hpy188III TCNNGA 3 cut(s) 152, 243, 1042
Hpy8I GTNNAC 7 cut(s) 283, 292, 394, 517, 549, 784, 850
HpyAV CCTTC 5 cut(s) 52, 240, 451, 493, 1103
HpyCH4III ACNGT 2 cut(s) 66, 744
HpyCH4V TGCA 7 cut(s) 176, 302, 319, 344, 487, 739, 1002
HpyF10VI GCNNNNNNNGC 2 cut(s) 209, 633
HpyF3I CTNAG 6 cut(s) 105, 423, 566, 705, 1007, 1108
Hsp92II CATG 4 cut(s) 306, 770, 824, 1106
HspAI GCGC 1 cut(s) 1067
Ksp22I TGATCA 1 cut(s) 415
Kzo9I GATC 5 cut(s) 79, 415, 468, 901, 919
Lsp1109I GCAGC 2 cut(s) 212, 955
LweI GCATC 1 cut(s) 331
MaeIII GTNAC 2 cut(s) 73, 347
MalI GATC 5 cut(s) 81, 417, 470, 903, 921
MboI GATC 5 cut(s) 79, 415, 468, 901, 919
MboII GAAGA 6 cut(s) 122, 247, 340, 385, 478, 784
MfeI CAATTG 1 cut(s) 213
MhlI GDGCHC 1 cut(s) 560
MluCI AATT 2 cut(s) 213, 252
MlyI GAGTC 2 cut(s) 278, 695
MmeI TCCRAC 1 cut(s) 966
MnlI CCTC 4 cut(s) 100, 382, 589, 670
Mph1103I ATGCAT 1 cut(s) 304
MroXI GAANNNNTTC 1 cut(s) 879
MseI TTAA 3 cut(s) 399, 476, 641
MslI CAYNNNNRTG 1 cut(s) 664
MunI CAATTG 1 cut(s) 213
MwoI GCNNNNNNNGC 2 cut(s) 209, 633
NdeI CATATG 1 cut(s) 934
NdeII GATC 5 cut(s) 79, 415, 468, 901, 919
NlaIII CATG 4 cut(s) 306, 770, 824, 1106
NlaIV GGNNCC 3 cut(s) 385, 406, 818
NmuCI GTSAC 1 cut(s) 73
NsbI TGCGCA 1 cut(s) 1068
NsiI ATGCAT 1 cut(s) 304
NspI RCATGY 1 cut(s) 306
PdmI GAANNNNTTC 1 cut(s) 879
PflFI GACNNNGTC 1 cut(s) 1037
PkrI GCNGC 2 cut(s) 202, 970
Ple19I CGATCG 1 cut(s) 904
PleI GAGTC 2 cut(s) 278, 695
PpsI GAGTC 2 cut(s) 278, 695
PspN4I GGNNCC 3 cut(s) 385, 406, 818
PspPI GGNCC 3 cut(s) 384, 610, 817
PstNI CAGNNNCTG 1 cut(s) 104
PsyI GACNNNGTC 1 cut(s) 1037
PvuI CGATCG 1 cut(s) 904
RsaI GTAC 3 cut(s) 307, 527, 797
RsaNI GTAC 3 cut(s) 306, 526, 796
RseI CAYNNNNRTG 1 cut(s) 664
SaqAI TTAA 3 cut(s) 399, 476, 641
SatI GCNGC 2 cut(s) 201, 969
Sau3AI GATC 5 cut(s) 79, 415, 468, 901, 919
Sau96I GGNCC 3 cut(s) 384, 610, 817
SchI GAGTC 2 cut(s) 278, 695
SduI GDGCHC 1 cut(s) 560
SfaNI GCATC 1 cut(s) 331
SinI GGWCC 2 cut(s) 384, 817
SmiMI CAYNNNNRTG 1 cut(s) 664
SmlI CTYRAG 2 cut(s) 119, 1042
SmoI CTYRAG 2 cut(s) 119, 1042
Sse9I AATT 2 cut(s) 213, 252
SsiI CCGC 2 cut(s) 157, 720
TaaI ACNGT 2 cut(s) 66, 744
TaqI TCGA 2 cut(s) 13, 82
TasI AATT 2 cut(s) 213, 252
TatI WGTACW 2 cut(s) 305, 525
Tru1I TTAA 3 cut(s) 399, 476, 641
Tru9I TTAA 3 cut(s) 399, 476, 641
TscAI CASTG 1 cut(s) 588
TseFI GTSAC 1 cut(s) 73
TseI GCWGC 2 cut(s) 200, 968
Tsp45I GTSAC 1 cut(s) 73
TspDTI ATGAA 2 cut(s) 837, 888
TspGWI ACGGA 2 cut(s) 277, 336
TspRI CASTG 1 cut(s) 588
Tth111I GACNNNGTC 1 cut(s) 1037
VpaK11BI GGWCC 2 cut(s) 384, 817
XapI RAATTY 1 cut(s) 252
XceI RCATGY 1 cut(s) 306
XcmI CCANNNNNNNNNTGG 1 cut(s) 807
XmiI GTMKAC 1 cut(s) 291
XmnI GAANNNNTTC 1 cut(s) 879
Zsp2I ATGCAT 1 cut(s) 304
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.