Rroxscaffold_6G00417840

lysine-specific demethylase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000006
OG0000280
Physical Location & Seq
Reverse (-)
39452704 .. 39453806
1103 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_6G00417840.1

Sequence Viewer

Length: 330 bp
ATGGCGACGATCTGCAGAGACGGGTTGTTCTCTCGGGTTTATTATAGAAAGCGGCGGAGGCAAGAGAGCGGCGGCGGTTTGGTGGAGAAGGGCGGCGAGGGTATTTTGGGAATTGAAGACGAAGACTCGACTCTGACTCTGGCCGTGATGTTGAAGCGGCTGCGTCGGAAAAAGAAGATGGGGAAGAGTGTTCTGGAGGGTTTAGAGCGTAAAGATTTGATCTTTGATGATCAAATTGAAGGGCAAAAGGGGAAAGGCGAAGAGGGTGAGGAGAAGAATCAAGGAAATGGGGGTGGGTTTATGATGTGGGTTTTGGCAGGGAGGGAGTGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0000785 GO:0000976 GO:0001067 GO:0003674 GO:0003676 GO:0003677 GO:0003682 GO:0003690 GO:0003824 GO:0005102 GO:0005488 GO:0005506 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005694 GO:0006081 GO:0006325 GO:0006355 GO:0006464 GO:0006482 GO:0006807 GO:0006996 GO:0007154 GO:0007165 GO:0008134 GO:0008150 GO:0008152 GO:0008214 GO:0009058 GO:0009719 GO:0009725 GO:0009755 GO:0009889 GO:0009891 GO:0009893 GO:0009987 GO:0010033 GO:0010468 GO:0010556 GO:0010557 GO:0010604 GO:0010628 GO:0014070 GO:0016043 GO:0016569 GO:0016570 GO:0016577 GO:0016999 GO:0017000 GO:0017144 GO:0019219 GO:0019222 GO:0019538 GO:0023052 GO:0030518 GO:0030521 GO:0030522 GO:0031323 GO:0031325 GO:0031326 GO:0031328 GO:0031490 GO:0031974 GO:0031981 GO:0032451 GO:0032452 GO:0032454 GO:0032870 GO:0033169 GO:0033993 GO:0035257 GO:0035258 GO:0036211 GO:0042221 GO:0043167 GO:0043169 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0043401 GO:0043412 GO:0043565 GO:0044212 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044267 GO:0044281 GO:0044283 GO:0044422 GO:0044424 GO:0044427 GO:0044428 GO:0044446 GO:0044464 GO:0045893 GO:0045935 GO:0046184 GO:0046292 GO:0046293 GO:0046872 GO:0046914 GO:0048518 GO:0048519 GO:0048522 GO:0048523 GO:0048545 GO:0050681 GO:0050789 GO:0050794 GO:0050896 GO:0051171 GO:0051173 GO:0051252 GO:0051254 GO:0051276 GO:0051427 GO:0051716 GO:0060255 GO:0060968 GO:0060969 GO:0065007 GO:0070013 GO:0070076 GO:0070887 GO:0070988 GO:0071310 GO:0071383 GO:0071396 GO:0071407 GO:0071495 GO:0071704 GO:0071840 GO:0080090 GO:0097159 GO:0140096 GO:1901363 GO:1901564 GO:1901576 GO:1902680 GO:1903506 GO:1903508 GO:1990837 GO:2000112 GO:2001141
KEGG Pathways
Metabolic & Signaling
ko04714 map04714
Pfam Domains
Protein Families
JmjC zf-4CXXC_R1

Protein Analysis

109

Amino Acids

12.22

Weight (kDa)

9.1

Isoelectric Point (pI)

59.21

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: OG0000280)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G07610 AT3G07610 AT3G07610
fragaria_vesca FvH4_5g24540 FvH4_5g24540 FvH4_5g24540 FvH4_5g24540 FvH4_5g24640 FvH4_5g29990 FvH4_5g29990 FvH4_5g29990 FvH4_7g06860 FvH4_7g09570 FvH4_7g09571 FvH4_7g09571
malus_domestica MD05G1184100.v1.1 MD06G1012500.v1.1 MD07G1099600.v1.1 MD07G1099700.v1.1
prunus_persica Prupe.2G123400_v2.0.a1 Prupe.5G015100_v2.0.a1 Prupe.5G015100_v2.0.a1 Prupe.5G015100_v2.0.a1 Prupe.5G015100_v2.0.a1
pyrus_communis pycom06g01040 pycom10g12640
rosa_chinensis RchiOBHm_Chr1g0346431 RchiOBHm_Chr1g0346441 RchiOBHm_Chr3g0461961 RchiOBHm_Chr3g0461971 RchiOBHm_Chr3g0461991 RchiOBHm_Chr3g0462031 RchiOBHm_Chr3g0462041 RchiOBHm_Chr7g0215021 RchiOBHm_Chr7g0223871 RchiOBHm_Chr7g0223931 RchiOBHm_Chr7g0223991 RchiOBHm_Chr7g0224011 RchiOBHm_Chr7g0224041
rosa_laevigata RLG00000001919 RLG00000001920 RLG00000001924 RLG00000002699 RLG00000024884 RLG00000024888 RLG00000024889 RLG00000028799 RLG00000028800
rosa_multiflora Rmu_co8191480.1_g000001 Rmu_co8411417.1_g000001 Rmu_co8440445.1_g000001 Rmu_co8460737.1_g000001 Rmu_sc0003363.1_g000077 Rmu_sc0004308.1_g000026 Rmu_sc0004540.1_g000014 Rmu_sc0004540.1_g000026 Rmu_sc0007736.1_g000006 Rmu_sc0007736.1_g000008 Rmu_sc0007777.1_g000006 Rmu_sc0007777.1_g000009 Rmu_sc0007777.1_g000029 Rmu_sc0008432.1_g000002 Rmu_sc0008835.1_g000002 Rmu_sc0029902.1_g000002
rosa_roxburghii Rroxscaffold_3G00235160 Rroxscaffold_3G00235180 Rroxscaffold_3G00235210 Rroxscaffold_3G00244660 Rroxscaffold_4G00308520 Rroxscaffold_4G00308530 Rroxscaffold_6G00417830 Rroxscaffold_6G00417840
rosa_rugosa Rorug01G0179700 Rorug01G0179800 Rorug07G0149600 Rorug07G0221000 Rorug07G0221100 Rorug07G0221100
rosa_samantha Rh1AG199200 Rh1AG199300 Rh1AG199400 Rh1BG165100 Rh1BG165200 Rh1BG165300 Rh1BG165400 Rh1CG184300 Rh1CG184400 Rh1DG195800 Rh1DG195900 Rh1DG196000 Rh2BG420000 Rh3AG112800 Rh3BG115600 Rh3BG115700 Rh3BG115800 Rh3BG115900 Rh3CG117900 Rh3CG118300 Rh3CG118400 Rh3CG118500 Rh3DG117400 Rh3DG117500 Rh3DG117600 Rh6AG306600 Rh6BG312200 Rh7BG278000 Rh7BG355000 Rh7BG355400 Rh7BG355800 Rh7BG355900 Rh7BG356400 Rh7CG305900 Rh7CG382300 Rh7CG382800 Rh7CG383400 Rh7CG383500 Rh7DG290000 Rh7DG358300 Rh7DG358500 Rh7DG359600 Rh7DG359800
rosa_wichuraiana Rw0G007860 Rw1G016720 Rw1G016730 Rw7G024430 Rw7G030900

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccBSI CCGCTC 1 cut(s) 69
AciI CCGC 7 cut(s) 52, 55, 69, 72, 75, 93, 157
AcoI YGGCCR 1 cut(s) 141
AgsI TTSAA 3 cut(s) 116, 154, 239
Alw26I GTCTC 1 cut(s) 12
Ama87I CYCGRG 1 cut(s) 33
AoxI GGCC 1 cut(s) 141
ApeKI GCWGC 1 cut(s) 160
AsuHPI GGTGA 1 cut(s) 278
AvaI CYCGRG 1 cut(s) 33
BbsI GAAGAC 2 cut(s) 123, 129
BbvI GCAGC 1 cut(s) 147
BccI CCATC 1 cut(s) 172
BceAI ACGGC 1 cut(s) 128
BclI TGATCA 1 cut(s) 229
BcoDI GTCTC 1 cut(s) 12
BfmI CTRYAG 1 cut(s) 13
BisI GCNGC 6 cut(s) 53, 70, 73, 94, 158, 161
BlsI GCNGC 6 cut(s) 54, 71, 74, 95, 159, 162
BmeT110I CYCGRG 1 cut(s) 33
BpiI GAAGAC 2 cut(s) 123, 129
BpmI CTGGAG 1 cut(s) 215
BseRI GAGGAG 1 cut(s) 284
BseXI GCAGC 1 cut(s) 147
BshFI GGCC 1 cut(s) 143
BsiHKCI CYCGRG 1 cut(s) 33
BsmAI GTCTC 1 cut(s) 12
BsmBI CGTCTC 1 cut(s) 12
BsnI GGCC 1 cut(s) 143
BsoBI CYCGRG 1 cut(s) 33
Bsp143I GATC 3 cut(s) 9, 219, 229
BspACI CCGC 7 cut(s) 52, 55, 69, 72, 75, 93, 157
BspANI GGCC 1 cut(s) 143
BspMAI CTGCAG 1 cut(s) 17
BsrBI CCGCTC 1 cut(s) 69
BssMI GATC 3 cut(s) 9, 219, 229
Bst6I CTCTTC 2 cut(s) 179, 255
BstKTI GATC 3 cut(s) 12, 222, 232
BstMAI GTCTC 1 cut(s) 12
BstMBI GATC 3 cut(s) 9, 219, 229
BstMWI GCNNNNNNNGC 1 cut(s) 58
BstSFI CTRYAG 1 cut(s) 13
BstV1I GCAGC 1 cut(s) 147
BstV2I GAAGAC 2 cut(s) 123, 129
BsuRI GGCC 1 cut(s) 143
CseI GACGC 1 cut(s) 152
CviJI RGCY 2 cut(s) 143, 160
CviKI_1 RGCY 2 cut(s) 143, 160
DpnI GATC 3 cut(s) 11, 221, 231
DpnII GATC 3 cut(s) 9, 219, 229
EaeI YGGCCR 1 cut(s) 141
Eam1104I CTCTTC 2 cut(s) 179, 255
EarI CTCTTC 2 cut(s) 179, 255
EciI GGCGGA 1 cut(s) 70
Eco88I CYCGRG 1 cut(s) 33
Esp3I CGTCTC 1 cut(s) 12
FaiI YATR 2 cut(s) 45, 302
FbaI TGATCA 1 cut(s) 229
Fnu4HI GCNGC 6 cut(s) 53, 70, 73, 94, 158, 161
Fsp4HI GCNGC 6 cut(s) 53, 70, 73, 94, 158, 161
GluI GCNGC 6 cut(s) 53, 70, 73, 94, 158, 161
GsuI CTGGAG 1 cut(s) 215
HaeIII GGCC 1 cut(s) 143
HgaI GACGC 1 cut(s) 152
HinfI GANTC 4 cut(s) 125, 130, 136, 277
HphI GGTGA 1 cut(s) 278
Hpy188I TCNGA 2 cut(s) 135, 168
Hpy188III TCNNGA 1 cut(s) 194
Hpy99I CGWCG 2 cut(s) 10, 168
HpyAV CCTTC 2 cut(s) 82, 233
HpyCH4V TGCA 1 cut(s) 15
HpyF10VI GCNNNNNNNGC 1 cut(s) 58
Ksp22I TGATCA 1 cut(s) 229
Kzo9I GATC 3 cut(s) 9, 219, 229
LpnPI CCDG 3 cut(s) 125, 179, 303
Lsp1109I GCAGC 1 cut(s) 147
MalI GATC 3 cut(s) 11, 221, 231
MbiI CCGCTC 1 cut(s) 69
MboI GATC 3 cut(s) 9, 219, 229
MboII GAAGA 6 cut(s) 128, 134, 187, 196, 272, 286
MluCI AATT 2 cut(s) 111, 234
MlyI GAGTC 3 cut(s) 119, 124, 130
MmeI TCCRAC 1 cut(s) 146
MnlI CCTC 6 cut(s) 51, 91, 190, 256, 262, 315
MwoI GCNNNNNNNGC 1 cut(s) 58
NdeII GATC 3 cut(s) 9, 219, 229
PfeI GAWTC 1 cut(s) 277
PkrI GCNGC 6 cut(s) 54, 71, 74, 95, 159, 162
PleI GAGTC 3 cut(s) 119, 124, 130
PpsI GAGTC 3 cut(s) 119, 124, 130
PstI CTGCAG 1 cut(s) 17
SatI GCNGC 6 cut(s) 53, 70, 73, 94, 158, 161
Sau3AI GATC 3 cut(s) 9, 219, 229
SchI GAGTC 3 cut(s) 119, 124, 130
SfcI CTRYAG 1 cut(s) 13
Sse9I AATT 2 cut(s) 111, 234
SsiI CCGC 7 cut(s) 52, 55, 69, 72, 75, 93, 157
TaqI TCGA 1 cut(s) 128
TasI AATT 2 cut(s) 111, 234
TauI GCSGC 5 cut(s) 55, 72, 75, 96, 160
TfiI GAWTC 1 cut(s) 277
TseI GCWGC 1 cut(s) 160
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.