Rh3BG115900

lysine-specific demethylase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr3B
OG0000280
Physical Location & Seq
Forward (+)
9544237 .. 9546167
1931 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh3BG115900.1

Sequence Viewer

Length: 1011 bp
ATGCCTCTGAGATGCTTCAAGAATCGAGACTTGGAGATTGGGGAAGACGAGAGGCTAGAGCATTGTAAGTATTTGGTGAATCGGTTGCTTCCTTATTTGAAGAGGGTTAATGATGAACAGGTGAGTGAGATGAAATTTGAGGCTGAGAAAGAAGGGTTGGTGGAGTTTGAGGAGATGGAAATTGAAAAGTCTAATTGCCGTGTTGGTGAGAGGATGGGTGGAGACTTGAAGGGAGGTGGGGAGGAAATGGTTGAGAAATATGGAAATCGGGGATTTGAGTGTTTCGATGGCATGTTTGATACAAAAGACTGCCCTCGGATCCTAAAACTTAAAGACTGGCCTCCCTCCACTGATTTTGGTAAACGTCTTCCTCGCCATGGCAAGGAGTTTGTGTGTTGCTTGCCTCTCAAGGAATACACTCATCCAACAGGTAGTATTCTAAACCTTGCTTGCCTCTTGCCCAAAAGAGCTGTCAAACCTGACTTGGGGCCAAAGACATACATTGCATATGGGGTTGCTCAGGAACTTGGACGCGGAGATTCTGTGACAAAGCTTCACTGTGATATGTCTGATGCAGTTAACATTCTGACCCATGCTACTGAAGTGACCCTTGAACCTAAACATCTTGCTGCTGTAGAAGAGTTGAAGAGAAAGCACAGGGAGCAAGACCAAAAGGAGATTTTTGGAAATTTTGGTCAAAGGAGACTCCCTTGCTTGATGATGCAGGTGAAGGAGGTGCTCTATGGGACATTTTCAGGGCCATTAAAGCAGGTGGTTCATCCAATACACGATCAGACAATTTATCTGACTGCGGAGCACAAAAGAAAGCTCAAGGCAGAATATGGGATTGAGCCATGGACATTTATCCAAAAGCTTGGTGATGCGGTGTTCATTCCTGCAGGCTGTCCACATCAGGAGATTACTGGTGGGAAGGAGAGGCCTAAGGATGTCAAGCCTGATGAGAGGCCTATATGTGCGAGGCGTAAGGGAAAGGCCTATATGTGTCTTTAA
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

336

Amino Acids

38.48

Weight (kDa)

7.89

Isoelectric Point (pI)

42.25

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
JmjC PF02373 257 - 307 4.5e-07 JmjC domain, hydroxylase
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)
AarI CACCTGC 2 cut(s) 715, 760
Acc36I ACCTGC 2 cut(s) 715, 760
AccII CGCG 1 cut(s) 534
AciI CCGC 3 cut(s) 534, 812, 884
AclWI GGATC 2 cut(s) 313, 326
AcsI RAATTY 2 cut(s) 134, 688
AcuI CTGAAG 1 cut(s) 621
AfiI CCNNNNNNNGG 3 cut(s) 377, 382, 485
AgsI TTSAA 6 cut(s) 19, 100, 185, 229, 614, 646
AjuI GAANNNNNNNTTGG 4 cut(s) 14, 46, 140, 172
AluBI AGCT 4 cut(s) 470, 553, 829, 874
AluI AGCT 4 cut(s) 470, 553, 829, 874
Alw21I GWGCWC 2 cut(s) 741, 819
Alw26I GTCTC 3 cut(s) 21, 216, 697
AlwI GGATC 2 cut(s) 313, 326
AoxI GGCC 6 cut(s) 338, 488, 758, 938, 965, 993
ApeKI GCWGC 1 cut(s) 629
ApoI RAATTY 2 cut(s) 134, 688
ArsI GACNNNNNNTTYG 2 cut(s) 456, 488
AspS9I GGNCC 2 cut(s) 488, 758
AsuHPI GGTGA 5 cut(s) 88, 133, 218, 739, 890
AxyI CCTNAGG 1 cut(s) 942
BamHI GGATCC 1 cut(s) 318
BbsI GAAGAC 2 cut(s) 51, 359
Bbv12I GWGCWC 2 cut(s) 741, 819
BbvI GCAGC 1 cut(s) 616
BccI CCATC 3 cut(s) 169, 208, 281
BceAI ACGGC 1 cut(s) 183
BcoDI GTCTC 3 cut(s) 21, 216, 697
BfaI CTAG 1 cut(s) 56
BfmI CTRYAG 2 cut(s) 633, 897
BfuAI ACCTGC 2 cut(s) 715, 760
BisI GCNGC 1 cut(s) 630
BlsI GCNGC 1 cut(s) 631
BmgT120I GGNCC 2 cut(s) 488, 758
BmiI GGNNCC 2 cut(s) 320, 489
BmsI GCATC 4 cut(s) 2, 562, 711, 871
BpiI GAAGAC 2 cut(s) 51, 359
Bpu10I CCTNAGC 1 cut(s) 519
BpuEI CTTGAG 2 cut(s) 392, 815
BsaJI CCNNGG 3 cut(s) 314, 376, 854
BsaXI ACNNNNNCTCC 4 cut(s) 377, 407, 528, 558
Bsc4I CCNNNNNNNGG 3 cut(s) 377, 382, 485
Bse1I ACTGG 2 cut(s) 341, 928
Bse21I CCTNAGG 1 cut(s) 942
Bse3DI GCAATG 1 cut(s) 501
BseDI CCNNGG 3 cut(s) 314, 376, 854
BseGI GGATG 4 cut(s) 219, 421, 778, 952
BseLI CCNNNNNNNGG 3 cut(s) 377, 382, 485
BseMI GCAATG 1 cut(s) 501
BseMII CTCAG 2 cut(s) 135, 533
BseNI ACTGG 2 cut(s) 341, 928
BseRI GAGGAG 1 cut(s) 185
BseXI GCAGC 1 cut(s) 616
Bsh1236I CGCG 1 cut(s) 534
BshFI GGCC 6 cut(s) 340, 490, 760, 940, 967, 995
BsiHKAI GWGCWC 2 cut(s) 741, 819
BslFI GGGAC 1 cut(s) 760
BslI CCNNNNNNNGG 3 cut(s) 377, 382, 485
BsmAI GTCTC 3 cut(s) 21, 216, 697
BsmFI GGGAC 1 cut(s) 760
BsnI GGCC 6 cut(s) 340, 490, 760, 940, 967, 995
Bsp1286I GDGCHC 2 cut(s) 741, 819
Bsp143I GATC 2 cut(s) 318, 790
Bsp19I CCATGG 2 cut(s) 376, 854
BspACI CCGC 3 cut(s) 534, 812, 884
BspANI GGCC 6 cut(s) 340, 490, 760, 940, 967, 995
BspCNI CTCAG 2 cut(s) 136, 532
BspFNI CGCG 1 cut(s) 534
BspLI GGNNCC 2 cut(s) 320, 489
BspMAI CTGCAG 1 cut(s) 901
BspMI ACCTGC 2 cut(s) 715, 760
BspPI GGATC 2 cut(s) 313, 326
BsrDI GCAATG 1 cut(s) 501
BsrI ACTGG 2 cut(s) 341, 928
BssECI CCNNGG 3 cut(s) 314, 376, 854
BssMI GATC 2 cut(s) 318, 790
BssT1I CCWWGG 2 cut(s) 376, 854
Bst4CI ACNGT 1 cut(s) 560
Bst6I CTCTTC 3 cut(s) 95, 633, 641
BstC8I GCNNGC 3 cut(s) 401, 451, 901
BstDEI CTNAG 4 cut(s) 8, 144, 519, 942
BstDSI CCRYGG 2 cut(s) 376, 854
BstF5I GGATG 4 cut(s) 219, 421, 778, 952
BstFNI CGCG 1 cut(s) 534
BstKTI GATC 2 cut(s) 321, 793
BstMAI GTCTC 3 cut(s) 21, 216, 697
BstMBI GATC 2 cut(s) 318, 790
BstMWI GCNNNNNNNGC 2 cut(s) 661, 766
BstNSI RCATGY 1 cut(s) 295
BstSFI CTRYAG 2 cut(s) 633, 897
BstUI CGCG 1 cut(s) 534
BstV1I GCAGC 1 cut(s) 616
BstV2I GAAGAC 2 cut(s) 51, 359
BstX2I RGATCY 1 cut(s) 318
BstXI CCANNNNNNTGG 1 cut(s) 875
BstYI RGATCY 1 cut(s) 318
Bsu36I CCTNAGG 1 cut(s) 942
BsuRI GGCC 6 cut(s) 340, 490, 760, 940, 967, 995
BtgI CCRYGG 2 cut(s) 376, 854
BtsCI GGATG 4 cut(s) 219, 421, 778, 952
BtsIMutI CAGTG 2 cut(s) 348, 556
BveI ACCTGC 2 cut(s) 715, 760
Cac8I GCNNGC 3 cut(s) 401, 451, 901
Cfr13I GGNCC 2 cut(s) 488, 758
CseI GACGC 1 cut(s) 540
CspCI CAANNNNNGTGG 2 cut(s) 337, 372
CviAII CATG 4 cut(s) 292, 377, 593, 855
DdeI CTNAG 4 cut(s) 8, 144, 519, 942
DpnI GATC 2 cut(s) 320, 792
DpnII GATC 2 cut(s) 318, 790
Eam1104I CTCTTC 3 cut(s) 95, 633, 641
EarI CTCTTC 3 cut(s) 95, 633, 641
Eco130I CCWWGG 2 cut(s) 376, 854
Eco147I AGGCCT 3 cut(s) 940, 967, 995
Eco57I CTGAAG 1 cut(s) 621
Eco81I CCTNAGG 1 cut(s) 942
EcoT14I CCWWGG 2 cut(s) 376, 854
ErhI CCWWGG 2 cut(s) 376, 854
FaeI CATG 4 cut(s) 295, 380, 596, 858
FalI AAGNNNNNCTT 2 cut(s) 594, 626
FaqI GGGAC 1 cut(s) 760
FatI CATG 4 cut(s) 291, 376, 592, 854
FauNDI CATATG 1 cut(s) 508
Fnu4HI GCNGC 1 cut(s) 630
FokI GGATG 4 cut(s) 226, 408, 765, 959
Fsp4HI GCNGC 1 cut(s) 630
FspBI CTAG 1 cut(s) 56
GluI GCNGC 1 cut(s) 630
HaeIII GGCC 6 cut(s) 340, 490, 760, 940, 967, 995
HgaI GACGC 1 cut(s) 540
Hin1II CATG 4 cut(s) 295, 380, 596, 858
HincII GTYRAC 1 cut(s) 580
HindII GTYRAC 1 cut(s) 580
HindIII AAGCTT 2 cut(s) 551, 872
HinfI GANTC 4 cut(s) 22, 79, 539, 705
HpaI GTTAAC 1 cut(s) 580
HphI GGTGA 5 cut(s) 88, 133, 218, 739, 890
Hpy166II GTNNAC 3 cut(s) 362, 580, 908
Hpy188I TCNGA 6 cut(s) 9, 318, 571, 588, 795, 807
Hpy188III TCNNGA 4 cut(s) 19, 26, 521, 914
Hpy8I GTNNAC 3 cut(s) 362, 580, 908
HpyAV CCTTC 4 cut(s) 146, 223, 724, 925
HpyCH4III ACNGT 1 cut(s) 560
HpyCH4IV ACGT 1 cut(s) 364
HpyCH4V TGCA 4 cut(s) 506, 575, 724, 899
HpyF10VI GCNNNNNNNGC 2 cut(s) 661, 766
HpyF3I CTNAG 4 cut(s) 8, 144, 519, 942
HpySE526I ACGT 1 cut(s) 364
Hsp92II CATG 4 cut(s) 295, 380, 596, 858
KspAI GTTAAC 1 cut(s) 580
Kzo9I GATC 2 cut(s) 318, 790
LmnI GCTCC 2 cut(s) 661, 814
Lsp1109I GCAGC 1 cut(s) 616
LweI GCATC 4 cut(s) 2, 562, 711, 871
MaeI CTAG 1 cut(s) 56
MaeII ACGT 1 cut(s) 364
MaeIII GTNAC 2 cut(s) 544, 604
MalI GATC 2 cut(s) 320, 792
MboI GATC 2 cut(s) 318, 790
MboII GAAGA 5 cut(s) 56, 112, 359, 650, 658
MflI RGATCY 1 cut(s) 318
MhlI GDGCHC 2 cut(s) 741, 819
MluCI AATT 5 cut(s) 134, 180, 193, 688, 798
MlyI GAGTC 1 cut(s) 699
MmeI TCCRAC 1 cut(s) 449
MseI TTAA 5 cut(s) 108, 330, 579, 764, 1009
MvnI CGCG 1 cut(s) 534
MwoI GCNNNNNNNGC 2 cut(s) 661, 766
NcoI CCATGG 2 cut(s) 376, 854
NdeI CATATG 1 cut(s) 508
NdeII GATC 2 cut(s) 318, 790
NlaIII CATG 4 cut(s) 295, 380, 596, 858
NlaIV GGNNCC 2 cut(s) 320, 489
NmuCI GTSAC 2 cut(s) 544, 604
NspI RCATGY 1 cut(s) 295
PaqCI CACCTGC 2 cut(s) 715, 760
PceI AGGCCT 3 cut(s) 940, 967, 995
PfeI GAWTC 3 cut(s) 22, 79, 539
PkrI GCNGC 1 cut(s) 631
PleI GAGTC 1 cut(s) 699
PpsI GAGTC 1 cut(s) 699
PspN4I GGNNCC 2 cut(s) 320, 489
PspPI GGNCC 2 cut(s) 488, 758
PstI CTGCAG 1 cut(s) 901
PsuI RGATCY 1 cut(s) 318
SaqAI TTAA 5 cut(s) 108, 330, 579, 764, 1009
SatI GCNGC 1 cut(s) 630
Sau3AI GATC 2 cut(s) 318, 790
Sau96I GGNCC 2 cut(s) 488, 758
SbfI CCTGCAGG 1 cut(s) 901
SchI GAGTC 1 cut(s) 699
SdaI CCTGCAGG 1 cut(s) 901
SduI GDGCHC 2 cut(s) 741, 819
SfaNI GCATC 4 cut(s) 2, 562, 711, 871
SfcI CTRYAG 2 cut(s) 633, 897
SmlI CTYRAG 2 cut(s) 407, 830
SmoI CTYRAG 2 cut(s) 407, 830
Sse8387I CCTGCAGG 1 cut(s) 901
Sse9I AATT 5 cut(s) 134, 180, 193, 688, 798
SseBI AGGCCT 3 cut(s) 940, 967, 995
SsiI CCGC 3 cut(s) 534, 812, 884
SspMI CTAG 1 cut(s) 56
StuI AGGCCT 3 cut(s) 940, 967, 995
StyI CCWWGG 2 cut(s) 376, 854
TaaI ACNGT 1 cut(s) 560
TaiI ACGT 1 cut(s) 367
TaqI TCGA 2 cut(s) 25, 285
TasI AATT 5 cut(s) 134, 180, 193, 688, 798
TfiI GAWTC 3 cut(s) 22, 79, 539
Tru1I TTAA 5 cut(s) 108, 330, 579, 764, 1009
Tru9I TTAA 5 cut(s) 108, 330, 579, 764, 1009
TscAI CASTG 2 cut(s) 355, 563
TseFI GTSAC 2 cut(s) 544, 604
TseI GCWGC 1 cut(s) 629
Tsp45I GTSAC 2 cut(s) 544, 604
TspDTI ATGAA 4 cut(s) 129, 146, 767, 880
TspRI CASTG 2 cut(s) 355, 563
XapI RAATTY 2 cut(s) 134, 688
XceI RCATGY 1 cut(s) 295
XspI CTAG 1 cut(s) 56
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.