Rroxscaffold_5G00349610

metal ion binding

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000005
OG0000343
Physical Location & Seq
Forward (+)
22658317 .. 22663676
5360 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_5G00349610.1

Sequence Viewer

Length: 810 bp
ATGCAGGATGATGTTGTTGGGATGCAAACTTTCTACTGCAAGAACTGTGAACATAAACAGCACCAGTGCTTTGTTTGTGGGAAGTTAGGTTCCTCTGATAAGTCCTCAGGTGCTGCTGAGGTGGTTTCCTGTGTATCCCCAAACTGTGGTCGATTTTACCATCCACATTGTGTTGCAATATTACTTTACCAAGATAATGGAGTTCCTGCTGAAGAACTTGAGAGAAAGATTGCTGGTGGGGAATCTTTTACTTGTCCAATTCATAAGTGCTGCATTTGTAAACAAGGAGAAAATAAGAAGGATAGTGAGTTACAATTTGCTGTGTGCATGCGTTGTCCAAAATCGTACCACAGGAAATGCCTGCCAAGGGAGATTGCTTTTGAAAATCAAGGAGAAATGCTAGAAGGGAGATCAATAATAAGAGCTTGGGATGGTCTATTACCTAACCGTATACTCATATATTGCACAAAACATGATATAGATATTGAATTTGAAACTGTAAGAAGGGACCACATAAAATTCCCTGATGTCAAACAGAATATGAGCACTCTCAAAAAGAAGAAGAAGACTATTTTAGAAGAGAAGTGGAAGCCAATGTCAGAATTCCTTGCAGCCAGACACAAAGTTGTGACTAAGAGAAATATTTCCTTGGATAAAAATGCTCCTACAGCACTTAAGACACAAAAGCCATATGTTCAAGAGAAGAAGACTAGGAAACTTATGTCAGAGCAGAAACCTGTGTCTAAGAAGAGCGATTCTTTTTGGAAGAATCAGTTGGGGAAGGAAGTGATCCTGTACTATCAACACTAG
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0000003 GO:0003006 GO:0003674 GO:0003676 GO:0003677 GO:0003700 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006325 GO:0006355 GO:0006950 GO:0006952 GO:0006996 GO:0007154 GO:0007165 GO:0007275 GO:0008150 GO:0009605 GO:0009607 GO:0009620 GO:0009791 GO:0009889 GO:0009893 GO:0009909 GO:0009911 GO:0009987 GO:0010228 GO:0010468 GO:0010556 GO:0010604 GO:0010638 GO:0016043 GO:0019219 GO:0019222 GO:0022414 GO:0023052 GO:0030154 GO:0031056 GO:0031058 GO:0031060 GO:0031062 GO:0031323 GO:0031325 GO:0031326 GO:0031399 GO:0031401 GO:0031440 GO:0031935 GO:0031937 GO:0032268 GO:0032270 GO:0032501 GO:0032502 GO:0033043 GO:0033044 GO:0043207 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043565 GO:0043954 GO:0044030 GO:0044424 GO:0044464 GO:0048366 GO:0048367 GO:0048468 GO:0048518 GO:0048522 GO:0048580 GO:0048582 GO:0048608 GO:0048731 GO:0048827 GO:0048831 GO:0048856 GO:0048869 GO:0050684 GO:0050789 GO:0050793 GO:0050794 GO:0050832 GO:0050896 GO:0051052 GO:0051094 GO:0051128 GO:0051130 GO:0051171 GO:0051173 GO:0051239 GO:0051240 GO:0051246 GO:0051247 GO:0051252 GO:0051276 GO:0051570 GO:0051574 GO:0051704 GO:0051707 GO:0051716 GO:0060255 GO:0060968 GO:0061085 GO:0061087 GO:0061458 GO:0065007 GO:0070827 GO:0070828 GO:0070829 GO:0071840 GO:0080090 GO:0090436 GO:0097159 GO:0098542 GO:0099402 GO:0140110 GO:1900109 GO:1900111 GO:1900363 GO:1901363 GO:1902275 GO:1903311 GO:1903506 GO:1905269 GO:2000024 GO:2000026 GO:2000112 GO:2000241 GO:2000243 GO:2001141 GO:2001252
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
DNMT1-RFD

Protein Analysis

269

Amino Acids

31.05

Weight (kDa)

9.15

Isoelectric Point (pI)

54.47

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PHD_NSD PF22908 19 - 88 8.2e-20 Histone-lysine N-methyltransferase NSD-like, PHD zinc finger
PHDvar_NSD PF23004 90 - 126 3.9e-06 Histone-lysine N-methyltransferase NSD-like, variant PHD zinc finger
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: OG0000343)

Species Orthologous Gene IDs
arabidopsis_thaliana AT5G48090 AT5G48090 AT5G48090 AT5G55390 AT5G55390 AT5G55390
fragaria_vesca FvH4_3g23690 FvH4_4g08730 FvH4_4g08730 FvH4_4g08730 FvH4_4g08730 FvH4_4g08730 FvH4_4g08730 FvH4_5g31160 FvH4_5g31160 FvH4_5g31160 FvH4_5g31160 FvH4_5g31160
malus_domestica MD03G1191000.v1.1 MD11G1207800.v1.1 MD11G1208000.v1.1
prunus_persica Prupe.4G227500_v2.0.a1 Prupe.4G227500_v2.0.a1 Prupe.4G227500_v2.0.a1 Prupe.4G227500_v2.0.a1 Prupe.4G227500_v2.0.a1 Prupe.4G227500_v2.0.a1 Prupe.4G227600_v2.0.a1 Prupe.4G227700_v2.0.a1 Prupe.4G227800_v2.0.a1 Prupe.4G227800_v2.0.a1 Prupe.4G227800_v2.0.a1 Prupe.4G227800_v2.0.a1 Prupe.4G227800_v2.0.a1
pyrus_communis pycom01g03400 pycom03g14420 pycom11g18100 pycom11g18140 pycom11g18150 pycom11g18160
rosa_chinensis RchiOBHm_Chr2g0145981 RchiOBHm_Chr4g0405241 RchiOBHm_Chr4g0405271 RchiOBHm_Chr5g0016201 RchiOBHm_Chr5g0041831 RchiOBHm_Chr5g0041871 RchiOBHm_Chr5g0041881 RchiOBHm_Chr5g0059241
rosa_laevigata RLG00000002117 RLG00000008861 RLG00000008862 RLG00000011000 RLG00000033216 RLG00000034097 RLG00000034101
rosa_multiflora Rmu_sc0000161.1_g000001 Rmu_sc0000861.1_g000040 Rmu_sc0007522.1_g000003 Rmu_sc0009443.1_g000015 Rmu_sc0022129.1_g000001 Rmu_sc0042315.1_g000001
rosa_roxburghii Rroxscaffold_1G00038660 Rroxscaffold_1G00038690 Rroxscaffold_5G00349560 Rroxscaffold_5G00349610 Rroxscaffold_6G00388370 Rroxscaffold_7G00188740
rosa_rugosa Rorug03G0199700 Rorug04G0055400 Rorug04G0055500 Rorug04G0055900 Rorug04G0056000 Rorug04G0056100 Rorug04G0056100 Rorug04G0056200 Rorug05G0195600 Rorug05G0195700 Rorug05G0195800 Rorug05G0195900 Rorug05G0196800 Rorug05G0385000
rosa_samantha Rh4AG129900 Rh4AG130100 Rh4BG124200 Rh4BG124400 Rh4BG124500 Rh4CG137200 Rh4CG137300 Rh4DG123500 Rh4DG123700 Rh5AG280800 Rh5AG281400 Rh5BG286700 Rh5BG287000 Rh5BG397800 Rh5CG318100 Rh5CG318600 Rh5CG421600 Rh5DG132300 Rh5DG132400 Rh5DG295400 Rh5DG295700 Rh7BG475300
rosa_wichuraiana Rw0G001330 Rw0G005730 Rw4G008670 Rw4G010510 Rw4G010540 Rw5G026450

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB7I CCANNNNNTGG 1 cut(s) 146
AccI GTMKAC 1 cut(s) 451
AclWI GGATC 1 cut(s) 784
AcsI RAATTY 3 cut(s) 488, 518, 602
AcuI CTGAAG 1 cut(s) 231
AdeI CACNNNGTG 1 cut(s) 170
AfaI GTAC 2 cut(s) 347, 797
AfiI CCNNNNNNNGG 2 cut(s) 146, 367
AflII CTTAAG 1 cut(s) 674
AgsI TTSAA 4 cut(s) 383, 488, 494, 698
AjuI GAANNNNNNNTTGG 2 cut(s) 758, 790
AloI GAACNNNNNNTCC 2 cut(s) 73, 105
AluBI AGCT 1 cut(s) 425
AluI AGCT 1 cut(s) 425
Alw21I GWGCWC 1 cut(s) 548
AlwI GGATC 1 cut(s) 784
AlwNI CAGNNNCTG 1 cut(s) 113
ApeKI GCWGC 3 cut(s) 113, 270, 611
ApoI RAATTY 3 cut(s) 488, 518, 602
Asp700I GAANNNNTTC 1 cut(s) 643
AspS9I GGNCC 1 cut(s) 508
AvaII GGWCC 1 cut(s) 508
AxyI CCTNAGG 1 cut(s) 106
BbsI GAAGAC 2 cut(s) 572, 713
Bbv12I GWGCWC 1 cut(s) 548
BbvCI CCTCAGC 1 cut(s) 117
BbvI GCAGC 3 cut(s) 100, 257, 623
BccI CCATC 2 cut(s) 168, 425
BciVI GTATCC 1 cut(s) 145
BfaI CTAG 3 cut(s) 401, 711, 808
BfmI CTRYAG 1 cut(s) 666
BfrI CTTAAG 1 cut(s) 674
BfuI GTATCC 1 cut(s) 145
BisI GCNGC 3 cut(s) 114, 271, 612
BlsI GCNGC 3 cut(s) 115, 272, 613
Bme18I GGWCC 1 cut(s) 508
BmgT120I GGNCC 1 cut(s) 508
BmiI GGNNCC 2 cut(s) 91, 509
BmsI GCATC 1 cut(s) 12
BpiI GAAGAC 2 cut(s) 572, 713
Bpu10I CCTNAGC 1 cut(s) 117
BpuEI CTTGAG 1 cut(s) 239
BsaJI CCNNGG 2 cut(s) 365, 648
Bsc4I CCNNNNNNNGG 2 cut(s) 146, 367
Bse1I ACTGG 1 cut(s) 64
Bse21I CCTNAGG 1 cut(s) 106
BseDI CCNNGG 2 cut(s) 365, 648
BseGI GGATG 4 cut(s) 13, 27, 160, 436
BseLI CCNNNNNNNGG 2 cut(s) 146, 367
BseMII CTCAG 2 cut(s) 108, 120
BseNI ACTGG 1 cut(s) 64
BseXI GCAGC 3 cut(s) 100, 257, 623
BsiHKAI GWGCWC 1 cut(s) 548
BslFI GGGAC 1 cut(s) 521
BslI CCNNNNNNNGG 2 cut(s) 146, 367
BsmFI GGGAC 1 cut(s) 521
Bsp1286I GDGCHC 1 cut(s) 548
Bsp143I GATC 2 cut(s) 410, 789
BspCNI CTCAG 2 cut(s) 109, 119
BspLI GGNNCC 2 cut(s) 91, 509
BspPI GGATC 1 cut(s) 784
BspQI GCTCTTC 1 cut(s) 743
BspTI CTTAAG 1 cut(s) 674
BsrI ACTGG 1 cut(s) 64
BssECI CCNNGG 2 cut(s) 365, 648
BssMI GATC 2 cut(s) 410, 789
BssNAI GTATAC 1 cut(s) 452
BssT1I CCWWGG 2 cut(s) 365, 648
Bst1107I GTATAC 1 cut(s) 452
Bst4CI ACNGT 4 cut(s) 47, 146, 449, 499
Bst6I CTCTTC 2 cut(s) 573, 743
BstAFI CTTAAG 1 cut(s) 674
BstC8I GCNNGC 2 cut(s) 329, 362
BstDEI CTNAG 4 cut(s) 106, 117, 633, 744
BstF5I GGATG 4 cut(s) 13, 27, 160, 436
BstKTI GATC 2 cut(s) 413, 792
BstMBI GATC 2 cut(s) 410, 789
BstMWI GCNNNNNNNGC 1 cut(s) 668
BstNSI RCATGY 1 cut(s) 331
BstSFI CTRYAG 1 cut(s) 666
BstV1I GCAGC 3 cut(s) 100, 257, 623
BstV2I GAAGAC 2 cut(s) 572, 713
BstXI CCANNNNNNTGG 1 cut(s) 197
BstZ17I GTATAC 1 cut(s) 452
Bsu36I CCTNAGG 1 cut(s) 106
BsuI GTATCC 1 cut(s) 145
BtsCI GGATG 4 cut(s) 13, 27, 160, 436
BtsIMutI CAGTG 1 cut(s) 71
Cac8I GCNNGC 2 cut(s) 329, 362
CaiI CAGNNNCTG 1 cut(s) 113
Cfr13I GGNCC 1 cut(s) 508
Csp6I GTAC 2 cut(s) 346, 796
CviAII CATG 2 cut(s) 328, 473
CviJI RGCY 4 cut(s) 425, 592, 614, 688
CviKI_1 RGCY 4 cut(s) 425, 592, 614, 688
CviQI GTAC 2 cut(s) 346, 796
DdeI CTNAG 4 cut(s) 106, 117, 633, 744
DpnI GATC 2 cut(s) 412, 791
DpnII GATC 2 cut(s) 410, 789
DraIII CACNNNGTG 1 cut(s) 170
Eam1104I CTCTTC 2 cut(s) 573, 743
EarI CTCTTC 2 cut(s) 573, 743
Eco130I CCWWGG 2 cut(s) 365, 648
Eco47I GGWCC 1 cut(s) 508
Eco57I CTGAAG 1 cut(s) 231
Eco81I CCTNAGG 1 cut(s) 106
EcoRI GAATTC 1 cut(s) 602
EcoT14I CCWWGG 2 cut(s) 365, 648
ErhI CCWWGG 2 cut(s) 365, 648
FaeI CATG 2 cut(s) 331, 476
FaqI GGGAC 1 cut(s) 521
FatI CATG 2 cut(s) 327, 472
FauNDI CATATG 1 cut(s) 691
FblI GTMKAC 1 cut(s) 451
Fnu4HI GCNGC 3 cut(s) 114, 271, 612
FokI GGATG 4 cut(s) 20, 34, 147, 443
Fsp4HI GCNGC 3 cut(s) 114, 271, 612
FspBI CTAG 3 cut(s) 401, 711, 808
GluI GCNGC 3 cut(s) 114, 271, 612
Hin1II CATG 2 cut(s) 331, 476
HinfI GANTC 3 cut(s) 242, 755, 769
Hpy166II GTNNAC 3 cut(s) 50, 281, 452
Hpy188I TCNGA 3 cut(s) 97, 601, 727
Hpy188III TCNNGA 1 cut(s) 698
Hpy8I GTNNAC 3 cut(s) 50, 281, 452
HpyAV CCTTC 4 cut(s) 292, 398, 498, 775
HpyCH4III ACNGT 4 cut(s) 47, 146, 449, 499
HpyCH4V TGCA 8 cut(s) 4, 25, 39, 176, 273, 327, 465, 611
HpyF10VI GCNNNNNNNGC 1 cut(s) 668
HpyF3I CTNAG 4 cut(s) 106, 117, 633, 744
Hsp92II CATG 2 cut(s) 331, 476
Kzo9I GATC 2 cut(s) 410, 789
LguI GCTCTTC 1 cut(s) 743
LmnI GCTCC 1 cut(s) 667
Lsp1109I GCAGC 3 cut(s) 100, 257, 623
LweI GCATC 1 cut(s) 12
MaeI CTAG 3 cut(s) 401, 711, 808
MaeIII GTNAC 2 cut(s) 309, 628
MalI GATC 2 cut(s) 412, 791
MboI GATC 2 cut(s) 410, 789
MboII GAAGA 9 cut(s) 224, 571, 574, 577, 590, 715, 718, 760, 778
MhlI GDGCHC 1 cut(s) 548
MluCI AATT 5 cut(s) 258, 314, 488, 518, 602
MnlI CCTC 3 cut(s) 103, 112, 115
MroXI GAANNNNTTC 1 cut(s) 643
MseI TTAA 1 cut(s) 675
MspCI CTTAAG 1 cut(s) 674
MwoI GCNNNNNNNGC 1 cut(s) 668
NdeI CATATG 1 cut(s) 691
NdeII GATC 2 cut(s) 410, 789
NlaIII CATG 2 cut(s) 331, 476
NlaIV GGNNCC 2 cut(s) 91, 509
NmuCI GTSAC 1 cut(s) 628
NspI RCATGY 1 cut(s) 331
PaeI GCATGC 1 cut(s) 331
PciSI GCTCTTC 1 cut(s) 743
PdmI GAANNNNTTC 1 cut(s) 643
PfeI GAWTC 3 cut(s) 242, 755, 769
PflMI CCANNNNNTGG 1 cut(s) 146
PkrI GCNGC 3 cut(s) 115, 272, 613
PspN4I GGNNCC 2 cut(s) 91, 509
PspPI GGNCC 1 cut(s) 508
PstNI CAGNNNCTG 1 cut(s) 113
RsaI GTAC 2 cut(s) 347, 797
RsaNI GTAC 2 cut(s) 346, 796
SapI GCTCTTC 1 cut(s) 743
SaqAI TTAA 1 cut(s) 675
SatI GCNGC 3 cut(s) 114, 271, 612
Sau3AI GATC 2 cut(s) 410, 789
Sau96I GGNCC 1 cut(s) 508
SduI GDGCHC 1 cut(s) 548
SetI ASST 6 cut(s) 91, 112, 123, 427, 445, 739
SfaNI GCATC 1 cut(s) 12
SfcI CTRYAG 1 cut(s) 666
SinI GGWCC 1 cut(s) 508
SmlI CTYRAG 2 cut(s) 218, 674
SmoI CTYRAG 2 cut(s) 218, 674
SphI GCATGC 1 cut(s) 331
Sse9I AATT 5 cut(s) 258, 314, 488, 518, 602
SspI AATATT 2 cut(s) 180, 643
SspMI CTAG 3 cut(s) 401, 711, 808
StyI CCWWGG 2 cut(s) 365, 648
TaaI ACNGT 4 cut(s) 47, 146, 449, 499
TaqI TCGA 1 cut(s) 151
TasI AATT 5 cut(s) 258, 314, 488, 518, 602
TatI WGTACW 1 cut(s) 795
TfiI GAWTC 3 cut(s) 242, 755, 769
Tru1I TTAA 1 cut(s) 675
Tru9I TTAA 1 cut(s) 675
TscAI CASTG 1 cut(s) 71
TseFI GTSAC 1 cut(s) 628
TseI GCWGC 3 cut(s) 113, 270, 611
Tsp45I GTSAC 1 cut(s) 628
TspDTI ATGAA 1 cut(s) 251
TspRI CASTG 1 cut(s) 71
Van91I CCANNNNNTGG 1 cut(s) 146
Vha464I CTTAAG 1 cut(s) 674
VpaK11BI GGWCC 1 cut(s) 508
XapI RAATTY 3 cut(s) 488, 518, 602
XceI RCATGY 1 cut(s) 331
XmiI GTMKAC 1 cut(s) 451
XmnI GAANNNNTTC 1 cut(s) 643
XspI CTAG 3 cut(s) 401, 711, 808
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.