RchiOBHm_Chr1g0354781
ERF Family

DDE superfamily endonuclease

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
1
OG0000469
Physical Location & Seq
Forward (+)
47599960 .. 47601276
1317 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ58030

Sequence Viewer

Length: 1134 bp
ATGATCATTTGTATGAACATTTATGATTATTGGTCTTCATACATAGACAAGGTTCCTTGCCATACATCGATTCTATCTGGAGCTGAATATGTGCAAGAGTTGCTGAATGGACATCCAGATAGAATATATAACTCATTTCGCATGGATAAACATGTATTTCAAAGGTTGTGTTGCACGCTTAAGAGTTTAAAGTTATTAGAAGATGATCGACATGTAGGTGTCCAAGAAGCCGTGGCGATTTTCTTATATATAGTATCTCATAGTGAGCGTATGAGAATGGCTGCTGAGCGCTTTCAACGATCAAAGGATACTATTCATCGACAGTTTAAGCGTGTATTAGCAGCCTTGTGTATGTTATCACCACAGATTATACGTCCTCAAAGTGAAGGAGAAACACCTGCTGAAATTTTGAACAATCCAAAGTTTTATCCATATTTTGAGAAATGTATTGGGGCAATTGATGGAACACATGTCGCTGCATGGGCTCCGGCTCAGAAACAAACTTCATATCGTGGTAGGAAAGTTCTTGTTACCCAAAATGTCATGTGTGCATGCTCTTTTGACATGATGTTCACCTTTGTTTACACTGGATGGGAAGGGACTGCAAATGATTCTAGGATCTTTACAGATGCAGTGACCAGGCCAGAAAATAAATTCCCATTTCCAAATGAAGGATATTATTATGTTGTGGATGCTGGATACACAAACATGCCAGGATTCTTAGCTCCTTATCGAGGTGAGCGGTATCATTTGCGTGATTACAGAGGACCTCATCGTACACCGAGAGGCCCTAGGGAATTGTTCAACTACAGACATTCTTCATTGCGAAATGTAATTGAGCGATGTTTTGGTGTATTGAAAGTGCGTTTTCCAATTTTAAAATATATGCCTAATTATCCTCCAAGAAGGCAACGACGTATACCAATTGCATGTTGTGTTTTACACAATTTTATTCGGAAGGAAGCTCGTCGCGATAGATTGTTTGAAGCTTTTGATGTAGAAGATATGATTTTTGAGGAGGAAAACAATACACCAACGAACTTAGATATGTCACAAGAGAACCTTGCACAGATAACTAATGTTAGAAATGCAATTGCAGAAGACTTGTGGCAAGATTTTATCCCTCACCCTTAG
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
DDE_Tnp_4

Protein Analysis

377

Amino Acids

44.25

Weight (kDa)

8.67

Isoelectric Point (pI)

45.52

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
DUF8040 PF26138 22 - 117 8.6e-40 Domain of unknown function (DUF8040)
Plant_tran PF04827 146 - 322 1.5e-07 Plant transposon protein
DDE_Tnp_4 PF13359 153 - 316 5.1e-23 DDE superfamily endonuclease
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: OG0000469)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G43722 AT3G30525 AT5G28730
fragaria_vesca FvH4_1g10461 FvH4_1g19401 FvH4_2g04530 FvH4_2g04530 FvH4_2g11121 FvH4_2g13361 FvH4_3g21471 FvH4_3g26161 FvH4_3g29911 FvH4_4g20922 FvH4_4g30624 FvH4_5g23912 FvH4_6g30381 FvH4_6g53026 FvH4_7g00061 FvH4_7g19211 FvH4_7g19211
malus_domestica MD06G1090500.v1.1 MD08G1193900.v1.1 MD11G1151600.v1.1 MD16G1281600.v1.1
prunus_persica Prupe.1G096200_v2.0.a1 Prupe.1G189200_v2.0.a1 Prupe.1G198400_v2.0.a1 Prupe.6G167200_v2.0.a1 Prupe.6G192900_v2.0.a1
pyrus_communis pycom02g00900 pycom06g03500 pycom07g13740 pycom11g10040 pycom17g21680 pycom520g00090
rosa_chinensis RchiOBHm_Chr1g0354781 RchiOBHm_Chr2g0085491 RchiOBHm_Chr2g0103971 RchiOBHm_Chr2g0145791 RchiOBHm_Chr4g0414051 RchiOBHm_Chr4g0419691 RchiOBHm_Chr4g0435871 RchiOBHm_Chr6g0292381 RchiOBHm_Chr7g0199291
rosa_laevigata RLG00000035604
rosa_multiflora Rmu_co8287949.1_g000001 Rmu_sc0000079.1_g000057 Rmu_sc0000240.1_g000063 Rmu_sc0000552.1_g000020 Rmu_sc0000950.1_g000002 Rmu_sc0001257.1_g000003 Rmu_sc0001597.1_g000014 Rmu_sc0001939.1_g000006 Rmu_sc0002160.1_g000015 Rmu_sc0003526.1_g000015 Rmu_sc0005712.1_g000025 Rmu_sc0006032.1_g000011 Rmu_sc0006935.1_g000005 Rmu_sc0008636.1_g000002 Rmu_sc0009205.1_g000006 Rmu_sc0009438.1_g000007 Rmu_ssc0000486.1_g000013
rosa_roxburghii Rroxscaffold_1G00003870 Rroxscaffold_1G00014970 Rroxscaffold_3G00218750 Rroxscaffold_5G00367160 Rroxscaffold_7G00186480
rosa_rugosa Rorug05G0192000
rosa_samantha Rh4BG219200
rosa_wichuraiana Rw1G010350 Rw1G014480 Rw1G023690 Rw1G033480 Rw2G050290 Rw3G027480 Rw4G033650 Rw5G005670 Rw5G021010 Rw5G021860 Rw5G041260 Rw5G041760 Rw6G008410 Rw6G021080 Rw6G022950 Rw6G025480 Rw6G028700 Rw7G002710 Rw7G004940 Rw7G031510 Rw7G041110

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AarI CACCTGC 1 cut(s) 406
Acc36I ACCTGC 1 cut(s) 406
AccBSI CCGCTC 1 cut(s) 742
AccI GTMKAC 1 cut(s) 919
AccII CGCG 1 cut(s) 972
AciI CCGC 1 cut(s) 742
AclWI GGATC 1 cut(s) 626
AcsI RAATTY 2 cut(s) 405, 653
AfaI GTAC 1 cut(s) 778
AfeI AGCGCT 1 cut(s) 290
AfiI CCNNNNNNNGG 2 cut(s) 671, 734
AflII CTTAAG 1 cut(s) 179
AflIII ACRYGT 3 cut(s) 151, 211, 469
AgsI TTSAA 6 cut(s) 161, 296, 412, 805, 859, 986
AjnI CCWGG 2 cut(s) 638, 712
AluBI AGCT 4 cut(s) 83, 725, 965, 989
AluI AGCT 4 cut(s) 83, 725, 965, 989
AlwI GGATC 1 cut(s) 626
Aor51HI AGCGCT 1 cut(s) 290
AoxI GGCC 2 cut(s) 641, 787
ApeKI GCWGC 3 cut(s) 281, 341, 476
ApoI RAATTY 2 cut(s) 405, 653
AspA2I CCTAGG 1 cut(s) 791
AspLEI GCGC 1 cut(s) 291
AspS9I GGNCC 2 cut(s) 767, 788
AsuHPI GGTGA 4 cut(s) 351, 565, 749, 1118
AvaII GGWCC 1 cut(s) 767
AvrII CCTAGG 1 cut(s) 791
BanII GRGCYC 1 cut(s) 487
BbsI GAAGAC 2 cut(s) 27, 1107
BbvI GCAGC 3 cut(s) 268, 353, 463
BccI CCATC 2 cut(s) 455, 585
BceAI ACGGC 1 cut(s) 215
BciT130I CCWGG 2 cut(s) 640, 714
BciVI GTATCC 2 cut(s) 301, 692
BclI TGATCA 1 cut(s) 3
BfaI CTAG 2 cut(s) 615, 792
BfmI CTRYAG 1 cut(s) 808
BfoI RGCGCY 1 cut(s) 292
BfrI CTTAAG 1 cut(s) 179
BfuAI ACCTGC 1 cut(s) 406
BfuI GTATCC 2 cut(s) 301, 692
BisI GCNGC 3 cut(s) 282, 342, 477
BlnI CCTAGG 1 cut(s) 791
BlpI GCTNAGC 1 cut(s) 285
BlsI GCNGC 3 cut(s) 283, 343, 478
Bme1390I CCNGG 2 cut(s) 640, 714
Bme18I GGWCC 1 cut(s) 767
BmgT120I GGNCC 2 cut(s) 767, 788
BmiI GGNNCC 2 cut(s) 54, 486
BmrFI CCNGG 2 cut(s) 640, 714
BmsI GCATC 2 cut(s) 619, 682
BpiI GAAGAC 2 cut(s) 27, 1107
BpmI CTGGAG 1 cut(s) 99
Bpu1102I GCTNAGC 1 cut(s) 285
Bsa29I ATCGAT 1 cut(s) 68
BsaJI CCNNGG 2 cut(s) 231, 791
Bsc4I CCNNNNNNNGG 2 cut(s) 671, 734
Bse1I ACTGG 1 cut(s) 592
Bse3DI GCAATG 1 cut(s) 821
BseBI CCWGG 2 cut(s) 640, 714
BseCI ATCGAT 1 cut(s) 68
BseDI CCNNGG 2 cut(s) 231, 791
BseGI GGATG 3 cut(s) 112, 596, 697
BseLI CCNNNNNNNGG 2 cut(s) 671, 734
BseMI GCAATG 1 cut(s) 821
BseMII CTCAG 2 cut(s) 276, 506
BseNI ACTGG 1 cut(s) 592
BseRI GAGGAG 1 cut(s) 1031
BseXI GCAGC 3 cut(s) 268, 353, 463
Bsh1236I CGCG 1 cut(s) 972
BshFI GGCC 2 cut(s) 643, 789
BshVI ATCGAT 1 cut(s) 68
BsiSI CCGG 1 cut(s) 488
BslFI GGGAC 1 cut(s) 613
BslI CCNNNNNNNGG 2 cut(s) 671, 734
BsmFI GGGAC 1 cut(s) 613
BsnI GGCC 2 cut(s) 643, 789
Bsp1286I GDGCHC 1 cut(s) 487
Bsp143I GATC 4 cut(s) 3, 205, 299, 618
Bsp1720I GCTNAGC 1 cut(s) 285
Bsp68I TCGCGA 1 cut(s) 972
BspACI CCGC 1 cut(s) 742
BspANI GGCC 2 cut(s) 643, 789
BspCNI CTCAG 2 cut(s) 277, 505
BspDI ATCGAT 1 cut(s) 68
BspFNI CGCG 1 cut(s) 972
BspLI GGNNCC 2 cut(s) 54, 486
BspMI ACCTGC 1 cut(s) 406
BspPI GGATC 1 cut(s) 626
BspTI CTTAAG 1 cut(s) 179
BsrBI CCGCTC 1 cut(s) 742
BsrDI GCAATG 1 cut(s) 821
BsrI ACTGG 1 cut(s) 592
BssECI CCNNGG 2 cut(s) 231, 791
BssMI GATC 4 cut(s) 3, 205, 299, 618
BssNAI GTATAC 1 cut(s) 920
BssT1I CCWWGG 1 cut(s) 791
Bst1107I GTATAC 1 cut(s) 920
Bst2UI CCWGG 2 cut(s) 640, 714
Bst4CI ACNGT 1 cut(s) 324
BstAFI CTTAAG 1 cut(s) 179
BstAPI GCANNNNNTGC 1 cut(s) 100
BstC8I GCNNGC 2 cut(s) 176, 553
BstDEI CTNAG 5 cut(s) 285, 492, 721, 1042, 1131
BstDSI CCRYGG 1 cut(s) 231
BstENI CCTNNNNNAGG 1 cut(s) 732
BstF5I GGATG 3 cut(s) 112, 596, 697
BstFNI CGCG 1 cut(s) 972
BstH2I RGCGCY 1 cut(s) 292
BstHHI GCGC 1 cut(s) 291
BstKTI GATC 4 cut(s) 6, 208, 302, 621
BstMBI GATC 4 cut(s) 3, 205, 299, 618
BstMWI GCNNNNNNNGC 2 cut(s) 100, 482
BstNI CCWGG 2 cut(s) 640, 714
BstNSI RCATGY 6 cut(s) 155, 215, 473, 555, 712, 933
BstSCI CCNGG 2 cut(s) 638, 712
BstSFI CTRYAG 1 cut(s) 808
BstUI CGCG 1 cut(s) 972
BstV1I GCAGC 3 cut(s) 268, 353, 463
BstV2I GAAGAC 2 cut(s) 27, 1107
BstX2I RGATCY 1 cut(s) 618
BstYI RGATCY 1 cut(s) 618
BstZ17I GTATAC 1 cut(s) 920
Bsu15I ATCGAT 1 cut(s) 68
BsuI GTATCC 2 cut(s) 301, 692
BsuRI GGCC 2 cut(s) 643, 789
BsuTUI ATCGAT 1 cut(s) 68
BtgI CCRYGG 1 cut(s) 231
BtgZI GCGATG 1 cut(s) 856
BtsCI GGATG 3 cut(s) 112, 596, 697
BtsI GCAGTG 1 cut(s) 639
BtsIMutI CAGTG 2 cut(s) 585, 639
BtuMI TCGCGA 1 cut(s) 972
BveI ACCTGC 1 cut(s) 406
Cac8I GCNNGC 2 cut(s) 176, 553
CfoI GCGC 1 cut(s) 291
Cfr13I GGNCC 2 cut(s) 767, 788
ClaI ATCGAT 1 cut(s) 68
Csp6I GTAC 1 cut(s) 777
CviQI GTAC 1 cut(s) 777
DdeI CTNAG 5 cut(s) 285, 492, 721, 1042, 1131
DpnI GATC 4 cut(s) 5, 207, 301, 620
DpnII GATC 4 cut(s) 3, 205, 299, 618
DraI TTTAAA 2 cut(s) 189, 879
Eco130I CCWWGG 1 cut(s) 791
Eco24I GRGCYC 1 cut(s) 487
Eco47I GGWCC 1 cut(s) 767
Eco47III AGCGCT 1 cut(s) 290
EcoNI CCTNNNNNAGG 1 cut(s) 732
EcoO109I RGGNCCY 2 cut(s) 767, 788
EcoRII CCWGG 2 cut(s) 638, 712
EcoT14I CCWWGG 1 cut(s) 791
EcoT38I GRGCYC 1 cut(s) 487
ErhI CCWWGG 1 cut(s) 791
FalI AAGNNNNNCTT 2 cut(s) 1047, 1079
FaqI GGGAC 1 cut(s) 613
FbaI TGATCA 1 cut(s) 3
FblI GTMKAC 1 cut(s) 919
Fnu4HI GCNGC 3 cut(s) 282, 342, 477
FokI GGATG 3 cut(s) 99, 603, 704
FriOI GRGCYC 1 cut(s) 487
Fsp4HI GCNGC 3 cut(s) 282, 342, 477
FspBI CTAG 2 cut(s) 615, 792
GlaI GCGC 1 cut(s) 290
GluI GCNGC 3 cut(s) 282, 342, 477
GsuI CTGGAG 1 cut(s) 99
HaeII RGCGCY 1 cut(s) 292
HaeIII GGCC 2 cut(s) 643, 789
HapII CCGG 1 cut(s) 488
HhaI GCGC 1 cut(s) 291
Hin6I GCGC 1 cut(s) 289
HinP1I GCGC 1 cut(s) 289
HindIII AAGCTT 1 cut(s) 987
HinfI GANTC 3 cut(s) 70, 611, 717
HpaII CCGG 1 cut(s) 488
HphI GGTGA 4 cut(s) 351, 565, 749, 1118
Hpy166II GTNNAC 4 cut(s) 573, 583, 779, 920
Hpy188I TCNGA 2 cut(s) 495, 957
Hpy188III TCNNGA 3 cut(s) 78, 116, 971
Hpy8I GTNNAC 4 cut(s) 573, 583, 779, 920
Hpy99I CGWCG 2 cut(s) 918, 972
HpyAV CCTTC 5 cut(s) 380, 590, 665, 900, 952
HpyCH4III ACNGT 1 cut(s) 324
HpyCH4IV ACGT 2 cut(s) 373, 916
HpyF10VI GCNNNNNNNGC 2 cut(s) 100, 482
HpyF3I CTNAG 5 cut(s) 285, 492, 721, 1042, 1131
HpySE526I ACGT 2 cut(s) 373, 916
HspAI GCGC 1 cut(s) 289
Ksp22I TGATCA 1 cut(s) 3
Kzo9I GATC 4 cut(s) 3, 205, 299, 618
LmnI GCTCC 3 cut(s) 80, 490, 730
Lsp1109I GCAGC 3 cut(s) 268, 353, 463
LweI GCATC 2 cut(s) 619, 682
MaeI CTAG 2 cut(s) 615, 792
MaeII ACGT 2 cut(s) 373, 916
MaeIII GTNAC 3 cut(s) 529, 634, 1050
MalI GATC 4 cut(s) 5, 207, 301, 620
MbiI CCGCTC 1 cut(s) 742
MboI GATC 4 cut(s) 3, 205, 299, 618
MboII GAAGA 5 cut(s) 27, 212, 810, 1013, 1112
MfeI CAATTG 3 cut(s) 456, 924, 1092
MflI RGATCY 1 cut(s) 618
MhlI GDGCHC 1 cut(s) 487
MnlI CCTC 9 cut(s) 387, 728, 758, 779, 780, 909, 1009, 1012, 1134
MseI TTAA 4 cut(s) 180, 188, 327, 878
MslI CAYNNNNRTG 4 cut(s) 11, 216, 707, 753
MspCI CTTAAG 1 cut(s) 179
MspI CCGG 1 cut(s) 488
MspR9I CCNGG 2 cut(s) 640, 714
MunI CAATTG 3 cut(s) 456, 924, 1092
MvaI CCWGG 2 cut(s) 640, 714
MvnI CGCG 1 cut(s) 972
MwoI GCNNNNNNNGC 2 cut(s) 100, 482
NdeII GATC 4 cut(s) 3, 205, 299, 618
NlaIV GGNNCC 2 cut(s) 54, 486
NmuCI GTSAC 2 cut(s) 634, 1050
NruI TCGCGA 1 cut(s) 972
NspI RCATGY 6 cut(s) 155, 215, 473, 555, 712, 933
PaeI GCATGC 1 cut(s) 555
PaqCI CACCTGC 1 cut(s) 406
PciI ACATGT 3 cut(s) 151, 211, 469
PfeI GAWTC 3 cut(s) 70, 611, 717
PkrI GCNGC 3 cut(s) 283, 343, 478
PpuMI RGGWCCY 1 cut(s) 767
PscI ACATGT 3 cut(s) 151, 211, 469
Psp5II RGGWCCY 1 cut(s) 767
Psp6I CCWGG 2 cut(s) 638, 712
PspGI CCWGG 2 cut(s) 638, 712
PspN4I GGNNCC 2 cut(s) 54, 486
PspPI GGNCC 2 cut(s) 767, 788
PspPPI RGGWCCY 1 cut(s) 767
PsuI RGATCY 1 cut(s) 618
RruI TCGCGA 1 cut(s) 972
RsaI GTAC 1 cut(s) 778
RsaNI GTAC 1 cut(s) 777
RseI CAYNNNNRTG 4 cut(s) 11, 216, 707, 753
SaqAI TTAA 4 cut(s) 180, 188, 327, 878
SatI GCNGC 3 cut(s) 282, 342, 477
Sau3AI GATC 4 cut(s) 3, 205, 299, 618
Sau96I GGNCC 2 cut(s) 767, 788
ScrFI CCNGG 2 cut(s) 640, 714
SduI GDGCHC 1 cut(s) 487
SfaNI GCATC 2 cut(s) 619, 682
SfcI CTRYAG 1 cut(s) 808
SinI GGWCC 1 cut(s) 767
SmiMI CAYNNNNRTG 4 cut(s) 11, 216, 707, 753
SmlI CTYRAG 1 cut(s) 179
SmoI CTYRAG 1 cut(s) 179
SphI GCATGC 1 cut(s) 555
SsiI CCGC 1 cut(s) 742
SspMI CTAG 2 cut(s) 615, 792
StyD4I CCNGG 2 cut(s) 638, 712
StyI CCWWGG 1 cut(s) 791
TaaI ACNGT 1 cut(s) 324
TaiI ACGT 2 cut(s) 376, 919
TaqI TCGA 4 cut(s) 68, 208, 319, 733
TfiI GAWTC 3 cut(s) 70, 611, 717
Tru1I TTAA 4 cut(s) 180, 188, 327, 878
Tru9I TTAA 4 cut(s) 180, 188, 327, 878
TscAI CASTG 2 cut(s) 592, 639
TseFI GTSAC 2 cut(s) 634, 1050
TseI GCWGC 3 cut(s) 281, 341, 476
Tsp45I GTSAC 2 cut(s) 634, 1050
TspDTI ATGAA 6 cut(s) 27, 29, 305, 495, 684, 810
TspRI CASTG 2 cut(s) 592, 639
Vha464I CTTAAG 1 cut(s) 179
VpaK11BI GGWCC 1 cut(s) 767
XagI CCTNNNNNAGG 1 cut(s) 732
XapI RAATTY 2 cut(s) 405, 653
XceI RCATGY 6 cut(s) 155, 215, 473, 555, 712, 933
XmaJI CCTAGG 1 cut(s) 791
XmiI GTMKAC 1 cut(s) 919
XspI CTAG 2 cut(s) 615, 792
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.