Rh6CG518600
ERF Family

DDE superfamily endonuclease

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr6C
OG0015028
Physical Location & Seq
Forward (+)
67537868 .. 67538833
966 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh6CG518600.1

Sequence Viewer

Length: 966 bp
ATGGGGAAGGCCACGTTCGATTTGATCTGCGACGAGCTCAATTCGGCTATAGCGAAAGAGGACACCACTCTCCGGAATGCAATTCCGGTCCGGCAGAGAGTCGCCGTCTGTTTGTGGAGGTTAGCTACCGGCGACCCGCTCCGGCTCGTTTCGAAGCGATTCGGGTTAGGGATATCGACTTGTCATAAGCTAGTACTGGAAGTCTGCTCAGCGATTAGGACTGTGTTGATGCCCAAGTACTTGAATTGGCCGGAGGATGGTGTTTTGAGGAAGGTGAAGGACGAGTTCGAATCGTTTTCGGGTATACCTAATGTTGTAGGGTCTATGTACACCACTCATATTCCGATCATAGCTCCGAAGATTAGTGTGGCAGCTTATTTTAACAAGAGGCATACAGAGAGGAACCAGAAGACTAGCTACTCCATCACTGTGCAAGGTGTGGTGAATCCGAAAGGGGTGTTCACTGATGTGTGTATAGGGTGGCCTGGTTCAATGCCGGATGATCAGGTTCTGGAGAAGTCGGCTTTGCATCAGAGGGCCGGGAATGGTTTGCTTAAAGGTGTGTGGATTGTGGGGGGTTCGGGGTACCCTTTGCTGGACTGGGTGCTGGTGCCGTATACCCAGCAGCATCTTACTTGGACGCAGCATGCGTTCAATGAGAAGATTGGGGAGATTCAGAATGTGTCGAAAGATGCGTTTGCGAGGTTGAAAGGGAGGTGGTTGTGCTTGCAGAAGAGGACGGAGGTGAAGCTCCAGGACTTGCCTGTGGTTCTTGGGGCTTGCTGTGTGCTGCACAACATATGCGAGCTGAGGAATGAGGAAATCGACCCCGAGCTGAGGTTTGAGCTTGTGGATGATGAGATGGTTCCGGAGGTTGCTTTGAGATCACAAAGCTCAATGAAGGCGAGGGATTCTATTGCTCATAATCTTTTGCATCATGGCCTTGCAGGCACTTCTTTTCTCTAG
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

321

Amino Acids

35.88

Weight (kDa)

8.33

Isoelectric Point (pI)

43.34

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
DDE_Tnp_4 PF13359 110 - 266 3.9e-35 DDE superfamily endonuclease
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: OG0015028)

Species Orthologous Gene IDs
arabidopsis_thaliana AT5G12010
fragaria_vesca FvH4_2g31471
malus_domestica MD15G1055200.v1.1
prunus_persica Prupe.1G408400_v2.0.a1
pyrus_communis pycom08g05470 pycom15g05210
rosa_chinensis RchiOBHm_Chr6g0311321
rosa_laevigata RLG00000010417
rosa_multiflora Rmu_co8316609.1_g000001
rosa_roxburghii Rroxscaffold_7G00157760
rosa_rugosa Rorug06G0387200
rosa_samantha Rh6AG502300 Rh6BG512900 Rh6CG518600 Rh6DG504900
rosa_wichuraiana Rw6G043730

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc65I GGTACC 1 cut(s) 585
AccB1I GGYRCC 2 cut(s) 585, 610
AccBSI CCGCTC 1 cut(s) 139
AccI GTMKAC 2 cut(s) 304, 617
AccIII TCCGGA 2 cut(s) 72, 868
AciI CCGC 1 cut(s) 137
AcoI YGGCCR 1 cut(s) 248
AfaI GTAC 4 cut(s) 195, 239, 329, 587
AfiI CCNNNNNNNGG 4 cut(s) 72, 257, 595, 837
AgsI TTSAA 4 cut(s) 244, 492, 655, 709
AjnI CCWGG 2 cut(s) 484, 753
AleI CACNNNNGTG 1 cut(s) 467
Alw21I GWGCWC 1 cut(s) 39
AlwNI CAGNNNCTG 1 cut(s) 511
Ama87I CYCGRG 1 cut(s) 830
Aor13HI TCCGGA 2 cut(s) 72, 868
AoxI GGCC 5 cut(s) 9, 248, 482, 537, 940
ApeKI GCWGC 4 cut(s) 371, 625, 643, 790
Asp700I GAANNNNTTC 1 cut(s) 158
Asp718I GGTACC 1 cut(s) 585
AspS9I GGNCC 2 cut(s) 88, 537
AsuC2I CCSGG 1 cut(s) 541
AsuHPI GGTGA 3 cut(s) 286, 454, 757
AsuII TTCGAA 2 cut(s) 152, 288
AvaI CYCGRG 1 cut(s) 830
AvaII GGWCC 1 cut(s) 88
BanI GGYRCC 2 cut(s) 585, 610
BanII GRGCYC 1 cut(s) 39
BarI GAAGNNNNNNTAC 2 cut(s) 401, 433
BbsI GAAGAC 1 cut(s) 416
Bbv12I GWGCWC 1 cut(s) 39
BbvCI CCTCAGC 2 cut(s) 809, 836
BbvI GCAGC 4 cut(s) 383, 637, 655, 777
BccI CCATC 3 cut(s) 251, 431, 856
BceAI ACGGC 2 cut(s) 89, 598
BciT130I CCWGG 2 cut(s) 486, 755
BclI TGATCA 1 cut(s) 502
BcnI CCSGG 1 cut(s) 541
BfaI CTAG 3 cut(s) 191, 414, 964
BfmI CTRYAG 1 cut(s) 48
BglI GCCNNNNNGGC 1 cut(s) 948
BisI GCNGC 4 cut(s) 372, 626, 644, 791
BlpI GCTNAGC 1 cut(s) 208
BlsI GCNGC 4 cut(s) 373, 627, 645, 792
BmcAI AGTACT 2 cut(s) 195, 239
Bme1390I CCNGG 3 cut(s) 486, 541, 755
Bme18I GGWCC 1 cut(s) 88
BmeT110I CYCGRG 1 cut(s) 830
BmgT120I GGNCC 2 cut(s) 88, 537
BmiI GGNNCC 4 cut(s) 404, 587, 612, 867
BmrFI CCNGG 3 cut(s) 486, 541, 755
BmrI ACTGGG 1 cut(s) 610
BmsI GCATC 5 cut(s) 219, 538, 637, 682, 943
BmuI ACTGGG 1 cut(s) 610
BpiI GAAGAC 1 cut(s) 416
BpmI CTGGAG 2 cut(s) 533, 737
Bpu10I CCTNAGC 2 cut(s) 809, 836
Bpu1102I GCTNAGC 1 cut(s) 208
Bpu14I TTCGAA 2 cut(s) 152, 288
BpuMI CCSGG 1 cut(s) 541
BsaWI WCCGGW 3 cut(s) 72, 85, 868
Bsc4I CCNNNNNNNGG 4 cut(s) 72, 257, 595, 837
Bse118I RCCGGY 1 cut(s) 128
Bse1I ACTGG 2 cut(s) 201, 605
BseAI TCCGGA 2 cut(s) 72, 868
BseBI CCWGG 2 cut(s) 486, 755
BseGI GGATG 3 cut(s) 262, 505, 859
BseLI CCNNNNNNNGG 4 cut(s) 72, 257, 595, 837
BseMII CTCAG 3 cut(s) 222, 800, 827
BseNI ACTGG 2 cut(s) 201, 605
BseXI GCAGC 4 cut(s) 383, 637, 655, 777
BseYI CCCAGC 1 cut(s) 621
BsgI GTGCAG 1 cut(s) 776
BshFI GGCC 5 cut(s) 11, 250, 484, 539, 942
BshNI GGYRCC 2 cut(s) 585, 610
BsiHKAI GWGCWC 1 cut(s) 39
BsiHKCI CYCGRG 1 cut(s) 830
BsiSI CCGG 9 cut(s) 73, 86, 91, 129, 142, 251, 497, 540, 869
BslI CCNNNNNNNGG 4 cut(s) 72, 257, 595, 837
BsmI GAATGC 1 cut(s) 82
BsnI GGCC 5 cut(s) 11, 250, 484, 539, 942
BsoBI CYCGRG 1 cut(s) 830
Bsp119I TTCGAA 2 cut(s) 152, 288
Bsp1286I GDGCHC 1 cut(s) 39
Bsp13I TCCGGA 2 cut(s) 72, 868
Bsp1407I TGTACA 1 cut(s) 327
Bsp143I GATC 4 cut(s) 24, 345, 502, 884
Bsp1720I GCTNAGC 1 cut(s) 208
BspACI CCGC 1 cut(s) 137
BspANI GGCC 5 cut(s) 11, 250, 484, 539, 942
BspCNI CTCAG 3 cut(s) 221, 801, 828
BspEI TCCGGA 2 cut(s) 72, 868
BspLI GGNNCC 4 cut(s) 404, 587, 612, 867
BspT104I TTCGAA 2 cut(s) 152, 288
BspT107I GGYRCC 2 cut(s) 585, 610
BsrBI CCGCTC 1 cut(s) 139
BsrFI RCCGGY 1 cut(s) 128
BsrGI TGTACA 1 cut(s) 327
BsrI ACTGG 2 cut(s) 201, 605
BssAI RCCGGY 1 cut(s) 128
BssMI GATC 4 cut(s) 24, 345, 502, 884
BssNAI GTATAC 2 cut(s) 305, 618
Bst1107I GTATAC 2 cut(s) 305, 618
Bst2UI CCWGG 2 cut(s) 486, 755
Bst4CI ACNGT 2 cut(s) 223, 430
Bst6I CTCTTC 1 cut(s) 728
BstAUI TGTACA 1 cut(s) 327
BstBI TTCGAA 2 cut(s) 152, 288
BstC8I GCNNGC 5 cut(s) 648, 728, 781, 806, 949
BstDEI CTNAG 3 cut(s) 208, 809, 836
BstF5I GGATG 3 cut(s) 262, 505, 859
BstKTI GATC 4 cut(s) 27, 348, 505, 887
BstMBI GATC 4 cut(s) 24, 345, 502, 884
BstMWI GCNNNNNNNGC 1 cut(s) 948
BstNI CCWGG 2 cut(s) 486, 755
BstNSI RCATGY 1 cut(s) 650
BstSCI CCNGG 3 cut(s) 484, 539, 753
BstSFI CTRYAG 1 cut(s) 48
BstV1I GCAGC 4 cut(s) 383, 637, 655, 777
BstV2I GAAGAC 1 cut(s) 416
BstZ17I GTATAC 2 cut(s) 305, 618
BsuRI GGCC 5 cut(s) 11, 250, 484, 539, 942
BtsCI GGATG 3 cut(s) 262, 505, 859
BtsIMutI CAGTG 2 cut(s) 426, 462
Cac8I GCNNGC 5 cut(s) 648, 728, 781, 806, 949
CaiI CAGNNNCTG 1 cut(s) 511
Cfr10I RCCGGY 1 cut(s) 128
Cfr13I GGNCC 2 cut(s) 88, 537
CpoI CGGWCCG 1 cut(s) 88
CseI GACGC 1 cut(s) 649
Csp6I GTAC 4 cut(s) 194, 238, 328, 586
CspI CGGWCCG 1 cut(s) 88
CviAII CATG 2 cut(s) 647, 938
CviQI GTAC 4 cut(s) 194, 238, 328, 586
DdeI CTNAG 3 cut(s) 208, 809, 836
DpnI GATC 4 cut(s) 26, 347, 504, 886
DpnII GATC 4 cut(s) 24, 345, 502, 884
EaeI YGGCCR 1 cut(s) 248
Eam1104I CTCTTC 1 cut(s) 728
EarI CTCTTC 1 cut(s) 728
Ecl136II GAGCTC 1 cut(s) 37
Eco24I GRGCYC 1 cut(s) 39
Eco32I GATATC 1 cut(s) 174
Eco47I GGWCC 1 cut(s) 88
Eco53kI GAGCTC 1 cut(s) 37
Eco88I CYCGRG 1 cut(s) 830
EcoICRI GAGCTC 1 cut(s) 37
EcoRII CCWGG 2 cut(s) 484, 753
EcoRV GATATC 1 cut(s) 174
EcoT38I GRGCYC 1 cut(s) 39
FaeI CATG 2 cut(s) 650, 941
FatI CATG 2 cut(s) 646, 937
FauI CCCGC 1 cut(s) 144
FauNDI CATATG 1 cut(s) 800
FbaI TGATCA 1 cut(s) 502
FblI GTMKAC 2 cut(s) 304, 617
Fnu4HI GCNGC 4 cut(s) 372, 626, 644, 791
FokI GGATG 3 cut(s) 269, 512, 866
FriOI GRGCYC 1 cut(s) 39
Fsp4HI GCNGC 4 cut(s) 372, 626, 644, 791
FspBI CTAG 3 cut(s) 191, 414, 964
GluI GCNGC 4 cut(s) 372, 626, 644, 791
GsaI CCCAGC 1 cut(s) 625
GsuI CTGGAG 2 cut(s) 533, 737
HaeIII GGCC 5 cut(s) 11, 250, 484, 539, 942
HapII CCGG 9 cut(s) 73, 86, 91, 129, 142, 251, 497, 540, 869
HgaI GACGC 1 cut(s) 649
Hin1II CATG 2 cut(s) 650, 941
HinfI GANTC 6 cut(s) 99, 159, 290, 445, 673, 911
HpaII CCGG 9 cut(s) 73, 86, 91, 129, 142, 251, 497, 540, 869
HphI GGTGA 3 cut(s) 286, 454, 757
Hpy166II GTNNAC 4 cut(s) 305, 330, 462, 618
Hpy188I TCNGA 5 cut(s) 345, 357, 450, 534, 678
Hpy188III TCNNGA 3 cut(s) 73, 512, 869
Hpy8I GTNNAC 4 cut(s) 305, 330, 462, 618
Hpy99I CGWCG 1 cut(s) 35
HpyAV CCTTC 3 cut(s) 265, 271, 895
HpyCH4III ACNGT 2 cut(s) 223, 430
HpyCH4IV ACGT 1 cut(s) 14
HpyCH4V TGCA 7 cut(s) 80, 433, 529, 730, 793, 934, 947
HpyF10VI GCNNNNNNNGC 1 cut(s) 948
HpyF3I CTNAG 3 cut(s) 208, 809, 836
HpySE526I ACGT 1 cut(s) 14
Hsp92II CATG 2 cut(s) 650, 941
Kpn2I TCCGGA 2 cut(s) 72, 868
KpnI GGTACC 1 cut(s) 589
Ksp22I TGATCA 1 cut(s) 502
Kzo9I GATC 4 cut(s) 24, 345, 502, 884
LmnI GCTCC 3 cut(s) 144, 358, 756
Lsp1109I GCAGC 4 cut(s) 383, 637, 655, 777
LweI GCATC 5 cut(s) 219, 538, 637, 682, 943
MaeI CTAG 3 cut(s) 191, 414, 964
MaeII ACGT 1 cut(s) 14
MalI GATC 4 cut(s) 26, 347, 504, 886
MbiI CCGCTC 1 cut(s) 139
MboI GATC 4 cut(s) 24, 345, 502, 884
MboII GAAGA 4 cut(s) 370, 421, 673, 745
MhlI GDGCHC 1 cut(s) 39
MluCI AATT 3 cut(s) 40, 81, 244
MlyI GAGTC 1 cut(s) 108
MroI TCCGGA 2 cut(s) 72, 868
MroXI GAANNNNTTC 1 cut(s) 158
MseI TTAA 2 cut(s) 381, 555
MslI CAYNNNNRTG 2 cut(s) 428, 467
MspI CCGG 9 cut(s) 73, 86, 91, 129, 142, 251, 497, 540, 869
MspR9I CCNGG 3 cut(s) 486, 541, 755
Mva1269I GAATGC 1 cut(s) 82
MvaI CCWGG 2 cut(s) 486, 755
MwoI GCNNNNNNNGC 1 cut(s) 948
NciI CCSGG 1 cut(s) 541
NdeI CATATG 1 cut(s) 800
NdeII GATC 4 cut(s) 24, 345, 502, 884
NlaIII CATG 2 cut(s) 650, 941
NlaIV GGNNCC 4 cut(s) 404, 587, 612, 867
NspI RCATGY 1 cut(s) 650
NspV TTCGAA 2 cut(s) 152, 288
OliI CACNNNNGTG 1 cut(s) 467
PaeI GCATGC 1 cut(s) 650
PcsI WCGNNNNNNNCGW 3 cut(s) 50, 647, 692
PctI GAATGC 1 cut(s) 82
PdmI GAANNNNTTC 1 cut(s) 158
PfeI GAWTC 5 cut(s) 159, 290, 445, 673, 911
PfoI TCCNGGA 1 cut(s) 753
PkrI GCNGC 4 cut(s) 373, 627, 645, 792
PleI GAGTC 1 cut(s) 107
PpsI GAGTC 1 cut(s) 107
Psp124BI GAGCTC 1 cut(s) 39
Psp6I CCWGG 2 cut(s) 484, 753
PspFI CCCAGC 1 cut(s) 621
PspGI CCWGG 2 cut(s) 484, 753
PspN4I GGNNCC 4 cut(s) 404, 587, 612, 867
PspPI GGNCC 2 cut(s) 88, 537
PstNI CAGNNNCTG 1 cut(s) 511
RsaI GTAC 4 cut(s) 195, 239, 329, 587
RsaNI GTAC 4 cut(s) 194, 238, 328, 586
RseI CAYNNNNRTG 2 cut(s) 428, 467
Rsr2I CGGWCCG 1 cut(s) 88
RsrII CGGWCCG 1 cut(s) 88
SacI GAGCTC 1 cut(s) 39
SaqAI TTAA 2 cut(s) 381, 555
SatI GCNGC 4 cut(s) 372, 626, 644, 791
Sau3AI GATC 4 cut(s) 24, 345, 502, 884
Sau96I GGNCC 2 cut(s) 88, 537
ScaI AGTACT 2 cut(s) 195, 239
SchI GAGTC 1 cut(s) 108
ScrFI CCNGG 3 cut(s) 486, 541, 755
SduI GDGCHC 1 cut(s) 39
SfaNI GCATC 5 cut(s) 219, 538, 637, 682, 943
SfcI CTRYAG 1 cut(s) 48
SfuI TTCGAA 2 cut(s) 152, 288
SinI GGWCC 1 cut(s) 88
SmiMI CAYNNNNRTG 2 cut(s) 428, 467
SphI GCATGC 1 cut(s) 650
Sse9I AATT 3 cut(s) 40, 81, 244
SsiI CCGC 1 cut(s) 137
SspMI CTAG 3 cut(s) 191, 414, 964
SstI GAGCTC 1 cut(s) 39
StyD4I CCNGG 3 cut(s) 484, 539, 753
TaaI ACNGT 2 cut(s) 223, 430
TaiI ACGT 1 cut(s) 17
TaqI TCGA 6 cut(s) 18, 152, 176, 288, 686, 825
TasI AATT 3 cut(s) 40, 81, 244
TatI WGTACW 3 cut(s) 193, 237, 327
TfiI GAWTC 5 cut(s) 159, 290, 445, 673, 911
Tru1I TTAA 2 cut(s) 381, 555
Tru9I TTAA 2 cut(s) 381, 555
TscAI CASTG 2 cut(s) 433, 469
TseI GCWGC 4 cut(s) 371, 625, 643, 790
TspDTI ATGAA 1 cut(s) 914
TspGWI ACGGA 1 cut(s) 755
TspRI CASTG 2 cut(s) 433, 469
VpaK11BI GGWCC 1 cut(s) 88
XceI RCATGY 1 cut(s) 650
XmiI GTMKAC 2 cut(s) 304, 617
XmnI GAANNNNTTC 1 cut(s) 158
XspI CTAG 3 cut(s) 191, 414, 964
ZrmI AGTACT 2 cut(s) 195, 239
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.