Rw3G027480
ERF Family

DDE superfamily endonuclease

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr3
OG0000469
Physical Location & Seq
Forward (+)
39088985 .. 39089679
695 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw3G027480.1

Sequence Viewer

Length: 528 bp
ATGTGTGCATGCTCTTTTGACATGATGTTCACCTTTGTTTACACTGGATGGGAAGGGACTGCAAATGATTCTAGGATCTTTGCAGATGTAGTGACCAGGCCAGAAAATAAATTCCCGTTTCCAAATGAAGGTGAGCGGTATCATTTGCGTGATTATAGAGGACCTCGTCGTACACCGAGAGGCCCTAGGGAGTTGTTCAATTACAGACATTCTTCATTGCGAAATGTAATTGAGCGATATTTTGGTGTACTGAAAGCGCGTTTTCCAATTTTAAAATATATGCCTAATTATCCTCCAAGAAGGCAACGACGTATACCTATTGCATGTTGTGTTTTACACAATTTTATTCTGAAGGAAACTCGTCGCGACAGATTGTTTGAAGCTTTTGATGTAGAAGATATGATTTTTGAGGAGGAAAACAGTACACTGGCGAACTTAGATATGTCACAAGAGAACCTTGCACAGATGACTAATGTTAGAAATGAAATTGCAGAAGACTTGTGGCAAGATTTTATCCCTCACCCTTAG
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

175

Amino Acids

20.98

Weight (kDa)

6.91

Isoelectric Point (pI)

61.57

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
DDE_Tnp_4 PF13359 3 - 114 3.7e-12 DDE superfamily endonuclease
Plant_tran PF04827 58 - 121 5.9e-07 Plant transposon 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
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)
AccBSI CCGCTC 1 cut(s) 136
AccI GTMKAC 1 cut(s) 313
AccII CGCG 2 cut(s) 259, 366
AciI CCGC 1 cut(s) 136
AclWI GGATC 1 cut(s) 83
AcsI RAATTY 1 cut(s) 110
AcuI CTGAAG 1 cut(s) 371
AfaI GTAC 3 cut(s) 172, 249, 424
AfiI CCNNNNNNNGG 1 cut(s) 128
AgsI TTSAA 2 cut(s) 199, 380
AjnI CCWGG 1 cut(s) 95
AluBI AGCT 1 cut(s) 383
AluI AGCT 1 cut(s) 383
AlwI GGATC 1 cut(s) 83
AoxI GGCC 2 cut(s) 98, 181
ApoI RAATTY 1 cut(s) 110
ArsI GACNNNNNNTTYG 2 cut(s) 359, 391
AspA2I CCTAGG 1 cut(s) 185
AspLEI GCGC 1 cut(s) 259
AspS9I GGNCC 2 cut(s) 161, 182
AsuHPI GGTGA 3 cut(s) 22, 143, 512
AvaII GGWCC 1 cut(s) 161
AvrII CCTAGG 1 cut(s) 185
BbsI GAAGAC 1 cut(s) 501
BccI CCATC 1 cut(s) 42
BciT130I CCWGG 1 cut(s) 97
BfaI CTAG 2 cut(s) 72, 186
BlnI CCTAGG 1 cut(s) 185
Bme1390I CCNGG 1 cut(s) 97
Bme18I GGWCC 1 cut(s) 161
BmgT120I GGNCC 2 cut(s) 161, 182
BmrFI CCNGG 1 cut(s) 97
BpiI GAAGAC 1 cut(s) 501
BsaJI CCNNGG 1 cut(s) 185
Bsc4I CCNNNNNNNGG 1 cut(s) 128
Bse1I ACTGG 2 cut(s) 49, 432
Bse3DI GCAATG 1 cut(s) 215
BseBI CCWGG 1 cut(s) 97
BseDI CCNNGG 1 cut(s) 185
BseGI GGATG 1 cut(s) 53
BseLI CCNNNNNNNGG 1 cut(s) 128
BseMI GCAATG 1 cut(s) 215
BseNI ACTGG 2 cut(s) 49, 432
BseRI GAGGAG 1 cut(s) 425
Bsh1236I CGCG 2 cut(s) 259, 366
BshFI GGCC 2 cut(s) 100, 183
BslFI GGGAC 1 cut(s) 70
BslI CCNNNNNNNGG 1 cut(s) 128
BsmFI GGGAC 1 cut(s) 70
BsnI GGCC 2 cut(s) 100, 183
Bsp143I GATC 1 cut(s) 75
Bsp68I TCGCGA 1 cut(s) 366
BspACI CCGC 1 cut(s) 136
BspANI GGCC 2 cut(s) 100, 183
BspFNI CGCG 2 cut(s) 259, 366
BspPI GGATC 1 cut(s) 83
BsrBI CCGCTC 1 cut(s) 136
BsrDI GCAATG 1 cut(s) 215
BsrI ACTGG 2 cut(s) 49, 432
BssECI CCNNGG 1 cut(s) 185
BssMI GATC 1 cut(s) 75
BssNAI GTATAC 1 cut(s) 314
BssT1I CCWWGG 1 cut(s) 185
Bst1107I GTATAC 1 cut(s) 314
Bst2UI CCWGG 1 cut(s) 97
Bst4CI ACNGT 1 cut(s) 422
BstC8I GCNNGC 1 cut(s) 10
BstDEI CTNAG 2 cut(s) 436, 525
BstF5I GGATG 1 cut(s) 53
BstFNI CGCG 2 cut(s) 259, 366
BstHHI GCGC 1 cut(s) 259
BstKTI GATC 1 cut(s) 78
BstMBI GATC 1 cut(s) 75
BstNI CCWGG 1 cut(s) 97
BstNSI RCATGY 2 cut(s) 12, 327
BstSCI CCNGG 1 cut(s) 95
BstUI CGCG 2 cut(s) 259, 366
BstV2I GAAGAC 1 cut(s) 501
BstX2I RGATCY 1 cut(s) 75
BstYI RGATCY 1 cut(s) 75
BstZ17I GTATAC 1 cut(s) 314
BsuRI GGCC 2 cut(s) 100, 183
BtsCI GGATG 1 cut(s) 53
BtsIMutI CAGTG 2 cut(s) 42, 425
BtuMI TCGCGA 1 cut(s) 366
Cac8I GCNNGC 1 cut(s) 10
CfoI GCGC 1 cut(s) 259
Cfr13I GGNCC 2 cut(s) 161, 182
Csp6I GTAC 3 cut(s) 171, 248, 423
CviAII CATG 3 cut(s) 9, 22, 324
CviJI RGCY 3 cut(s) 100, 183, 383
CviKI_1 RGCY 3 cut(s) 100, 183, 383
CviQI GTAC 3 cut(s) 171, 248, 423
DdeI CTNAG 2 cut(s) 436, 525
DpnI GATC 1 cut(s) 77
DpnII GATC 1 cut(s) 75
DraI TTTAAA 1 cut(s) 273
Eco130I CCWWGG 1 cut(s) 185
Eco47I GGWCC 1 cut(s) 161
Eco57I CTGAAG 1 cut(s) 371
EcoO109I RGGNCCY 2 cut(s) 161, 182
EcoRII CCWGG 1 cut(s) 95
EcoT14I CCWWGG 1 cut(s) 185
ErhI CCWWGG 1 cut(s) 185
FaeI CATG 3 cut(s) 12, 25, 327
FaiI YATR 9 cut(s) 10, 23, 156, 279, 281, 314, 325, 401, 443
FalI AAGNNNNNCTT 2 cut(s) 441, 473
FaqI GGGAC 1 cut(s) 70
FatI CATG 3 cut(s) 8, 21, 323
FblI GTMKAC 1 cut(s) 313
FokI GGATG 1 cut(s) 60
FspBI CTAG 2 cut(s) 72, 186
GlaI GCGC 1 cut(s) 258
HaeIII GGCC 2 cut(s) 100, 183
HhaI GCGC 1 cut(s) 259
Hin1II CATG 3 cut(s) 12, 25, 327
Hin6I GCGC 1 cut(s) 257
HinP1I GCGC 1 cut(s) 257
HindIII AAGCTT 1 cut(s) 381
HinfI GANTC 1 cut(s) 68
HphI GGTGA 3 cut(s) 22, 143, 512
Hpy166II GTNNAC 6 cut(s) 30, 40, 173, 248, 314, 425
Hpy188I TCNGA 1 cut(s) 351
Hpy188III TCNNGA 1 cut(s) 365
Hpy8I GTNNAC 6 cut(s) 30, 40, 173, 248, 314, 425
Hpy99I CGWCG 3 cut(s) 171, 312, 366
HpyAV CCTTC 4 cut(s) 47, 122, 294, 346
HpyCH4III ACNGT 1 cut(s) 422
HpyCH4IV ACGT 1 cut(s) 310
HpyCH4V TGCA 6 cut(s) 8, 62, 83, 323, 461, 491
HpyF3I CTNAG 2 cut(s) 436, 525
HpySE526I ACGT 1 cut(s) 310
Hsp92II CATG 3 cut(s) 12, 25, 327
HspAI GCGC 1 cut(s) 257
Kzo9I GATC 1 cut(s) 75
LpnPI CCDG 5 cut(s) 30, 82, 109, 114, 413
MaeI CTAG 2 cut(s) 72, 186
MaeII ACGT 1 cut(s) 310
MaeIII GTNAC 2 cut(s) 91, 444
MalI GATC 1 cut(s) 77
MbiI CCGCTC 1 cut(s) 136
MboI GATC 1 cut(s) 75
MboII GAAGA 3 cut(s) 204, 407, 506
MflI RGATCY 1 cut(s) 75
MluCI AATT 7 cut(s) 110, 199, 228, 267, 286, 340, 486
MnlI CCTC 7 cut(s) 152, 173, 174, 303, 403, 406, 528
MseI TTAA 1 cut(s) 272
MslI CAYNNNNRTG 1 cut(s) 147
MspR9I CCNGG 1 cut(s) 97
MvaI CCWGG 1 cut(s) 97
MvnI CGCG 2 cut(s) 259, 366
NdeII GATC 1 cut(s) 75
NlaIII CATG 3 cut(s) 12, 25, 327
NmuCI GTSAC 2 cut(s) 91, 444
NruI TCGCGA 1 cut(s) 366
NspI RCATGY 2 cut(s) 12, 327
PaeI GCATGC 1 cut(s) 12
PfeI GAWTC 1 cut(s) 68
PflFI GACNNNGTC 1 cut(s) 165
PpuMI RGGWCCY 1 cut(s) 161
Psp5II RGGWCCY 1 cut(s) 161
Psp6I CCWGG 1 cut(s) 95
PspGI CCWGG 1 cut(s) 95
PspPI GGNCC 2 cut(s) 161, 182
PspPPI RGGWCCY 1 cut(s) 161
PsuI RGATCY 1 cut(s) 75
PsyI GACNNNGTC 1 cut(s) 165
RruI TCGCGA 1 cut(s) 366
RsaI GTAC 3 cut(s) 172, 249, 424
RsaNI GTAC 3 cut(s) 171, 248, 423
RseI CAYNNNNRTG 1 cut(s) 147
SaqAI TTAA 1 cut(s) 272
Sau3AI GATC 1 cut(s) 75
Sau96I GGNCC 2 cut(s) 161, 182
ScrFI CCNGG 1 cut(s) 97
SetI ASST 7 cut(s) 35, 133, 166, 313, 319, 385, 459
SinI GGWCC 1 cut(s) 161
SmiMI CAYNNNNRTG 1 cut(s) 147
SphI GCATGC 1 cut(s) 12
Sse9I AATT 7 cut(s) 110, 199, 228, 267, 286, 340, 486
SsiI CCGC 1 cut(s) 136
SspMI CTAG 2 cut(s) 72, 186
StyD4I CCNGG 1 cut(s) 95
StyI CCWWGG 1 cut(s) 185
TaaI ACNGT 1 cut(s) 422
TaiI ACGT 1 cut(s) 313
TasI AATT 7 cut(s) 110, 199, 228, 267, 286, 340, 486
TatI WGTACW 2 cut(s) 247, 422
TfiI GAWTC 1 cut(s) 68
Tru1I TTAA 1 cut(s) 272
Tru9I TTAA 1 cut(s) 272
TscAI CASTG 2 cut(s) 49, 432
TseFI GTSAC 2 cut(s) 91, 444
Tsp45I GTSAC 2 cut(s) 91, 444
TspDTI ATGAA 3 cut(s) 141, 204, 498
TspRI CASTG 2 cut(s) 49, 432
Tth111I GACNNNGTC 1 cut(s) 165
VpaK11BI GGWCC 1 cut(s) 161
XapI RAATTY 1 cut(s) 110
XceI RCATGY 2 cut(s) 12, 327
XmaJI CCTAGG 1 cut(s) 185
XmiI GTMKAC 1 cut(s) 313
XspI CTAG 2 cut(s) 72, 186
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.