Rw3G023420

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr3
OG0000276
Physical Location & Seq
Reverse (-)
29369613 .. 29370092
480 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw3G023420.1

Sequence Viewer

Length: 255 bp
ATGATGCAAAAGATACTTGTGAGGTTGCGCGTTCATTGCGACAAATGCAGAATCGAGGCTCTGAAGATTGCAGCAACCACACCTGGTGTACACCAAGTGTCAATACAAGGTGAACACAGAGATCATGTGGAGGTGATTGGGGATGGAATTGACTCGGTTTGCTTGACTAGGGCTTTGAGGAAGAAGCTTGGCTCTGCCGATTTAGTCAAGATTGAGCAAGTGAAAGGATCCGCAGATAACCAAGTCGAGCACTAA
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
HMA

Protein Analysis

84

Amino Acids

9.29

Weight (kDa)

8.56

Isoelectric Point (pI)

18.08

Instability Index
Protein Domains (Pfam)
No Pfam domains detected for this 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
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Orthologous Genes (Group: OG0000276)

Species Orthologous Gene IDs
arabidopsis_thaliana AT4G05030 AT4G05030
fragaria_vesca FvH4_3g24080 FvH4_3g24080 FvH4_3g24100 FvH4_3g24100 FvH4_3g42050 FvH4_3g42060 FvH4_3g42070 FvH4_3g42071 FvH4_3g42080 FvH4_3g42090 FvH4_3g42100 FvH4_3g42110
malus_domestica MD03G1038100.v1.1 MD03G1038400.v1.1 MD03G1038600.v1.1 MD03G1038900.v1.1 MD03G1039000.v1.1 MD03G1039100.v1.1 MD03G1188500.v1.1 MD10G1233100.v1.1 MD10G1233300.v1.1 MD10G1341200.v1.1 MD11G1039200.v1.1 MD11G1039300.v1.1 MD11G1204400.v1.1 MD11G1204600.v1.1
prunus_persica Prupe.2G123900_v2.0.a1 Prupe.4G001900_v2.0.a1 Prupe.4G234700_v2.0.a1 Prupe.4G234800_v2.0.a1 Prupe.6G025900_v2.0.a1 Prupe.6G030200_v2.0.a1 Prupe.6G030300_v2.0.a1 Prupe.6G030400_v2.0.a1 Prupe.6G030600_v2.0.a1 Prupe.6G030900_v2.0.a1 Prupe.6G031000_v2.0.a1 Prupe.6G031100_v2.0.a1 Prupe.6G031100_v2.0.a1
pyrus_communis pycom03g02940 pycom03g02950 pycom03g02980 pycom03g02990 pycom03g03010 pycom11g03310 pycom11g03320
rosa_chinensis RchiOBHm_Chr3g0484311 RchiOBHm_Chr5g0000231 RchiOBHm_Chr5g0042661 RchiOBHm_Chr5g0042671 RchiOBHm_Chr5g0075281 RchiOBHm_Chr5g0075291 RchiOBHm_Chr5g0075321 RchiOBHm_Chr5g0075331
rosa_laevigata RLG00000034149 RLG00000036545 RLG00000036546 RLG00000036547 RLG00000036548 RLG00000036549 RLG00000036550
rosa_multiflora Rmu_sc0000295.1_g000011 Rmu_sc0000770.1_g000041 Rmu_sc0000770.1_g000049 Rmu_sc0002564.1_g000002 Rmu_sc0002564.1_g000003 Rmu_sc0002564.1_g000016
rosa_roxburghii Rroxscaffold_1G00006200 Rroxscaffold_1G00006210 Rroxscaffold_1G00006220 Rroxscaffold_1G00006250 Rroxscaffold_1G00006270 Rroxscaffold_1G00037900 Rroxscaffold_1G00037980 Rroxscaffold_6G00397790
rosa_rugosa Rorug03G0210600 Rorug05G0203800 Rorug05G0203900 Rorug05G0438100 Rorug05G0438200 Rorug05G0438700 Rorug05G0438900 Rorug05G0438900
rosa_samantha Rh3AG259700 Rh3AG259800 Rh3BG296300 Rh3DG289900 Rh5AG001600 Rh5AG288900 Rh5AG289000 Rh5AG289200 Rh5AG494800 Rh5AG495000 Rh5AG495200 Rh5AG495300 Rh5BG293000 Rh5BG293100 Rh5BG293300 Rh5BG516400 Rh5BG516500 Rh5BG516900 Rh5BG517000 Rh5CG001900 Rh5CG325700 Rh5CG325900 Rh5CG326000 Rh5CG540200 Rh5CG540300 Rh5CG540500 Rh5CG540600 Rh5DG001900 Rh5DG302900 Rh5DG303000 Rh5DG303200 Rh5DG529100 Rh5DG529300 Rh5DG529400 Rh5DG532500
rosa_wichuraiana Rw3G023420 Rw3G023430 Rw5G000210 Rw5G026800 Rw5G045910 Rw5G045920 Rw5G045930 Rw5G045940 Rw5G045950

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccII CGCG 1 cut(s) 30
AciI CCGC 1 cut(s) 231
AclWI GGATC 2 cut(s) 222, 235
AcuI CTGAAG 1 cut(s) 83
AdeI CACNNNGTG 2 cut(s) 86, 97
AfaI GTAC 1 cut(s) 90
AjnI CCWGG 1 cut(s) 82
AluBI AGCT 1 cut(s) 187
AluI AGCT 1 cut(s) 187
Alw21I GWGCWC 1 cut(s) 252
AlwI GGATC 2 cut(s) 222, 235
ApeKI GCWGC 1 cut(s) 71
ArsI GACNNNNNNTTYG 2 cut(s) 157, 189
AspLEI GCGC 1 cut(s) 30
AsuHPI GGTGA 2 cut(s) 122, 145
BamHI GGATCC 1 cut(s) 227
Bbv12I GWGCWC 1 cut(s) 252
BbvI GCAGC 1 cut(s) 83
BccI CCATC 1 cut(s) 137
BciT130I CCWGG 1 cut(s) 84
BfaI CTAG 1 cut(s) 168
BisI GCNGC 1 cut(s) 72
BlsI GCNGC 1 cut(s) 73
Bme1390I CCNGG 1 cut(s) 84
BmiI GGNNCC 1 cut(s) 229
BmrFI CCNGG 1 cut(s) 84
Bse3DI GCAATG 1 cut(s) 34
BseBI CCWGG 1 cut(s) 84
BseGI GGATG 1 cut(s) 148
BseMI GCAATG 1 cut(s) 34
BseXI GCAGC 1 cut(s) 83
Bsh1236I CGCG 1 cut(s) 30
BsiHKAI GWGCWC 1 cut(s) 252
Bsp1286I GDGCHC 1 cut(s) 252
Bsp1407I TGTACA 1 cut(s) 88
Bsp143I GATC 2 cut(s) 121, 227
BspACI CCGC 1 cut(s) 231
BspFNI CGCG 1 cut(s) 30
BspLI GGNNCC 1 cut(s) 229
BspPI GGATC 2 cut(s) 222, 235
BsrDI GCAATG 1 cut(s) 34
BsrGI TGTACA 1 cut(s) 88
BssMI GATC 2 cut(s) 121, 227
Bst2UI CCWGG 1 cut(s) 84
BstAUI TGTACA 1 cut(s) 88
BstF5I GGATG 1 cut(s) 148
BstFNI CGCG 1 cut(s) 30
BstHHI GCGC 1 cut(s) 30
BstKTI GATC 2 cut(s) 124, 230
BstMBI GATC 2 cut(s) 121, 227
BstMWI GCNNNNNNNGC 2 cut(s) 36, 45
BstNI CCWGG 1 cut(s) 84
BstSCI CCNGG 1 cut(s) 82
BstUI CGCG 1 cut(s) 30
BstV1I GCAGC 1 cut(s) 83
BstX2I RGATCY 1 cut(s) 227
BstYI RGATCY 1 cut(s) 227
BtsCI GGATG 1 cut(s) 148
CfoI GCGC 1 cut(s) 30
CsiI ACCWGGT 1 cut(s) 82
Csp6I GTAC 1 cut(s) 89
CviAII CATG 1 cut(s) 125
CviJI RGCY 4 cut(s) 59, 173, 187, 192
CviKI_1 RGCY 4 cut(s) 59, 173, 187, 192
CviQI GTAC 1 cut(s) 89
DpnI GATC 2 cut(s) 123, 229
DpnII GATC 2 cut(s) 121, 227
DraIII CACNNNGTG 2 cut(s) 86, 97
Eco57I CTGAAG 1 cut(s) 83
EcoRII CCWGG 1 cut(s) 82
FaeI CATG 1 cut(s) 128
FaiI YATR 1 cut(s) 126
FatI CATG 1 cut(s) 124
Fnu4HI GCNGC 1 cut(s) 72
FokI GGATG 1 cut(s) 155
Fsp4HI GCNGC 1 cut(s) 72
FspBI CTAG 1 cut(s) 168
GlaI GCGC 1 cut(s) 29
GluI GCNGC 1 cut(s) 72
HhaI GCGC 1 cut(s) 30
Hin1II CATG 1 cut(s) 128
Hin6I GCGC 1 cut(s) 28
HinP1I GCGC 1 cut(s) 28
HindIII AAGCTT 1 cut(s) 185
HinfI GANTC 2 cut(s) 51, 152
HphI GGTGA 2 cut(s) 122, 145
Hpy166II GTNNAC 3 cut(s) 89, 91, 113
Hpy188I TCNGA 1 cut(s) 63
Hpy188III TCNNGA 1 cut(s) 208
Hpy8I GTNNAC 3 cut(s) 89, 91, 113
HpyCH4V TGCA 3 cut(s) 7, 48, 71
HpyF10VI GCNNNNNNNGC 2 cut(s) 36, 45
Hsp92II CATG 1 cut(s) 128
HspAI GCGC 1 cut(s) 28
Kzo9I GATC 2 cut(s) 121, 227
LpnPI CCDG 2 cut(s) 69, 96
Lsp1109I GCAGC 1 cut(s) 83
MabI ACCWGGT 1 cut(s) 82
MaeI CTAG 1 cut(s) 168
MalI GATC 2 cut(s) 123, 229
MboI GATC 2 cut(s) 121, 227
MboII GAAGA 2 cut(s) 76, 193
MflI RGATCY 1 cut(s) 227
MhlI GDGCHC 1 cut(s) 252
MluCI AATT 1 cut(s) 147
MlyI GAGTC 1 cut(s) 146
MnlI CCTC 4 cut(s) 15, 49, 124, 171
MspR9I CCNGG 1 cut(s) 84
MvaI CCWGG 1 cut(s) 84
MvnI CGCG 1 cut(s) 30
MwoI GCNNNNNNNGC 2 cut(s) 36, 45
NdeII GATC 2 cut(s) 121, 227
NlaIII CATG 1 cut(s) 128
NlaIV GGNNCC 1 cut(s) 229
PfeI GAWTC 1 cut(s) 51
PkrI GCNGC 1 cut(s) 73
PleI GAGTC 1 cut(s) 146
PpsI GAGTC 1 cut(s) 146
Psp6I CCWGG 1 cut(s) 82
PspGI CCWGG 1 cut(s) 82
PspN4I GGNNCC 1 cut(s) 229
PsuI RGATCY 1 cut(s) 227
RsaI GTAC 1 cut(s) 90
RsaNI GTAC 1 cut(s) 89
SatI GCNGC 1 cut(s) 72
Sau3AI GATC 2 cut(s) 121, 227
SchI GAGTC 1 cut(s) 146
ScrFI CCNGG 1 cut(s) 84
SduI GDGCHC 1 cut(s) 252
SetI ASST 5 cut(s) 26, 85, 112, 135, 189
SexAI ACCWGGT 1 cut(s) 82
Sse9I AATT 1 cut(s) 147
SsiI CCGC 1 cut(s) 231
SspMI CTAG 1 cut(s) 168
StyD4I CCNGG 1 cut(s) 82
TaqI TCGA 2 cut(s) 54, 246
TasI AATT 1 cut(s) 147
TatI WGTACW 1 cut(s) 88
TfiI GAWTC 1 cut(s) 51
TseI GCWGC 1 cut(s) 71
TspDTI ATGAA 1 cut(s) 23
XspI CTAG 1 cut(s) 168
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.