RchiOBHm_Chr3g0484311

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
3
OG0000276
Physical Location & Seq
Reverse (-)
30666321 .. 30667261
941 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ44902

Sequence Viewer

Length: 243 bp
ATGATGCAAAAGATACTTGTGAAGTTGCAAGTTCATTGCGACAAATGCAGAACCAAGGCTATGAAAATTGCAGCAAGTGCACCTGGTGTAAACAAAGTGTCAATACAAGGTGAACACAGAGATCATGTGGAGGTGATTGGGGATGGATTTGATTCGGTTTGCTTGACTAGGGCTTTGAGGAAGAGGCTTGGCTCTGCCAATTTAGTCAAGGTTGAGCAAGTGAAAGGATCCACAGATAACTAA
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

80

Amino Acids

8.76

Weight (kDa)

9.6

Isoelectric Point (pI)

25.8

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)
AclWI GGATC 2 cut(s) 222, 235
AdeI CACNNNGTG 1 cut(s) 86
AjnI CCWGG 1 cut(s) 82
Alw21I GWGCWC 1 cut(s) 82
Alw44I GTGCAC 1 cut(s) 78
AlwI GGATC 2 cut(s) 222, 235
ApaLI GTGCAC 1 cut(s) 78
ApeKI GCWGC 1 cut(s) 71
ArsI GACNNNNNNTTYG 2 cut(s) 157, 189
AsuHPI GGTGA 2 cut(s) 122, 145
BaeGI GKGCMC 1 cut(s) 82
BamHI GGATCC 1 cut(s) 227
Bbv12I GWGCWC 1 cut(s) 82
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
BsaJI CCNNGG 1 cut(s) 54
Bse3DI GCAATG 1 cut(s) 34
BseBI CCWGG 1 cut(s) 84
BseDI CCNNGG 1 cut(s) 54
BseGI GGATG 1 cut(s) 148
BseMI GCAATG 1 cut(s) 34
BseSI GKGCMC 1 cut(s) 82
BseXI GCAGC 1 cut(s) 83
BsiHKAI GWGCWC 1 cut(s) 82
Bsp1286I GDGCHC 1 cut(s) 82
Bsp143I GATC 2 cut(s) 121, 227
BspLI GGNNCC 1 cut(s) 229
BspPI GGATC 2 cut(s) 222, 235
BsrDI GCAATG 1 cut(s) 34
BssECI CCNNGG 1 cut(s) 54
BssMI GATC 2 cut(s) 121, 227
BssT1I CCWWGG 1 cut(s) 54
Bst2UI CCWGG 1 cut(s) 84
Bst6I CTCTTC 1 cut(s) 176
BstAPI GCANNNNNTGC 1 cut(s) 77
BstF5I GGATG 1 cut(s) 148
BstKTI GATC 2 cut(s) 124, 230
BstMBI GATC 2 cut(s) 121, 227
BstMWI GCNNNNNNNGC 2 cut(s) 45, 77
BstNI CCWGG 1 cut(s) 84
BstSCI CCNGG 1 cut(s) 82
BstSLI GKGCMC 1 cut(s) 82
BstV1I GCAGC 1 cut(s) 83
BstX2I RGATCY 1 cut(s) 227
BstYI RGATCY 1 cut(s) 227
BtsCI GGATG 1 cut(s) 148
CsiI ACCWGGT 1 cut(s) 82
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
DpnI GATC 2 cut(s) 123, 229
DpnII GATC 2 cut(s) 121, 227
DraIII CACNNNGTG 1 cut(s) 86
Eam1104I CTCTTC 1 cut(s) 176
EarI CTCTTC 1 cut(s) 176
Eco130I CCWWGG 1 cut(s) 54
EcoRII CCWGG 1 cut(s) 82
EcoT14I CCWWGG 1 cut(s) 54
ErhI CCWWGG 1 cut(s) 54
FaeI CATG 1 cut(s) 128
FaiI YATR 2 cut(s) 62, 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
GluI GCNGC 1 cut(s) 72
Hin1II CATG 1 cut(s) 128
HinfI GANTC 1 cut(s) 152
HphI GGTGA 2 cut(s) 122, 145
Hpy166II GTNNAC 3 cut(s) 80, 91, 113
Hpy8I GTNNAC 3 cut(s) 80, 91, 113
HpyCH4V TGCA 5 cut(s) 7, 28, 48, 71, 80
HpyF10VI GCNNNNNNNGC 2 cut(s) 45, 77
Hsp92II CATG 1 cut(s) 128
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 1 cut(s) 193
MflI RGATCY 1 cut(s) 227
MhlI GDGCHC 1 cut(s) 82
MluCI AATT 2 cut(s) 66, 199
MnlI CCTC 3 cut(s) 124, 171, 177
MspR9I CCNGG 1 cut(s) 84
MvaI CCWGG 1 cut(s) 84
MwoI GCNNNNNNNGC 2 cut(s) 45, 77
NdeII GATC 2 cut(s) 121, 227
NlaIII CATG 1 cut(s) 128
NlaIV GGNNCC 1 cut(s) 229
PfeI GAWTC 1 cut(s) 152
PkrI GCNGC 1 cut(s) 73
Psp6I CCWGG 1 cut(s) 82
PspGI CCWGG 1 cut(s) 82
PspN4I GGNNCC 1 cut(s) 229
PsuI RGATCY 1 cut(s) 227
SatI GCNGC 1 cut(s) 72
Sau3AI GATC 2 cut(s) 121, 227
ScrFI CCNGG 1 cut(s) 84
SduI GDGCHC 1 cut(s) 82
SetI ASST 4 cut(s) 85, 112, 135, 213
SexAI ACCWGGT 1 cut(s) 82
Sse9I AATT 2 cut(s) 66, 199
SspMI CTAG 1 cut(s) 168
StyD4I CCNGG 1 cut(s) 82
StyI CCWWGG 1 cut(s) 54
TasI AATT 2 cut(s) 66, 199
TfiI GAWTC 1 cut(s) 152
TseI GCWGC 1 cut(s) 71
TspDTI ATGAA 2 cut(s) 23, 77
VneI GTGCAC 1 cut(s) 78
XspI CTAG 1 cut(s) 168
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.