RchiOBHm_Chr5g0075321

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
5
OG0000276
Physical Location & Seq
Reverse (-)
81144237 .. 81153602
9366 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ35005

Sequence Viewer

Length: 225 bp
ATGACGCAAAAGATACTTGTGAAGTTGCACGTTCATTGCGACAAATGCAGAACCAAGGCTTTGAAGATTGCAGCAACTGCACCTGGTGTGAACAAAGTGTCAATACAAGGTGAACACAGAGATCATGTGGAGGTGATTGGGGATGTTGACTCGGTTTGCTTGACTAGGGCTTTGAGGAAGAAGCTTGGCTCTGCCGATTTAGTCAAGGTCGAACAAGTGAAATGA
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

74

Amino Acids

8.13

Weight (kDa)

9.56

Isoelectric Point (pI)

13.29

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
HMA PF00403 11 - 62 1.3e-06 Heavy-metal-associated domain
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)
AdeI CACNNNGTG 1 cut(s) 86
AgsI TTSAA 1 cut(s) 64
AjnI CCWGG 1 cut(s) 82
AluBI AGCT 1 cut(s) 184
AluI AGCT 1 cut(s) 184
AlwNI CAGNNNCTG 1 cut(s) 77
ApeKI GCWGC 1 cut(s) 71
ArsI GACNNNNNNTTYG 2 cut(s) 154, 186
AsuHPI GGTGA 2 cut(s) 122, 145
BbvI GCAGC 1 cut(s) 83
BciT130I CCWGG 1 cut(s) 84
BfaI CTAG 1 cut(s) 165
BisI GCNGC 1 cut(s) 72
BlsI GCNGC 1 cut(s) 73
Bme1390I CCNGG 1 cut(s) 84
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
BseXI GCAGC 1 cut(s) 83
BsgI GTGCAG 1 cut(s) 63
Bsp143I GATC 1 cut(s) 121
BsrDI GCAATG 1 cut(s) 34
BssECI CCNNGG 1 cut(s) 54
BssMI GATC 1 cut(s) 121
BssT1I CCWWGG 1 cut(s) 54
Bst2UI CCWGG 1 cut(s) 84
BstAPI GCANNNNNTGC 1 cut(s) 77
BstF5I GGATG 1 cut(s) 148
BstKTI GATC 1 cut(s) 124
BstMBI GATC 1 cut(s) 121
BstMWI GCNNNNNNNGC 2 cut(s) 45, 77
BstNI CCWGG 1 cut(s) 84
BstSCI CCNGG 1 cut(s) 82
BstV1I GCAGC 1 cut(s) 83
BtsCI GGATG 1 cut(s) 148
CaiI CAGNNNCTG 1 cut(s) 77
CseI GACGC 1 cut(s) 13
CsiI ACCWGGT 1 cut(s) 82
CviAII CATG 1 cut(s) 125
CviJI RGCY 4 cut(s) 59, 170, 184, 189
CviKI_1 RGCY 4 cut(s) 59, 170, 184, 189
DpnI GATC 1 cut(s) 123
DpnII GATC 1 cut(s) 121
DraIII CACNNNGTG 1 cut(s) 86
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 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) 165
GluI GCNGC 1 cut(s) 72
HgaI GACGC 1 cut(s) 13
Hin1II CATG 1 cut(s) 128
HincII GTYRAC 1 cut(s) 148
HindII GTYRAC 1 cut(s) 148
HindIII AAGCTT 1 cut(s) 182
HinfI GANTC 1 cut(s) 149
HphI GGTGA 2 cut(s) 122, 145
Hpy166II GTNNAC 3 cut(s) 91, 113, 148
Hpy8I GTNNAC 3 cut(s) 91, 113, 148
HpyCH4IV ACGT 1 cut(s) 30
HpyCH4V TGCA 4 cut(s) 28, 48, 71, 80
HpyF10VI GCNNNNNNNGC 2 cut(s) 45, 77
HpySE526I ACGT 1 cut(s) 30
Hsp92II CATG 1 cut(s) 128
Kzo9I GATC 1 cut(s) 121
LpnPI CCDG 2 cut(s) 69, 96
Lsp1109I GCAGC 1 cut(s) 83
MabI ACCWGGT 1 cut(s) 82
MaeI CTAG 1 cut(s) 165
MaeII ACGT 1 cut(s) 30
MalI GATC 1 cut(s) 123
MboI GATC 1 cut(s) 121
MboII GAAGA 2 cut(s) 76, 190
MlyI GAGTC 1 cut(s) 143
MnlI CCTC 2 cut(s) 124, 168
MspR9I CCNGG 1 cut(s) 84
MvaI CCWGG 1 cut(s) 84
MwoI GCNNNNNNNGC 2 cut(s) 45, 77
NdeII GATC 1 cut(s) 121
NlaIII CATG 1 cut(s) 128
PcsI WCGNNNNNNNCGW 1 cut(s) 36
PkrI GCNGC 1 cut(s) 73
PleI GAGTC 1 cut(s) 143
PpsI GAGTC 1 cut(s) 143
Psp6I CCWGG 1 cut(s) 82
PspGI CCWGG 1 cut(s) 82
PstNI CAGNNNCTG 1 cut(s) 77
SatI GCNGC 1 cut(s) 72
Sau3AI GATC 1 cut(s) 121
SchI GAGTC 1 cut(s) 143
ScrFI CCNGG 1 cut(s) 84
SetI ASST 6 cut(s) 33, 85, 112, 135, 186, 210
SexAI ACCWGGT 1 cut(s) 82
SspMI CTAG 1 cut(s) 165
StyD4I CCNGG 1 cut(s) 82
StyI CCWWGG 1 cut(s) 54
TaiI ACGT 1 cut(s) 33
TaqI TCGA 1 cut(s) 210
TseI GCWGC 1 cut(s) 71
TspDTI ATGAA 1 cut(s) 23
XspI CTAG 1 cut(s) 165
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.