RchiOBHm_Chr6g0265961

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
6
OG0000291
Physical Location & Seq
Forward (+)
21988867 .. 21989341
475 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ23851

Sequence Viewer

Length: 219 bp
ATGATAAGGGATGAGATTAAAGGAGAAGTGATTCCGAAGGAGATTGAGGGGGTATTGGAGAGCTATGTAGATGTGATGCCTCCCGAACTTCCCAAGGAATTACCCCCGAGAAGGAGTGTGGACCATGAGATTAAACTGCTTCCGGGGGGCCAAACCGCCTGCAAAGGCGCCTTACAGAATGGCTCCCCCAGAACTGGCGGAACTTCGAAAGCAGCTTAA
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
Asp_protease_2 RVT_1 Retrotrans_gag gag-asp_proteas

Protein Analysis

72

Amino Acids

7.74

Weight (kDa)

5.76

Isoelectric Point (pI)

63.54

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
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0000291)

Species Orthologous Gene IDs
arabidopsis_thaliana ATMG00860
fragaria_vesca FvH4_1g23712 FvH4_1g29809 FvH4_1g29810 FvH4_2g02661 FvH4_2g13451 FvH4_2g17921 FvH4_2g17922 FvH4_2g19251 FvH4_2g19252 FvH4_2g28221 FvH4_2g35961 FvH4_3g10372 FvH4_3g12461 FvH4_3g12461 FvH4_3g27861 FvH4_3g34591 FvH4_3g40201 FvH4_3g44612 FvH4_4g08352 FvH4_4g12251 FvH4_4g12742 FvH4_4g13904 FvH4_4g14287 FvH4_4g15243 FvH4_4g24071 FvH4_4g33448 FvH4_5g21912 FvH4_5g39371 FvH4_6g14992 FvH4_6g15221 FvH4_6g20603 FvH4_6g31093 FvH4_6g32372 FvH4_6g33012
malus_domestica MD11G1009100.v1.1 MD13G1145000.v1.1 MD16G1138700.v1.1
prunus_persica Prupe.5G246300_v2.0.a1 Prupe.7G034800_v2.0.a1 Prupe.8G084500_v2.0.a1
pyrus_communis pycom01g18240 pycom04g00330 pycom05g09010 pycom06g01670 pycom06g01690 pycom06g07180 pycom06g11620 pycom10g05720 pycom1134g00040 pycom1134g00060 pycom12486g00010 pycom12555g00230 pycom13g21670 pycom13g23130 pycom13g23140 pycom14g10580
rosa_chinensis RchiOBHm_Chr1g0330691 RchiOBHm_Chr2g0106171 RchiOBHm_Chr2g0134731 RchiOBHm_Chr2g0142791 RchiOBHm_Chr2g0149861 RchiOBHm_Chr3g0452401 RchiOBHm_Chr3g0461881 RchiOBHm_Chr4g0401341 RchiOBHm_Chr5g0075641 RchiOBHm_Chr6g0265961 RchiOBHm_Chr7g0200201 RchiOBHm_Chr7g0237811
rosa_laevigata RLG00000002773
rosa_multiflora Rmu_co8037806.1_g000001 Rmu_co8445989.1_g000001 Rmu_sc0000745.1_g000039 Rmu_sc0004448.1_g000029 Rmu_sc0004488.1_g000002 Rmu_sc0004591.1_g000018 Rmu_sc0005065.1_g000030 Rmu_sc0005150.1_g000005 Rmu_sc0005654.1_g000011 Rmu_sc0006986.1_g000016
rosa_roxburghii Rroxscaffold_164G00436490 Rroxscaffold_175G00432490 Rroxscaffold_1G00059440 Rroxscaffold_1G00064410 Rroxscaffold_2G00100310 Rroxscaffold_2G00128170 Rroxscaffold_3G00239420 Rroxscaffold_3G00264970 Rroxscaffold_3G00271550 Rroxscaffold_4G00300240 Rroxscaffold_5G00385050 Rroxscaffold_6G00399720
rosa_rugosa Rorug02G0252200
rosa_samantha Rh2DG251900 Rh7CG329900
rosa_wichuraiana Rw0G004800 Rw1G000850 Rw1G022350 Rw2G027030 Rw2G027760 Rw2G028410 Rw2G029130 Rw2G029390 Rw2G032490 Rw2G039460 Rw2G047800 Rw2G050340 Rw3G026430 Rw4G018370 Rw4G030750 Rw4G033140 Rw5G011950 Rw5G012010 Rw5G029280 Rw5G040190 Rw5G044570 Rw5G048240 Rw6G000340 Rw6G010140 Rw6G026480 Rw7G033750 Rw7G037250 Rw7G042080

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 1 cut(s) 167
AciI CCGC 2 cut(s) 156, 198
AcyI GRCGYC 1 cut(s) 168
AfiI CCNNNNNNNGG 2 cut(s) 111, 194
AluBI AGCT 2 cut(s) 63, 215
AluI AGCT 2 cut(s) 63, 215
Ama87I CYCGRG 1 cut(s) 106
AoxI GGCC 1 cut(s) 148
ApeKI GCWGC 1 cut(s) 212
Asp700I GAANNNNTTC 1 cut(s) 30
AspLEI GCGC 1 cut(s) 170
AspS9I GGNCC 2 cut(s) 121, 148
AsuC2I CCSGG 1 cut(s) 144
AsuII TTCGAA 1 cut(s) 206
AvaI CYCGRG 1 cut(s) 106
AvaII GGWCC 1 cut(s) 121
BanI GGYRCC 1 cut(s) 167
BcnI CCSGG 1 cut(s) 144
BfoI RGCGCY 1 cut(s) 171
BisI GCNGC 1 cut(s) 213
BlsI GCNGC 1 cut(s) 214
Bme1390I CCNGG 1 cut(s) 144
Bme18I GGWCC 1 cut(s) 121
BmeT110I CYCGRG 1 cut(s) 106
BmgT120I GGNCC 2 cut(s) 121, 148
BmiI GGNNCC 3 cut(s) 149, 169, 184
BmrFI CCNGG 1 cut(s) 144
BmsI GCATC 1 cut(s) 66
Bpu14I TTCGAA 1 cut(s) 206
BpuMI CCSGG 1 cut(s) 144
BsaHI GRCGYC 1 cut(s) 168
BsaJI CCNNGG 2 cut(s) 93, 143
Bsc4I CCNNNNNNNGG 2 cut(s) 111, 194
Bse1I ACTGG 1 cut(s) 199
BseDI CCNNGG 2 cut(s) 93, 143
BseGI GGATG 1 cut(s) 16
BseLI CCNNNNNNNGG 2 cut(s) 111, 194
BseNI ACTGG 1 cut(s) 199
BshFI GGCC 1 cut(s) 150
BshNI GGYRCC 1 cut(s) 167
BsiHKCI CYCGRG 1 cut(s) 106
BsiSI CCGG 1 cut(s) 143
BslI CCNNNNNNNGG 2 cut(s) 111, 194
BsnI GGCC 1 cut(s) 150
BsoBI CYCGRG 1 cut(s) 106
Bsp119I TTCGAA 1 cut(s) 206
BspACI CCGC 2 cut(s) 156, 198
BspANI GGCC 1 cut(s) 150
BspLI GGNNCC 3 cut(s) 149, 169, 184
BspT104I TTCGAA 1 cut(s) 206
BspT107I GGYRCC 1 cut(s) 167
BsrI ACTGG 1 cut(s) 199
BssECI CCNNGG 2 cut(s) 93, 143
BssNI GRCGYC 1 cut(s) 168
BssT1I CCWWGG 1 cut(s) 93
BstACI GRCGYC 1 cut(s) 168
BstBI TTCGAA 1 cut(s) 206
BstC8I GCNNGC 1 cut(s) 160
BstF5I GGATG 1 cut(s) 16
BstH2I RGCGCY 1 cut(s) 171
BstHHI GCGC 1 cut(s) 170
BstSCI CCNGG 1 cut(s) 142
BsuRI GGCC 1 cut(s) 150
BtsCI GGATG 1 cut(s) 16
Cac8I GCNNGC 1 cut(s) 160
CfoI GCGC 1 cut(s) 170
Cfr13I GGNCC 2 cut(s) 121, 148
CviAII CATG 1 cut(s) 125
CviJI RGCY 4 cut(s) 63, 150, 183, 215
CviKI_1 RGCY 4 cut(s) 63, 150, 183, 215
DinI GGCGCC 1 cut(s) 169
EciI GGCGGA 1 cut(s) 213
Eco130I CCWWGG 1 cut(s) 93
Eco47I GGWCC 1 cut(s) 121
Eco88I CYCGRG 1 cut(s) 106
EcoT14I CCWWGG 1 cut(s) 93
EgeI GGCGCC 1 cut(s) 169
EheI GGCGCC 1 cut(s) 169
ErhI CCWWGG 1 cut(s) 93
FaeI CATG 1 cut(s) 128
FaiI YATR 2 cut(s) 66, 126
FatI CATG 1 cut(s) 124
Fnu4HI GCNGC 1 cut(s) 213
FokI GGATG 1 cut(s) 23
Fsp4HI GCNGC 1 cut(s) 213
GlaI GCGC 1 cut(s) 169
GluI GCNGC 1 cut(s) 213
HaeII RGCGCY 1 cut(s) 171
HaeIII GGCC 1 cut(s) 150
HapII CCGG 1 cut(s) 143
HhaI GCGC 1 cut(s) 170
Hin1I GRCGYC 1 cut(s) 168
Hin1II CATG 1 cut(s) 128
Hin6I GCGC 1 cut(s) 168
HinP1I GCGC 1 cut(s) 168
HinfI GANTC 1 cut(s) 31
HpaII CCGG 1 cut(s) 143
Hpy166II GTNNAC 1 cut(s) 121
Hpy188I TCNGA 1 cut(s) 36
Hpy188III TCNNGA 1 cut(s) 83
Hpy8I GTNNAC 1 cut(s) 121
HpyAV CCTTC 2 cut(s) 31, 105
HpyCH4V TGCA 1 cut(s) 162
Hsp92I GRCGYC 1 cut(s) 168
Hsp92II CATG 1 cut(s) 128
HspAI GCGC 1 cut(s) 168
KasI GGCGCC 1 cut(s) 167
LmnI GCTCC 1 cut(s) 188
LpnPI CCDG 4 cut(s) 156, 172, 180, 202
LweI GCATC 1 cut(s) 66
MluCI AATT 1 cut(s) 98
Mly113I GGCGCC 1 cut(s) 168
MnlI CCTC 2 cut(s) 40, 90
MroXI GAANNNNTTC 1 cut(s) 30
MseI TTAA 3 cut(s) 18, 132, 217
MspI CCGG 1 cut(s) 143
MspR9I CCNGG 1 cut(s) 144
NarI GGCGCC 1 cut(s) 168
NciI CCSGG 1 cut(s) 144
NlaIII CATG 1 cut(s) 128
NlaIV GGNNCC 3 cut(s) 149, 169, 184
NspV TTCGAA 1 cut(s) 206
PdmI GAANNNNTTC 1 cut(s) 30
PfeI GAWTC 1 cut(s) 31
PkrI GCNGC 1 cut(s) 214
PluTI GGCGCC 1 cut(s) 171
PspN4I GGNNCC 3 cut(s) 149, 169, 184
PspPI GGNCC 2 cut(s) 121, 148
SaqAI TTAA 3 cut(s) 18, 132, 217
SatI GCNGC 1 cut(s) 213
Sau96I GGNCC 2 cut(s) 121, 148
ScrFI CCNGG 1 cut(s) 144
SetI ASST 2 cut(s) 65, 217
SfaNI GCATC 1 cut(s) 66
SfoI GGCGCC 1 cut(s) 169
SfuI TTCGAA 1 cut(s) 206
SinI GGWCC 1 cut(s) 121
Sse9I AATT 1 cut(s) 98
SsiI CCGC 2 cut(s) 156, 198
SspDI GGCGCC 1 cut(s) 167
StyD4I CCNGG 1 cut(s) 142
StyI CCWWGG 1 cut(s) 93
TaqI TCGA 1 cut(s) 206
TasI AATT 1 cut(s) 98
TfiI GAWTC 1 cut(s) 31
Tru1I TTAA 3 cut(s) 18, 132, 217
Tru9I TTAA 3 cut(s) 18, 132, 217
TseI GCWGC 1 cut(s) 212
VpaK11BI GGWCC 1 cut(s) 121
XmnI GAANNNNTTC 1 cut(s) 30
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.