Rh3AG259700

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr3A
OG0000276
Physical Location & Seq
Reverse (-)
28856114 .. 28856498
385 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh3AG259700.1

Sequence Viewer

Length: 318 bp
ATGTCAATACAAGGTGAACACAGAGATCATGTGGAGGTGATTGGGGATGGAATTGACTCGGTTTGCTTTACTAGGGCTTTGAAGAAGAAGCTTGGCTCTGCCGATTTAGTCAAGGTTGAGCAAGTGAAAGGATCCACAGATAACCAAGTCGAGCTACTAAGGACAAATAACTGCTCTCCAATGTGCAAGTGTTTTTTTTTCACATATGTAATTGGCCTTTATATTCACATCCATGCCGGTCTTTTCGAACAACTCATTCCAAAAACTGGTTTATATACTTATGCTGGAAAAATTATCCGCCCCTACATGCGACTCTAA
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

105

Amino Acids

11.88

Weight (kDa)

8.72

Isoelectric Point (pI)

24.78

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)
AccB7I CCANNNNNTGG 1 cut(s) 266
AciI CCGC 1 cut(s) 298
AclWI GGATC 2 cut(s) 126, 139
AfiI CCNNNNNNNGG 1 cut(s) 266
AgsI TTSAA 1 cut(s) 82
AluBI AGCT 2 cut(s) 91, 154
AluI AGCT 2 cut(s) 91, 154
AlwI GGATC 2 cut(s) 126, 139
AoxI GGCC 1 cut(s) 214
AsuHPI GGTGA 2 cut(s) 26, 49
AsuII TTCGAA 1 cut(s) 246
BamHI GGATCC 1 cut(s) 131
BccI CCATC 1 cut(s) 41
BfaI CTAG 1 cut(s) 72
BmiI GGNNCC 1 cut(s) 133
Bpu14I TTCGAA 1 cut(s) 246
Bsc4I CCNNNNNNNGG 1 cut(s) 266
Bse118I RCCGGY 1 cut(s) 236
Bse1I ACTGG 1 cut(s) 271
BseGI GGATG 2 cut(s) 52, 228
BseLI CCNNNNNNNGG 1 cut(s) 266
BseNI ACTGG 1 cut(s) 271
BshFI GGCC 1 cut(s) 216
BsiSI CCGG 1 cut(s) 237
BslI CCNNNNNNNGG 1 cut(s) 266
BsnI GGCC 1 cut(s) 216
Bsp119I TTCGAA 1 cut(s) 246
Bsp143I GATC 2 cut(s) 25, 131
BspACI CCGC 1 cut(s) 298
BspANI GGCC 1 cut(s) 216
BspLI GGNNCC 1 cut(s) 133
BspPI GGATC 2 cut(s) 126, 139
BspT104I TTCGAA 1 cut(s) 246
BsrFI RCCGGY 1 cut(s) 236
BsrI ACTGG 1 cut(s) 271
BssAI RCCGGY 1 cut(s) 236
BssMI GATC 2 cut(s) 25, 131
BstBI TTCGAA 1 cut(s) 246
BstDEI CTNAG 1 cut(s) 158
BstF5I GGATG 2 cut(s) 52, 228
BstKTI GATC 2 cut(s) 28, 134
BstMBI GATC 2 cut(s) 25, 131
BstNSI RCATGY 1 cut(s) 310
BstX2I RGATCY 1 cut(s) 131
BstYI RGATCY 1 cut(s) 131
BsuRI GGCC 1 cut(s) 216
BtsCI GGATG 2 cut(s) 52, 228
Cfr10I RCCGGY 1 cut(s) 236
CviAII CATG 3 cut(s) 29, 233, 307
CviJI RGCY 5 cut(s) 77, 91, 96, 154, 216
CviKI_1 RGCY 5 cut(s) 77, 91, 96, 154, 216
DdeI CTNAG 1 cut(s) 158
DpnI GATC 2 cut(s) 27, 133
DpnII GATC 2 cut(s) 25, 131
EciI GGCGGA 1 cut(s) 287
FaeI CATG 3 cut(s) 32, 236, 310
FaiI YATR 9 cut(s) 30, 205, 207, 222, 234, 274, 276, 282, 308
FatI CATG 3 cut(s) 28, 232, 306
FauNDI CATATG 1 cut(s) 205
FokI GGATG 2 cut(s) 59, 215
FspBI CTAG 1 cut(s) 72
HaeIII GGCC 1 cut(s) 216
HapII CCGG 1 cut(s) 237
Hin1II CATG 3 cut(s) 32, 236, 310
HindIII AAGCTT 1 cut(s) 89
HinfI GANTC 2 cut(s) 56, 312
HpaII CCGG 1 cut(s) 237
HphI GGTGA 2 cut(s) 26, 49
Hpy166II GTNNAC 1 cut(s) 17
Hpy8I GTNNAC 1 cut(s) 17
HpyCH4V TGCA 1 cut(s) 186
HpyF3I CTNAG 1 cut(s) 158
Hsp92II CATG 3 cut(s) 32, 236, 310
Kzo9I GATC 2 cut(s) 25, 131
LpnPI CCDG 3 cut(s) 250, 252, 270
MaeI CTAG 1 cut(s) 72
MalI GATC 2 cut(s) 27, 133
MboI GATC 2 cut(s) 25, 131
MboII GAAGA 2 cut(s) 94, 97
MflI RGATCY 1 cut(s) 131
MluCI AATT 3 cut(s) 51, 210, 291
MlyI GAGTC 2 cut(s) 50, 306
MnlI CCTC 1 cut(s) 28
MslI CAYNNNNRTG 1 cut(s) 231
MspI CCGG 1 cut(s) 237
NdeI CATATG 1 cut(s) 205
NdeII GATC 2 cut(s) 25, 131
NlaIII CATG 3 cut(s) 32, 236, 310
NlaIV GGNNCC 1 cut(s) 133
NspI RCATGY 1 cut(s) 310
NspV TTCGAA 1 cut(s) 246
PflMI CCANNNNNTGG 1 cut(s) 266
PleI GAGTC 2 cut(s) 50, 306
PpsI GAGTC 2 cut(s) 50, 306
PspN4I GGNNCC 1 cut(s) 133
PsuI RGATCY 1 cut(s) 131
RseI CAYNNNNRTG 1 cut(s) 231
Sau3AI GATC 2 cut(s) 25, 131
SchI GAGTC 2 cut(s) 50, 306
SetI ASST 5 cut(s) 16, 39, 93, 117, 156
SfuI TTCGAA 1 cut(s) 246
SmiMI CAYNNNNRTG 1 cut(s) 231
Sse9I AATT 3 cut(s) 51, 210, 291
SsiI CCGC 1 cut(s) 298
SspMI CTAG 1 cut(s) 72
TaqI TCGA 2 cut(s) 150, 246
TasI AATT 3 cut(s) 51, 210, 291
Van91I CCANNNNNTGG 1 cut(s) 266
XceI RCATGY 1 cut(s) 310
XspI CTAG 1 cut(s) 72
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.