Rh5CG326000

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5C
OG0000276
Physical Location & Seq
Forward (+)
36069887 .. 36070174
288 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5CG326000.1

Sequence Viewer

Length: 288 bp
ATGGAGATAATCGGAGACGATGTTGATGCAGCGGGATTGACAGGATTGCTGAGGAAAAAGCTCGGCTATGCAGACTTAGTGAGCATGGAAGAAATAACCGAAAAGAAAGTTGATAAAGAGGAAAAGAAAATTAGCCAAGATGAGCAAAACGCTAATAGTTATAGTCCAATTAGGGGAAGAAGAGGTTGCCATCACCATGAGATGGAATTGCACATCTATGATCCACCATCGGGGGTAGATGCACCATTATGTGATGATATAAATACACTAGCAATGATGCCCGCGTGA
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

95

Amino Acids

10.57

Weight (kDa)

4.81

Isoelectric Point (pI)

55.42

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) 202
AccII CGCG 1 cut(s) 284
AciI CCGC 2 cut(s) 32, 282
AclWI GGATC 1 cut(s) 215
AfiI CCNNNNNNNGG 3 cut(s) 173, 202, 230
AluBI AGCT 1 cut(s) 61
AluI AGCT 1 cut(s) 61
Alw26I GTCTC 1 cut(s) 9
AlwI GGATC 1 cut(s) 215
ApeKI GCWGC 1 cut(s) 29
AsuHPI GGTGA 1 cut(s) 185
BbvCI CCTCAGC 1 cut(s) 50
BbvI GCAGC 1 cut(s) 41
BccI CCATC 3 cut(s) 196, 198, 235
BcgI CGANNNNNNTGC 2 cut(s) 8, 42
BcoDI GTCTC 1 cut(s) 9
BfaI CTAG 1 cut(s) 269
BisI GCNGC 1 cut(s) 30
BlsI GCNGC 1 cut(s) 31
BmsI GCATC 3 cut(s) 16, 229, 267
Bpu10I CCTNAGC 1 cut(s) 50
BsaXI ACNNNNNCTCC 2 cut(s) 6, 36
Bsc4I CCNNNNNNNGG 3 cut(s) 173, 202, 230
Bse3DI GCAATG 1 cut(s) 279
BseLI CCNNNNNNNGG 3 cut(s) 173, 202, 230
BseMI GCAATG 1 cut(s) 279
BseMII CTCAG 1 cut(s) 41
BseXI GCAGC 1 cut(s) 41
Bsh1236I CGCG 1 cut(s) 284
BslI CCNNNNNNNGG 3 cut(s) 173, 202, 230
BsmAI GTCTC 1 cut(s) 9
BsmBI CGTCTC 1 cut(s) 9
Bsp143I GATC 1 cut(s) 220
BspACI CCGC 2 cut(s) 32, 282
BspCNI CTCAG 1 cut(s) 42
BspFNI CGCG 1 cut(s) 284
BspPI GGATC 1 cut(s) 215
BsrDI GCAATG 1 cut(s) 279
BssMI GATC 1 cut(s) 220
Bst6I CTCTTC 1 cut(s) 175
BstC8I GCNNGC 1 cut(s) 282
BstDEI CTNAG 2 cut(s) 50, 76
BstFNI CGCG 1 cut(s) 284
BstKTI GATC 1 cut(s) 223
BstMAI GTCTC 1 cut(s) 9
BstMBI GATC 1 cut(s) 220
BstUI CGCG 1 cut(s) 284
BstV1I GCAGC 1 cut(s) 41
Cac8I GCNNGC 1 cut(s) 282
CviAII CATG 2 cut(s) 85, 197
CviJI RGCY 3 cut(s) 61, 66, 135
CviKI_1 RGCY 3 cut(s) 61, 66, 135
DdeI CTNAG 2 cut(s) 50, 76
DpnI GATC 1 cut(s) 222
DpnII GATC 1 cut(s) 220
Eam1104I CTCTTC 1 cut(s) 175
EarI CTCTTC 1 cut(s) 175
Esp3I CGTCTC 1 cut(s) 9
FaeI CATG 2 cut(s) 88, 200
FaiI YATR 7 cut(s) 69, 86, 162, 198, 219, 250, 260
FatI CATG 2 cut(s) 84, 196
FauI CCCGC 1 cut(s) 25
Fnu4HI GCNGC 1 cut(s) 30
Fsp4HI GCNGC 1 cut(s) 30
FspBI CTAG 1 cut(s) 269
GluI GCNGC 1 cut(s) 30
Hin1II CATG 2 cut(s) 88, 200
HphI GGTGA 1 cut(s) 185
Hpy188I TCNGA 1 cut(s) 14
HpyCH4V TGCA 4 cut(s) 29, 71, 211, 242
HpyF3I CTNAG 2 cut(s) 50, 76
Hsp92II CATG 2 cut(s) 88, 200
Kzo9I GATC 1 cut(s) 220
LpnPI CCDG 1 cut(s) 27
Lsp1109I GCAGC 1 cut(s) 41
LweI GCATC 3 cut(s) 16, 229, 267
MaeI CTAG 1 cut(s) 269
MalI GATC 1 cut(s) 222
MboI GATC 1 cut(s) 220
MboII GAAGA 3 cut(s) 101, 189, 192
MluCI AATT 3 cut(s) 129, 168, 206
MnlI CCTC 3 cut(s) 45, 112, 176
MslI CAYNNNNRTG 3 cut(s) 195, 216, 247
MspA1I CMGCKG 1 cut(s) 32
MvnI CGCG 1 cut(s) 284
NdeII GATC 1 cut(s) 220
NlaIII CATG 2 cut(s) 88, 200
NmeAIII GCCGAG 1 cut(s) 42
PflMI CCANNNNNTGG 1 cut(s) 202
PkrI GCNGC 1 cut(s) 31
RseI CAYNNNNRTG 3 cut(s) 195, 216, 247
SatI GCNGC 1 cut(s) 30
Sau3AI GATC 1 cut(s) 220
SetI ASST 2 cut(s) 63, 187
SfaNI GCATC 3 cut(s) 16, 229, 267
SgeI CNNG 8 cut(s) 45, 54, 74, 97, 149, 209, 243, 281
SmiMI CAYNNNNRTG 3 cut(s) 195, 216, 247
Sse9I AATT 3 cut(s) 129, 168, 206
SsiI CCGC 2 cut(s) 32, 282
SspMI CTAG 1 cut(s) 269
TasI AATT 3 cut(s) 129, 168, 206
TseI GCWGC 1 cut(s) 29
Van91I CCANNNNNTGG 1 cut(s) 202
XspI CTAG 1 cut(s) 269
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.