Rh5DG529100

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5D
OG0000276
Physical Location & Seq
Reverse (-)
81637327 .. 81638613
1287 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5DG529100.1

Sequence Viewer

Length: 309 bp
ATGAAGGTGCAATTTAGCTCTGAGAAACGCAGAACCGATGCCTTCAAGATTGCTGCCGGCACTAAAGGTGTGAGCGATGTGTCTATAGAAGCAGGTAAAGACCAAGTTGTGGTGATCGGAGATGGAGTTGACTCGGTTTGCTTGACCCAGTCATTAAGGAAGAAGCTCCGATACGTCGAAATAGTAAGTGTTGAAGAGGTGAAAAAGCCCGATGAAAAAAAGAAGCCAGAAGTTGAGAGTATTCCAATTCAATGGACATCTAGCTATGTCCACTATCCCATGCACTATGATGTTGTGTACCGTTGGTGA
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

102

Amino Acids

11.65

Weight (kDa)

8.64

Isoelectric Point (pI)

53.48

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)
Acc36I ACCTGC 1 cut(s) 83
AccB7I CCANNNNNTGG 1 cut(s) 109
AfaI GTAC 1 cut(s) 299
AfiI CCNNNNNNNGG 1 cut(s) 109
AgsI TTSAA 3 cut(s) 46, 194, 251
AluBI AGCT 3 cut(s) 18, 166, 264
AluI AGCT 3 cut(s) 18, 166, 264
ApeKI GCWGC 1 cut(s) 53
AsuHPI GGTGA 2 cut(s) 124, 211
BarI GAAGNNNNNNTAC 2 cut(s) 155, 187
BbvI GCAGC 1 cut(s) 40
BccI CCATC 1 cut(s) 116
BfaI CTAG 1 cut(s) 261
BfmI CTRYAG 1 cut(s) 84
BfuAI ACCTGC 1 cut(s) 83
BisI GCNGC 1 cut(s) 54
BlsI GCNGC 1 cut(s) 55
BmrI ACTGGG 1 cut(s) 142
BmsI GCATC 1 cut(s) 28
BmuI ACTGGG 1 cut(s) 142
BsaXI ACNNNNNCTCC 2 cut(s) 111, 141
Bsc4I CCNNNNNNNGG 1 cut(s) 109
Bse118I RCCGGY 1 cut(s) 56
Bse1I ACTGG 1 cut(s) 148
BseLI CCNNNNNNNGG 1 cut(s) 109
BseMII CTCAG 1 cut(s) 12
BseNI ACTGG 1 cut(s) 148
BseXI GCAGC 1 cut(s) 40
BsiSI CCGG 1 cut(s) 57
BslI CCNNNNNNNGG 1 cut(s) 109
Bsp143I GATC 1 cut(s) 114
BspCNI CTCAG 1 cut(s) 13
BspMI ACCTGC 1 cut(s) 83
BsrFI RCCGGY 1 cut(s) 56
BsrI ACTGG 1 cut(s) 148
BssAI RCCGGY 1 cut(s) 56
BssMI GATC 1 cut(s) 114
Bst4CI ACNGT 1 cut(s) 302
Bst6I CTCTTC 1 cut(s) 189
BstC8I GCNNGC 1 cut(s) 58
BstDEI CTNAG 1 cut(s) 21
BstKTI GATC 1 cut(s) 117
BstMBI GATC 1 cut(s) 114
BstSFI CTRYAG 1 cut(s) 84
BstV1I GCAGC 1 cut(s) 40
BstXI CCANNNNNNTGG 1 cut(s) 252
BtgZI GCGATG 1 cut(s) 90
BveI ACCTGC 1 cut(s) 83
Cac8I GCNNGC 1 cut(s) 58
Cfr10I RCCGGY 1 cut(s) 56
Csp6I GTAC 1 cut(s) 298
CviAII CATG 1 cut(s) 280
CviJI RGCY 5 cut(s) 18, 166, 208, 226, 264
CviKI_1 RGCY 5 cut(s) 18, 166, 208, 226, 264
CviQI GTAC 1 cut(s) 298
DdeI CTNAG 1 cut(s) 21
DpnI GATC 1 cut(s) 116
DpnII GATC 1 cut(s) 114
Eam1104I CTCTTC 1 cut(s) 189
EarI CTCTTC 1 cut(s) 189
FaeI CATG 1 cut(s) 283
FaiI YATR 4 cut(s) 86, 267, 281, 288
FatI CATG 1 cut(s) 279
Fnu4HI GCNGC 1 cut(s) 54
Fsp4HI GCNGC 1 cut(s) 54
FspBI CTAG 1 cut(s) 261
GluI GCNGC 1 cut(s) 54
HapII CCGG 1 cut(s) 57
Hin1II CATG 1 cut(s) 283
HincII GTYRAC 1 cut(s) 130
HindII GTYRAC 1 cut(s) 130
HinfI GANTC 1 cut(s) 131
HpaII CCGG 1 cut(s) 57
HphI GGTGA 2 cut(s) 124, 211
Hpy166II GTNNAC 3 cut(s) 130, 271, 298
Hpy188I TCNGA 3 cut(s) 22, 119, 170
Hpy188III TCNNGA 1 cut(s) 46
Hpy8I GTNNAC 3 cut(s) 130, 271, 298
Hpy99I CGWCG 1 cut(s) 179
HpyAV CCTTC 1 cut(s) 52
HpyCH4III ACNGT 1 cut(s) 302
HpyCH4IV ACGT 1 cut(s) 174
HpyCH4V TGCA 2 cut(s) 10, 283
HpyF3I CTNAG 1 cut(s) 21
HpySE526I ACGT 1 cut(s) 174
Hsp92II CATG 1 cut(s) 283
KroI GCCGGC 1 cut(s) 56
KroNI GCCGGC 1 cut(s) 58
Kzo9I GATC 1 cut(s) 114
LmnI GCTCC 1 cut(s) 171
LpnPI CCDG 4 cut(s) 70, 78, 161, 240
Lsp1109I GCAGC 1 cut(s) 40
LweI GCATC 1 cut(s) 28
MaeI CTAG 1 cut(s) 261
MaeII ACGT 1 cut(s) 174
MalI GATC 1 cut(s) 116
MboI GATC 1 cut(s) 114
MboII GAAGA 2 cut(s) 172, 206
MluCI AATT 2 cut(s) 11, 246
MlyI GAGTC 1 cut(s) 125
MnlI CCTC 1 cut(s) 190
MroNI GCCGGC 1 cut(s) 56
MseI TTAA 1 cut(s) 155
MslI CAYNNNNRTG 1 cut(s) 288
MspI CCGG 1 cut(s) 57
NaeI GCCGGC 1 cut(s) 58
NdeII GATC 1 cut(s) 114
NgoMIV GCCGGC 1 cut(s) 56
NlaIII CATG 1 cut(s) 283
PdiI GCCGGC 1 cut(s) 58
PflFI GACNNNGTC 1 cut(s) 148
PflMI CCANNNNNTGG 1 cut(s) 109
PkrI GCNGC 1 cut(s) 55
PleI GAGTC 1 cut(s) 125
PpsI GAGTC 1 cut(s) 125
PsyI GACNNNGTC 1 cut(s) 148
RsaI GTAC 1 cut(s) 299
RsaNI GTAC 1 cut(s) 298
RseI CAYNNNNRTG 1 cut(s) 288
SaqAI TTAA 1 cut(s) 155
SatI GCNGC 1 cut(s) 54
Sau3AI GATC 1 cut(s) 114
SchI GAGTC 1 cut(s) 125
SetI ASST 8 cut(s) 9, 20, 70, 97, 168, 177, 201, 266
SfaNI GCATC 1 cut(s) 28
SfcI CTRYAG 1 cut(s) 84
SmiMI CAYNNNNRTG 1 cut(s) 288
Sse9I AATT 2 cut(s) 11, 246
SspMI CTAG 1 cut(s) 261
TaaI ACNGT 1 cut(s) 302
TaiI ACGT 1 cut(s) 177
TaqI TCGA 1 cut(s) 177
TasI AATT 2 cut(s) 11, 246
Tru1I TTAA 1 cut(s) 155
Tru9I TTAA 1 cut(s) 155
TseI GCWGC 1 cut(s) 53
TspDTI ATGAA 2 cut(s) 17, 228
Tth111I GACNNNGTC 1 cut(s) 148
Van91I CCANNNNNTGG 1 cut(s) 109
XspI CTAG 1 cut(s) 261
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.