Rh5CG540300

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5C
OG0000276
Physical Location & Seq
Forward (+)
75510896 .. 75512191
1296 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5CG540300.1

Sequence Viewer

Length: 378 bp
ATGTGGAATTTTTGTTTTTGTTTTTCAGATTGTCAAAATTCTGTATACTCTTCGGCCTCTACCGTGAAGCAAAAGATAGTTATAAAGGTGCAATTTAGCTCTGAGAAACGCAAAACTGAGGCTTTCAAGACTGCCGCCGGCTTTAAAGGTGTGAGCAGTGTGTCTATAGAAGCAGACAAAGACCAAGTTGTTGCGATCGGAGTTGGAATTGATTCGGTTTGCTTGGCCAAATTGTTGAGGAAGAAACTCAGCTACGCCCAAATAGTAAGTGTTGAAGAAGTGAAACCCGAAGAAAAGAAGCCAAAAGTTGAAACTATTCCAATTCAATGGACATCAAGCTATGCTCAATATCCTGTGTGCGATGTTTTCTACTGGTGA
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

125

Amino Acids

14.05

Weight (kDa)

8.78

Isoelectric Point (pI)

30.48

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)
AanI TTATAA 1 cut(s) 83
AccI GTMKAC 1 cut(s) 45
AciI CCGC 1 cut(s) 135
AcoI YGGCCR 1 cut(s) 225
AcsI RAATTY 2 cut(s) 7, 37
AgsI TTSAA 4 cut(s) 127, 275, 311, 326
AluBI AGCT 3 cut(s) 99, 252, 339
AluI AGCT 3 cut(s) 99, 252, 339
AoxI GGCC 2 cut(s) 54, 225
ApoI RAATTY 2 cut(s) 7, 37
Asp700I GAANNNNTTC 2 cut(s) 211, 315
BalI TGGCCA 1 cut(s) 227
BfmI CTRYAG 1 cut(s) 165
BisI GCNGC 1 cut(s) 135
BlsI GCNGC 1 cut(s) 136
Bse118I RCCGGY 1 cut(s) 137
Bse1I ACTGG 1 cut(s) 377
BseMII CTCAG 3 cut(s) 93, 108, 262
BseNI ACTGG 1 cut(s) 377
Bsh1285I CGRYCG 1 cut(s) 198
BshFI GGCC 2 cut(s) 56, 227
BsiEI CGRYCG 1 cut(s) 198
BsiSI CCGG 1 cut(s) 138
BsnI GGCC 2 cut(s) 56, 227
Bsp143I GATC 1 cut(s) 195
BspACI CCGC 1 cut(s) 135
BspANI GGCC 2 cut(s) 56, 227
BspCNI CTCAG 3 cut(s) 94, 109, 261
BsrFI RCCGGY 1 cut(s) 137
BsrI ACTGG 1 cut(s) 377
BssAI RCCGGY 1 cut(s) 137
BssMI GATC 1 cut(s) 195
BssNAI GTATAC 1 cut(s) 46
Bst1107I GTATAC 1 cut(s) 46
Bst4CI ACNGT 1 cut(s) 64
Bst6I CTCTTC 1 cut(s) 55
BstC8I GCNNGC 1 cut(s) 139
BstDEI CTNAG 3 cut(s) 102, 117, 248
BstKTI GATC 1 cut(s) 198
BstMBI GATC 1 cut(s) 195
BstMCI CGRYCG 1 cut(s) 198
BstSFI CTRYAG 1 cut(s) 165
BstXI CCANNNNNNTGG 1 cut(s) 327
BstZ17I GTATAC 1 cut(s) 46
BsuRI GGCC 2 cut(s) 56, 227
BtsI GCAGTG 1 cut(s) 163
BtsIMutI CAGTG 1 cut(s) 163
Cac8I GCNNGC 1 cut(s) 139
Cfr10I RCCGGY 1 cut(s) 137
CviJI RGCY 8 cut(s) 56, 99, 122, 141, 227, 252, 301, 339
CviKI_1 RGCY 8 cut(s) 56, 99, 122, 141, 227, 252, 301, 339
DdeI CTNAG 3 cut(s) 102, 117, 248
DpnI GATC 1 cut(s) 197
DpnII GATC 1 cut(s) 195
DraI TTTAAA 1 cut(s) 145
EaeI YGGCCR 1 cut(s) 225
Eam1104I CTCTTC 1 cut(s) 55
EarI CTCTTC 1 cut(s) 55
FaiI YATR 4 cut(s) 46, 83, 167, 342
FblI GTMKAC 1 cut(s) 45
Fnu4HI GCNGC 1 cut(s) 135
Fsp4HI GCNGC 1 cut(s) 135
GluI GCNGC 1 cut(s) 135
HaeIII GGCC 2 cut(s) 56, 227
HapII CCGG 1 cut(s) 138
HinfI GANTC 1 cut(s) 212
HpaII CCGG 1 cut(s) 138
Hpy166II GTNNAC 1 cut(s) 46
Hpy188I TCNGA 3 cut(s) 28, 103, 200
Hpy188III TCNNGA 1 cut(s) 127
Hpy8I GTNNAC 1 cut(s) 46
HpyCH4III ACNGT 1 cut(s) 64
HpyCH4V TGCA 1 cut(s) 91
HpyF3I CTNAG 3 cut(s) 102, 117, 248
KroI GCCGGC 1 cut(s) 137
KroNI GCCGGC 1 cut(s) 139
Kzo9I GATC 1 cut(s) 195
LpnPI CCDG 3 cut(s) 151, 358, 366
MalI GATC 1 cut(s) 197
MboI GATC 1 cut(s) 195
MboII GAAGA 4 cut(s) 42, 253, 287, 302
MlsI TGGCCA 1 cut(s) 227
MluCI AATT 6 cut(s) 7, 37, 92, 207, 230, 321
MluNI TGGCCA 1 cut(s) 227
MmeI TCCRAC 1 cut(s) 184
MnlI CCTC 3 cut(s) 67, 112, 231
Mox20I TGGCCA 1 cut(s) 227
MroNI GCCGGC 1 cut(s) 137
MroXI GAANNNNTTC 2 cut(s) 211, 315
MscI TGGCCA 1 cut(s) 227
MseI TTAA 1 cut(s) 144
Msp20I TGGCCA 1 cut(s) 227
MspI CCGG 1 cut(s) 138
NaeI GCCGGC 1 cut(s) 139
NdeII GATC 1 cut(s) 195
NgoMIV GCCGGC 1 cut(s) 137
PdiI GCCGGC 1 cut(s) 139
PdmI GAANNNNTTC 2 cut(s) 211, 315
PfeI GAWTC 1 cut(s) 212
PkrI GCNGC 1 cut(s) 136
Ple19I CGATCG 1 cut(s) 198
PsiI TTATAA 1 cut(s) 83
PvuI CGATCG 1 cut(s) 198
SaqAI TTAA 1 cut(s) 144
SatI GCNGC 1 cut(s) 135
Sau3AI GATC 1 cut(s) 195
SetI ASST 5 cut(s) 90, 101, 151, 254, 341
SfcI CTRYAG 1 cut(s) 165
SgeI CNNG 8 cut(s) 76, 139, 150, 197, 235, 299, 348, 365
Sse9I AATT 6 cut(s) 7, 37, 92, 207, 230, 321
SsiI CCGC 1 cut(s) 135
TaaI ACNGT 1 cut(s) 64
TasI AATT 6 cut(s) 7, 37, 92, 207, 230, 321
TauI GCSGC 1 cut(s) 137
TfiI GAWTC 1 cut(s) 212
Tru1I TTAA 1 cut(s) 144
Tru9I TTAA 1 cut(s) 144
TscAI CASTG 1 cut(s) 163
TspRI CASTG 1 cut(s) 163
XapI RAATTY 2 cut(s) 7, 37
XmiI GTMKAC 1 cut(s) 45
XmnI GAANNNNTTC 2 cut(s) 211, 315
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.