Rh6CG463400

Retrotransposon gag protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr6C
OG0000370
Physical Location & Seq
Reverse (-)
63646705 .. 63646950
246 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh6CG463400.1

Sequence Viewer

Length: 246 bp
ATGGAAGAACAACATGAAGATAGCAACTCTGCAGTTATAGCTGCCATTCAAGATATGGCGAATGCCATTAGGGGAGGAAATAATAACCACCCAGAAGATACTGGAAGTCGAGTTATGAGGATTCAAGGAGAATTTCGGAAATCTCGACCACCAGTATTTAAAGGCATAATGGATCCAATGATGGCCGAGGAATGGCTACGTCAGATTACAAGGAGTATGAATAACCAAAGAGTTCCTGAATATTGA
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
RVP_2 Retrotrans_gag

Protein Analysis

81

Amino Acids

9.32

Weight (kDa)

5.61

Isoelectric Point (pI)

49.4

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: OG0000370)

Species Orthologous Gene IDs
fragaria_vesca FvH4_1g29481 FvH4_2g11454 FvH4_3g19661 FvH4_3g28463 FvH4_3g31691 FvH4_3g34551 FvH4_3g35241 FvH4_4g06575 FvH4_4g09082 FvH4_4g15804 FvH4_4g15805 FvH4_4g16178 FvH4_4g16282 FvH4_5g25163 FvH4_6g27413 FvH4_7g02962 FvH4_7g04361
malus_domestica MD01G1095000.v1.1 MD02G1270200.v1.1 MD02G1270300.v1.1 MD02G1270400.v1.1 MD06G1059100.v1.1 MD08G1226500.v1.1
prunus_persica Prupe.1G169500_v2.0.a1 Prupe.5G195800_v2.0.a1
pyrus_communis pycom01g00010 pycom01g00770 pycom02g23140 pycom03g11760 pycom04g06090 pycom05g06900 pycom05g08070 pycom05g14500 pycom06g03050 pycom07g06250 pycom07g07540 pycom07g10580 pycom08g04990 pycom1146g00060 pycom11g01080 pycom11g15270 pycom11g15460 pycom11g24900 pycom12419g00150 pycom12424g00120 pycom13g08740 pycom13g24950 pycom13g25960 pycom13g26030 pycom13g27820 pycom16g23270 pycom16g25020 pycom16g25960 pycom17g07780 pycom17g08210 pycom17g13100
rosa_chinensis RchiOBHm_Chr1g0329421 RchiOBHm_Chr4g0397711 RchiOBHm_Chr4g0403481 RchiOBHm_Chr5g0019091 RchiOBHm_Chr5g0049101
rosa_laevigata RLG00000029892
rosa_multiflora Rmu_sc0001866.1_g000007
rosa_roxburghii Rroxscaffold_2G00094160 Rroxscaffold_3G00229110 Rroxscaffold_4G00321100 Rroxscaffold_7G00196040 Rroxscaffold_7G00196280
rosa_rugosa Rorug05G0160500 Rorug06G0096500
rosa_samantha Rh1AG098600 Rh1AG098800 Rh1BG078200 Rh1BG078700 Rh1BG178500 Rh1CG094600 Rh1CG094900 Rh1DG101700 Rh1DG109600 Rh2AG175800 Rh2AG175900 Rh2AG511400 Rh2BG114700 Rh2CG042200 Rh2CG116600 Rh2CG317500 Rh2DG327700 Rh2DG337800 Rh4CG142700 Rh4DG113100 Rh5BG335800 Rh5CG360600 Rh5DG352000 Rh6BG071400 Rh6BG417100 Rh6CG463300 Rh6CG463400 Rh7BG186600 Rh7CG196500 Rh7CG196600 Rh7CG448900 Rh7DG228300
rosa_wichuraiana Rw4G006560 Rw4G017340 Rw5G030450

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AclWI GGATC 2 cut(s) 167, 180
AcoI YGGCCR 1 cut(s) 183
AcsI RAATTY 1 cut(s) 131
AfiI CCNNNNNNNGG 1 cut(s) 192
AgsI TTSAA 2 cut(s) 50, 125
AluBI AGCT 1 cut(s) 41
AluI AGCT 1 cut(s) 41
AlwI GGATC 2 cut(s) 167, 180
AoxI GGCC 1 cut(s) 183
ApeKI GCWGC 1 cut(s) 41
ApoI RAATTY 1 cut(s) 131
BamHI GGATCC 1 cut(s) 172
BbvI GCAGC 1 cut(s) 28
BccI CCATC 1 cut(s) 175
BfmI CTRYAG 1 cut(s) 30
BisI GCNGC 1 cut(s) 42
BlsI GCNGC 1 cut(s) 43
BmiI GGNNCC 1 cut(s) 174
BsaJI CCNNGG 1 cut(s) 186
Bsc4I CCNNNNNNNGG 1 cut(s) 192
Bse1I ACTGG 2 cut(s) 106, 152
BseDI CCNNGG 1 cut(s) 186
BseLI CCNNNNNNNGG 1 cut(s) 192
BseNI ACTGG 2 cut(s) 106, 152
BseXI GCAGC 1 cut(s) 28
BshFI GGCC 1 cut(s) 185
BslI CCNNNNNNNGG 1 cut(s) 192
BsmI GAATGC 1 cut(s) 67
BsnI GGCC 1 cut(s) 185
Bsp143I GATC 1 cut(s) 172
BspANI GGCC 1 cut(s) 185
BspLI GGNNCC 1 cut(s) 174
BspMAI CTGCAG 1 cut(s) 34
BspPI GGATC 2 cut(s) 167, 180
BsrI ACTGG 2 cut(s) 106, 152
BssECI CCNNGG 1 cut(s) 186
BssMI GATC 1 cut(s) 172
BstKTI GATC 1 cut(s) 175
BstMBI GATC 1 cut(s) 172
BstMWI GCNNNNNNNGC 1 cut(s) 38
BstSFI CTRYAG 1 cut(s) 30
BstV1I GCAGC 1 cut(s) 28
BstX2I RGATCY 1 cut(s) 172
BstYI RGATCY 1 cut(s) 172
BsuRI GGCC 1 cut(s) 185
CviAII CATG 1 cut(s) 14
CviJI RGCY 3 cut(s) 41, 185, 196
CviKI_1 RGCY 3 cut(s) 41, 185, 196
DpnI GATC 1 cut(s) 174
DpnII GATC 1 cut(s) 172
DraI TTTAAA 1 cut(s) 160
EaeI YGGCCR 1 cut(s) 183
FaeI CATG 1 cut(s) 17
FaiI YATR 6 cut(s) 15, 38, 56, 116, 167, 218
FatI CATG 1 cut(s) 13
Fnu4HI GCNGC 1 cut(s) 42
Fsp4HI GCNGC 1 cut(s) 42
GluI GCNGC 1 cut(s) 42
HaeIII GGCC 1 cut(s) 185
Hin1II CATG 1 cut(s) 17
HinfI GANTC 1 cut(s) 121
Hpy188I TCNGA 2 cut(s) 138, 204
Hpy188III TCNNGA 3 cut(s) 50, 144, 236
HpyCH4IV ACGT 1 cut(s) 199
HpyCH4V TGCA 1 cut(s) 32
HpyF10VI GCNNNNNNNGC 1 cut(s) 38
HpySE526I ACGT 1 cut(s) 199
Hsp92II CATG 1 cut(s) 17
Kzo9I GATC 1 cut(s) 172
LpnPI CCDG 3 cut(s) 87, 105, 165
Lsp1109I GCAGC 1 cut(s) 28
MaeII ACGT 1 cut(s) 199
MalI GATC 1 cut(s) 174
MboI GATC 1 cut(s) 172
MboII GAAGA 3 cut(s) 17, 29, 107
MflI RGATCY 1 cut(s) 172
MluCI AATT 1 cut(s) 131
MnlI CCTC 3 cut(s) 68, 111, 181
MseI TTAA 1 cut(s) 159
Mva1269I GAATGC 1 cut(s) 67
MwoI GCNNNNNNNGC 1 cut(s) 38
NdeII GATC 1 cut(s) 172
NlaIII CATG 1 cut(s) 17
NlaIV GGNNCC 1 cut(s) 174
NmeAIII GCCGAG 1 cut(s) 211
PcsI WCGNNNNNNNCGW 1 cut(s) 142
PctI GAATGC 1 cut(s) 67
PfeI GAWTC 1 cut(s) 121
PkrI GCNGC 1 cut(s) 43
PspN4I GGNNCC 1 cut(s) 174
PstI CTGCAG 1 cut(s) 34
PsuI RGATCY 1 cut(s) 172
SaqAI TTAA 1 cut(s) 159
SatI GCNGC 1 cut(s) 42
Sau3AI GATC 1 cut(s) 172
SetI ASST 2 cut(s) 43, 202
SfcI CTRYAG 1 cut(s) 30
Sse9I AATT 1 cut(s) 131
SspI AATATT 1 cut(s) 242
TaiI ACGT 1 cut(s) 202
TaqI TCGA 2 cut(s) 109, 145
TasI AATT 1 cut(s) 131
TfiI GAWTC 1 cut(s) 121
Tru1I TTAA 1 cut(s) 159
Tru9I TTAA 1 cut(s) 159
TseI GCWGC 1 cut(s) 41
TspDTI ATGAA 2 cut(s) 30, 233
XapI RAATTY 1 cut(s) 131
XcmI CCANNNNNNNNNTGG 1 cut(s) 52
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.