Rh2AG175900

Retrotransposon gag protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr2A
OG0000370
Physical Location & Seq
Forward (+)
16771597 .. 16777922
6326 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh2AG175900.1

Sequence Viewer

Length: 264 bp
ATGACAGTAGCTGAATACCAAGGTAGATTTGAGGAACTTATGCGGTTTGCTCCAGGTGTTATTCCCAATGAGGCTACTAAAGCAAAGAAATTTGAGGAAGGACTTAATCCTGAGATTAGGGAGAAAGTATCGATTCTAAAGTTATTGAAATATTCTGAAGTGGTGGACCGAGCACTTATTGCTGAACGTAGTATTCAAGAAACAAAAAAGGAACTTGTTTTCATCCGGATACTTAACGTGAAAATCAATCGAGGTGACGAATAA
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

87

Amino Acids

10.08

Weight (kDa)

7.97

Isoelectric Point (pI)

27.07

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
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

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)
AccIII TCCGGA 1 cut(s) 225
AciI CCGC 1 cut(s) 43
AcsI RAATTY 1 cut(s) 89
AcuI CTGAAG 1 cut(s) 177
AgsI TTSAA 2 cut(s) 148, 197
AjnI CCWGG 1 cut(s) 52
AluBI AGCT 1 cut(s) 11
AluI AGCT 1 cut(s) 11
Alw21I GWGCWC 1 cut(s) 175
AlwNI CAGNNNCTG 1 cut(s) 11
Aor13HI TCCGGA 1 cut(s) 225
ApoI RAATTY 1 cut(s) 89
AspS9I GGNCC 1 cut(s) 166
AvaII GGWCC 1 cut(s) 166
Bbv12I GWGCWC 1 cut(s) 175
BciT130I CCWGG 1 cut(s) 54
BciVI GTATCC 1 cut(s) 222
BfuI GTATCC 1 cut(s) 222
Bme1390I CCNGG 1 cut(s) 54
Bme18I GGWCC 1 cut(s) 166
BmgT120I GGNCC 1 cut(s) 166
BmrFI CCNGG 1 cut(s) 54
BpmI CTGGAG 1 cut(s) 36
Bsa29I ATCGAT 1 cut(s) 131
BsaJI CCNNGG 1 cut(s) 19
BsaWI WCCGGW 1 cut(s) 225
BseAI TCCGGA 1 cut(s) 225
BseBI CCWGG 1 cut(s) 54
BseCI ATCGAT 1 cut(s) 131
BseDI CCNNGG 1 cut(s) 19
BseGI GGATG 1 cut(s) 222
BseMII CTCAG 1 cut(s) 102
BshVI ATCGAT 1 cut(s) 131
BsiHKAI GWGCWC 1 cut(s) 175
BsiSI CCGG 1 cut(s) 226
Bsp1286I GDGCHC 1 cut(s) 175
Bsp13I TCCGGA 1 cut(s) 225
BspACI CCGC 1 cut(s) 43
BspCNI CTCAG 1 cut(s) 103
BspDI ATCGAT 1 cut(s) 131
BspEI TCCGGA 1 cut(s) 225
BssECI CCNNGG 1 cut(s) 19
BssT1I CCWWGG 1 cut(s) 19
Bst2UI CCWGG 1 cut(s) 54
Bst4CI ACNGT 1 cut(s) 7
BstAPI GCANNNNNTGC 1 cut(s) 179
BstDEI CTNAG 1 cut(s) 111
BstF5I GGATG 1 cut(s) 222
BstMWI GCNNNNNNNGC 2 cut(s) 80, 179
BstNI CCWGG 1 cut(s) 54
BstSCI CCNGG 1 cut(s) 52
Bsu15I ATCGAT 1 cut(s) 131
BsuI GTATCC 1 cut(s) 222
BsuTUI ATCGAT 1 cut(s) 131
BtsCI GGATG 1 cut(s) 222
CaiI CAGNNNCTG 1 cut(s) 11
Cfr13I GGNCC 1 cut(s) 166
ClaI ATCGAT 1 cut(s) 131
CviJI RGCY 2 cut(s) 11, 74
CviKI_1 RGCY 2 cut(s) 11, 74
DdeI CTNAG 1 cut(s) 111
Eco130I CCWWGG 1 cut(s) 19
Eco47I GGWCC 1 cut(s) 166
Eco57I CTGAAG 1 cut(s) 177
EcoRII CCWGG 1 cut(s) 52
EcoT14I CCWWGG 1 cut(s) 19
ErhI CCWWGG 1 cut(s) 19
FaiI YATR 1 cut(s) 41
FokI GGATG 1 cut(s) 209
GsuI CTGGAG 1 cut(s) 36
HapII CCGG 1 cut(s) 226
HinfI GANTC 1 cut(s) 133
HpaII CCGG 1 cut(s) 226
Hpy166II GTNNAC 1 cut(s) 166
Hpy188I TCNGA 1 cut(s) 157
Hpy188III TCNNGA 3 cut(s) 110, 197, 226
Hpy8I GTNNAC 1 cut(s) 166
HpyAV CCTTC 1 cut(s) 92
HpyCH4III ACNGT 1 cut(s) 7
HpyCH4IV ACGT 2 cut(s) 187, 237
HpyF10VI GCNNNNNNNGC 2 cut(s) 80, 179
HpyF3I CTNAG 1 cut(s) 111
HpySE526I ACGT 2 cut(s) 187, 237
Kpn2I TCCGGA 1 cut(s) 225
LmnI GCTCC 1 cut(s) 55
LpnPI CCDG 4 cut(s) 39, 66, 123, 239
MaeII ACGT 2 cut(s) 187, 237
MaeIII GTNAC 1 cut(s) 254
MhlI GDGCHC 1 cut(s) 175
MluCI AATT 1 cut(s) 89
MnlI CCTC 4 cut(s) 25, 64, 88, 245
MroI TCCGGA 1 cut(s) 225
MseI TTAA 2 cut(s) 105, 234
MspI CCGG 1 cut(s) 226
MspR9I CCNGG 1 cut(s) 54
MvaI CCWGG 1 cut(s) 54
MwoI GCNNNNNNNGC 2 cut(s) 80, 179
NmuCI GTSAC 1 cut(s) 254
PfeI GAWTC 1 cut(s) 133
Psp6I CCWGG 1 cut(s) 52
PspGI CCWGG 1 cut(s) 52
PspPI GGNCC 1 cut(s) 166
PstNI CAGNNNCTG 1 cut(s) 11
SaqAI TTAA 2 cut(s) 105, 234
Sau96I GGNCC 1 cut(s) 166
ScrFI CCNGG 1 cut(s) 54
SduI GDGCHC 1 cut(s) 175
SetI ASST 6 cut(s) 13, 25, 58, 190, 240, 256
SgeI CNNG 9 cut(s) 32, 65, 66, 122, 182, 209, 227, 238, 250
SinI GGWCC 1 cut(s) 166
Sse9I AATT 1 cut(s) 89
SsiI CCGC 1 cut(s) 43
SspI AATATT 1 cut(s) 152
StyD4I CCNGG 1 cut(s) 52
StyI CCWWGG 1 cut(s) 19
TaaI ACNGT 1 cut(s) 7
TaiI ACGT 2 cut(s) 190, 240
TaqI TCGA 2 cut(s) 131, 250
TaqII GACCGA 1 cut(s) 183
TasI AATT 1 cut(s) 89
TfiI GAWTC 1 cut(s) 133
Tru1I TTAA 2 cut(s) 105, 234
Tru9I TTAA 2 cut(s) 105, 234
TseFI GTSAC 1 cut(s) 254
Tsp45I GTSAC 1 cut(s) 254
TspDTI ATGAA 1 cut(s) 211
VpaK11BI GGWCC 1 cut(s) 166
XapI RAATTY 1 cut(s) 89
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.