Rh2CG042200

Retrotransposon gag protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr2C
OG0000370
Physical Location & Seq
Forward (+)
3380517 .. 3380843
327 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh2CG042200.1

Sequence Viewer

Length: 327 bp
ATGGCAGATGAAGAAGGGAGTGAGTCTAGAGGCTCTTCCGCTGATGATGTGGAAGAGAGAGGGGTGGATTTAATTAGTGCACTAAGAGAGATGACTCAAGCATTACAACAAACCGTTCGAGCTCAACAGCAACCACCCCCAACTGTTACTGATCGGGATATAAAAGCAATGGTGGCCTTGCGTGAGTTTAAGCACCAAAAACCACCAGCTTTCAAGGATGAACCAGACCCGGTTGTAGCTGAACAATGGTTAGATGAAATCAACAAGATACTAGATGCCTTTAGAATTTGGGAAAGCAACTCTAGAATTACTCTTGCTGCTTACTAG
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 zf-CCHC

Protein Analysis

108

Amino Acids

12.22

Weight (kDa)

4.58

Isoelectric Point (pI)

48.15

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
Loading...
Style Settings
Image
Tree File
Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

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)
AciI CCGC 1 cut(s) 39
AcsI RAATTY 1 cut(s) 285
AgsI TTSAA 1 cut(s) 214
AluBI AGCT 3 cut(s) 122, 209, 239
AluI AGCT 3 cut(s) 122, 209, 239
Alw21I GWGCWC 2 cut(s) 82, 124
Alw44I GTGCAC 1 cut(s) 78
AoxI GGCC 1 cut(s) 174
ApaLI GTGCAC 1 cut(s) 78
ApeKI GCWGC 1 cut(s) 317
ApoI RAATTY 1 cut(s) 285
AsuC2I CCSGG 1 cut(s) 230
BaeGI GKGCMC 1 cut(s) 82
BanII GRGCYC 1 cut(s) 124
Bbv12I GWGCWC 2 cut(s) 82, 124
BbvI GCAGC 1 cut(s) 304
BcnI CCSGG 1 cut(s) 230
BfaI CTAG 4 cut(s) 27, 272, 303, 325
BisI GCNGC 1 cut(s) 318
BlsI GCNGC 1 cut(s) 319
Bme1390I CCNGG 1 cut(s) 230
BmrFI CCNGG 1 cut(s) 230
BmsI GCATC 1 cut(s) 265
BpuEI CTTGAG 1 cut(s) 81
BpuMI CCSGG 1 cut(s) 230
Bse3DI GCAATG 1 cut(s) 174
BseGI GGATG 1 cut(s) 223
BseMI GCAATG 1 cut(s) 174
BseSI GKGCMC 1 cut(s) 82
BseXI GCAGC 1 cut(s) 304
BshFI GGCC 1 cut(s) 176
BsiHKAI GWGCWC 2 cut(s) 82, 124
BsiSI CCGG 1 cut(s) 230
BsnI GGCC 1 cut(s) 176
Bsp1286I GDGCHC 2 cut(s) 82, 124
Bsp143I GATC 1 cut(s) 151
BspACI CCGC 1 cut(s) 39
BspANI GGCC 1 cut(s) 176
BspQI GCTCTTC 1 cut(s) 40
BsrDI GCAATG 1 cut(s) 174
BssMI GATC 1 cut(s) 151
Bst4CI ACNGT 2 cut(s) 115, 145
Bst6I CTCTTC 2 cut(s) 40, 48
BstDEI CTNAG 1 cut(s) 83
BstF5I GGATG 1 cut(s) 223
BstKTI GATC 1 cut(s) 154
BstMBI GATC 1 cut(s) 151
BstMWI GCNNNNNNNGC 1 cut(s) 173
BstSCI CCNGG 1 cut(s) 228
BstSLI GKGCMC 1 cut(s) 82
BstV1I GCAGC 1 cut(s) 304
BsuRI GGCC 1 cut(s) 176
BtsCI GGATG 1 cut(s) 223
CviJI RGCY 5 cut(s) 33, 122, 176, 209, 239
CviKI_1 RGCY 5 cut(s) 33, 122, 176, 209, 239
DdeI CTNAG 1 cut(s) 83
DpnI GATC 1 cut(s) 153
DpnII GATC 1 cut(s) 151
Eam1104I CTCTTC 2 cut(s) 40, 48
EarI CTCTTC 2 cut(s) 40, 48
Ecl136II GAGCTC 1 cut(s) 122
Eco24I GRGCYC 1 cut(s) 124
Eco53kI GAGCTC 1 cut(s) 122
EcoICRI GAGCTC 1 cut(s) 122
EcoT38I GRGCYC 1 cut(s) 124
FaiI YATR 1 cut(s) 161
Fnu4HI GCNGC 1 cut(s) 318
FokI GGATG 1 cut(s) 230
FriOI GRGCYC 1 cut(s) 124
Fsp4HI GCNGC 1 cut(s) 318
FspBI CTAG 4 cut(s) 27, 272, 303, 325
GluI GCNGC 1 cut(s) 318
HaeIII GGCC 1 cut(s) 176
HapII CCGG 1 cut(s) 230
HinfI GANTC 2 cut(s) 23, 94
HpaII CCGG 1 cut(s) 230
Hpy166II GTNNAC 1 cut(s) 80
Hpy188III TCNNGA 3 cut(s) 27, 155, 303
Hpy8I GTNNAC 1 cut(s) 80
HpyAV CCTTC 1 cut(s) 8
HpyCH4III ACNGT 2 cut(s) 115, 145
HpyCH4V TGCA 1 cut(s) 80
HpyF10VI GCNNNNNNNGC 1 cut(s) 173
HpyF3I CTNAG 1 cut(s) 83
Kzo9I GATC 1 cut(s) 151
LguI GCTCTTC 1 cut(s) 40
LpnPI CCDG 3 cut(s) 219, 237, 243
Lsp1109I GCAGC 1 cut(s) 304
LweI GCATC 1 cut(s) 265
MaeI CTAG 4 cut(s) 27, 272, 303, 325
MaeIII GTNAC 1 cut(s) 145
MalI GATC 1 cut(s) 153
MboI GATC 1 cut(s) 151
MboII GAAGA 3 cut(s) 23, 27, 65
MhlI GDGCHC 2 cut(s) 82, 124
MluCI AATT 3 cut(s) 72, 285, 306
MlyI GAGTC 2 cut(s) 32, 88
MnlI CCTC 2 cut(s) 23, 53
MseI TTAA 2 cut(s) 71, 189
MspA1I CMGCKG 1 cut(s) 41
MspI CCGG 1 cut(s) 230
MspR9I CCNGG 1 cut(s) 230
MwoI GCNNNNNNNGC 1 cut(s) 173
NciI CCSGG 1 cut(s) 230
NdeII GATC 1 cut(s) 151
PciSI GCTCTTC 1 cut(s) 40
PkrI GCNGC 1 cut(s) 319
PleI GAGTC 2 cut(s) 31, 88
PpsI GAGTC 2 cut(s) 31, 88
Psp124BI GAGCTC 1 cut(s) 124
SacI GAGCTC 1 cut(s) 124
SapI GCTCTTC 1 cut(s) 40
SaqAI TTAA 2 cut(s) 71, 189
SatI GCNGC 1 cut(s) 318
Sau3AI GATC 1 cut(s) 151
SchI GAGTC 2 cut(s) 32, 88
ScrFI CCNGG 1 cut(s) 230
SduI GDGCHC 2 cut(s) 82, 124
SetI ASST 3 cut(s) 124, 211, 241
SfaNI GCATC 1 cut(s) 265
SmlI CTYRAG 1 cut(s) 96
SmoI CTYRAG 1 cut(s) 96
Sse9I AATT 3 cut(s) 72, 285, 306
SsiI CCGC 1 cut(s) 39
SspMI CTAG 4 cut(s) 27, 272, 303, 325
SstI GAGCTC 1 cut(s) 124
StyD4I CCNGG 1 cut(s) 228
TaaI ACNGT 2 cut(s) 115, 145
TaqI TCGA 1 cut(s) 118
TasI AATT 3 cut(s) 72, 285, 306
Tru1I TTAA 2 cut(s) 71, 189
Tru9I TTAA 2 cut(s) 71, 189
TseI GCWGC 1 cut(s) 317
TspDTI ATGAA 3 cut(s) 24, 234, 270
VneI GTGCAC 1 cut(s) 78
XapI RAATTY 1 cut(s) 285
XbaI TCTAGA 2 cut(s) 26, 302
XspI CTAG 4 cut(s) 27, 272, 303, 325
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.