Rmu_sc0023984.1_g000001

gag-polypeptide of LTR copia-type

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_multiflora
Rmu_sc0023984.1
OG0000258
Physical Location & Seq
Forward (+)
139 .. 429
291 bp
Loading structure...
UTR
Exon/CDS
Intron
Rmu_sc0023984.1_g000001.1.cds

Sequence Viewer

Length: 291 bp
atggatcaatctgtatctaccatgaagaatcatgtggagaaacctgagaaattcaagggctctgacttcaaacgctggcaacagaagatgttgttttacttgacaactcttcatgtggcaaatgttctcacaaccgaggctcccaaggctttaccggaaggagaaggagatgatgttccaactgatgctcaaaaggccgaaaatcaaagggctataccgaaaatcaaagggctatcgagtcctgggaaagtaatgagtttctatgcaggaattacatcctcaatgccttag
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
No domains found.

Protein Analysis

96

Amino Acids

10.64

Weight (kDa)

8.93

Isoelectric Point (pI)

55.12

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: OG0000258)

Species Orthologous Gene IDs
arabidopsis_thaliana AT4G00980
fragaria_vesca FvH4_1g25682 FvH4_2g13961 FvH4_2g20162 FvH4_2g24753 FvH4_3g12191 FvH4_3g12632 FvH4_3g16171 FvH4_4g05871 FvH4_4g05873 FvH4_4g10121 FvH4_4g15488 FvH4_4g23911 FvH4_4g27782 FvH4_5g08912 FvH4_5g23001 FvH4_5g24552 FvH4_5g32801 FvH4_5g32802 FvH4_6g05093 FvH4_6g19722 FvH4_6g20391 FvH4_6g33792 FvH4_7g01381 FvH4_7g16761 FvH4_7g16761 FvH4_7g16761
malus_domestica MD01G1082500.v1.1 MD15G1436400.v1.1
prunus_persica Prupe.2G021400_v2.0.a1 Prupe.2G052400_v2.0.a1 Prupe.2G065000_v2.0.a1 Prupe.2G187700_v2.0.a1 Prupe.2G187800_v2.0.a1 Prupe.2G189900_v2.0.a1 Prupe.2G191300_v2.0.a1 Prupe.2G191700_v2.0.a1 Prupe.4G265600_v2.0.a1 Prupe.7G014200_v2.0.a1 Prupe.7G039000_v2.0.a1
pyrus_communis pycom01g05590 pycom01g05910 pycom02g12230 pycom02g25840 pycom03g15580 pycom04g04480 pycom05g09230 pycom05g23350 pycom05g23360 pycom07g08380 pycom09g01980 pycom09g01990 pycom11g18190 pycom11g18200 pycom11g21580 pycom13g04160 pycom15g25800 pycom16g16210 pycom16g17230 pycom16g24560 pycom16g25700 pycom17g11020
rosa_chinensis RchiOBHm_Chr1g0359981 RchiOBHm_Chr2g0151961 RchiOBHm_Chr2g0171331 RchiOBHm_Chr5g0081471 RchiOBHm_Chr6g0283031 RchiOBHm_Chr7g0197111 RchiOBHm_Chr7g0222601
rosa_laevigata RLG00000027843 RLG00000027845 RLG00000030065
rosa_multiflora Rmu_sc0000381.1_g000031 Rmu_sc0001179.1_g000035 Rmu_sc0001616.1_g000046 Rmu_sc0001851.1_g000032 Rmu_sc0002152.1_g000013 Rmu_sc0004031.1_g000015 Rmu_sc0004645.1_g000003 Rmu_sc0007393.1_g000001 Rmu_sc0008949.1_g000003 Rmu_sc0009799.1_g000011 Rmu_sc0011614.1_g000001 Rmu_sc0011699.1_g000009 Rmu_sc0019280.1_g000001 Rmu_sc0023984.1_g000001 Rmu_ssc0000050.1_g000036
rosa_roxburghii Rroxscaffold_1G00022650 Rroxscaffold_1G00033480 Rroxscaffold_3G00270250 Rroxscaffold_4G00296600 Rroxscaffold_4G00296760 Rroxscaffold_6G00409840
rosa_rugosa Rorug01G0273800 Rorug01G0273900 Rorug01G0274000
rosa_samantha Rh1AG287300 Rh1AG288100 Rh1BG253000 Rh1BG253500 Rh1BG399800 Rh1CG270400 Rh1CG271000 Rh1DG282000 Rh1DG282500 Rh4DG126500 Rh5DG194600 Rh5DG461100
rosa_wichuraiana Rw0G009130 Rw1G002590 Rw1G008490 Rw1G012210 Rw1G014290 Rw1G014490 Rw1G025510 Rw2G025840 Rw2G026170 Rw2G036510 Rw3G003050 Rw4G009270 Rw5G002350 Rw5G013930 Rw5G019500 Rw5G025890 Rw5G029960 Rw5G032360 Rw6G009890 Rw6G015670 Rw6G015860 Rw7G010030 Rw7G032600 Rw7G032770

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AclWI GGATC 1 cut(s) 12
AcsI RAATTY 1 cut(s) 50
AgsI TTSAA 2 cut(s) 55, 70
AjnI CCWGG 1 cut(s) 241
AloI GAACNNNNNNTCC 2 cut(s) 159, 191
AlwI GGATC 1 cut(s) 12
AoxI GGCC 1 cut(s) 195
ApoI RAATTY 1 cut(s) 50
BanII GRGCYC 1 cut(s) 62
BciT130I CCWGG 1 cut(s) 243
Bme1390I CCNGG 1 cut(s) 243
BmiI GGNNCC 1 cut(s) 141
BmrFI CCNGG 1 cut(s) 243
BmsI GCATC 1 cut(s) 175
BsaJI CCNNGG 3 cut(s) 135, 144, 242
BsaWI WCCGGW 1 cut(s) 154
BsaXI ACNNNNNCTCC 4 cut(s) 124, 154, 159, 189
BseBI CCWGG 1 cut(s) 243
BseDI CCNNGG 3 cut(s) 135, 144, 242
BseGI GGATG 1 cut(s) 275
BseMII CTCAG 1 cut(s) 36
BshFI GGCC 1 cut(s) 197
BsiSI CCGG 1 cut(s) 155
BsnI GGCC 1 cut(s) 197
Bsp1286I GDGCHC 1 cut(s) 62
Bsp143I GATC 1 cut(s) 4
BspANI GGCC 1 cut(s) 197
BspCNI CTCAG 1 cut(s) 37
BspLI GGNNCC 1 cut(s) 141
BspPI GGATC 1 cut(s) 12
BssECI CCNNGG 3 cut(s) 135, 144, 242
BssMI GATC 1 cut(s) 4
BssT1I CCWWGG 1 cut(s) 144
Bst2UI CCWGG 1 cut(s) 243
Bst6I CTCTTC 1 cut(s) 114
BstC8I GCNNGC 1 cut(s) 77
BstDEI CTNAG 2 cut(s) 45, 288
BstF5I GGATG 1 cut(s) 275
BstKTI GATC 1 cut(s) 7
BstMBI GATC 1 cut(s) 4
BstMWI GCNNNNNNNGC 2 cut(s) 146, 194
BstNI CCWGG 1 cut(s) 243
BstSCI CCNGG 1 cut(s) 241
BsuRI GGCC 1 cut(s) 197
BtsCI GGATG 1 cut(s) 275
Cac8I GCNNGC 1 cut(s) 77
CviAII CATG 3 cut(s) 22, 32, 113
CviJI RGCY 6 cut(s) 60, 140, 149, 197, 212, 232
CviKI_1 RGCY 6 cut(s) 60, 140, 149, 197, 212, 232
DdeI CTNAG 2 cut(s) 45, 288
DpnI GATC 1 cut(s) 6
DpnII GATC 1 cut(s) 4
Eam1104I CTCTTC 1 cut(s) 114
EarI CTCTTC 1 cut(s) 114
Eco130I CCWWGG 1 cut(s) 144
Eco24I GRGCYC 1 cut(s) 62
EcoRII CCWGG 1 cut(s) 241
EcoT14I CCWWGG 1 cut(s) 144
EcoT38I GRGCYC 1 cut(s) 62
ErhI CCWWGG 1 cut(s) 144
FaeI CATG 3 cut(s) 25, 35, 116
FaiI YATR 5 cut(s) 23, 33, 114, 215, 264
FatI CATG 3 cut(s) 21, 31, 112
FokI GGATG 1 cut(s) 262
FriOI GRGCYC 1 cut(s) 62
HaeIII GGCC 1 cut(s) 197
HapII CCGG 1 cut(s) 155
Hin1II CATG 3 cut(s) 25, 35, 116
HinfI GANTC 2 cut(s) 28, 238
HpaII CCGG 1 cut(s) 155
Hpy188I TCNGA 1 cut(s) 64
HpyAV CCTTC 2 cut(s) 152, 158
HpyCH4V TGCA 1 cut(s) 266
HpyF10VI GCNNNNNNNGC 2 cut(s) 146, 194
HpyF3I CTNAG 2 cut(s) 45, 288
Hsp92II CATG 3 cut(s) 25, 35, 116
Kzo9I GATC 1 cut(s) 4
LmnI GCTCC 1 cut(s) 145
LpnPI CCDG 6 cut(s) 57, 61, 168, 228, 252, 255
LweI GCATC 1 cut(s) 175
MalI GATC 1 cut(s) 6
MboI GATC 1 cut(s) 4
MboII GAAGA 3 cut(s) 37, 97, 101
MhlI GDGCHC 1 cut(s) 62
MluCI AATT 2 cut(s) 50, 270
MlyI GAGTC 1 cut(s) 247
MmeI TCCRAC 1 cut(s) 203
MnlI CCTC 2 cut(s) 130, 289
MspI CCGG 1 cut(s) 155
MspR9I CCNGG 1 cut(s) 243
MvaI CCWGG 1 cut(s) 243
MwoI GCNNNNNNNGC 2 cut(s) 146, 194
NdeII GATC 1 cut(s) 4
NlaIII CATG 3 cut(s) 25, 35, 116
NlaIV GGNNCC 1 cut(s) 141
PfeI GAWTC 1 cut(s) 28
PleI GAGTC 1 cut(s) 246
PpsI GAGTC 1 cut(s) 246
Psp6I CCWGG 1 cut(s) 241
PspGI CCWGG 1 cut(s) 241
PspN4I GGNNCC 1 cut(s) 141
Sau3AI GATC 1 cut(s) 4
SchI GAGTC 1 cut(s) 247
ScrFI CCNGG 1 cut(s) 243
SduI GDGCHC 1 cut(s) 62
SetI ASST 1 cut(s) 46
SfaNI GCATC 1 cut(s) 175
Sse9I AATT 2 cut(s) 50, 270
StyD4I CCNGG 1 cut(s) 241
StyI CCWWGG 1 cut(s) 144
TaqI TCGA 1 cut(s) 236
TasI AATT 2 cut(s) 50, 270
TfiI GAWTC 1 cut(s) 28
TspDTI ATGAA 2 cut(s) 38, 101
XapI RAATTY 1 cut(s) 50
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.