Rmu_sc0007393.1_g000001

gag-polypeptide of LTR copia-type

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_multiflora
Rmu_sc0007393.1
OG0000258
Physical Location & Seq
Forward (+)
220 .. 557
338 bp
Loading structure...
UTR
Exon/CDS
Intron
Rmu_sc0007393.1_g000001.1.cds

Sequence Viewer

Length: 338 bp
atggctggtgacgatgctgacgttactggaaatgataagggaaaaggaatggctattgctgcacctgtgttgattcctccttcctccactcatggggagaaacccgagaaatttagtgggacaaacttcaaatgctggcagcaaaagatgttgttctacctcactactctgaacttggccaaatttctgaaagaaagtgctcctgcatcaggaagcactgcagaagaggttgctgctgcagacgcatggcatcattcagattttctatgcaagaattacattcttaatggattggacattgtactttacaaagtgtacagtccaataaagaatgctaa
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

112

Amino Acids

12.12

Weight (kDa)

6.26

Isoelectric Point (pI)

27.89

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)
AcoI YGGCCR 1 cut(s) 177
AcsI RAATTY 2 cut(s) 110, 182
AfaI GTAC 2 cut(s) 303, 317
AfiI CCNNNNNNNGG 2 cut(s) 93, 209
AgsI TTSAA 1 cut(s) 130
Alw21I GWGCWC 1 cut(s) 202
Ama87I CYCGRG 1 cut(s) 104
AoxI GGCC 1 cut(s) 177
ApeKI GCWGC 4 cut(s) 59, 139, 233, 236
ApoI RAATTY 2 cut(s) 110, 182
AsuHPI GGTGA 1 cut(s) 20
AvaI CYCGRG 1 cut(s) 104
BalI TGGCCA 1 cut(s) 179
Bbv12I GWGCWC 1 cut(s) 202
BbvI GCAGC 4 cut(s) 46, 151, 220, 223
BfmI CTRYAG 2 cut(s) 219, 237
BisI GCNGC 4 cut(s) 60, 140, 234, 237
BlsI GCNGC 4 cut(s) 61, 141, 235, 238
BmeT110I CYCGRG 1 cut(s) 104
BmsI GCATC 3 cut(s) 4, 215, 259
Bsc4I CCNNNNNNNGG 2 cut(s) 93, 209
Bse1I ACTGG 1 cut(s) 31
BseLI CCNNNNNNNGG 2 cut(s) 93, 209
BseNI ACTGG 1 cut(s) 31
BseXI GCAGC 4 cut(s) 46, 151, 220, 223
BsgI GTGCAG 1 cut(s) 45
BshFI GGCC 1 cut(s) 179
BsiHKAI GWGCWC 1 cut(s) 202
BsiHKCI CYCGRG 1 cut(s) 104
BslFI GGGAC 1 cut(s) 133
BslI CCNNNNNNNGG 2 cut(s) 93, 209
BsmFI GGGAC 1 cut(s) 133
BsmI GAATGC 1 cut(s) 337
BsnI GGCC 1 cut(s) 179
BsoBI CYCGRG 1 cut(s) 104
Bsp1286I GDGCHC 1 cut(s) 202
Bsp1407I TGTACA 1 cut(s) 315
BspANI GGCC 1 cut(s) 179
BspMAI CTGCAG 2 cut(s) 223, 241
BsrGI TGTACA 1 cut(s) 315
BsrI ACTGG 1 cut(s) 31
Bst4CI ACNGT 1 cut(s) 320
Bst6I CTCTTC 1 cut(s) 219
BstAUI TGTACA 1 cut(s) 315
BstC8I GCNNGC 1 cut(s) 137
BstENI CCTNNNNNAGG 1 cut(s) 207
BstMWI GCNNNNNNNGC 2 cut(s) 59, 242
BstSFI CTRYAG 2 cut(s) 219, 237
BstV1I GCAGC 4 cut(s) 46, 151, 220, 223
BsuRI GGCC 1 cut(s) 179
BtsI GCAGTG 1 cut(s) 216
BtsIMutI CAGTG 1 cut(s) 216
Cac8I GCNNGC 1 cut(s) 137
CseI GACGC 1 cut(s) 251
Csp6I GTAC 2 cut(s) 302, 316
CviAII CATG 2 cut(s) 92, 246
CviJI RGCY 3 cut(s) 5, 53, 179
CviKI_1 RGCY 3 cut(s) 5, 53, 179
CviQI GTAC 2 cut(s) 302, 316
EaeI YGGCCR 1 cut(s) 177
Eam1104I CTCTTC 1 cut(s) 219
EarI CTCTTC 1 cut(s) 219
Eco88I CYCGRG 1 cut(s) 104
EcoNI CCTNNNNNAGG 1 cut(s) 207
FaeI CATG 2 cut(s) 95, 249
FaiI YATR 3 cut(s) 93, 247, 268
FaqI GGGAC 1 cut(s) 133
FatI CATG 2 cut(s) 91, 245
Fnu4HI GCNGC 4 cut(s) 60, 140, 234, 237
Fsp4HI GCNGC 4 cut(s) 60, 140, 234, 237
GluI GCNGC 4 cut(s) 60, 140, 234, 237
HaeIII GGCC 1 cut(s) 179
HgaI GACGC 1 cut(s) 251
Hin1II CATG 2 cut(s) 95, 249
HinfI GANTC 1 cut(s) 73
HphI GGTGA 1 cut(s) 20
Hpy166II GTNNAC 1 cut(s) 316
Hpy188I TCNGA 3 cut(s) 171, 189, 259
Hpy188III TCNNGA 1 cut(s) 210
Hpy8I GTNNAC 1 cut(s) 316
HpyAV CCTTC 1 cut(s) 90
HpyCH4III ACNGT 1 cut(s) 320
HpyCH4IV ACGT 1 cut(s) 21
HpyCH4V TGCA 5 cut(s) 62, 206, 221, 239, 270
HpyF10VI GCNNNNNNNGC 2 cut(s) 59, 242
HpySE526I ACGT 1 cut(s) 21
Hsp92II CATG 2 cut(s) 95, 249
LmnI GCTCC 1 cut(s) 205
LpnPI CCDG 5 cut(s) 12, 78, 121, 195, 216
Lsp1109I GCAGC 4 cut(s) 46, 151, 220, 223
LweI GCATC 3 cut(s) 4, 215, 259
MaeII ACGT 1 cut(s) 21
MaeIII GTNAC 2 cut(s) 8, 22
MboII GAAGA 1 cut(s) 236
MhlI GDGCHC 1 cut(s) 202
MlsI TGGCCA 1 cut(s) 179
MluCI AATT 3 cut(s) 110, 182, 274
MluNI TGGCCA 1 cut(s) 179
MnlI CCTC 4 cut(s) 87, 94, 170, 220
Mox20I TGGCCA 1 cut(s) 179
MscI TGGCCA 1 cut(s) 179
MseI TTAA 1 cut(s) 285
Msp20I TGGCCA 1 cut(s) 179
Mva1269I GAATGC 1 cut(s) 337
MwoI GCNNNNNNNGC 2 cut(s) 59, 242
NlaIII CATG 2 cut(s) 95, 249
NmuCI GTSAC 1 cut(s) 8
PcsI WCGNNNNNNNCGW 1 cut(s) 18
PctI GAATGC 1 cut(s) 337
PfeI GAWTC 1 cut(s) 73
PkrI GCNGC 4 cut(s) 61, 141, 235, 238
PstI CTGCAG 2 cut(s) 223, 241
RsaI GTAC 2 cut(s) 303, 317
RsaNI GTAC 2 cut(s) 302, 316
SaqAI TTAA 1 cut(s) 285
SatI GCNGC 4 cut(s) 60, 140, 234, 237
SduI GDGCHC 1 cut(s) 202
SetI ASST 4 cut(s) 24, 67, 162, 231
SfaNI GCATC 3 cut(s) 4, 215, 259
SfcI CTRYAG 2 cut(s) 219, 237
Sse9I AATT 3 cut(s) 110, 182, 274
TaaI ACNGT 1 cut(s) 320
TaiI ACGT 1 cut(s) 24
TasI AATT 3 cut(s) 110, 182, 274
TatI WGTACW 2 cut(s) 301, 315
TfiI GAWTC 1 cut(s) 73
Tru1I TTAA 1 cut(s) 285
Tru9I TTAA 1 cut(s) 285
TscAI CASTG 1 cut(s) 223
TseFI GTSAC 1 cut(s) 8
TseI GCWGC 4 cut(s) 59, 139, 233, 236
Tsp45I GTSAC 1 cut(s) 8
TspRI CASTG 1 cut(s) 223
XagI CCTNNNNNAGG 1 cut(s) 207
XapI RAATTY 2 cut(s) 110, 182
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.