Rmu_ssc0000050.1_g000036

gag-polypeptide of LTR copia-type

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_multiflora
Rmu_ssc0000050.1
OG0000258
Physical Location & Seq
Forward (+)
142957 .. 143385
429 bp
Loading structure...
UTR
Exon/CDS
Intron
Rmu_ssc0000050.1_g000036.1.cds

Sequence Viewer

Length: 429 bp
atgaacggtgacaattcaaatgttactagggatgatatggaacaaagcgaggcaaatcctatatctgtggtgatatcagactcctctaaacatggagagaaacctgagaagttcaatggaacagacttcaagaggtggcaacaaaagatgctcttctatttgataaccttgagtttgacaaaatttctgaaggaagatgcccctgccagtggctcatctgtggaggctgctgcggctgcagatgcatggcatcattctgattttctgtgcaaaaattacatcctcaatggattggacaatgcattctacaatgtctatagtccaatgaaaactgctaaggcttatgggagtctcttgacaagaaatataagaccgaggacgctggaaagaagaaatatatcattgggcattttcttgattacaagatga
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

142

Amino Acids

16.02

Weight (kDa)

8.69

Isoelectric Point (pI)

46.64

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: 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)
AciI CCGC 1 cut(s) 233
AcsI RAATTY 1 cut(s) 182
AcuI CTGAAG 1 cut(s) 209
AfiI CCNNNNNNNGG 1 cut(s) 209
AgsI TTSAA 3 cut(s) 18, 115, 130
Alw26I GTCTC 1 cut(s) 356
ApeKI GCWGC 3 cut(s) 227, 230, 236
ApoI RAATTY 1 cut(s) 182
AsuHPI GGTGA 2 cut(s) 20, 82
BbvI GCAGC 3 cut(s) 214, 217, 223
BcoDI GTCTC 1 cut(s) 356
BfaI CTAG 1 cut(s) 27
BfmI CTRYAG 2 cut(s) 237, 316
BisI GCNGC 4 cut(s) 228, 231, 234, 237
BlsI GCNGC 4 cut(s) 229, 232, 235, 238
BmsI GCATC 4 cut(s) 138, 187, 232, 259
Bpu10I CCTNAGC 1 cut(s) 336
BpuEI CTTGAG 1 cut(s) 190
BsaJI CCNNGG 1 cut(s) 374
Bsc4I CCNNNNNNNGG 1 cut(s) 209
Bse1I ACTGG 1 cut(s) 207
BseDI CCNNGG 1 cut(s) 374
BseGI GGATG 2 cut(s) 37, 279
BseLI CCNNNNNNNGG 1 cut(s) 209
BseMII CTCAG 1 cut(s) 96
BseNI ACTGG 1 cut(s) 207
BseRI GAGGAG 1 cut(s) 73
BseXI GCAGC 3 cut(s) 214, 217, 223
BslI CCNNNNNNNGG 1 cut(s) 209
BsmAI GTCTC 1 cut(s) 356
BsmI GAATGC 1 cut(s) 302
BspACI CCGC 1 cut(s) 233
BspCNI CTCAG 1 cut(s) 97
BspMAI CTGCAG 1 cut(s) 241
BspQI GCTCTTC 1 cut(s) 158
BsrI ACTGG 1 cut(s) 207
BssECI CCNNGG 1 cut(s) 374
Bst4CI ACNGT 1 cut(s) 8
Bst6I CTCTTC 1 cut(s) 158
BstDEI CTNAG 2 cut(s) 105, 336
BstF5I GGATG 2 cut(s) 37, 279
BstMAI GTCTC 1 cut(s) 356
BstMWI GCNNNNNNNGC 3 cut(s) 233, 236, 242
BstSFI CTRYAG 2 cut(s) 237, 316
BstV1I GCAGC 3 cut(s) 214, 217, 223
BtsCI GGATG 2 cut(s) 37, 279
BtsIMutI CAGTG 1 cut(s) 214
CseI GACGC 1 cut(s) 388
CviAII CATG 2 cut(s) 92, 246
CviJI RGCY 4 cut(s) 213, 227, 236, 341
CviKI_1 RGCY 4 cut(s) 213, 227, 236, 341
DdeI CTNAG 2 cut(s) 105, 336
Eam1104I CTCTTC 1 cut(s) 158
EarI CTCTTC 1 cut(s) 158
Eco32I GATATC 1 cut(s) 75
Eco57I CTGAAG 1 cut(s) 209
EcoRV GATATC 1 cut(s) 75
EcoT22I ATGCAT 2 cut(s) 247, 304
FaeI CATG 2 cut(s) 95, 249
FaiI YATR 8 cut(s) 38, 62, 93, 247, 318, 345, 368, 398
FalI AAGNNNNNCTT 2 cut(s) 137, 169
FatI CATG 2 cut(s) 91, 245
Fnu4HI GCNGC 4 cut(s) 228, 231, 234, 237
FokI GGATG 2 cut(s) 44, 266
Fsp4HI GCNGC 4 cut(s) 228, 231, 234, 237
FspBI CTAG 1 cut(s) 27
GluI GCNGC 4 cut(s) 228, 231, 234, 237
HgaI GACGC 1 cut(s) 388
Hin1II CATG 2 cut(s) 95, 249
HinfI GANTC 2 cut(s) 80, 349
HphI GGTGA 2 cut(s) 20, 82
Hpy188I TCNGA 3 cut(s) 79, 189, 259
Hpy188III TCNNGA 3 cut(s) 130, 355, 415
HpyAV CCTTC 1 cut(s) 184
HpyCH4III ACNGT 1 cut(s) 8
HpyCH4V TGCA 4 cut(s) 239, 245, 270, 302
HpyF10VI GCNNNNNNNGC 3 cut(s) 233, 236, 242
HpyF3I CTNAG 2 cut(s) 105, 336
Hsp92II CATG 2 cut(s) 95, 249
LguI GCTCTTC 1 cut(s) 158
LpnPI CCDG 4 cut(s) 117, 216, 220, 368
Lsp1109I GCAGC 3 cut(s) 214, 217, 223
LweI GCATC 4 cut(s) 138, 187, 232, 259
MaeI CTAG 1 cut(s) 27
MaeIII GTNAC 2 cut(s) 8, 22
MboII GAAGA 3 cut(s) 145, 206, 402
MluCI AATT 3 cut(s) 13, 182, 274
MlyI GAGTC 2 cut(s) 74, 358
MnlI CCTC 6 cut(s) 43, 94, 126, 217, 293, 369
Mph1103I ATGCAT 2 cut(s) 247, 304
Mva1269I GAATGC 1 cut(s) 302
MwoI GCNNNNNNNGC 3 cut(s) 233, 236, 242
NlaIII CATG 2 cut(s) 95, 249
NmuCI GTSAC 1 cut(s) 8
NsiI ATGCAT 2 cut(s) 247, 304
PciSI GCTCTTC 1 cut(s) 158
PctI GAATGC 1 cut(s) 302
PkrI GCNGC 4 cut(s) 229, 232, 235, 238
PleI GAGTC 2 cut(s) 74, 357
PpsI GAGTC 2 cut(s) 74, 357
PstI CTGCAG 1 cut(s) 241
SapI GCTCTTC 1 cut(s) 158
SatI GCNGC 4 cut(s) 228, 231, 234, 237
SchI GAGTC 2 cut(s) 74, 358
SetI ASST 3 cut(s) 106, 137, 170
SfaNI GCATC 4 cut(s) 138, 187, 232, 259
SfcI CTRYAG 2 cut(s) 237, 316
SmlI CTYRAG 1 cut(s) 169
SmoI CTYRAG 1 cut(s) 169
Sse9I AATT 3 cut(s) 13, 182, 274
SsiI CCGC 1 cut(s) 233
SspMI CTAG 1 cut(s) 27
TaaI ACNGT 1 cut(s) 8
TaqII GACCGA 1 cut(s) 388
TasI AATT 3 cut(s) 13, 182, 274
TauI GCSGC 1 cut(s) 236
TscAI CASTG 1 cut(s) 214
TseFI GTSAC 1 cut(s) 8
TseI GCWGC 3 cut(s) 227, 230, 236
Tsp45I GTSAC 1 cut(s) 8
TspDTI ATGAA 2 cut(s) 17, 341
TspRI CASTG 1 cut(s) 214
XapI RAATTY 1 cut(s) 182
XspI CTAG 1 cut(s) 27
Zsp2I ATGCAT 2 cut(s) 247, 304
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.