Rmu_sc0002157.1_g000007

gag-polypeptide of LTR copia-type

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_multiflora
Rmu_sc0002157.1
OG0023021
Physical Location & Seq
Forward (+)
46451 .. 47598
1148 bp
Loading structure...
UTR
Exon/CDS
Intron
Rmu_sc0002157.1_g000007.1.cds

Sequence Viewer

Length: 450 bp
atgccttttctgcctccacctcacaccttgaagaactcgatcccaggagtccagaacctacagccccaccccaagaaccggccggaaacccaccgaaccggccaccggaagctccatacaactagcagcaaatattccaccagtttaccatcttcaggacctccaatttccaccaaattttggatgagtaacctgaacaaattggactttgctccattaggaacaactggctctgtatatcacaggtgggttcgtgatatccgccagcatctcaaggccgatggaatcttgtattcgattctcaagcccagccaggacgtgctaactgttgagcaagctcaagctttggaagcaaatagagcagccttagaggcaaataaggcgaaagccatcatcctaatgactcgtcatatagatgattcgctccagtacgagttaccgaatatttga
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
Retrotran_gag_2 zf-CCHC

Protein Analysis

149

Amino Acids

16.75

Weight (kDa)

9.87

Isoelectric Point (pI)

56.05

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: OG0023021)

Species Orthologous Gene IDs
rosa_multiflora Rmu_sc0001467.1_g000018 Rmu_sc0002157.1_g000007 Rmu_sc0006499.1_g000010 Rmu_ssc0000151.1_g000003

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB7I CCANNNNNTGG 1 cut(s) 180
AciI CCGC 1 cut(s) 262
AclWI GGATC 1 cut(s) 34
AcoI YGGCCR 2 cut(s) 80, 100
AcsI RAATTY 1 cut(s) 176
AcuI CTGAAG 1 cut(s) 138
AfaI GTAC 1 cut(s) 431
AfiI CCNNNNNNNGG 4 cut(s) 78, 105, 155, 180
AgsI TTSAA 1 cut(s) 31
AjiI CACGTC 1 cut(s) 319
AjnI CCWGG 2 cut(s) 43, 312
AluBI AGCT 3 cut(s) 112, 338, 344
AluI AGCT 3 cut(s) 112, 338, 344
AlwI GGATC 1 cut(s) 34
AoxI GGCC 3 cut(s) 80, 100, 276
ApeKI GCWGC 2 cut(s) 126, 362
ApoI RAATTY 1 cut(s) 176
AspS9I GGNCC 1 cut(s) 158
AvaII GGWCC 1 cut(s) 158
BbvI GCAGC 2 cut(s) 138, 374
BccI CCATC 3 cut(s) 157, 275, 398
BciT130I CCWGG 2 cut(s) 45, 314
BfaI CTAG 1 cut(s) 123
BfmI CTRYAG 1 cut(s) 59
BglI GCCNNNNNGGC 1 cut(s) 371
BisI GCNGC 2 cut(s) 127, 363
BlsI GCNGC 2 cut(s) 128, 364
Bme1390I CCNGG 2 cut(s) 45, 314
Bme18I GGWCC 1 cut(s) 158
BmgBI CACGTC 1 cut(s) 319
BmgT120I GGNCC 1 cut(s) 158
BmrFI CCNGG 2 cut(s) 45, 314
BmsI GCATC 1 cut(s) 277
BpmI CTGGAG 1 cut(s) 410
BpuEI CTTGAG 3 cut(s) 257, 287, 324
BsaJI CCNNGG 1 cut(s) 43
BsaWI WCCGGW 1 cut(s) 105
Bsc4I CCNNNNNNNGG 4 cut(s) 78, 105, 155, 180
Bse118I RCCGGY 2 cut(s) 78, 98
Bse1I ACTGG 3 cut(s) 141, 232, 427
BseBI CCWGG 2 cut(s) 45, 314
BseDI CCNNGG 1 cut(s) 43
BseGI GGATG 2 cut(s) 189, 393
BseLI CCNNNNNNNGG 4 cut(s) 78, 105, 155, 180
BseNI ACTGG 3 cut(s) 141, 232, 427
BseX3I CGGCCG 1 cut(s) 80
BseXI GCAGC 2 cut(s) 138, 374
BseYI CCCAGC 1 cut(s) 308
Bsh1285I CGRYCG 1 cut(s) 83
BshFI GGCC 3 cut(s) 82, 102, 278
BsiEI CGRYCG 1 cut(s) 83
BsiSI CCGG 4 cut(s) 79, 83, 99, 106
BslI CCNNNNNNNGG 4 cut(s) 78, 105, 155, 180
BsnI GGCC 3 cut(s) 82, 102, 278
Bsp143I GATC 1 cut(s) 39
BspACI CCGC 1 cut(s) 262
BspANI GGCC 3 cut(s) 82, 102, 278
BspPI GGATC 1 cut(s) 34
BsrFI RCCGGY 2 cut(s) 78, 98
BsrI ACTGG 3 cut(s) 141, 232, 427
BssAI RCCGGY 2 cut(s) 78, 98
BssECI CCNNGG 1 cut(s) 43
BssMI GATC 1 cut(s) 39
Bst2UI CCWGG 2 cut(s) 45, 314
Bst4CI ACNGT 1 cut(s) 328
BstC8I GCNNGC 2 cut(s) 266, 336
BstDEI CTNAG 1 cut(s) 367
BstF5I GGATG 2 cut(s) 189, 393
BstKTI GATC 1 cut(s) 42
BstMBI GATC 1 cut(s) 39
BstMCI CGRYCG 1 cut(s) 83
BstMWI GCNNNNNNNGC 5 cut(s) 10, 350, 359, 371, 380
BstNI CCWGG 2 cut(s) 45, 314
BstSCI CCNGG 2 cut(s) 43, 312
BstSFI CTRYAG 1 cut(s) 59
BstV1I GCAGC 2 cut(s) 138, 374
BstZI CGGCCG 1 cut(s) 80
BsuRI GGCC 3 cut(s) 82, 102, 278
BtrI CACGTC 1 cut(s) 319
BtsCI GGATG 2 cut(s) 189, 393
Cac8I GCNNGC 2 cut(s) 266, 336
Cfr10I RCCGGY 2 cut(s) 78, 98
Cfr13I GGNCC 1 cut(s) 158
Csp6I GTAC 1 cut(s) 430
CviQI GTAC 1 cut(s) 430
DdeI CTNAG 1 cut(s) 367
DpnI GATC 1 cut(s) 41
DpnII GATC 1 cut(s) 39
EaeI YGGCCR 2 cut(s) 80, 100
EagI CGGCCG 1 cut(s) 80
EciI GGCGGA 1 cut(s) 251
EclXI CGGCCG 1 cut(s) 80
Eco32I GATATC 1 cut(s) 259
Eco47I GGWCC 1 cut(s) 158
Eco52I CGGCCG 1 cut(s) 80
Eco57I CTGAAG 1 cut(s) 138
EcoO109I RGGNCCY 1 cut(s) 158
EcoRII CCWGG 2 cut(s) 43, 312
EcoRV GATATC 1 cut(s) 259
FaiI YATR 4 cut(s) 117, 238, 411, 413
Fnu4HI GCNGC 2 cut(s) 127, 363
FokI GGATG 2 cut(s) 196, 380
Fsp4HI GCNGC 2 cut(s) 127, 363
FspBI CTAG 1 cut(s) 123
GluI GCNGC 2 cut(s) 127, 363
GsaI CCCAGC 1 cut(s) 312
GsuI CTGGAG 1 cut(s) 410
HaeIII GGCC 3 cut(s) 82, 102, 278
HapII CCGG 4 cut(s) 79, 83, 99, 106
HindIII AAGCTT 1 cut(s) 342
HinfI GANTC 5 cut(s) 48, 285, 298, 403, 419
HpaII CCGG 4 cut(s) 79, 83, 99, 106
Hpy166II GTNNAC 1 cut(s) 146
Hpy188III TCNNGA 3 cut(s) 52, 156, 254
Hpy8I GTNNAC 1 cut(s) 146
HpyCH4III ACNGT 1 cut(s) 328
HpyCH4IV ACGT 1 cut(s) 318
HpyF10VI GCNNNNNNNGC 5 cut(s) 10, 350, 359, 371, 380
HpyF3I CTNAG 1 cut(s) 367
HpySE526I ACGT 1 cut(s) 318
Kzo9I GATC 1 cut(s) 39
LmnI GCTCC 3 cut(s) 117, 217, 429
Lsp1109I GCAGC 2 cut(s) 138, 374
LweI GCATC 1 cut(s) 277
MaeI CTAG 1 cut(s) 123
MaeII ACGT 1 cut(s) 318
MaeIII GTNAC 2 cut(s) 188, 435
MalI GATC 1 cut(s) 41
MboI GATC 1 cut(s) 39
MboII GAAGA 2 cut(s) 43, 144
MluCI AATT 3 cut(s) 165, 176, 200
MlyI GAGTC 2 cut(s) 57, 397
MnlI CCTC 4 cut(s) 24, 30, 171, 364
MslI CAYNNNNRTG 2 cut(s) 398, 414
MspI CCGG 4 cut(s) 79, 83, 99, 106
MspR9I CCNGG 2 cut(s) 45, 314
MvaI CCWGG 2 cut(s) 45, 314
MwoI GCNNNNNNNGC 5 cut(s) 10, 350, 359, 371, 380
NdeII GATC 1 cut(s) 39
PfeI GAWTC 3 cut(s) 285, 298, 419
PflMI CCANNNNNTGG 1 cut(s) 180
PkrI GCNGC 2 cut(s) 128, 364
PleI GAGTC 2 cut(s) 56, 397
PpsI GAGTC 2 cut(s) 56, 397
PpuMI RGGWCCY 1 cut(s) 158
Psp5II RGGWCCY 1 cut(s) 158
Psp6I CCWGG 2 cut(s) 43, 312
PspFI CCCAGC 1 cut(s) 308
PspGI CCWGG 2 cut(s) 43, 312
PspPI GGNCC 1 cut(s) 158
PspPPI RGGWCCY 1 cut(s) 158
RsaI GTAC 1 cut(s) 431
RsaNI GTAC 1 cut(s) 430
RseI CAYNNNNRTG 2 cut(s) 398, 414
SatI GCNGC 2 cut(s) 127, 363
Sau3AI GATC 1 cut(s) 39
Sau96I GGNCC 1 cut(s) 158
SchI GAGTC 2 cut(s) 57, 397
ScrFI CCNGG 2 cut(s) 45, 314
SfaNI GCATC 1 cut(s) 277
SfcI CTRYAG 1 cut(s) 59
SinI GGWCC 1 cut(s) 158
SmiMI CAYNNNNRTG 2 cut(s) 398, 414
SmlI CTYRAG 3 cut(s) 272, 302, 339
SmoI CTYRAG 3 cut(s) 272, 302, 339
Sse9I AATT 3 cut(s) 165, 176, 200
SsiI CCGC 1 cut(s) 262
SspI AATATT 2 cut(s) 134, 445
SspMI CTAG 1 cut(s) 123
StyD4I CCNGG 2 cut(s) 43, 312
TaaI ACNGT 1 cut(s) 328
TaiI ACGT 1 cut(s) 321
TaqI TCGA 2 cut(s) 38, 296
TasI AATT 3 cut(s) 165, 176, 200
TfiI GAWTC 3 cut(s) 285, 298, 419
TseI GCWGC 2 cut(s) 126, 362
Van91I CCANNNNNTGG 1 cut(s) 180
VpaK11BI GGWCC 1 cut(s) 158
XapI RAATTY 1 cut(s) 176
XspI CTAG 1 cut(s) 123
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.