Rmu_sc0001461.1_g000053

gag-polypeptide of LTR copia-type

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_multiflora
Rmu_sc0001461.1
N/A
Physical Location & Seq
Reverse (-)
191081 .. 191875
795 bp
Loading structure...
UTR
Exon/CDS
Intron
N/A

Sequence Viewer

Length: 492 bp
ctgccgagcagctgccgacagcctccacacaagccctgcaagggctacacagcagccctgcagcagctccggccagctaccacgccggccacctcaggcgactttccagcatttttttggtgcttttccggcaaatttttgacactttttgaggggagaccaaaagccgaactgtgggggttcgtgctcactctaagcttggagcttgttgagatctccaaacttcgagattttgctccattgggaataactggctctggatatcacatgagggttcatgatgtccaccagcatctcaaggccgatggaatcctggatacgattctcgagcctagccaggacgtgctaactattgatcaagctcaagctttggaagcaaatagagcagcattagaggcaaataaggctaaagccatcatcctaataactcgtcacattgatgattcgctccagtacgagtgcatgaatgaagaaggccccagaagactgtag
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

163

Amino Acids

18.14

Weight (kDa)

6.32

Isoelectric Point (pI)

53.69

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

No orthologs found for this gene in the current database.

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AcoI YGGCCR 2 cut(s) 71, 87
AcsI RAATTY 1 cut(s) 134
AfaI GTAC 1 cut(s) 455
AfiI CCNNNNNNNGG 2 cut(s) 41, 174
AjiI CACGTC 1 cut(s) 343
AjnI CCWGG 2 cut(s) 312, 336
AluBI AGCT 7 cut(s) 12, 67, 77, 198, 205, 362, 368
AluI AGCT 7 cut(s) 12, 67, 77, 198, 205, 362, 368
Alw21I GWGCWC 1 cut(s) 189
Alw26I GTCTC 1 cut(s) 151
Ama87I CYCGRG 1 cut(s) 326
AoxI GGCC 4 cut(s) 71, 87, 300, 475
ApeKI GCWGC 6 cut(s) 9, 12, 53, 61, 64, 386
ApoI RAATTY 1 cut(s) 134
AspS9I GGNCC 1 cut(s) 476
AvaI CYCGRG 1 cut(s) 326
AxyI CCTNAGG 1 cut(s) 94
Bbv12I GWGCWC 1 cut(s) 189
BbvI GCAGC 5 cut(s) 21, 65, 73, 76, 398
BccI CCATC 2 cut(s) 299, 422
BciT130I CCWGG 2 cut(s) 314, 338
BciVI GTATCC 1 cut(s) 310
BclI TGATCA 1 cut(s) 355
BcoDI GTCTC 1 cut(s) 151
BfaI CTAG 1 cut(s) 333
BfmI CTRYAG 2 cut(s) 59, 488
BfuI GTATCC 1 cut(s) 310
BglII AGATCT 1 cut(s) 213
BisI GCNGC 6 cut(s) 10, 13, 54, 62, 65, 387
BlsI GCNGC 6 cut(s) 11, 14, 55, 63, 66, 388
Bme1390I CCNGG 2 cut(s) 314, 338
BmeT110I CYCGRG 1 cut(s) 326
BmgBI CACGTC 1 cut(s) 343
BmgT120I GGNCC 1 cut(s) 476
BmiI GGNNCC 1 cut(s) 478
BmrFI CCNGG 2 cut(s) 314, 338
BmsI GCATC 1 cut(s) 301
BpmI CTGGAG 1 cut(s) 434
BpuEI CTTGAG 2 cut(s) 281, 348
BsaI GGTCTC 1 cut(s) 151
Bsc4I CCNNNNNNNGG 2 cut(s) 41, 174
Bse118I RCCGGY 1 cut(s) 85
Bse1I ACTGG 2 cut(s) 256, 451
Bse21I CCTNAGG 1 cut(s) 94
BseBI CCWGG 2 cut(s) 314, 338
BseGI GGATG 1 cut(s) 417
BseLI CCNNNNNNNGG 2 cut(s) 41, 174
BseMII CTCAG 1 cut(s) 108
BseNI ACTGG 2 cut(s) 256, 451
BseXI GCAGC 5 cut(s) 21, 65, 73, 76, 398
BshFI GGCC 4 cut(s) 73, 89, 302, 477
BsiHKAI GWGCWC 1 cut(s) 189
BsiHKCI CYCGRG 1 cut(s) 326
BsiSI CCGG 3 cut(s) 70, 86, 129
BslI CCNNNNNNNGG 2 cut(s) 41, 174
BsmAI GTCTC 1 cut(s) 151
BsnI GGCC 4 cut(s) 73, 89, 302, 477
Bso31I GGTCTC 1 cut(s) 151
BsoBI CYCGRG 1 cut(s) 326
Bsp1286I GDGCHC 1 cut(s) 189
Bsp143I GATC 2 cut(s) 213, 355
BspANI GGCC 4 cut(s) 73, 89, 302, 477
BspCNI CTCAG 1 cut(s) 107
BspHI TCATGA 1 cut(s) 277
BspLI GGNNCC 1 cut(s) 478
BspMAI CTGCAG 1 cut(s) 63
BspTNI GGTCTC 1 cut(s) 151
BsrFI RCCGGY 1 cut(s) 85
BsrI ACTGG 2 cut(s) 256, 451
BssAI RCCGGY 1 cut(s) 85
BssMI GATC 2 cut(s) 213, 355
Bst2UI CCWGG 2 cut(s) 314, 338
Bst4CI ACNGT 2 cut(s) 174, 489
BstC8I GCNNGC 2 cut(s) 75, 87
BstDEI CTNAG 2 cut(s) 94, 194
BstF5I GGATG 1 cut(s) 417
BstKTI GATC 2 cut(s) 216, 358
BstMAI GTCTC 1 cut(s) 151
BstMBI GATC 2 cut(s) 213, 355
BstMWI GCNNNNNNNGC 6 cut(s) 70, 129, 374, 383, 395, 404
BstNI CCWGG 2 cut(s) 314, 338
BstSCI CCNGG 2 cut(s) 312, 336
BstSFI CTRYAG 2 cut(s) 59, 488
BstV1I GCAGC 5 cut(s) 21, 65, 73, 76, 398
BstX2I RGATCY 1 cut(s) 213
BstYI RGATCY 1 cut(s) 213
Bsu36I CCTNAGG 1 cut(s) 94
BsuI GTATCC 1 cut(s) 310
BsuRI GGCC 4 cut(s) 73, 89, 302, 477
BtrI CACGTC 1 cut(s) 343
BtsCI GGATG 1 cut(s) 417
Cac8I GCNNGC 2 cut(s) 75, 87
CciI TCATGA 1 cut(s) 277
Cfr10I RCCGGY 1 cut(s) 85
Cfr13I GGNCC 1 cut(s) 476
Csp6I GTAC 1 cut(s) 454
CviAII CATG 3 cut(s) 268, 278, 463
CviQI GTAC 1 cut(s) 454
DdeI CTNAG 2 cut(s) 94, 194
DpnI GATC 2 cut(s) 215, 357
DpnII GATC 2 cut(s) 213, 355
EaeI YGGCCR 2 cut(s) 71, 87
Eco31I GGTCTC 1 cut(s) 151
Eco32I GATATC 1 cut(s) 263
Eco81I CCTNAGG 1 cut(s) 94
Eco88I CYCGRG 1 cut(s) 326
EcoO109I RGGNCCY 1 cut(s) 476
EcoRII CCWGG 2 cut(s) 312, 336
EcoRV GATATC 1 cut(s) 263
FaeI CATG 3 cut(s) 271, 281, 466
FaiI YATR 3 cut(s) 269, 279, 464
FatI CATG 3 cut(s) 267, 277, 462
FbaI TGATCA 1 cut(s) 355
Fnu4HI GCNGC 6 cut(s) 10, 13, 54, 62, 65, 387
FokI GGATG 1 cut(s) 404
Fsp4HI GCNGC 6 cut(s) 10, 13, 54, 62, 65, 387
FspBI CTAG 1 cut(s) 333
GluI GCNGC 6 cut(s) 10, 13, 54, 62, 65, 387
GsuI CTGGAG 1 cut(s) 434
HaeIII GGCC 4 cut(s) 73, 89, 302, 477
HapII CCGG 3 cut(s) 70, 86, 129
Hin1II CATG 3 cut(s) 271, 281, 466
HindIII AAGCTT 2 cut(s) 196, 366
HinfI GANTC 3 cut(s) 309, 322, 443
HpaII CCGG 3 cut(s) 70, 86, 129
Hpy166II GTNNAC 1 cut(s) 286
Hpy188III TCNNGA 4 cut(s) 227, 258, 278, 326
Hpy8I GTNNAC 1 cut(s) 286
HpyAV CCTTC 1 cut(s) 467
HpyCH4III ACNGT 2 cut(s) 174, 489
HpyCH4IV ACGT 1 cut(s) 342
HpyCH4V TGCA 3 cut(s) 39, 61, 462
HpyF10VI GCNNNNNNNGC 6 cut(s) 70, 129, 374, 383, 395, 404
HpyF3I CTNAG 2 cut(s) 94, 194
HpySE526I ACGT 1 cut(s) 342
Hsp92II CATG 3 cut(s) 271, 281, 466
KroI GCCGGC 1 cut(s) 85
KroNI GCCGGC 1 cut(s) 87
Ksp22I TGATCA 1 cut(s) 355
Kzo9I GATC 2 cut(s) 213, 355
LmnI GCTCC 4 cut(s) 72, 202, 241, 453
Lsp1109I GCAGC 5 cut(s) 21, 65, 73, 76, 398
LweI GCATC 1 cut(s) 301
MaeI CTAG 1 cut(s) 333
MaeII ACGT 1 cut(s) 342
MaeIII GTNAC 1 cut(s) 431
MalI GATC 2 cut(s) 215, 357
MboI GATC 2 cut(s) 213, 355
MboII GAAGA 1 cut(s) 482
MflI RGATCY 1 cut(s) 213
MhlI GDGCHC 1 cut(s) 189
MluCI AATT 1 cut(s) 134
MnlI CCTC 5 cut(s) 33, 103, 145, 264, 388
MroNI GCCGGC 1 cut(s) 85
MslI CAYNNNNRTG 1 cut(s) 438
MspA1I CMGCKG 1 cut(s) 12
MspI CCGG 3 cut(s) 70, 86, 129
MspR9I CCNGG 2 cut(s) 314, 338
MvaI CCWGG 2 cut(s) 314, 338
MwoI GCNNNNNNNGC 6 cut(s) 70, 129, 374, 383, 395, 404
NaeI GCCGGC 1 cut(s) 87
NdeII GATC 2 cut(s) 213, 355
NgoMIV GCCGGC 1 cut(s) 85
NlaIII CATG 3 cut(s) 271, 281, 466
NlaIV GGNNCC 1 cut(s) 478
NmeAIII GCCGAG 1 cut(s) 30
NmuCI GTSAC 1 cut(s) 431
PaeR7I CTCGAG 1 cut(s) 326
PagI TCATGA 1 cut(s) 277
PdiI GCCGGC 1 cut(s) 87
PfeI GAWTC 3 cut(s) 309, 322, 443
PfoI TCCNGGA 1 cut(s) 312
PkrI GCNGC 6 cut(s) 11, 14, 55, 63, 66, 388
Psp6I CCWGG 2 cut(s) 312, 336
PspGI CCWGG 2 cut(s) 312, 336
PspN4I GGNNCC 1 cut(s) 478
PspPI GGNCC 1 cut(s) 476
PstI CTGCAG 1 cut(s) 63
PsuI RGATCY 1 cut(s) 213
PvuII CAGCTG 1 cut(s) 12
RsaI GTAC 1 cut(s) 455
RsaNI GTAC 1 cut(s) 454
RseI CAYNNNNRTG 1 cut(s) 438
SatI GCNGC 6 cut(s) 10, 13, 54, 62, 65, 387
Sau3AI GATC 2 cut(s) 213, 355
Sau96I GGNCC 1 cut(s) 476
ScrFI CCNGG 2 cut(s) 314, 338
SduI GDGCHC 1 cut(s) 189
SetI ASST 9 cut(s) 14, 69, 79, 95, 200, 207, 345, 364, 370
SfaNI GCATC 1 cut(s) 301
SfcI CTRYAG 2 cut(s) 59, 488
Sfr274I CTCGAG 1 cut(s) 326
SlaI CTCGAG 1 cut(s) 326
SmiMI CAYNNNNRTG 1 cut(s) 438
SmlI CTYRAG 3 cut(s) 296, 326, 363
SmoI CTYRAG 3 cut(s) 296, 326, 363
Sse9I AATT 1 cut(s) 134
SspMI CTAG 1 cut(s) 333
StyD4I CCNGG 2 cut(s) 312, 336
TaaI ACNGT 2 cut(s) 174, 489
TaiI ACGT 1 cut(s) 345
TaqI TCGA 2 cut(s) 226, 327
TasI AATT 1 cut(s) 134
TfiI GAWTC 3 cut(s) 309, 322, 443
TseFI GTSAC 1 cut(s) 431
TseI GCWGC 6 cut(s) 9, 12, 53, 61, 64, 386
Tsp45I GTSAC 1 cut(s) 431
TspDTI ATGAA 3 cut(s) 266, 479, 483
XapI RAATTY 1 cut(s) 134
XcmI CCANNNNNNNNNTGG 1 cut(s) 114
XhoI CTCGAG 1 cut(s) 326
XspI CTAG 1 cut(s) 333
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.