Rmu_sc0001467.1_g000018

gag-polypeptide of LTR copia-type

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_multiflora
Rmu_sc0001467.1
OG0023021
Physical Location & Seq
Forward (+)
59235 .. 60512
1278 bp
Loading structure...
UTR
Exon/CDS
Intron
Rmu_sc0001467.1_g000018.1.cds

Sequence Viewer

Length: 477 bp
ctgattcaagaagttaaaaaccttgaatccgaatacaaaacattgaagctttttctgcctccacctcacaccttgaagaacttgatcccaagagtccagaaccggcgaccccaccctaagaaccggccggaaacctaccgaaccggccaccggaagctccatacgactcccagcaaatattctaccggttcaccatcttccggacctccaatttccacaaaattttggatgagtaacctgaacaaattggactttgcccaattgggaacaactggctatgaatatcacaggtgggttggtgatatcctccagcatctcaaggccgatggaatcttggatacgattctcgagcctagccaggacgtgttaactgttgagcaagctcaagctttgaaagcaaatagagcagccttagaggcaaataaggagaaagccatcatcctaatgactcgtcatatggatgattcgcttcagtaa
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

158

Amino Acids

18.03

Weight (kDa)

9.58

Isoelectric Point (pI)

47.56

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)
AccIII TCCGGA 1 cut(s) 200
AclWI GGATC 1 cut(s) 79
AcoI YGGCCR 2 cut(s) 125, 145
AcsI RAATTY 1 cut(s) 221
AcuI CTGAAG 1 cut(s) 455
AfiI CCNNNNNNNGG 2 cut(s) 150, 200
AflIII ACRYGT 1 cut(s) 363
AgeI ACCGGT 1 cut(s) 185
AgsI TTSAA 5 cut(s) 8, 26, 46, 76, 394
AjiI CACGTC 1 cut(s) 364
AjnI CCWGG 1 cut(s) 357
AluBI AGCT 4 cut(s) 49, 157, 383, 389
AluI AGCT 4 cut(s) 49, 157, 383, 389
AlwI GGATC 1 cut(s) 79
Ama87I CYCGRG 1 cut(s) 347
Aor13HI TCCGGA 1 cut(s) 200
AoxI GGCC 3 cut(s) 125, 145, 321
ApeKI GCWGC 1 cut(s) 407
ApoI RAATTY 1 cut(s) 221
AsiGI ACCGGT 1 cut(s) 185
AspS9I GGNCC 1 cut(s) 203
AsuHPI GGTGA 2 cut(s) 183, 311
AvaI CYCGRG 1 cut(s) 347
AvaII GGWCC 1 cut(s) 203
BbvI GCAGC 1 cut(s) 419
BccI CCATC 3 cut(s) 202, 320, 443
BciT130I CCWGG 1 cut(s) 359
BciVI GTATCC 1 cut(s) 331
BfaI CTAG 1 cut(s) 354
BfuI GTATCC 1 cut(s) 331
BglI GCCNNNNNGGC 1 cut(s) 416
BisI GCNGC 1 cut(s) 408
BlsI GCNGC 1 cut(s) 409
Bme1390I CCNGG 1 cut(s) 359
Bme18I GGWCC 1 cut(s) 203
BmeT110I CYCGRG 1 cut(s) 347
BmgBI CACGTC 1 cut(s) 364
BmgT120I GGNCC 1 cut(s) 203
BmrFI CCNGG 1 cut(s) 359
BmsI GCATC 1 cut(s) 322
BpmI CTGGAG 1 cut(s) 293
BpuEI CTTGAG 2 cut(s) 302, 369
BsaWI WCCGGW 3 cut(s) 150, 185, 200
Bsc4I CCNNNNNNNGG 2 cut(s) 150, 200
Bse118I RCCGGY 4 cut(s) 102, 123, 143, 185
Bse1I ACTGG 1 cut(s) 277
BseAI TCCGGA 1 cut(s) 200
BseBI CCWGG 1 cut(s) 359
BseGI GGATG 3 cut(s) 234, 438, 466
BseLI CCNNNNNNNGG 2 cut(s) 150, 200
BseNI ACTGG 1 cut(s) 277
BseX3I CGGCCG 1 cut(s) 125
BseXI GCAGC 1 cut(s) 419
BseYI CCCAGC 1 cut(s) 170
Bsh1285I CGRYCG 1 cut(s) 128
BshFI GGCC 3 cut(s) 127, 147, 323
BshTI ACCGGT 1 cut(s) 185
BsiEI CGRYCG 1 cut(s) 128
BsiHKCI CYCGRG 1 cut(s) 347
BsiSI CCGG 7 cut(s) 103, 124, 128, 144, 151, 186, 201
BslI CCNNNNNNNGG 2 cut(s) 150, 200
BsnI GGCC 3 cut(s) 127, 147, 323
BsoBI CYCGRG 1 cut(s) 347
Bsp13I TCCGGA 1 cut(s) 200
Bsp143I GATC 1 cut(s) 84
BspANI GGCC 3 cut(s) 127, 147, 323
BspEI TCCGGA 1 cut(s) 200
BspPI GGATC 1 cut(s) 79
BsrFI RCCGGY 4 cut(s) 102, 123, 143, 185
BsrI ACTGG 1 cut(s) 277
BssAI RCCGGY 4 cut(s) 102, 123, 143, 185
BssMI GATC 1 cut(s) 84
Bst2UI CCWGG 1 cut(s) 359
Bst4CI ACNGT 1 cut(s) 373
BstC8I GCNNGC 1 cut(s) 381
BstDEI CTNAG 2 cut(s) 117, 412
BstF5I GGATG 3 cut(s) 234, 438, 466
BstKTI GATC 1 cut(s) 87
BstMBI GATC 1 cut(s) 84
BstMCI CGRYCG 1 cut(s) 128
BstMWI GCNNNNNNNGC 4 cut(s) 55, 395, 404, 416
BstNI CCWGG 1 cut(s) 359
BstSCI CCNGG 1 cut(s) 357
BstV1I GCAGC 1 cut(s) 419
BstZI CGGCCG 1 cut(s) 125
BsuI GTATCC 1 cut(s) 331
BsuRI GGCC 3 cut(s) 127, 147, 323
BtrI CACGTC 1 cut(s) 364
BtsCI GGATG 3 cut(s) 234, 438, 466
Cac8I GCNNGC 1 cut(s) 381
Cfr10I RCCGGY 4 cut(s) 102, 123, 143, 185
Cfr13I GGNCC 1 cut(s) 203
CspAI ACCGGT 1 cut(s) 185
DdeI CTNAG 2 cut(s) 117, 412
DpnI GATC 1 cut(s) 86
DpnII GATC 1 cut(s) 84
EaeI YGGCCR 2 cut(s) 125, 145
EagI CGGCCG 1 cut(s) 125
EclXI CGGCCG 1 cut(s) 125
Eco32I GATATC 1 cut(s) 304
Eco47I GGWCC 1 cut(s) 203
Eco52I CGGCCG 1 cut(s) 125
Eco57I CTGAAG 1 cut(s) 455
Eco88I CYCGRG 1 cut(s) 347
EcoRII CCWGG 1 cut(s) 357
EcoRV GATATC 1 cut(s) 304
FaiI YATR 4 cut(s) 162, 279, 456, 458
FauNDI CATATG 1 cut(s) 456
Fnu4HI GCNGC 1 cut(s) 408
FokI GGATG 3 cut(s) 241, 425, 473
Fsp4HI GCNGC 1 cut(s) 408
FspBI CTAG 1 cut(s) 354
GluI GCNGC 1 cut(s) 408
GsaI CCCAGC 1 cut(s) 174
GsuI CTGGAG 1 cut(s) 293
HaeIII GGCC 3 cut(s) 127, 147, 323
HapII CCGG 7 cut(s) 103, 124, 128, 144, 151, 186, 201
HincII GTYRAC 1 cut(s) 369
HindII GTYRAC 1 cut(s) 369
HindIII AAGCTT 2 cut(s) 47, 387
HinfI GANTC 8 cut(s) 4, 26, 93, 166, 330, 343, 448, 464
HpaI GTTAAC 1 cut(s) 369
HpaII CCGG 7 cut(s) 103, 124, 128, 144, 151, 186, 201
HphI GGTGA 2 cut(s) 183, 311
Hpy166II GTNNAC 2 cut(s) 191, 369
Hpy188I TCNGA 1 cut(s) 31
Hpy188III TCNNGA 4 cut(s) 8, 97, 201, 347
Hpy8I GTNNAC 2 cut(s) 191, 369
HpyCH4III ACNGT 1 cut(s) 373
HpyCH4IV ACGT 1 cut(s) 363
HpyF10VI GCNNNNNNNGC 4 cut(s) 55, 395, 404, 416
HpyF3I CTNAG 2 cut(s) 117, 412
HpySE526I ACGT 1 cut(s) 363
Kpn2I TCCGGA 1 cut(s) 200
KspAI GTTAAC 1 cut(s) 369
Kzo9I GATC 1 cut(s) 84
LmnI GCTCC 1 cut(s) 162
Lsp1109I GCAGC 1 cut(s) 419
LweI GCATC 1 cut(s) 322
MaeI CTAG 1 cut(s) 354
MaeII ACGT 1 cut(s) 363
MaeIII GTNAC 1 cut(s) 233
MalI GATC 1 cut(s) 86
MboI GATC 1 cut(s) 84
MboII GAAGA 2 cut(s) 88, 189
MfeI CAATTG 1 cut(s) 260
MluCI AATT 4 cut(s) 210, 221, 245, 260
MlyI GAGTC 3 cut(s) 102, 160, 442
MnlI CCTC 5 cut(s) 69, 75, 216, 317, 409
MroI TCCGGA 1 cut(s) 200
MseI TTAA 2 cut(s) 15, 368
MslI CAYNNNNRTG 2 cut(s) 443, 459
MspI CCGG 7 cut(s) 103, 124, 128, 144, 151, 186, 201
MspR9I CCNGG 1 cut(s) 359
MunI CAATTG 1 cut(s) 260
MvaI CCWGG 1 cut(s) 359
MwoI GCNNNNNNNGC 4 cut(s) 55, 395, 404, 416
NdeI CATATG 1 cut(s) 456
NdeII GATC 1 cut(s) 84
PaeR7I CTCGAG 1 cut(s) 347
PfeI GAWTC 5 cut(s) 4, 26, 330, 343, 464
PinAI ACCGGT 1 cut(s) 185
PkrI GCNGC 1 cut(s) 409
PleI GAGTC 3 cut(s) 101, 160, 442
PpsI GAGTC 3 cut(s) 101, 160, 442
Psp6I CCWGG 1 cut(s) 357
PspFI CCCAGC 1 cut(s) 170
PspGI CCWGG 1 cut(s) 357
PspPI GGNCC 1 cut(s) 203
RseI CAYNNNNRTG 2 cut(s) 443, 459
SaqAI TTAA 2 cut(s) 15, 368
SatI GCNGC 1 cut(s) 408
Sau3AI GATC 1 cut(s) 84
Sau96I GGNCC 1 cut(s) 203
SchI GAGTC 3 cut(s) 102, 160, 442
ScrFI CCNGG 1 cut(s) 359
SfaNI GCATC 1 cut(s) 322
Sfr274I CTCGAG 1 cut(s) 347
SinI GGWCC 1 cut(s) 203
SlaI CTCGAG 1 cut(s) 347
SmiMI CAYNNNNRTG 2 cut(s) 443, 459
SmlI CTYRAG 3 cut(s) 317, 347, 384
SmoI CTYRAG 3 cut(s) 317, 347, 384
Sse9I AATT 4 cut(s) 210, 221, 245, 260
SspI AATATT 1 cut(s) 179
SspMI CTAG 1 cut(s) 354
StyD4I CCNGG 1 cut(s) 357
TaaI ACNGT 1 cut(s) 373
TaiI ACGT 1 cut(s) 366
TaqI TCGA 1 cut(s) 348
TasI AATT 4 cut(s) 210, 221, 245, 260
TfiI GAWTC 5 cut(s) 4, 26, 330, 343, 464
Tru1I TTAA 2 cut(s) 15, 368
Tru9I TTAA 2 cut(s) 15, 368
TseI GCWGC 1 cut(s) 407
TspDTI ATGAA 1 cut(s) 294
VpaK11BI GGWCC 1 cut(s) 203
XapI RAATTY 1 cut(s) 221
XhoI CTCGAG 1 cut(s) 347
XspI CTAG 1 cut(s) 354
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.