Rmu_sc0005665.1_g000009

Retrotransposon gag protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_multiflora
Rmu_sc0005665.1
N/A
Physical Location & Seq
Forward (+)
35987 .. 36829
843 bp
Loading structure...
UTR
Exon/CDS
Intron
N/A

Sequence Viewer

Length: 843 bp
atggtgacctacgactcggaaacagacccagagtctgatcacgacattgagtacaaacacgagccggagtctgacctacaggtagattccgaagaggaagccaagaatgttgacctagaaaccctccataagaagcttgcacatcaagctcgaaagtccaagagaaagatccatcgcacgaaagccatcaaagacaggctcggagcctttgcccgtgtcttgaacgacgttcaagcacagacagccctgatcaaccagaagtgtgaaagccaggcagtcgctaacgagcgcttgacgaggcagttggaggaggctaacaaagaacttcttgcgcagcaagaaaggactcgacgtatcgagaacaacttcaacagaaacaaggatcacgagaaatcctcagaatctgaggaagggctggacggtgacgatgagcgaacgagtgaatcagctgataatgcatttgaagatggaggattatactccgatgaagatcaaaggcgcctaggaatgagaaagttggggcgccagactcgaaggactctaacatccagtggtcggcgtaagaaggttgccaaaccagtattggcaacacaagtgccgttgacggcagaatccatggcaaccctggttaggcaagctgtagttggagagctcaggactgtgtatagatgtatggatcaaatggacaaagggaagttaccctacattcccgatgttggctcagatgaacttccgcttccatacacagagtccataatgctgggcaaagcctttatgatggctcaactgacccctatgaccacttggacaacttccggtcgaccatggatggaaaagatgtga
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
Retrotrans_gag

Protein Analysis

280

Amino Acids

32.0

Weight (kDa)

5.82

Isoelectric Point (pI)

49.16

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)
Acc16I TGCGCA 1 cut(s) 333
AccB1I GGYRCC 2 cut(s) 498, 522
AccI GTMKAC 1 cut(s) 820
AciI CCGC 1 cut(s) 734
AclWI GGATC 3 cut(s) 163, 390, 684
AcyI GRCGYC 2 cut(s) 499, 523
AfaI GTAC 1 cut(s) 53
AfeI AGCGCT 1 cut(s) 290
AfiI CCNNNNNNNGG 3 cut(s) 555, 630, 716
AgsI TTSAA 4 cut(s) 223, 233, 370, 464
AhdI GACNNNNNGTC 1 cut(s) 31
AjnI CCWGG 2 cut(s) 270, 624
AluBI AGCT 5 cut(s) 136, 149, 449, 638, 652
AluI AGCT 5 cut(s) 136, 149, 449, 638, 652
Alw21I GWGCWC 1 cut(s) 654
AlwI GGATC 3 cut(s) 163, 390, 684
AlwNI CAGNNNCTG 2 cut(s) 35, 404
Aor51HI AGCGCT 1 cut(s) 290
ApeKI GCWGC 1 cut(s) 334
Asp700I GAANNNNTTC 1 cut(s) 365
AspA2I CCTAGG 1 cut(s) 502
AspLEI GCGC 4 cut(s) 291, 334, 501, 525
AsuHPI GGTGA 2 cut(s) 16, 434
AvrII CCTAGG 1 cut(s) 502
BanI GGYRCC 2 cut(s) 498, 522
BanII GRGCYC 1 cut(s) 654
BarI GAAGNNNNNNTAC 2 cut(s) 686, 718
BauI CACGAG 2 cut(s) 59, 386
Bbv12I GWGCWC 1 cut(s) 654
BbvI GCAGC 1 cut(s) 346
BccI CCATC 5 cut(s) 180, 194, 461, 772, 823
BceAI ACGGC 2 cut(s) 583, 621
BciT130I CCWGG 2 cut(s) 272, 626
BclI TGATCA 2 cut(s) 37, 249
BfaI CTAG 2 cut(s) 116, 503
BfmI CTRYAG 2 cut(s) 77, 639
BfoI RGCGCY 3 cut(s) 292, 502, 526
BisI GCNGC 1 cut(s) 335
BlnI CCTAGG 1 cut(s) 502
BlsI GCNGC 1 cut(s) 336
Bme1390I CCNGG 2 cut(s) 272, 626
BmeRI GACNNNNNGTC 1 cut(s) 31
BmiI GGNNCC 3 cut(s) 205, 500, 524
BmrFI CCNGG 2 cut(s) 272, 626
BplI GAGNNNNNCTC 2 cut(s) 380, 412
Bpu10I CCTNAGC 1 cut(s) 653
BsaBI GATNNNNATC 1 cut(s) 489
BsaHI GRCGYC 2 cut(s) 499, 523
BsaJI CCNNGG 4 cut(s) 502, 615, 624, 824
BsaWI WCCGGW 1 cut(s) 815
Bsc4I CCNNNNNNNGG 3 cut(s) 555, 630, 716
Bse1I ACTGG 2 cut(s) 549, 578
Bse8I GATNNNNATC 1 cut(s) 489
BseBI CCWGG 2 cut(s) 272, 626
BseDI CCNNGG 4 cut(s) 502, 615, 624, 824
BseGI GGATG 2 cut(s) 545, 834
BseJI GATNNNNATC 1 cut(s) 489
BseLI CCNNNNNNNGG 3 cut(s) 555, 630, 716
BseMII CTCAG 4 cut(s) 396, 411, 667, 735
BseNI ACTGG 2 cut(s) 549, 578
BseRI GAGGAG 1 cut(s) 323
BseXI GCAGC 1 cut(s) 346
BseYI CCCAGC 1 cut(s) 760
Bsh1285I CGRYCG 1 cut(s) 820
BshNI GGYRCC 2 cut(s) 498, 522
BsiEI CGRYCG 1 cut(s) 820
BsiHKAI GWGCWC 1 cut(s) 654
BsiSI CCGG 2 cut(s) 65, 816
BslI CCNNNNNNNGG 3 cut(s) 555, 630, 716
Bsp1286I GDGCHC 1 cut(s) 654
Bsp143I GATC 6 cut(s) 37, 168, 249, 382, 490, 676
Bsp19I CCATGG 2 cut(s) 615, 824
BspACI CCGC 1 cut(s) 734
BspCNI CTCAG 4 cut(s) 397, 410, 666, 734
BspLI GGNNCC 3 cut(s) 205, 500, 524
BspPI GGATC 3 cut(s) 163, 390, 684
BspT107I GGYRCC 2 cut(s) 498, 522
BsrI ACTGG 2 cut(s) 549, 578
BssECI CCNNGG 4 cut(s) 502, 615, 624, 824
BssMI GATC 6 cut(s) 37, 168, 249, 382, 490, 676
BssNI GRCGYC 2 cut(s) 499, 523
BssSI CACGAG 2 cut(s) 59, 386
BssT1I CCWWGG 3 cut(s) 502, 615, 824
Bst2BI CACGAG 2 cut(s) 59, 386
Bst2UI CCWGG 2 cut(s) 272, 626
Bst4CI ACNGT 2 cut(s) 422, 661
Bst6I CTCTTC 1 cut(s) 87
BstACI GRCGYC 2 cut(s) 499, 523
BstC8I GCNNGC 2 cut(s) 138, 636
BstDEI CTNAG 4 cut(s) 397, 405, 653, 721
BstDSI CCRYGG 2 cut(s) 615, 824
BstEII GGTNACC 1 cut(s) 4
BstF5I GGATG 2 cut(s) 545, 834
BstH2I RGCGCY 3 cut(s) 292, 502, 526
BstHHI GCGC 4 cut(s) 291, 334, 501, 525
BstKTI GATC 6 cut(s) 40, 171, 252, 385, 493, 679
BstMBI GATC 6 cut(s) 37, 168, 249, 382, 490, 676
BstMCI CGRYCG 1 cut(s) 820
BstMWI GCNNNNNNNGC 3 cut(s) 146, 242, 455
BstNI CCWGG 2 cut(s) 272, 626
BstPI GGTNACC 1 cut(s) 4
BstSCI CCNGG 2 cut(s) 270, 624
BstSFI CTRYAG 2 cut(s) 77, 639
BstV1I GCAGC 1 cut(s) 346
BstX2I RGATCY 1 cut(s) 168
BstXI CCANNNNNNTGG 1 cut(s) 760
BstYI RGATCY 1 cut(s) 168
BtgI CCRYGG 2 cut(s) 615, 824
BtgZI GCGATG 1 cut(s) 158
BtsCI GGATG 2 cut(s) 545, 834
BtsIMutI CAGTG 1 cut(s) 556
Cac8I GCNNGC 2 cut(s) 138, 636
CaiI CAGNNNCTG 2 cut(s) 35, 404
CfoI GCGC 4 cut(s) 291, 334, 501, 525
Csp6I GTAC 1 cut(s) 52
CviAII CATG 2 cut(s) 616, 825
CviQI GTAC 1 cut(s) 52
DdeI CTNAG 4 cut(s) 397, 405, 653, 721
DinI GGCGCC 2 cut(s) 500, 524
DpnI GATC 6 cut(s) 39, 170, 251, 384, 492, 678
DpnII GATC 6 cut(s) 37, 168, 249, 382, 490, 676
DriI GACNNNNNGTC 1 cut(s) 31
Eam1104I CTCTTC 1 cut(s) 87
Eam1105I GACNNNNNGTC 1 cut(s) 31
EarI CTCTTC 1 cut(s) 87
Ecl136II GAGCTC 1 cut(s) 652
Eco130I CCWWGG 3 cut(s) 502, 615, 824
Eco24I GRGCYC 1 cut(s) 654
Eco47III AGCGCT 1 cut(s) 290
Eco53kI GAGCTC 1 cut(s) 652
Eco91I GGTNACC 1 cut(s) 4
EcoICRI GAGCTC 1 cut(s) 652
EcoO65I GGTNACC 1 cut(s) 4
EcoRII CCWGG 2 cut(s) 270, 624
EcoT14I CCWWGG 3 cut(s) 502, 615, 824
EcoT22I ATGCAT 1 cut(s) 460
EcoT38I GRGCYC 1 cut(s) 654
EgeI GGCGCC 2 cut(s) 500, 524
EheI GGCGCC 2 cut(s) 500, 524
ErhI CCWWGG 3 cut(s) 502, 615, 824
FaeI CATG 2 cut(s) 619, 828
FalI AAGNNNNNCTT 2 cut(s) 312, 344
FatI CATG 2 cut(s) 615, 824
FbaI TGATCA 2 cut(s) 37, 249
FblI GTMKAC 1 cut(s) 820
Fnu4HI GCNGC 1 cut(s) 335
FokI GGATG 1 cut(s) 532
FriOI GRGCYC 1 cut(s) 654
Fsp4HI GCNGC 1 cut(s) 335
FspBI CTAG 2 cut(s) 116, 503
FspI TGCGCA 1 cut(s) 333
GlaI GCGC 4 cut(s) 290, 333, 500, 524
GluI GCNGC 1 cut(s) 335
GsaI CCCAGC 1 cut(s) 764
HaeII RGCGCY 3 cut(s) 292, 502, 526
HapII CCGG 2 cut(s) 65, 816
HhaI GCGC 4 cut(s) 291, 334, 501, 525
Hin1I GRCGYC 2 cut(s) 499, 523
Hin1II CATG 2 cut(s) 619, 828
Hin6I GCGC 4 cut(s) 289, 332, 499, 523
HinP1I GCGC 4 cut(s) 289, 332, 499, 523
HincII GTYRAC 3 cut(s) 112, 603, 821
HindII GTYRAC 3 cut(s) 112, 603, 821
HindIII AAGCTT 1 cut(s) 134
HpaII CCGG 2 cut(s) 65, 816
HphI GGTGA 2 cut(s) 16, 434
Hpy166II GTNNAC 3 cut(s) 112, 603, 821
Hpy188I TCNGA 9 cut(s) 19, 37, 73, 91, 203, 400, 406, 484, 724
Hpy188III TCNNGA 6 cut(s) 41, 220, 358, 386, 655, 710
Hpy8I GTNNAC 3 cut(s) 112, 603, 821
Hpy99I CGWCG 2 cut(s) 230, 354
HpyAV CCTTC 3 cut(s) 404, 528, 559
HpyCH4III ACNGT 2 cut(s) 422, 661
HpyCH4IV ACGT 2 cut(s) 228, 352
HpyCH4V TGCA 2 cut(s) 140, 458
HpyF10VI GCNNNNNNNGC 3 cut(s) 146, 242, 455
HpyF3I CTNAG 4 cut(s) 397, 405, 653, 721
HpySE526I ACGT 2 cut(s) 228, 352
Hsp92I GRCGYC 2 cut(s) 499, 523
Hsp92II CATG 2 cut(s) 619, 828
HspAI GCGC 4 cut(s) 289, 332, 499, 523
KasI GGCGCC 2 cut(s) 498, 522
Ksp22I TGATCA 2 cut(s) 37, 249
Kzo9I GATC 6 cut(s) 37, 168, 249, 382, 490, 676
LmnI GCTCC 1 cut(s) 203
Lsp1109I GCAGC 1 cut(s) 346
MaeI CTAG 2 cut(s) 116, 503
MaeII ACGT 2 cut(s) 228, 352
MaeIII GTNAC 3 cut(s) 4, 422, 696
MalI GATC 6 cut(s) 39, 170, 251, 384, 492, 678
MboI GATC 6 cut(s) 37, 168, 249, 382, 490, 676
MboII GAAGA 3 cut(s) 104, 476, 500
MflI RGATCY 1 cut(s) 168
MhlI GDGCHC 1 cut(s) 654
Mly113I GGCGCC 2 cut(s) 499, 523
MlyI GAGTC 7 cut(s) 8, 41, 77, 340, 523, 532, 758
MmeI TCCRAC 2 cut(s) 285, 625
MnlI CCTC 8 cut(s) 88, 134, 291, 301, 304, 400, 406, 464
Mph1103I ATGCAT 1 cut(s) 460
MroXI GAANNNNTTC 1 cut(s) 365
MspA1I CMGCKG 1 cut(s) 449
MspI CCGG 2 cut(s) 65, 816
MspR9I CCNGG 2 cut(s) 272, 626
MvaI CCWGG 2 cut(s) 272, 626
MwoI GCNNNNNNNGC 3 cut(s) 146, 242, 455
NarI GGCGCC 2 cut(s) 499, 523
NcoI CCATGG 2 cut(s) 615, 824
NdeII GATC 6 cut(s) 37, 168, 249, 382, 490, 676
NlaIII CATG 2 cut(s) 619, 828
NlaIV GGNNCC 3 cut(s) 205, 500, 524
NmuCI GTSAC 2 cut(s) 4, 422
NsbI TGCGCA 1 cut(s) 333
NsiI ATGCAT 1 cut(s) 460
PdmI GAANNNNTTC 1 cut(s) 365
PfeI GAWTC 4 cut(s) 86, 401, 443, 611
PkrI GCNGC 1 cut(s) 336
PleI GAGTC 7 cut(s) 8, 40, 76, 340, 523, 532, 757
PluTI GGCGCC 2 cut(s) 502, 526
PpsI GAGTC 7 cut(s) 8, 40, 76, 340, 523, 532, 757
Psp124BI GAGCTC 1 cut(s) 654
Psp6I CCWGG 2 cut(s) 270, 624
PspEI GGTNACC 1 cut(s) 4
PspFI CCCAGC 1 cut(s) 760
PspGI CCWGG 2 cut(s) 270, 624
PspN4I GGNNCC 3 cut(s) 205, 500, 524
PstNI CAGNNNCTG 2 cut(s) 35, 404
PsuI RGATCY 1 cut(s) 168
PvuII CAGCTG 1 cut(s) 449
RsaI GTAC 1 cut(s) 53
RsaNI GTAC 1 cut(s) 52
SacI GAGCTC 1 cut(s) 654
SalI GTCGAC 1 cut(s) 819
SatI GCNGC 1 cut(s) 335
Sau3AI GATC 6 cut(s) 37, 168, 249, 382, 490, 676
SchI GAGTC 7 cut(s) 8, 41, 77, 340, 523, 532, 758
ScrFI CCNGG 2 cut(s) 272, 626
SduI GDGCHC 1 cut(s) 654
SfcI CTRYAG 2 cut(s) 77, 639
SfoI GGCGCC 2 cut(s) 500, 524
SsiI CCGC 1 cut(s) 734
SspDI GGCGCC 2 cut(s) 498, 522
SspMI CTAG 2 cut(s) 116, 503
SstI GAGCTC 1 cut(s) 654
StyD4I CCNGG 2 cut(s) 270, 624
StyI CCWWGG 3 cut(s) 502, 615, 824
TaaI ACNGT 2 cut(s) 422, 661
TaiI ACGT 2 cut(s) 231, 355
TaqI TCGA 5 cut(s) 151, 349, 357, 532, 820
TatI WGTACW 1 cut(s) 51
TfiI GAWTC 4 cut(s) 86, 401, 443, 611
TscAI CASTG 1 cut(s) 556
TseFI GTSAC 2 cut(s) 4, 422
TseI GCWGC 1 cut(s) 334
Tsp45I GTSAC 2 cut(s) 4, 422
TspDTI ATGAA 2 cut(s) 501, 741
TspRI CASTG 1 cut(s) 556
XcmI CCANNNNNNNNNTGG 2 cut(s) 580, 622
XmaJI CCTAGG 1 cut(s) 502
XmiI GTMKAC 1 cut(s) 820
XmnI GAANNNNTTC 1 cut(s) 365
XspI CTAG 2 cut(s) 116, 503
Zsp2I ATGCAT 1 cut(s) 460
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.