Rmu_sc0010739.1_g000008

gag-polypeptide of LTR copia-type

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_multiflora
Rmu_sc0010739.1
OG0018620
Physical Location & Seq
Forward (+)
38058 .. 38960
903 bp
Loading structure...
UTR
Exon/CDS
Intron
Rmu_sc0010739.1_g000008.1.cds

Sequence Viewer

Length: 747 bp
atgaatactagtcgattggataattgtctcctctccaacttctgcaatctcatcaccatgcagttagatgatactaactatttgacttggagatttgtgctagagtctgtgttggtagggtgtgatcttatggggtatattgatggatctattccttatcctccacaatataaaatcacaaaagagactggtattacccctaaggttacagaagagtataaagaatggaggaagcatgattctgctgtaatgactctactcgctactcttagtatgcctaatgctcctccaaattgtcaagtcctgatcccattcactaccaatgttggtgttccgcagtcagtgcctaattctggatatatgctgcataataatgttggaaatgaaaattgcttttcatcatctgctccctcttatggttattcacctcaaaatggttctagcacttcatatgttcaacagttcaatcttaatcacagtggagctcaacaacatggaaacttctctcaacaaaatgtgcaacctggtacattcaacaatagttctcagcaaaataatggcttttctcgtaaggagaaattttcttcacaggccatgccttgctctgcatcattgtctgctctcagaaatgcagcctctgtgtcttctgcatacaaaatttccacacctgcccaggctcaagatggcaataactcttatgtcactactgaacttcaaggacatgagaatttgaaaacttggacttag
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 gag_pre-integrs

Protein Analysis

248

Amino Acids

27.28

Weight (kDa)

6.18

Isoelectric Point (pI)

35.06

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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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AarI CACCTGC 1 cut(s) 676
Acc36I ACCTGC 1 cut(s) 676
AciI CCGC 1 cut(s) 335
AclWI GGATC 2 cut(s) 154, 301
AcsI RAATTY 3 cut(s) 578, 657, 727
AfaI GTAC 1 cut(s) 529
AfiI CCNNNNNNNGG 3 cut(s) 353, 416, 434
AgsI TTSAA 5 cut(s) 458, 466, 535, 716, 733
AhlI ACTAGT 1 cut(s) 8
AjnI CCWGG 2 cut(s) 523, 672
AluBI AGCT 1 cut(s) 485
AluI AGCT 1 cut(s) 485
Alw21I GWGCWC 1 cut(s) 487
Alw26I GTCTC 2 cut(s) 32, 179
AlwI GGATC 2 cut(s) 154, 301
AlwNI CAGNNNCTG 1 cut(s) 638
AoxI GGCC 1 cut(s) 591
ApeKI GCWGC 2 cut(s) 364, 632
ApoI RAATTY 3 cut(s) 578, 657, 727
AsuHPI GGTGA 2 cut(s) 46, 417
AxyI CCTNAGG 1 cut(s) 201
BanII GRGCYC 1 cut(s) 487
BbsI GAAGAC 1 cut(s) 636
Bbv12I GWGCWC 1 cut(s) 487
BbvI GCAGC 2 cut(s) 351, 644
BccI CCATC 2 cut(s) 137, 677
BciT130I CCWGG 2 cut(s) 525, 674
BcoDI GTCTC 2 cut(s) 32, 179
BcuI ACTAGT 1 cut(s) 8
BfaI CTAG 3 cut(s) 9, 101, 441
BfuAI ACCTGC 1 cut(s) 676
BisI GCNGC 2 cut(s) 365, 633
BlsI GCNGC 2 cut(s) 366, 634
Bme1390I CCNGG 2 cut(s) 525, 674
BmrFI CCNGG 2 cut(s) 525, 674
BmsI GCATC 1 cut(s) 617
BpiI GAAGAC 1 cut(s) 636
BpuEI CTTGAG 1 cut(s) 663
BsaJI CCNNGG 1 cut(s) 672
Bsc4I CCNNNNNNNGG 3 cut(s) 353, 416, 434
Bse1I ACTGG 1 cut(s) 193
Bse21I CCTNAGG 1 cut(s) 201
BseBI CCWGG 2 cut(s) 525, 674
BseDI CCNNGG 1 cut(s) 672
BseLI CCNNNNNNNGG 3 cut(s) 353, 416, 434
BseMII CTCAG 2 cut(s) 560, 637
BseNI ACTGG 1 cut(s) 193
BseRI GAGGAG 2 cut(s) 20, 276
BseXI GCAGC 2 cut(s) 351, 644
BshFI GGCC 1 cut(s) 593
BsiHKAI GWGCWC 1 cut(s) 487
BslI CCNNNNNNNGG 3 cut(s) 353, 416, 434
BsmAI GTCTC 2 cut(s) 32, 179
BsnI GGCC 1 cut(s) 593
Bsp1286I GDGCHC 1 cut(s) 487
Bsp143I GATC 3 cut(s) 124, 146, 306
BspACI CCGC 1 cut(s) 335
BspANI GGCC 1 cut(s) 593
BspCNI CTCAG 2 cut(s) 559, 636
BspMI ACCTGC 1 cut(s) 676
BspPI GGATC 2 cut(s) 154, 301
BsrI ACTGG 1 cut(s) 193
BssECI CCNNGG 1 cut(s) 672
BssMI GATC 3 cut(s) 124, 146, 306
Bst2UI CCWGG 2 cut(s) 525, 674
Bst4CI ACNGT 2 cut(s) 462, 479
Bst6I CTCTTC 1 cut(s) 207
BstAPI GCANNNNNTGC 1 cut(s) 343
BstDEI CTNAG 5 cut(s) 201, 269, 546, 623, 744
BstKTI GATC 3 cut(s) 127, 149, 309
BstMAI GTCTC 2 cut(s) 32, 179
BstMBI GATC 3 cut(s) 124, 146, 306
BstMWI GCNNNNNNNGC 1 cut(s) 343
BstNI CCWGG 2 cut(s) 525, 674
BstSCI CCNGG 2 cut(s) 523, 672
BstV1I GCAGC 2 cut(s) 351, 644
BstV2I GAAGAC 1 cut(s) 636
BstX2I RGATCY 1 cut(s) 146
BstYI RGATCY 1 cut(s) 146
Bsu36I CCTNAGG 1 cut(s) 201
BsuRI GGCC 1 cut(s) 593
BtsIMutI CAGTG 2 cut(s) 348, 484
BveI ACCTGC 1 cut(s) 676
CaiI CAGNNNCTG 1 cut(s) 638
CsiI ACCWGGT 1 cut(s) 523
Csp6I GTAC 1 cut(s) 528
CviAII CATG 5 cut(s) 58, 236, 494, 595, 722
CviJI RGCY 5 cut(s) 485, 561, 593, 635, 677
CviKI_1 RGCY 5 cut(s) 485, 561, 593, 635, 677
CviQI GTAC 1 cut(s) 528
DdeI CTNAG 5 cut(s) 201, 269, 546, 623, 744
DpnI GATC 3 cut(s) 126, 148, 308
DpnII GATC 3 cut(s) 124, 146, 306
Eam1104I CTCTTC 1 cut(s) 207
EarI CTCTTC 1 cut(s) 207
Ecl136II GAGCTC 1 cut(s) 485
Eco24I GRGCYC 1 cut(s) 487
Eco53kI GAGCTC 1 cut(s) 485
Eco81I CCTNAGG 1 cut(s) 201
EcoICRI GAGCTC 1 cut(s) 485
EcoRII CCWGG 2 cut(s) 523, 672
EcoT38I GRGCYC 1 cut(s) 487
FaeI CATG 5 cut(s) 61, 239, 497, 598, 725
FatI CATG 5 cut(s) 57, 235, 493, 594, 721
FauNDI CATATG 1 cut(s) 451
Fnu4HI GCNGC 2 cut(s) 365, 633
FriOI GRGCYC 1 cut(s) 487
Fsp4HI GCNGC 2 cut(s) 365, 633
FspBI CTAG 3 cut(s) 9, 101, 441
GluI GCNGC 2 cut(s) 365, 633
HaeIII GGCC 1 cut(s) 593
Hin1II CATG 5 cut(s) 61, 239, 497, 598, 725
HinfI GANTC 3 cut(s) 104, 239, 253
HphI GGTGA 2 cut(s) 46, 417
Hpy188I TCNGA 1 cut(s) 626
Hpy188III TCNNGA 3 cut(s) 304, 354, 680
HpyCH4III ACNGT 2 cut(s) 462, 479
HpyCH4V TGCA 7 cut(s) 45, 61, 367, 520, 608, 632, 650
HpyF10VI GCNNNNNNNGC 1 cut(s) 343
HpyF3I CTNAG 5 cut(s) 201, 269, 546, 623, 744
Hsp92II CATG 5 cut(s) 61, 239, 497, 598, 725
Kzo9I GATC 3 cut(s) 124, 146, 306
LmnI GCTCC 3 cut(s) 289, 412, 482
LpnPI CCDG 9 cut(s) 174, 317, 339, 510, 537, 575, 659, 681, 686
Lsp1109I GCAGC 2 cut(s) 351, 644
LweI GCATC 1 cut(s) 617
MabI ACCWGGT 1 cut(s) 523
MaeI CTAG 3 cut(s) 9, 101, 441
MaeIII GTNAC 2 cut(s) 205, 700
MalI GATC 3 cut(s) 126, 148, 308
MboI GATC 3 cut(s) 124, 146, 306
MboII GAAGA 3 cut(s) 224, 576, 636
MflI RGATCY 1 cut(s) 146
MhlI GDGCHC 1 cut(s) 487
MluCI AATT 7 cut(s) 22, 292, 349, 388, 578, 657, 727
MlyI GAGTC 2 cut(s) 113, 247
MmeI TCCRAC 2 cut(s) 60, 358
MnlI CCTC 7 cut(s) 41, 171, 222, 297, 421, 438, 646
MseI TTAA 1 cut(s) 471
MslI CAYNNNNRTG 2 cut(s) 56, 372
MspR9I CCNGG 2 cut(s) 525, 674
MvaI CCWGG 2 cut(s) 525, 674
MwoI GCNNNNNNNGC 1 cut(s) 343
NdeI CATATG 1 cut(s) 451
NdeII GATC 3 cut(s) 124, 146, 306
NlaIII CATG 5 cut(s) 61, 239, 497, 598, 725
NmuCI GTSAC 1 cut(s) 700
PaqCI CACCTGC 1 cut(s) 676
PfeI GAWTC 1 cut(s) 239
PkrI GCNGC 2 cut(s) 366, 634
PleI GAGTC 2 cut(s) 112, 247
PpsI GAGTC 2 cut(s) 112, 247
Psp124BI GAGCTC 1 cut(s) 487
Psp6I CCWGG 2 cut(s) 523, 672
PspGI CCWGG 2 cut(s) 523, 672
PstNI CAGNNNCTG 1 cut(s) 638
PsuI RGATCY 1 cut(s) 146
RsaI GTAC 1 cut(s) 529
RsaNI GTAC 1 cut(s) 528
RseI CAYNNNNRTG 2 cut(s) 56, 372
SacI GAGCTC 1 cut(s) 487
SaqAI TTAA 1 cut(s) 471
SatI GCNGC 2 cut(s) 365, 633
Sau3AI GATC 3 cut(s) 124, 146, 306
SchI GAGTC 2 cut(s) 113, 247
ScrFI CCNGG 2 cut(s) 525, 674
SduI GDGCHC 1 cut(s) 487
SetI ASST 5 cut(s) 207, 430, 487, 526, 670
SexAI ACCWGGT 1 cut(s) 523
SfaNI GCATC 1 cut(s) 617
SmiMI CAYNNNNRTG 2 cut(s) 56, 372
SmlI CTYRAG 1 cut(s) 678
SmoI CTYRAG 1 cut(s) 678
SpeI ACTAGT 1 cut(s) 8
Sse9I AATT 7 cut(s) 22, 292, 349, 388, 578, 657, 727
SsiI CCGC 1 cut(s) 335
SspMI CTAG 3 cut(s) 9, 101, 441
SstI GAGCTC 1 cut(s) 487
StyD4I CCNGG 2 cut(s) 523, 672
TaaI ACNGT 2 cut(s) 462, 479
TaqI TCGA 1 cut(s) 13
TasI AATT 7 cut(s) 22, 292, 349, 388, 578, 657, 727
TfiI GAWTC 1 cut(s) 239
Tru1I TTAA 1 cut(s) 471
Tru9I TTAA 1 cut(s) 471
TscAI CASTG 2 cut(s) 348, 484
TseFI GTSAC 1 cut(s) 700
TseI GCWGC 2 cut(s) 364, 632
Tsp45I GTSAC 1 cut(s) 700
TspDTI ATGAA 4 cut(s) 17, 387, 399, 438
TspRI CASTG 2 cut(s) 348, 484
XapI RAATTY 3 cut(s) 578, 657, 727
XcmI CCANNNNNNNNNTGG 1 cut(s) 680
XspI CTAG 3 cut(s) 9, 101, 441
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.