Rorug02G0433600

gag-polypeptide of LTR copia-type

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000002
OG0001340
Physical Location & Seq
Forward (+)
55507232 .. 55509685
2454 bp
Loading structure...
UTR
Exon/CDS
Intron
Rorug02G0433600.1

Sequence Viewer

Length: 1209 bp
ATGTTTGGTTTTTGCTGTAAAAGATTGCGATTACTAGTTCCAAGTTGTAGGATTGCTGTTGATTATTCAGTCACCCATCTTCAAAAGGCACCACCTTTTACAAGATTATATTCATCAAAACCATTACTAGGGGTCCAAGATGATAAAGCTCGCTCTTTTACAGTTTCATACCTTATAAACTCATTTGGGTTCTCCCCACGACTGGCTCTCTCTGCCTCCAACAAGATGAAGATACACTTCGACACCCCAGAAAAACCCGACTCTGTTATTAAGCTTTTTAAAGACTATGGACTCAGTGATGCCCACATCTCTGACATTGTTAAGAAATGCCCAGTTTTGCTTGTATCGAATGCTGAAAAGACCCTTTGGCCAAAACTCCAGTTTTTCACTTCCATTGGCCTTTCGGGCAATGACCTTGCCCGGATCTTCCGTGTCAACGCAAATATCTTGACATTGAGCTTAGAGAGAAGTATTAGACCTTGTTATGATATTATGAAAACTCTAGAAATACCCGAGCATAAGGTCCCTTATTTCATTAGCAACTATTATATGTTTAACCCCAAAGTATTGAGCAATGTACCTCACAATACTTTGATTCTGAGAGCGCATCAGGTGCCAGAAGCGTCATTTCCTCTGTGGGTGTGTTCTCATTTGCTTGCACTGTCATTTGCCTCTGAGAAGGTTAAGACAAATGTCGAGAAGGTCATCAGCATGGGATTTGACCCTTCGTCTACTACATTCATGAAAGCCTTGTATGTGATATCGGTGACCAATGCAGCAAAGTGGAAACACAAGATGGAATTTTATGAGAAGTGGGGTTGGACTGAAGATGATGTGTTGTTGGCATTTAGAAAGAATCCCATGTTTATGAGCTTCAGTGTGAAGAATATTTCAGCTAAAATGGATTTTCTTTTGAATAAAATGGGTTGCCAGCCTGCAGATCTGGCTGCACGTCCAGATATTTTGACTTATAGTTTGGAGAAGCGAATCATACCTAGGTGTTCAGTCATCAGATTTCTCCAGTTAAAGGGCTTAATTGTCAAGGAAGATTTATATATAATTAGCATTGTGCACAAAAACGAGAAGTGGTTCTTGGAAAGGTTTGTGATCAAATATGAAGAACAATTTCCTGAATTGCAGAGCATCTTACAGGGGAAAATGGGTCTAGCCGAATTTGGTTTAGGATTCGACGAAAGTGGTGGAGTGTAA
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

402

Amino Acids

45.99

Weight (kDa)

9.28

Isoelectric Point (pI)

46.14

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
mTERF PF02536 88 - 181 1.7e-11 mTERF
mTERF PF02536 221 - 364 5.5e-16 mTERF
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)
AanI TTATAA 1 cut(s) 176
AccB1I GGYRCC 2 cut(s) 88, 613
AccI GTMKAC 1 cut(s) 731
AclWI GGATC 1 cut(s) 431
AcoI YGGCCR 1 cut(s) 368
AcsI RAATTY 2 cut(s) 800, 1172
AcuI CTGAAG 2 cut(s) 846, 859
AfaI GTAC 1 cut(s) 579
AfiI CCNNNNNNNGG 3 cut(s) 128, 202, 1027
AgsI TTSAA 2 cut(s) 83, 916
AhdI GACNNNNNGTC 1 cut(s) 727
AhlI ACTAGT 1 cut(s) 34
AjiI CACGTC 1 cut(s) 953
AjuI GAANNNNNNNTTGG 2 cut(s) 1076, 1108
AluBI AGCT 5 cut(s) 149, 274, 459, 873, 896
AluI AGCT 5 cut(s) 149, 274, 459, 873, 896
Alw21I GWGCWC 1 cut(s) 1074
Alw44I GTGCAC 1 cut(s) 1070
AlwI GGATC 1 cut(s) 431
Ama87I CYCGRG 1 cut(s) 512
AoxI GGCC 2 cut(s) 368, 397
ApaLI GTGCAC 1 cut(s) 1070
ApeKI GCWGC 2 cut(s) 776, 947
ApoI RAATTY 2 cut(s) 800, 1172
ArsI GACNNNNNNTTYG 2 cut(s) 958, 990
Asp700I GAANNNNTTC 2 cut(s) 1088, 1125
AspA2I CCTAGG 1 cut(s) 995
AspLEI GCGC 1 cut(s) 607
AspS9I GGNCC 2 cut(s) 133, 523
AsuC2I CCSGG 1 cut(s) 421
AsuHPI GGTGA 2 cut(s) 64, 778
AvaI CYCGRG 1 cut(s) 512
AvaII GGWCC 2 cut(s) 133, 523
AvrII CCTAGG 1 cut(s) 995
BaeGI GKGCMC 1 cut(s) 1074
BalI TGGCCA 1 cut(s) 370
BanI GGYRCC 2 cut(s) 88, 613
Bbv12I GWGCWC 1 cut(s) 1074
BbvI GCAGC 2 cut(s) 788, 934
BccI CCATC 2 cut(s) 84, 790
BclI TGATCA 1 cut(s) 1107
BcnI CCSGG 1 cut(s) 421
BcuI ACTAGT 1 cut(s) 34
BfaI CTAG 5 cut(s) 35, 128, 503, 996, 1166
BfmI CTRYAG 1 cut(s) 936
BglI GCCNNNNNGGC 1 cut(s) 405
BglII AGATCT 1 cut(s) 940
BisI GCNGC 2 cut(s) 777, 948
BlnI CCTAGG 1 cut(s) 995
BlsI GCNGC 2 cut(s) 778, 949
Bme1390I CCNGG 1 cut(s) 421
Bme18I GGWCC 2 cut(s) 133, 523
BmeRI GACNNNNNGTC 1 cut(s) 727
BmeT110I CYCGRG 1 cut(s) 512
BmgBI CACGTC 1 cut(s) 953
BmgT120I GGNCC 2 cut(s) 133, 523
BmiI GGNNCC 4 cut(s) 90, 134, 525, 615
BmrFI CCNGG 1 cut(s) 421
BmrI ACTGGG 1 cut(s) 326
BmsI GCATC 3 cut(s) 289, 616, 1152
BmuI ACTGGG 1 cut(s) 326
BoxI GACNNNNGTC 1 cut(s) 692
BpmI CTGGAG 2 cut(s) 362, 1004
BpuMI CCSGG 1 cut(s) 421
BsaJI CCNNGG 1 cut(s) 995
Bsc4I CCNNNNNNNGG 3 cut(s) 128, 202, 1027
Bse1I ACTGG 4 cut(s) 207, 332, 379, 1021
Bse3DI GCAATG 2 cut(s) 415, 580
BseDI CCNNGG 1 cut(s) 995
BseLI CCNNNNNNNGG 3 cut(s) 128, 202, 1027
BseMI GCAATG 2 cut(s) 415, 580
BseMII CTCAG 3 cut(s) 307, 590, 666
BseNI ACTGG 4 cut(s) 207, 332, 379, 1021
BseSI GKGCMC 1 cut(s) 1074
BseXI GCAGC 2 cut(s) 788, 934
BsgI GTGCAG 1 cut(s) 933
BshFI GGCC 2 cut(s) 370, 399
BshNI GGYRCC 2 cut(s) 88, 613
BsiHKAI GWGCWC 1 cut(s) 1074
BsiHKCI CYCGRG 1 cut(s) 512
BsiSI CCGG 1 cut(s) 421
BslFI GGGAC 1 cut(s) 509
BslI CCNNNNNNNGG 3 cut(s) 128, 202, 1027
BsmFI GGGAC 1 cut(s) 509
BsmI GAATGC 1 cut(s) 355
BsnI GGCC 2 cut(s) 370, 399
BsoBI CYCGRG 1 cut(s) 512
Bsp1286I GDGCHC 1 cut(s) 1074
Bsp143I GATC 3 cut(s) 423, 940, 1107
BspANI GGCC 2 cut(s) 370, 399
BspCNI CTCAG 3 cut(s) 306, 591, 667
BspHI TCATGA 1 cut(s) 741
BspLI GGNNCC 4 cut(s) 90, 134, 525, 615
BspMAI CTGCAG 1 cut(s) 940
BspPI GGATC 1 cut(s) 431
BspT107I GGYRCC 2 cut(s) 88, 613
BsrDI GCAATG 2 cut(s) 415, 580
BsrI ACTGG 4 cut(s) 207, 332, 379, 1021
BssECI CCNNGG 1 cut(s) 995
BssMI GATC 3 cut(s) 423, 940, 1107
BssT1I CCWWGG 1 cut(s) 995
Bst4CI ACNGT 2 cut(s) 163, 663
BstAPI GCANNNNNTGC 1 cut(s) 613
BstC8I GCNNGC 4 cut(s) 151, 657, 932, 936
BstDEI CTNAG 4 cut(s) 293, 460, 599, 675
BstEII GGTNACC 1 cut(s) 766
BstHHI GCGC 1 cut(s) 607
BstKTI GATC 3 cut(s) 426, 943, 1110
BstMBI GATC 3 cut(s) 423, 940, 1107
BstMWI GCNNNNNNNGC 4 cut(s) 212, 405, 613, 944
BstPAI GACNNNNGTC 1 cut(s) 692
BstPI GGTNACC 1 cut(s) 766
BstSCI CCNGG 1 cut(s) 419
BstSFI CTRYAG 1 cut(s) 936
BstSLI GKGCMC 1 cut(s) 1074
BstV1I GCAGC 2 cut(s) 788, 934
BstX2I RGATCY 2 cut(s) 423, 940
BstYI RGATCY 2 cut(s) 423, 940
BsuRI GGCC 2 cut(s) 370, 399
BtrI CACGTC 1 cut(s) 953
BtsIMutI CAGTG 3 cut(s) 301, 659, 883
Cac8I GCNNGC 4 cut(s) 151, 657, 932, 936
CciI TCATGA 1 cut(s) 741
CfoI GCGC 1 cut(s) 607
Cfr13I GGNCC 2 cut(s) 133, 523
CseI GACGC 1 cut(s) 612
Csp6I GTAC 1 cut(s) 578
CviAII CATG 3 cut(s) 712, 742, 862
CviQI GTAC 1 cut(s) 578
DdeI CTNAG 4 cut(s) 293, 460, 599, 675
DpnI GATC 3 cut(s) 425, 942, 1109
DpnII GATC 3 cut(s) 423, 940, 1107
DraI TTTAAA 1 cut(s) 280
DriI GACNNNNNGTC 1 cut(s) 727
EaeI YGGCCR 1 cut(s) 368
Eam1105I GACNNNNNGTC 1 cut(s) 727
Eco130I CCWWGG 1 cut(s) 995
Eco32I GATATC 1 cut(s) 762
Eco47I GGWCC 2 cut(s) 133, 523
Eco57I CTGAAG 2 cut(s) 846, 859
Eco88I CYCGRG 1 cut(s) 512
Eco91I GGTNACC 1 cut(s) 766
EcoO109I RGGNCCY 1 cut(s) 523
EcoO65I GGTNACC 1 cut(s) 766
EcoRV GATATC 1 cut(s) 762
EcoT14I CCWWGG 1 cut(s) 995
ErhI CCWWGG 1 cut(s) 995
FaeI CATG 3 cut(s) 715, 745, 865
FalI AAGNNNNNCTT 4 cut(s) 221, 253, 1076, 1108
FaqI GGGAC 1 cut(s) 509
FatI CATG 3 cut(s) 711, 741, 861
FbaI TGATCA 1 cut(s) 1107
FblI GTMKAC 1 cut(s) 731
Fnu4HI GCNGC 2 cut(s) 777, 948
Fsp4HI GCNGC 2 cut(s) 777, 948
FspBI CTAG 5 cut(s) 35, 128, 503, 996, 1166
GlaI GCGC 1 cut(s) 606
GluI GCNGC 2 cut(s) 777, 948
GsuI CTGGAG 2 cut(s) 362, 1004
HaeIII GGCC 2 cut(s) 370, 399
HapII CCGG 1 cut(s) 421
HgaI GACGC 1 cut(s) 612
HhaI GCGC 1 cut(s) 607
Hin1II CATG 3 cut(s) 715, 745, 865
Hin6I GCGC 1 cut(s) 605
HinP1I GCGC 1 cut(s) 605
HincII GTYRAC 1 cut(s) 436
HindII GTYRAC 1 cut(s) 436
HindIII AAGCTT 1 cut(s) 272
HinfI GANTC 6 cut(s) 260, 291, 595, 856, 987, 1185
HpaII CCGG 1 cut(s) 421
HphI GGTGA 2 cut(s) 64, 778
Hpy166II GTNNAC 3 cut(s) 436, 732, 1072
Hpy188I TCNGA 4 cut(s) 313, 600, 676, 1013
Hpy188III TCNNGA 6 cut(s) 448, 503, 697, 742, 956, 1130
Hpy8I GTNNAC 3 cut(s) 436, 732, 1072
Hpy99I CGWCG 1 cut(s) 1193
HpyAV CCTTC 3 cut(s) 673, 694, 735
HpyCH4III ACNGT 2 cut(s) 163, 663
HpyCH4IV ACGT 1 cut(s) 952
HpyCH4V TGCA 6 cut(s) 659, 776, 938, 950, 1072, 1138
HpyF10VI GCNNNNNNNGC 4 cut(s) 212, 405, 613, 944
HpyF3I CTNAG 4 cut(s) 293, 460, 599, 675
HpySE526I ACGT 1 cut(s) 952
Hsp92II CATG 3 cut(s) 715, 745, 865
HspAI GCGC 1 cut(s) 605
Ksp22I TGATCA 1 cut(s) 1107
Kzo9I GATC 3 cut(s) 423, 940, 1107
Lsp1109I GCAGC 2 cut(s) 788, 934
LweI GCATC 3 cut(s) 289, 616, 1152
MaeI CTAG 5 cut(s) 35, 128, 503, 996, 1166
MaeII ACGT 1 cut(s) 952
MaeIII GTNAC 2 cut(s) 70, 766
MalI GATC 3 cut(s) 425, 942, 1109
MboI GATC 3 cut(s) 423, 940, 1107
MboII GAAGA 7 cut(s) 71, 241, 418, 839, 895, 1058, 1130
MflI RGATCY 2 cut(s) 423, 940
MhlI GDGCHC 1 cut(s) 1074
MlsI TGGCCA 1 cut(s) 370
MluCI AATT 6 cut(s) 800, 1035, 1059, 1124, 1133, 1172
MluNI TGGCCA 1 cut(s) 370
MlyI GAGTC 2 cut(s) 254, 285
MmeI TCCRAC 2 cut(s) 243, 800
MnlI CCTC 4 cut(s) 226, 591, 642, 682
Mox20I TGGCCA 1 cut(s) 370
MroXI GAANNNNTTC 2 cut(s) 1088, 1125
MscI TGGCCA 1 cut(s) 370
MseI TTAA 7 cut(s) 270, 279, 321, 555, 684, 1025, 1034
MslI CAYNNNNRTG 2 cut(s) 710, 866
Msp20I TGGCCA 1 cut(s) 370
MspI CCGG 1 cut(s) 421
MspR9I CCNGG 1 cut(s) 421
Mva1269I GAATGC 1 cut(s) 355
MwoI GCNNNNNNNGC 4 cut(s) 212, 405, 613, 944
NciI CCSGG 1 cut(s) 421
NdeII GATC 3 cut(s) 423, 940, 1107
NlaIII CATG 3 cut(s) 715, 745, 865
NlaIV GGNNCC 4 cut(s) 90, 134, 525, 615
NmuCI GTSAC 2 cut(s) 70, 766
PagI TCATGA 1 cut(s) 741
PctI GAATGC 1 cut(s) 355
PdmI GAANNNNTTC 2 cut(s) 1088, 1125
PfeI GAWTC 4 cut(s) 595, 856, 987, 1185
PkrI GCNGC 2 cut(s) 778, 949
PleI GAGTC 2 cut(s) 254, 285
PpsI GAGTC 2 cut(s) 254, 285
PpuMI RGGWCCY 1 cut(s) 523
PshAI GACNNNNGTC 1 cut(s) 692
PsiI TTATAA 1 cut(s) 176
Psp5II RGGWCCY 1 cut(s) 523
PspEI GGTNACC 1 cut(s) 766
PspN4I GGNNCC 4 cut(s) 90, 134, 525, 615
PspPI GGNCC 2 cut(s) 133, 523
PspPPI RGGWCCY 1 cut(s) 523
PstI CTGCAG 1 cut(s) 940
PsuI RGATCY 2 cut(s) 423, 940
RsaI GTAC 1 cut(s) 579
RsaNI GTAC 1 cut(s) 578
RseI CAYNNNNRTG 2 cut(s) 710, 866
SaqAI TTAA 7 cut(s) 270, 279, 321, 555, 684, 1025, 1034
SatI GCNGC 2 cut(s) 777, 948
Sau3AI GATC 3 cut(s) 423, 940, 1107
Sau96I GGNCC 2 cut(s) 133, 523
SchI GAGTC 2 cut(s) 254, 285
ScrFI CCNGG 1 cut(s) 421
SduI GDGCHC 1 cut(s) 1074
SfaNI GCATC 3 cut(s) 289, 616, 1152
SfcI CTRYAG 1 cut(s) 936
SinI GGWCC 2 cut(s) 133, 523
SmiMI CAYNNNNRTG 2 cut(s) 710, 866
SpeI ACTAGT 1 cut(s) 34
Sse9I AATT 6 cut(s) 800, 1035, 1059, 1124, 1133, 1172
SspI AATATT 1 cut(s) 889
SspMI CTAG 5 cut(s) 35, 128, 503, 996, 1166
StyD4I CCNGG 1 cut(s) 419
StyI CCWWGG 1 cut(s) 995
TaaI ACNGT 2 cut(s) 163, 663
TaiI ACGT 1 cut(s) 955
TaqI TCGA 4 cut(s) 240, 347, 696, 1188
TasI AATT 6 cut(s) 800, 1035, 1059, 1124, 1133, 1172
TfiI GAWTC 4 cut(s) 595, 856, 987, 1185
Tru1I TTAA 7 cut(s) 270, 279, 321, 555, 684, 1025, 1034
Tru9I TTAA 7 cut(s) 270, 279, 321, 555, 684, 1025, 1034
TscAI CASTG 3 cut(s) 301, 666, 883
TseFI GTSAC 2 cut(s) 70, 766
TseI GCWGC 2 cut(s) 776, 947
Tsp45I GTSAC 2 cut(s) 70, 766
TspDTI ATGAA 8 cut(s) 102, 156, 242, 509, 523, 730, 758, 1131
TspGWI ACGGA 1 cut(s) 419
TspRI CASTG 3 cut(s) 301, 666, 883
VneI GTGCAC 1 cut(s) 1070
VpaK11BI GGWCC 2 cut(s) 133, 523
XapI RAATTY 2 cut(s) 800, 1172
XbaI TCTAGA 1 cut(s) 502
XmaJI CCTAGG 1 cut(s) 995
XmiI GTMKAC 1 cut(s) 731
XmnI GAANNNNTTC 2 cut(s) 1088, 1125
XspI CTAG 5 cut(s) 35, 128, 503, 996, 1166
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.