Rw7G031850

Retrotransposon gag protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr7
OG0002265
Physical Location & Seq
Reverse (-)
45831294 .. 45831998
705 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw7G031850.1

Sequence Viewer

Length: 651 bp
ATGTTAAGGGAGGTCCAAAATGCAAGTCCTGGAGAATTGGCCGCAGCAGCTGCAGGAGAGATCAGAAAGTCCCCGTTCACTGAGGAAATCCTCAGCGTGGAAAAACCGCGCAAATTCGTGACGCCAGTTTTTCAACAATTCGATGGGACCACCGACCTGGTGGATCACCTCAAAAAATTCATGCAACAGATGACCACGGAAACAAATGACGAAAGGCTTTTCTGCAAATTTTTTCCTTCAAGCTTGACTGGCGAGGCAGGGACCTGGTTCCGCTATCTGAAGCCCGGCTCTATTACTAACTTCGGGCAATTGAGGGAATCTTTAGTTTCTCAGTACTTCTGCAACAGGACTCGCAAGAAAGACATGGCGGGGCTATTCATGGTGAAGCAAAAAGTTGGAGAAAGACTCAAGACATTCTACGATATTTTTCGGGCCGAACAGACACAGACAGAAGGGTGCACGTCAGAGTACGCCACAGTGGTTTTCCCTGAAGGGCTTATTCCTAGCTCACATATCTATAAGGACCTTGTGAGAAGGCCAGCCAAGGATATGACACAGGCCGCTAGACACACTGCAATAATTGTCGCGCGAATGCCAGAAAAACTAGCCGGGGTTCGGGGGGAGCAGACCAGGTCGTGGGATCAAAACTGA
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

216

Amino Acids

24.65

Weight (kDa)

9.11

Isoelectric Point (pI)

43.13

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Retrotrans_gag PF03732 76 - 166 1.1e-07 Retrotransposon gag 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)
AccB7I CCANNNNNTGG 1 cut(s) 636
AccII CGCG 3 cut(s) 109, 587, 589
AciI CCGC 5 cut(s) 42, 107, 271, 368, 561
AclWI GGATC 2 cut(s) 171, 648
AcoI YGGCCR 1 cut(s) 39
AcsI RAATTY 3 cut(s) 113, 176, 227
AcuI CTGAAG 2 cut(s) 299, 510
AcyI GRCGYC 1 cut(s) 122
AfaI GTAC 2 cut(s) 335, 470
AfiI CCNNNNNNNGG 3 cut(s) 97, 615, 636
AgsI TTSAA 2 cut(s) 134, 240
AjiI CACGTC 1 cut(s) 462
AjnI CCWGG 4 cut(s) 28, 156, 263, 629
AluBI AGCT 3 cut(s) 50, 243, 507
AluI AGCT 3 cut(s) 50, 243, 507
Alw21I GWGCWC 1 cut(s) 461
Alw44I GTGCAC 1 cut(s) 457
AlwI GGATC 2 cut(s) 171, 648
AlwNI CAGNNNCTG 1 cut(s) 50
AoxI GGCC 4 cut(s) 39, 432, 536, 558
ApaLI GTGCAC 1 cut(s) 457
ApeKI GCWGC 3 cut(s) 44, 47, 50
ApoI RAATTY 3 cut(s) 113, 176, 227
ArsI GACNNNNNNTTYG 2 cut(s) 10, 42
AspLEI GCGC 2 cut(s) 111, 589
AspS9I GGNCC 5 cut(s) 13, 147, 261, 432, 523
AsuC2I CCSGG 2 cut(s) 285, 610
AsuHPI GGTGA 2 cut(s) 158, 394
AvaII GGWCC 4 cut(s) 13, 147, 261, 523
BaeGI GKGCMC 1 cut(s) 461
Bbv12I GWGCWC 1 cut(s) 461
BbvCI CCTCAGC 1 cut(s) 92
BbvI GCAGC 3 cut(s) 37, 56, 59
BccI CCATC 1 cut(s) 137
BciT130I CCWGG 4 cut(s) 30, 158, 265, 631
BcnI CCSGG 2 cut(s) 285, 610
BfaI CTAG 3 cut(s) 504, 564, 605
BfmI CTRYAG 1 cut(s) 51
BisI GCNGC 5 cut(s) 42, 45, 48, 51, 561
BlsI GCNGC 5 cut(s) 43, 46, 49, 52, 562
BmcAI AGTACT 1 cut(s) 335
Bme1390I CCNGG 6 cut(s) 30, 158, 265, 285, 610, 631
Bme18I GGWCC 4 cut(s) 13, 147, 261, 523
BmgBI CACGTC 1 cut(s) 462
BmgT120I GGNCC 5 cut(s) 13, 147, 261, 432, 523
BmiI GGNNCC 3 cut(s) 148, 262, 269
BmrFI CCNGG 6 cut(s) 30, 158, 265, 285, 610, 631
BplI GAGNNNNNCTC 2 cut(s) 390, 422
BpmI CTGGAG 1 cut(s) 51
Bpu10I CCTNAGC 1 cut(s) 92
BpuEI CTTGAG 1 cut(s) 392
BpuMI CCSGG 2 cut(s) 285, 610
BsaHI GRCGYC 1 cut(s) 122
BsaJI CCNNGG 3 cut(s) 195, 543, 609
Bsc4I CCNNNNNNNGG 3 cut(s) 97, 615, 636
Bse1I ACTGG 2 cut(s) 125, 253
BseBI CCWGG 4 cut(s) 30, 158, 265, 631
BseDI CCNNGG 3 cut(s) 195, 543, 609
BseLI CCNNNNNNNGG 3 cut(s) 97, 615, 636
BseMII CTCAG 3 cut(s) 72, 106, 344
BseNI ACTGG 2 cut(s) 125, 253
BseSI GKGCMC 1 cut(s) 461
BseXI GCAGC 3 cut(s) 37, 56, 59
Bsh1236I CGCG 3 cut(s) 109, 587, 589
BshFI GGCC 4 cut(s) 41, 434, 538, 560
BsiHKAI GWGCWC 1 cut(s) 461
BsiSI CCGG 2 cut(s) 285, 609
BslFI GGGAC 3 cut(s) 55, 160, 274
BslI CCNNNNNNNGG 3 cut(s) 97, 615, 636
BsmFI GGGAC 3 cut(s) 55, 160, 274
BsmI GAATGC 1 cut(s) 597
BsnI GGCC 4 cut(s) 41, 434, 538, 560
Bsp1286I GDGCHC 1 cut(s) 461
Bsp143I GATC 3 cut(s) 60, 163, 640
BspACI CCGC 5 cut(s) 42, 107, 271, 368, 561
BspANI GGCC 4 cut(s) 41, 434, 538, 560
BspCNI CTCAG 3 cut(s) 73, 105, 343
BspFNI CGCG 3 cut(s) 109, 587, 589
BspLI GGNNCC 3 cut(s) 148, 262, 269
BspMAI CTGCAG 1 cut(s) 55
BspPI GGATC 2 cut(s) 171, 648
BsrI ACTGG 2 cut(s) 125, 253
BssECI CCNNGG 3 cut(s) 195, 543, 609
BssMI GATC 3 cut(s) 60, 163, 640
BssNI GRCGYC 1 cut(s) 122
BssT1I CCWWGG 1 cut(s) 543
Bst2UI CCWGG 4 cut(s) 30, 158, 265, 631
Bst4CI ACNGT 1 cut(s) 478
BstACI GRCGYC 1 cut(s) 122
BstAPI GCANNNNNTGC 1 cut(s) 50
BstC8I GCNNGC 1 cut(s) 540
BstDEI CTNAG 3 cut(s) 81, 92, 330
BstDSI CCRYGG 1 cut(s) 195
BstFNI CGCG 3 cut(s) 109, 587, 589
BstHHI GCGC 2 cut(s) 111, 589
BstKTI GATC 3 cut(s) 63, 166, 643
BstMBI GATC 3 cut(s) 60, 163, 640
BstMWI GCNNNNNNNGC 3 cut(s) 47, 50, 249
BstNI CCWGG 4 cut(s) 30, 158, 265, 631
BstSCI CCNGG 6 cut(s) 28, 156, 263, 283, 608, 629
BstSFI CTRYAG 1 cut(s) 51
BstSLI GKGCMC 1 cut(s) 461
BstUI CGCG 3 cut(s) 109, 587, 589
BstV1I GCAGC 3 cut(s) 37, 56, 59
BstXI CCANNNNNNTGG 1 cut(s) 157
BsuRI GGCC 4 cut(s) 41, 434, 538, 560
BtgI CCRYGG 1 cut(s) 195
BtrI CACGTC 1 cut(s) 462
BtsI GCAGTG 1 cut(s) 570
BtsIMutI CAGTG 3 cut(s) 78, 483, 570
Cac8I GCNNGC 1 cut(s) 540
CaiI CAGNNNCTG 1 cut(s) 50
CfoI GCGC 2 cut(s) 111, 589
Cfr13I GGNCC 5 cut(s) 13, 147, 261, 432, 523
CseI GACGC 1 cut(s) 130
CsiI ACCWGGT 3 cut(s) 156, 263, 629
Csp6I GTAC 2 cut(s) 334, 469
CviAII CATG 3 cut(s) 181, 364, 379
CviQI GTAC 2 cut(s) 334, 469
DdeI CTNAG 3 cut(s) 81, 92, 330
DpnI GATC 3 cut(s) 62, 165, 642
DpnII GATC 3 cut(s) 60, 163, 640
EaeI YGGCCR 1 cut(s) 39
Eco130I CCWWGG 1 cut(s) 543
Eco47I GGWCC 4 cut(s) 13, 147, 261, 523
Eco57I CTGAAG 2 cut(s) 299, 510
EcoO109I RGGNCCY 2 cut(s) 261, 523
EcoRII CCWGG 4 cut(s) 28, 156, 263, 629
EcoT14I CCWWGG 1 cut(s) 543
ErhI CCWWGG 1 cut(s) 543
FaeI CATG 3 cut(s) 184, 367, 382
FaiI YATR 6 cut(s) 182, 365, 380, 513, 519, 551
FaqI GGGAC 3 cut(s) 55, 160, 274
FatI CATG 3 cut(s) 180, 363, 378
FauI CCCGC 1 cut(s) 361
Fnu4HI GCNGC 5 cut(s) 42, 45, 48, 51, 561
Fsp4HI GCNGC 5 cut(s) 42, 45, 48, 51, 561
FspBI CTAG 3 cut(s) 504, 564, 605
GlaI GCGC 2 cut(s) 110, 588
GluI GCNGC 5 cut(s) 42, 45, 48, 51, 561
GsuI CTGGAG 1 cut(s) 51
HaeIII GGCC 4 cut(s) 41, 434, 538, 560
HapII CCGG 2 cut(s) 285, 609
HgaI GACGC 1 cut(s) 130
HhaI GCGC 2 cut(s) 111, 589
Hin1I GRCGYC 1 cut(s) 122
Hin1II CATG 3 cut(s) 184, 367, 382
Hin6I GCGC 2 cut(s) 109, 587
HinP1I GCGC 2 cut(s) 109, 587
HindIII AAGCTT 1 cut(s) 241
HinfI GANTC 3 cut(s) 317, 349, 405
HpaII CCGG 2 cut(s) 285, 609
HphI GGTGA 2 cut(s) 158, 394
Hpy166II GTNNAC 2 cut(s) 78, 459
Hpy188I TCNGA 3 cut(s) 65, 279, 466
Hpy188III TCNNGA 2 cut(s) 118, 409
Hpy8I GTNNAC 2 cut(s) 78, 459
HpyAV CCTTC 4 cut(s) 246, 446, 485, 528
HpyCH4III ACNGT 1 cut(s) 478
HpyCH4IV ACGT 1 cut(s) 461
HpyCH4V TGCA 7 cut(s) 23, 53, 184, 225, 342, 459, 575
HpyF10VI GCNNNNNNNGC 3 cut(s) 47, 50, 249
HpyF3I CTNAG 3 cut(s) 81, 92, 330
HpySE526I ACGT 1 cut(s) 461
Hsp92I GRCGYC 1 cut(s) 122
Hsp92II CATG 3 cut(s) 184, 367, 382
HspAI GCGC 2 cut(s) 109, 587
Kzo9I GATC 3 cut(s) 60, 163, 640
LmnI GCTCC 1 cut(s) 622
Lsp1109I GCAGC 3 cut(s) 37, 56, 59
MabI ACCWGGT 3 cut(s) 156, 263, 629
MaeI CTAG 3 cut(s) 504, 564, 605
MaeII ACGT 1 cut(s) 461
MaeIII GTNAC 1 cut(s) 118
MalI GATC 3 cut(s) 62, 165, 642
MboI GATC 3 cut(s) 60, 163, 640
MfeI CAATTG 1 cut(s) 308
MhlI GDGCHC 1 cut(s) 461
MluCI AATT 7 cut(s) 35, 113, 137, 176, 227, 308, 579
MlyI GAGTC 2 cut(s) 343, 399
MmeI TCCRAC 1 cut(s) 376
MnlI CCTC 6 cut(s) 4, 76, 101, 179, 247, 306
MseI TTAA 1 cut(s) 5
MspA1I CMGCKG 1 cut(s) 50
MspI CCGG 2 cut(s) 285, 609
MspR9I CCNGG 6 cut(s) 30, 158, 265, 285, 610, 631
MunI CAATTG 1 cut(s) 308
Mva1269I GAATGC 1 cut(s) 597
MvaI CCWGG 4 cut(s) 30, 158, 265, 631
MvnI CGCG 3 cut(s) 109, 587, 589
MwoI GCNNNNNNNGC 3 cut(s) 47, 50, 249
NciI CCSGG 2 cut(s) 285, 610
NdeII GATC 3 cut(s) 60, 163, 640
NlaIII CATG 3 cut(s) 184, 367, 382
NlaIV GGNNCC 3 cut(s) 148, 262, 269
NmuCI GTSAC 1 cut(s) 118
PctI GAATGC 1 cut(s) 597
PfeI GAWTC 1 cut(s) 317
PflFI GACNNNGTC 1 cut(s) 631
PflMI CCANNNNNTGG 1 cut(s) 636
PfoI TCCNGGA 1 cut(s) 28
PkrI GCNGC 5 cut(s) 43, 46, 49, 52, 562
PleI GAGTC 2 cut(s) 343, 399
PpsI GAGTC 2 cut(s) 343, 399
PpuMI RGGWCCY 2 cut(s) 261, 523
Psp5II RGGWCCY 2 cut(s) 261, 523
Psp6I CCWGG 4 cut(s) 28, 156, 263, 629
PspGI CCWGG 4 cut(s) 28, 156, 263, 629
PspN4I GGNNCC 3 cut(s) 148, 262, 269
PspPI GGNCC 5 cut(s) 13, 147, 261, 432, 523
PspPPI RGGWCCY 2 cut(s) 261, 523
PstI CTGCAG 1 cut(s) 55
PstNI CAGNNNCTG 1 cut(s) 50
PsyI GACNNNGTC 1 cut(s) 631
PvuII CAGCTG 1 cut(s) 50
RsaI GTAC 2 cut(s) 335, 470
RsaNI GTAC 2 cut(s) 334, 469
SaqAI TTAA 1 cut(s) 5
SatI GCNGC 5 cut(s) 42, 45, 48, 51, 561
Sau3AI GATC 3 cut(s) 60, 163, 640
Sau96I GGNCC 5 cut(s) 13, 147, 261, 432, 523
ScaI AGTACT 1 cut(s) 335
SchI GAGTC 2 cut(s) 343, 399
ScrFI CCNGG 6 cut(s) 30, 158, 265, 285, 610, 631
SduI GDGCHC 1 cut(s) 461
SexAI ACCWGGT 3 cut(s) 156, 263, 629
SfcI CTRYAG 1 cut(s) 51
SinI GGWCC 4 cut(s) 13, 147, 261, 523
SmlI CTYRAG 1 cut(s) 407
SmoI CTYRAG 1 cut(s) 407
Sse9I AATT 7 cut(s) 35, 113, 137, 176, 227, 308, 579
SsiI CCGC 5 cut(s) 42, 107, 271, 368, 561
SspMI CTAG 3 cut(s) 504, 564, 605
StyD4I CCNGG 6 cut(s) 28, 156, 263, 283, 608, 629
StyI CCWWGG 1 cut(s) 543
TaaI ACNGT 1 cut(s) 478
TaiI ACGT 1 cut(s) 464
TaqI TCGA 1 cut(s) 141
TasI AATT 7 cut(s) 35, 113, 137, 176, 227, 308, 579
TatI WGTACW 1 cut(s) 333
TauI GCSGC 2 cut(s) 44, 563
TfiI GAWTC 1 cut(s) 317
Tru1I TTAA 1 cut(s) 5
Tru9I TTAA 1 cut(s) 5
TscAI CASTG 3 cut(s) 85, 483, 577
TseFI GTSAC 1 cut(s) 118
TseI GCWGC 3 cut(s) 44, 47, 50
Tsp45I GTSAC 1 cut(s) 118
TspDTI ATGAA 2 cut(s) 169, 367
TspGWI ACGGA 1 cut(s) 212
TspRI CASTG 3 cut(s) 85, 483, 577
Tth111I GACNNNGTC 1 cut(s) 631
Van91I CCANNNNNTGG 1 cut(s) 636
VneI GTGCAC 1 cut(s) 457
VpaK11BI GGWCC 4 cut(s) 13, 147, 261, 523
XapI RAATTY 3 cut(s) 113, 176, 227
XcmI CCANNNNNNNNNTGG 1 cut(s) 157
XspI CTAG 3 cut(s) 504, 564, 605
ZrmI AGTACT 1 cut(s) 335
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.