Rh7CG329900

Retrotransposon gag protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr7C
OG0000291
Physical Location & Seq
Reverse (-)
36331081 .. 36331848
768 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh7CG329900.1

Sequence Viewer

Length: 519 bp
ATGGAGCGTCTTGCAAAGGTGTTAGAAAATGCGGATAAAAGTATTCGTGTTGATGTGTCTGATTTCTATGGTAAGCTGGATCCTGAATCCTACTGTGATTGGATTGCCTCTTTGGAGACCTTCTTCCAATGGAAGGATATGTTTGAAGATCGGAAGGTGAAGTTTGTAGCCACAAAGCTCCAAGTTGCAAGGTATTTGAGTGGCTTGAAACAAGAAATACATGATGAGATTATCTTGCATCACCTACGCACGCTGGAAGAGTGCTATCAGATAGCCTTGAAAGCAGAAGAAAAATTGAGGAGGCTATCTTTAAAGCATTTTGTGAAAACTCCGGGGAGTGGAACTTCAAAAGAAAACCAAGAGCACCAAGATCCTTCAATCAAACTTCCTTTGAAGATAAAAGGAATGCCATTGAACGTGCTAGTAGCTGGCGAGGTCGCGAGAAAAAAAGATGTCAGCTGTTTTCGGTGTGGGTTGGAGGCTCACATGGCCTATGAATGTCCAAAGAAAAGTAAATAA
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
RVT_1 Retrotrans_gag zf-CCHC

Protein Analysis

172

Amino Acids

19.9

Weight (kDa)

8.72

Isoelectric Point (pI)

35.44

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 (Group: OG0000291)

Species Orthologous Gene IDs
arabidopsis_thaliana ATMG00860
fragaria_vesca FvH4_1g23712 FvH4_1g29809 FvH4_1g29810 FvH4_2g02661 FvH4_2g13451 FvH4_2g17921 FvH4_2g17922 FvH4_2g19251 FvH4_2g19252 FvH4_2g28221 FvH4_2g35961 FvH4_3g10372 FvH4_3g12461 FvH4_3g12461 FvH4_3g27861 FvH4_3g34591 FvH4_3g40201 FvH4_3g44612 FvH4_4g08352 FvH4_4g12251 FvH4_4g12742 FvH4_4g13904 FvH4_4g14287 FvH4_4g15243 FvH4_4g24071 FvH4_4g33448 FvH4_5g21912 FvH4_5g39371 FvH4_6g14992 FvH4_6g15221 FvH4_6g20603 FvH4_6g31093 FvH4_6g32372 FvH4_6g33012
malus_domestica MD11G1009100.v1.1 MD13G1145000.v1.1 MD16G1138700.v1.1
prunus_persica Prupe.5G246300_v2.0.a1 Prupe.7G034800_v2.0.a1 Prupe.8G084500_v2.0.a1
pyrus_communis pycom01g18240 pycom04g00330 pycom05g09010 pycom06g01670 pycom06g01690 pycom06g07180 pycom06g11620 pycom10g05720 pycom1134g00040 pycom1134g00060 pycom12486g00010 pycom12555g00230 pycom13g21670 pycom13g23130 pycom13g23140 pycom14g10580
rosa_chinensis RchiOBHm_Chr1g0330691 RchiOBHm_Chr2g0106171 RchiOBHm_Chr2g0134731 RchiOBHm_Chr2g0142791 RchiOBHm_Chr2g0149861 RchiOBHm_Chr3g0452401 RchiOBHm_Chr3g0461881 RchiOBHm_Chr4g0401341 RchiOBHm_Chr5g0075641 RchiOBHm_Chr6g0265961 RchiOBHm_Chr7g0200201 RchiOBHm_Chr7g0237811
rosa_laevigata RLG00000002773
rosa_multiflora Rmu_co8037806.1_g000001 Rmu_co8445989.1_g000001 Rmu_sc0000745.1_g000039 Rmu_sc0004448.1_g000029 Rmu_sc0004488.1_g000002 Rmu_sc0004591.1_g000018 Rmu_sc0005065.1_g000030 Rmu_sc0005150.1_g000005 Rmu_sc0005654.1_g000011 Rmu_sc0006986.1_g000016
rosa_roxburghii Rroxscaffold_164G00436490 Rroxscaffold_175G00432490 Rroxscaffold_1G00059440 Rroxscaffold_1G00064410 Rroxscaffold_2G00100310 Rroxscaffold_2G00128170 Rroxscaffold_3G00239420 Rroxscaffold_3G00264970 Rroxscaffold_3G00271550 Rroxscaffold_4G00300240 Rroxscaffold_5G00385050 Rroxscaffold_6G00399720
rosa_rugosa Rorug02G0252200
rosa_samantha Rh2DG251900 Rh7CG329900
rosa_wichuraiana Rw0G004800 Rw1G000850 Rw1G022350 Rw2G027030 Rw2G027760 Rw2G028410 Rw2G029130 Rw2G029390 Rw2G032490 Rw2G039460 Rw2G047800 Rw2G050340 Rw3G026430 Rw4G018370 Rw4G030750 Rw4G033140 Rw5G011950 Rw5G012010 Rw5G029280 Rw5G040190 Rw5G044570 Rw5G048240 Rw6G000340 Rw6G010140 Rw6G026480 Rw7G033750 Rw7G037250 Rw7G042080

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccII CGCG 1 cut(s) 440
AciI CCGC 1 cut(s) 32
AclWI GGATC 3 cut(s) 74, 87, 365
AfiI CCNNNNNNNGG 2 cut(s) 133, 338
AgsI TTSAA 7 cut(s) 146, 208, 280, 348, 378, 394, 415
AluBI AGCT 4 cut(s) 76, 178, 428, 459
AluI AGCT 4 cut(s) 76, 178, 428, 459
Alw21I GWGCWC 1 cut(s) 366
Alw26I GTCTC 1 cut(s) 110
AlwI GGATC 3 cut(s) 74, 87, 365
AoxI GGCC 1 cut(s) 489
AsuC2I CCSGG 1 cut(s) 333
AsuHPI GGTGA 2 cut(s) 169, 233
BamHI GGATCC 1 cut(s) 79
Bbv12I GWGCWC 1 cut(s) 366
BcnI CCSGG 1 cut(s) 333
BcoDI GTCTC 1 cut(s) 110
BfaI CTAG 1 cut(s) 422
Bme1390I CCNGG 1 cut(s) 333
BmiI GGNNCC 1 cut(s) 81
BmrFI CCNGG 1 cut(s) 333
BmsI GCATC 1 cut(s) 247
BpuMI CCSGG 1 cut(s) 333
BsaI GGTCTC 1 cut(s) 110
BsaJI CCNNGG 1 cut(s) 332
Bsc4I CCNNNNNNNGG 2 cut(s) 133, 338
BseDI CCNNGG 1 cut(s) 332
BseLI CCNNNNNNNGG 2 cut(s) 133, 338
BseRI GAGGAG 1 cut(s) 313
Bsh1236I CGCG 1 cut(s) 440
BshFI GGCC 1 cut(s) 491
BsiHKAI GWGCWC 1 cut(s) 366
BsiSI CCGG 1 cut(s) 332
BslI CCNNNNNNNGG 2 cut(s) 133, 338
BsmAI GTCTC 1 cut(s) 110
BsmI GAATGC 1 cut(s) 411
BsnI GGCC 1 cut(s) 491
Bso31I GGTCTC 1 cut(s) 110
Bsp1286I GDGCHC 1 cut(s) 366
Bsp143I GATC 3 cut(s) 79, 148, 370
Bsp68I TCGCGA 1 cut(s) 440
BspACI CCGC 1 cut(s) 32
BspANI GGCC 1 cut(s) 491
BspFNI CGCG 1 cut(s) 440
BspLI GGNNCC 1 cut(s) 81
BspPI GGATC 3 cut(s) 74, 87, 365
BspTNI GGTCTC 1 cut(s) 110
BssECI CCNNGG 1 cut(s) 332
BssMI GATC 3 cut(s) 79, 148, 370
Bst4CI ACNGT 1 cut(s) 95
Bst6I CTCTTC 1 cut(s) 252
BstC8I GCNNGC 2 cut(s) 251, 430
BstFNI CGCG 1 cut(s) 440
BstKTI GATC 3 cut(s) 82, 151, 373
BstMAI GTCTC 1 cut(s) 110
BstMBI GATC 3 cut(s) 79, 148, 370
BstMWI GCNNNNNNNGC 2 cut(s) 281, 488
BstSCI CCNGG 1 cut(s) 331
BstUI CGCG 1 cut(s) 440
BstX2I RGATCY 2 cut(s) 79, 370
BstYI RGATCY 2 cut(s) 79, 370
BsuRI GGCC 1 cut(s) 491
BtuMI TCGCGA 1 cut(s) 440
Cac8I GCNNGC 2 cut(s) 251, 430
CviAII CATG 2 cut(s) 221, 487
DpnI GATC 3 cut(s) 81, 150, 372
DpnII GATC 3 cut(s) 79, 148, 370
DraI TTTAAA 1 cut(s) 312
Eam1104I CTCTTC 1 cut(s) 252
EarI CTCTTC 1 cut(s) 252
Eco31I GGTCTC 1 cut(s) 110
FaeI CATG 2 cut(s) 224, 490
FaiI YATR 5 cut(s) 69, 140, 222, 488, 495
FatI CATG 2 cut(s) 220, 486
FspBI CTAG 1 cut(s) 422
HaeIII GGCC 1 cut(s) 491
HapII CCGG 1 cut(s) 332
Hin1II CATG 2 cut(s) 224, 490
HinfI GANTC 1 cut(s) 86
HpaII CCGG 1 cut(s) 332
HphI GGTGA 2 cut(s) 169, 233
Hpy188I TCNGA 3 cut(s) 61, 153, 270
Hpy188III TCNNGA 2 cut(s) 83, 439
HpyAV CCTTC 4 cut(s) 127, 130, 148, 384
HpyCH4III ACNGT 1 cut(s) 95
HpyCH4IV ACGT 1 cut(s) 417
HpyCH4V TGCA 3 cut(s) 14, 188, 238
HpyF10VI GCNNNNNNNGC 2 cut(s) 281, 488
HpySE526I ACGT 1 cut(s) 417
Hsp92II CATG 2 cut(s) 224, 490
Kzo9I GATC 3 cut(s) 79, 148, 370
LmnI GCTCC 2 cut(s) 4, 183
LpnPI CCDG 5 cut(s) 62, 96, 239, 345, 414
LweI GCATC 1 cut(s) 247
MaeI CTAG 1 cut(s) 422
MaeII ACGT 1 cut(s) 417
MalI GATC 3 cut(s) 81, 150, 372
MboI GATC 3 cut(s) 79, 148, 370
MboII GAAGA 5 cut(s) 115, 158, 269, 299, 406
MflI RGATCY 2 cut(s) 79, 370
MhlI GDGCHC 1 cut(s) 366
MluCI AATT 1 cut(s) 293
MmeI TCCRAC 1 cut(s) 456
MnlI CCTC 5 cut(s) 118, 291, 294, 427, 472
MseI TTAA 1 cut(s) 311
MspA1I CMGCKG 1 cut(s) 459
MspI CCGG 1 cut(s) 332
MspR9I CCNGG 1 cut(s) 333
Mva1269I GAATGC 1 cut(s) 411
MvnI CGCG 1 cut(s) 440
MwoI GCNNNNNNNGC 2 cut(s) 281, 488
NciI CCSGG 1 cut(s) 333
NdeII GATC 3 cut(s) 79, 148, 370
NlaIII CATG 2 cut(s) 224, 490
NlaIV GGNNCC 1 cut(s) 81
NruI TCGCGA 1 cut(s) 440
PctI GAATGC 1 cut(s) 411
PfeI GAWTC 1 cut(s) 86
PspN4I GGNNCC 1 cut(s) 81
PsuI RGATCY 2 cut(s) 79, 370
PvuII CAGCTG 1 cut(s) 459
RruI TCGCGA 1 cut(s) 440
SaqAI TTAA 1 cut(s) 311
Sau3AI GATC 3 cut(s) 79, 148, 370
ScrFI CCNGG 1 cut(s) 333
SduI GDGCHC 1 cut(s) 366
SfaNI GCATC 1 cut(s) 247
Sse9I AATT 1 cut(s) 293
SsiI CCGC 1 cut(s) 32
SspMI CTAG 1 cut(s) 422
StyD4I CCNGG 1 cut(s) 331
TaaI ACNGT 1 cut(s) 95
TaiI ACGT 1 cut(s) 420
TasI AATT 1 cut(s) 293
TfiI GAWTC 1 cut(s) 86
Tru1I TTAA 1 cut(s) 311
Tru9I TTAA 1 cut(s) 311
TspDTI ATGAA 1 cut(s) 510
XspI CTAG 1 cut(s) 422
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.