Genome Annotation

The following sections contain reference sequences that belong to a specific genome build. Explain

This section includes genomic Reference Sequences (RefSeqs) from all assemblies on which this gene is annotated, such as RefSeqs for chromosomes and scaffolds (contigs) from both reference and alternate assemblies. Model RNAs and proteins are also reported here.

mRNA and Protein(s)

1. NP_056895.1 RT-IN [Bovine leukemia virus]

   Conserved Domains (8) summary

   pfam02228
   Location:4 – 44
   Blast Score: 89

   Gag_p19; Major core protein p19

   pfam00552
   Location:1351 – 1401
   Blast Score: 117

   IN_DBD_C; Integrase DNA binding domain

   pfam00078
   Location:606 – 774
   Blast Score: 349

   RVT_1; Reverse transcriptase (RNA-dependent DNA polymerase)

   pfam00607
   Location:125 – 323
   Blast Score: 429

   Gag_p24; gag gene protein p24 (core nucleocapsid protein)

   cl01316
   Location:1184 – 1288
   Blast Score: 275

   rve; Integrase core domain

   cl02808
   Location:563 – 774
   Blast Score: 521

   RT_like; RT_like: Reverse transcriptase (RT, RNA-dependent DNA polymerase)_like family. An RT gene is usually indicative of a mobile element such as a retrotransposon or retrovirus. RTs occur in a variety of mobile elements, including retrotransposons, ...

   cl11403
   Location:428 – 535
   Blast Score: 210

   pepsin_retropepsin_like; Cellular and retroviral pepsin-like aspartate proteases.

   cl14782
   Location:1003 – 1121
   Blast Score: 134

   RNase_H; RNase H is an endonuclease that cleaves the RNA strand of an RNA/DNA hybrid in a sequence non-specific manner

2. NP_056899.1 gp60 SU [Bovine leukemia virus]

   Conserved Domains (4) summary

   pfam00429
   Location:31 – 469
   Blast Score: 905

   TLV_coat; ENV polyprotein (coat polyprotein)

   cd09851
   Location:330 – 404
   Blast Score: 244

   HTLV-1-like_HR1-HR2; heptad repeat 1-heptad repeat 2 region (ectodomain) of the transmembrane subunit of human T-cell leukemia virus type 1 (HTLV-1), and related domains

   pfam00429
   Location:1 – 88
   Blast Score: 202

   TLV_coat; ENV polyprotein (coat polyprotein)

   cl02885
   Location:1 – 26
   Blast Score: 74

   Ebola_HIV-1-like_HR1-HR2; heptad repeat 1-heptad repeat 2 region (ectodomain) of the transmembrane subunit of various endogenous retroviruses (ERVs) and infectious retroviruses, including Ebola virus and human immunodeficiency virus type 1 (HIV-1)

3. NP_056900.1 p34 [Bovine leukemia virus]

4. NP_056896.1 Pr66 [Bovine leukemia virus]

   Conserved Domains (3) summary

   pfam02228
   Location:4 – 44
   Blast Score: 89

   Gag_p19; Major core protein p19

   pfam00607
   Location:125 – 323
   Blast Score: 421

   Gag_p24; gag gene protein p24 (core nucleocapsid protein)

   cl11403
   Location:428 – 535
   Blast Score: 207

   pepsin_retropepsin_like; Cellular and retroviral pepsin-like aspartate proteases.