We have done variant analysis using Oryza sativa Indica genome downloaded from the link below. https://www.ebi.ac.uk/ena/data/view/GCA_000004655.2 - (WGS_SET_FASTA)
Later for doing the annotation, we were not able to find a corresponding GFF file for the genome fasta.
Sample Genome fasta format is as below.
>ENA|AAAA02000004|AAAA02000004.1 Oryza sativa Indica Group cultivar 93-11 chromosome 1 Ctg000004, whole genome shotgun sequence. GGGCGTTACGTCTTCACGACCGGCTTGCCTTCGCCGCTGCCACGGTGTTTCCGCCTGCAC GGCTGGCCTTTATGCCGCCGTTGTTGGGCGTCTACGTCTTCACCGACCGGCTTGCCTTCG CCGCTGCCGACTGCTGTTTCCGCCTGCACGGCTGGCCTTTATGCCGCCGTTGTTGGGCGT
We tried to download GFF from various other databases all are having different chromosome notations. Is there any way we can fetch GFF for this. Or if there is anyway to convert these "AAAA02000004.1" ids to fetch gene informations?
Thank you in advance.