Dear Experts,

I am new in this field, and I highly appreciate it if you could help me in understanding this issue: I search for coding region of ENST00000621382.1 ( gene:ENSG00000273496.1) in CDS

http://ftp.ensembl.org/pub/release-87/fasta/homo_sapiens/cds/Homo_sapiens.GRCh38.cds.all.fa.gz

ENST00000621382.1 cds scaffold:GRCh38:GL000205.2:99351:104855:-1 gene:ENSG00000273496.1 gene_biotype:protein_coding transcript_biotype:protein_coding gene_symbol:AC011841.1 ATGTATTCATTTCCTACCACCGTAGTGGAAGAGAGACTATCCCTATCAATACACCTGGTA ACATTCCCAACAGTAAGCCGTGAGATTCTGCTTGAAATCACCTCTCAGACAAATAAAAAA CAGTCCTGGGAAATGTACGACACTCATTCTGCTAAAGAAATAGGCATCATAGCTGGGGAA CAGATTCAAAAGACCCAGGCTGTTCCCTACATATGTTTCCTCCTCAGACATCAGTTAATC AGTCAATCAAGTCAAGTGAGAGTGGAGGCCATGTATTCCCTCTTATTCTTGGGCACTCTC CTCCAAGGAGGAAAAGGCCAGGAGGTCCTGTTAGAGGATGCACTCAGAGCCCGGGCTCCC TAA

I was expecting to see the same exon region that is already highlighted in red here:

http://www.ensembl.org/Homo_sapiens/Gene/Sequence?db=core;g=ENSG00000273496;r=GL000205.2:99351-104855;t=ENST00000621382

I am wondering why they are different!!!

I also BLAST it, and the identity score with the same gene was high but not 100%! I guess this question is stupid, but it really confused me.

Regards