in KV-file should have first column should have fasta headers (without >) and corresponding replacing value @ mdshaminurrahman95. seqkit doesn't work as such with CSV file furnished in OP @ mdshaminurrahman95

this should work if data is exactly as posted in OP:

input:

$ cat file.fa 
>201200175
atgc
>201200287
agtc
>201200845
atgc


$ cat file.csv 
201200175|A|name1|175|2012
201200287|A|name2|287|2012
201200845|A|name3|845|2012

output:

$ seqkit  replace --kv-file <(awk -v OFS="\t" -F "|" '{print $1,$0}' file.csv) -p '(.+)$' -r '{kv}' --quiet  file.fa

>201200175|A|name1|175|2012
atgc
>201200287|A|name2|287|2012
agtc
>201200845|A|name3|845|2012
atgc