IP-tables delete rule

You may also use the rule's number (–line-numbers):

iptables -L INPUT --line-numbers

Example output :

Chain INPUT (policy ACCEPT) 
    num  target prot opt source destination
    1    ACCEPT     udp  --  anywhere  anywhere             udp dpt:domain 
    2    ACCEPT     tcp  --  anywhere  anywhere             tcp dpt:domain 
    3    ACCEPT     udp  --  anywhere  anywhere             udp dpt:bootps 
    4    ACCEPT     tcp  --  anywhere  anywhere             tcp dpt:bootps

So if you would like to delete second rule :

iptables -D INPUT 2

Then save iptables :

# iptables-save

or

# service iptables save