Sorry I dont have the part number, only the name, taken from a Ford Service Manual. If I am reading your diagram right; the rod that you say goes in and out is the 'Shift Control Rod', and it has a rubber bellow where it goes into the tranny, with a flexible joint right next to that.
The other rod is called the 'Extension Rod', & is what keeps the 'pivot' under your shift lever in a fixed position relative to the tranny. It has a rubber bushing at the tranny end, that I guess would be called the 'Extension Rod Bushing', and has a bolt or stud that threads into the transmission to hold it. It originally would have had a metric stud with a nut on it, but a regular metric bolt with the right diameter/length/pitch can also be used.
If the extension rod is not bolted to the tranny, it will let the bottom of the shift lever wobble around, instead of causing the shift control rod to move as it should The shift control rod moves in/out when you move the shift lever from 1-neutral-2 or from 3-neutral-4, etc. It rotates a little when you move the shift lever from left-to-right.