A woman carries a young girl as migrants and refugees cross the border between Greece and Macedonia near the town of Gevgelija on September 11, 2015. PHOTO: AFP
The coastguard located and rescued 24 people from the vessel in the eastern Aegean Sea early on Saturday.
But they said five people were missing, four of them children, and a search and rescue effort is under way, the agency reported.
Read: TV station of camerawoman who kicked migrants goes offline
This new incident comes more than a week after international public opinion was appalled by the bleak image of a Syrian toddler, Aylan, lying face down on a Turkish beach.
The boy drowned along with his mother and brother when their boat capsized on a short run from Turkey to the Greek island of Kos and hopes of a new life in Europe.
The International Organisation for Migration has said over 430,000 migrants and refugees had crossed the Mediterranean to Europe so far in 2015, with 2,748 dying or going missing en route.
Read: Hungary calls for migrant aid as EU nations squabble
Greece's minister in charge of shipping, Christos Zois, said on Friday that the situation in Lesbos, the Greek island struggling with a huge influx of migrants "is getting normalised".
He added that 22,500 migrants and refugees were taken to Athens this week.
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