Table 2 Genomic windows identified in the single breed F_ST analysis on different porcine chromosomes (SSC) and shared by two or more pig breeds and wild boars

5:29,300,001–29,400,001

Bísara, Moravka, Sarda

GNS^d, RASSF3^d, TBC1D30^d, WIF1^a, LOC106510322^b, LEMD3^a

5:29,400,001–29,500,001

Alentejana, Bísara, Moravka, Sarda

TBC1D30^d, LOC10651032^d, WIF1^c, LEMD3^a, MSRB3^a

5:29,500,001–29,600,001

Bísara, Moravka, Sarda

LOC106510322^d, WIF1^c, LEMD3^c, MSRB3^a

5:29,700,001–29,800,001

Alentejana, Bísara

WIF1^a, LEMD3^a, MSRB3^c

5:30,000,001–30,100,001

Swallow-Bellied Mangalitsa, Moravka, Sarda

HMGA2^a, MSRB3^a

5:30,100,001–30,200,001

Moravka, Sarda

HMGA2^c

5:30,200,001–30,300,001

Moravka, Sarda

LLPH^d, TMBIM4^d, HMGA2^c

5:30,500,001–30,600,001

Swallow-Bellied Mangalits, Moravka

HMGA2^a, LLPH^d, HELB^d, GRIP1^d, IRAK3^b, TMBIM4^b

6:53,300,001–53,400,001

Lithuanian White old type, Italian Large White

SELENOW^d, BSPH1^d, EHD2^d, BICRA^b, CRX^d, MEIS3^d, NOP53^d, C5AR2^d, SULT2A1^d, C5AR1^d, ZNF541^b, NAPA^d, SLC8A2^d, DHX34^d, ELSPBP1^d, KPTN^d

8:43,800,001–43,900,001

Turopolje, Black Slavonian

MSMO1^d, LOC110262006^d, CPE^d, LOC110261946^d, TMEM192^d, LOC110261945^d, KLHL2^b, LOC102163658^d, LOC102163398^d

8:46,600,001–46,700,001

Swallow-Bellied Mangalitsa, Turopolje, Schwäbisch-Hällisches Schwein

–

8:66,300,001–66,400,001

Lithuanian White old type, Lithuanian Indigenous Wattle

LOC100515222^d, YTHDC1^d, LOC100515741^d, LOC100516628^b, LOC100624891^d, LOC110262115^d, LOC110262116^d, LOC100623504^d, LOC100515394^d, UGT2B31^b

8:66,900,001––67,000,001

Bísara, Sarda

LOC110262013^d, CABS1^d, LOC110262014^d, ODAM^d, LOC100624541^d, PRR27^d, CSN1S2^b, LOC110262119^d, CSN2^b, CSN1S1^b, SULT1E1^d, CSN3^d, STATH^b

9:99,500,001–99,600,001

Nero Siciliano, Majorcan Black

LOC106504983^b, SEMA3C^d, LOC110255497^b, CD36^d, LOC100511343^d

9:99,900,001–100,000,001

Nero Siciliano, Majorcan Black

GNAT3^b, CD36^d, GNAI1^d

15:57,800,001–57,900,001^e

Mora Romagnola, Italian Duroc

–

15:97,300,001–97,400,001

Schwäbisch-Hällisches Schwein, Wild Boar

–

15:105,300,001–105,400,001

Casertana, Majorcan Black

TMEM237^d, CDK15^d, ALS2^b, C2CD6^d, MPP4^b