Phenotype SNPs from prehistoric Spain

Below are derived allele counts and total numbers of reads for SNPs that have a large effect on phenotype for new genomes from prehistoric Spain. Nonzero derived allele counts are highlighted. Note that small derived allele counts may be due to DNA damage.

ASIP, rs2424984, Veddoid brown skin

Sample Period Date BC D/T
MUR Early Neolithic 5295–5075 5/5
ATP019 Early Neolithic 5215–5030 4/4
POR002 Copper Age 3335–2944 2/2
ATP016 Copper Age 3261–2916 14/14
ATP12 Copper Age 3010–2879 3/3
ATP002 Copper Age 2899–2678 8/8
ESP005 Bronze Age 2200–1550 3/3

ASIP, rs6058017, Veddoid brown skin

Sample Period Date BC D/T
MUR Early Neolithic 5295–5075 8/8
ATP019 Early Neolithic 5215–5030 2/2
ATP016 Copper Age 3261–2916 11/11
ATP12 Copper Age 3010–2879 1/1
ATP002 Copper Age 2899–2678 5/5
ESP005 Bronze Age 2200–1550 1/1

EDAR, rs3827760, Mongoloid teeth, hair, etc.

Sample Period Date BC D/T
MUR Early Neolithic 5295–5075 0/8
ATP019 Early Neolithic 5215–5030 0/7
C40331 Late Neolithic 3760–3637 0/1
POR003 Copper Age 3622–3369 0/2
ATP016 Copper Age 3261–2916 0/17
POR004 Copper Age 3091–2917 0/2
ATP12 Copper Age 3010–2879 0/1
ATP002 Copper Age 2899–2678 0/14
ESP005 Bronze Age 2200–1550 0/1

IRF4, rs12203592, light hair and eyes, freckling

Sample Period Date BC D/T
MUR Early Neolithic 5295–5075 0/3
ATP019 Early Neolithic 5215–5030 0/1
C40331 Late Neolithic 3760–3637 1/4
POR003 Copper Age 3622–3369 0/1
ATP016 Copper Age 3261–2916 0/20
ATP12 Copper Age 3010–2879 0/4
ATP002 Copper Age 2899–2678 0/16
ESP005 Bronze Age 2200–1550 0/1

KITLG, rs12821256, blond hair

Sample Period Date BC D/T
MUR Early Neolithic 5295–5075 0/2
ATP005 Early Neolithic 5215–5030 0/1
ATP019 Early Neolithic 5215–5030 0/3
POR003 Copper Age 3622–3369 0/1
POR002 Copper Age 3335–2944 0/1
ATP016 Copper Age 3261–2916 0/12
ATP12 Copper Age 3010–2879 0/5
ATP002 Copper Age 2899–2678 0/13
ESP005 Bronze Age 2200–1550 0/3
PIR001 Bronze Age 2200–1550 0/1

KITLG, rs642742, Veddoid brown skin

Sample Period Date BC D/T
MUR Early Neolithic 5295–5075 8/8
ATP019 Early Neolithic 5215–5030 3/3
C40331 Late Neolithic 3760–3637 0/2
POR003 Copper Age 3622–3369 1/1
ATP016 Copper Age 3261–2916 20/20
ATP12 Copper Age 3010–2879 1/5
ATP002 Copper Age 2899–2678 4/12

MC1R, rs1110400, red hair

Sample Period Date BC D/T
MUR Early Neolithic 5295–5075 0/7
ATP019 Early Neolithic 5215–5030 0/2
C40331 Late Neolithic 3760–3637 0/1
POR002 Copper Age 3335–2944 0/2
ATP016 Copper Age 3261–2916 0/19
ATP002 Copper Age 2899–2678 0/13
ESP005 Bronze Age 2200–1550 0/5
PIR001 Bronze Age 2200–1550 0/2

MC1R, rs11547464, red hair

Sample Period Date BC D/T
MUR Early Neolithic 5295–5075 1/4
ATP005 Early Neolithic 5215–5030 0/1
ATP019 Early Neolithic 5215–5030 0/3
SAN216 Late Neolithic 3776–3653 0/2
POR002 Copper Age 3335–2944 0/3
ATP016 Copper Age 3261–2916 0/19
ATP002 Copper Age 2899–2678 0/13
ESP005 Bronze Age 2200–1550 0/7
PIR001 Bronze Age 2200–1550 0/1

MC1R, rs1805005, blond hair, fair skin

Sample Period Date BC D/T
MUR Early Neolithic 5295–5075 0/5
ATP019 Early Neolithic 5215–5030 0/3
C40331 Late Neolithic 3760–3637 0/1
POR002 Copper Age 3335–2944 0/1
ATP016 Copper Age 3261–2916 0/16
ATP12 Copper Age 3010–2879 0/4
ATP002 Copper Age 2899–2678 0/6
ESP005 Bronze Age 2200–1550 0/5

MC1R, rs1805006, red hair, fair skin

Sample Period Date BC D/T
MUR Early Neolithic 5295–5075 0/7
ATP019 Early Neolithic 5215–5030 0/5
POR002 Copper Age 3335–2944 0/2
ATP016 Copper Age 3261–2916 0/15
ATP12 Copper Age 3010–2879 0/3
ATP002 Copper Age 2899–2678 0/10
ESP005 Bronze Age 2200–1550 0/4

MC1R, rs1805007, red hair, fair skin

Sample Period Date BC D/T
MUR Early Neolithic 5295–5075 2/7
ATP005 Early Neolithic 5215–5030 0/1
ATP019 Early Neolithic 5215–5030 0/3
SAN216 Late Neolithic 3776–3653 0/2
POR002 Copper Age 3335–2944 0/2
ATP016 Copper Age 3261–2916 0/21
ATP002 Copper Age 2899–2678 0/15
ESP005 Bronze Age 2200–1550 0/6
PIR001 Bronze Age 2200–1550 1/2

MC1R, rs1805008, red hair, fair skin

Sample Period Date BC D/T
MUR Early Neolithic 5295–5075 0/5
ATP019 Early Neolithic 5215–5030 0/1
C40331 Late Neolithic 3760–3637 0/1
POR002 Copper Age 3335–2944 0/1
ATP016 Copper Age 3261–2916 0/20
ATP002 Copper Age 2899–2678 0/10
ESP005 Bronze Age 2200–1550 0/6
PIR001 Bronze Age 2200–1550 0/1

MC1R, rs1805009, red hair, fair skin

Sample Period Date BC D/T
MUR Early Neolithic 5295–5075 0/3
ATP019 Early Neolithic 5215–5030 0/4
POR002 Copper Age 3335–2944 0/3
ATP016 Copper Age 3261–2916 0/21
ATP12 Copper Age 3010–2879 0/7
ATP002 Copper Age 2899–2678 0/8
ESP005 Bronze Age 2200–1550 0/4

MCM6, rs182549, ability to digest milk

Sample Period Date BC D/T
MUR Early Neolithic 5295–5075 0/5
ATP019 Early Neolithic 5215–5030 0/5
C40331 Late Neolithic 3760–3637 0/2
POR002 Copper Age 3335–2944 0/2
ATP016 Copper Age 3261–2916 0/15
ATP12 Copper Age 3010–2879 0/4
ATP002 Copper Age 2899–2678 0/6
ESP005 Bronze Age 2200–1550 1/1

MCM6, rs4988235, ability to digest milk

Sample Period Date BC D/T
MUR Early Neolithic 5295–5075 0/4
ATP019 Early Neolithic 5215–5030 0/6
ATP016 Copper Age 3261–2916 0/17
ATP12 Copper Age 3010–2879 0/5
ATP002 Copper Age 2899–2678 0/19
ESP005 Bronze Age 2200–1550 0/3

OCA2, rs1800407, green or hazel eyes

Sample Period Date BC D/T
MUR Early Neolithic 5295–5075 0/4
ATP019 Early Neolithic 5215–5030 0/2
SAN216 Late Neolithic 3776–3653 0/1
POR002 Copper Age 3335–2944 0/1
ATP016 Copper Age 3261–2916 0/13
ATP12 Copper Age 3010–2879 0/6
ATP002 Copper Age 2899–2678 0/12
ESP005 Bronze Age 2200–1550 0/1

OCA2, rs1800414, Mongoloid light skin

Sample Period Date BC D/T
MUR Early Neolithic 5295–5075 0/2
ATP019 Early Neolithic 5215–5030 0/3
POR002 Copper Age 3335–2944 0/1
ATP016 Copper Age 3261–2916 0/22
ATP12 Copper Age 3010–2879 0/6
ATP002 Copper Age 2899–2678 0/16
ESP005 Bronze Age 2200–1550 0/6
PIR001 Bronze Age 2200–1550 0/1

OCA2/HERC2, rs12913832, blue eyes

Sample Period Date BC D/T
MUR Early Neolithic 5295–5075 1/3
ATP019 Early Neolithic 5215–5030 0/3
SAN216 Late Neolithic 3776–3653 0/1
C40331 Late Neolithic 3760–3637 0/1
POR002 Copper Age 3335–2944 0/3
ATP016 Copper Age 3261–2916 0/21
POR004 Copper Age 3091–2917 0/1
ATP12 Copper Age 3010–2879 0/6
ATP002 Copper Age 2899–2678 6/8

SLC24A5, rs1426654, Caucasoid light skin

Sample Period Date BC D/T
MUR Early Neolithic 5295–5075 2/2
ATP019 Early Neolithic 5215–5030 3/3
SAN216 Late Neolithic 3776–3653 1/1
C40331 Late Neolithic 3760–3637 0/3
POR002 Copper Age 3335–2944 1/1
ATP016 Copper Age 3261–2916 18/18
POR004 Copper Age 3091–2917 1/1
ATP12 Copper Age 3010–2879 3/3
ATP002 Copper Age 2899–2678 13/13
ESP005 Bronze Age 2200–1550 3/3

SLC45A2, rs16891982, Caucasoid light skin

Sample Period Date BC D/T
MUR Early Neolithic 5295–5075 4/4
POR003 Copper Age 3622–3369 1/1
ATP016 Copper Age 3261–2916 6/13
POR004 Copper Age 3091–2917 0/1
ATP12 Copper Age 3010–2879 0/3
ATP002 Copper Age 2899–2678 0/8
ESP005 Bronze Age 2200–1550 1/4
PIR001 Bronze Age 2200–1550 1/1

TYR, rs1042602, light skin, absence of freckles

Sample Period Date BC D/T
MUR Early Neolithic 5295–5075 0/6
ATP019 Early Neolithic 5215–5030 0/4
SAN216 Late Neolithic 3776–3653 0/1
C40331 Late Neolithic 3760–3637 0/1
POR003 Copper Age 3622–3369 0/1
POR002 Copper Age 3335–2944 0/6
ATP016 Copper Age 3261–2916 0/20
ATP12 Copper Age 3010–2879 0/1
ATP002 Copper Age 2899–2678 4/10
ESP005 Bronze Age 2200–1550 0/1

TYR, rs1393350, blond hair, blue eyes

Sample Period Date BC D/T
MUR Early Neolithic 5295–5075 0/6
ATP005 Early Neolithic 5215–5030 0/1
ATP019 Early Neolithic 5215–5030 0/1
C40331 Late Neolithic 3760–3637 1/1
POR002 Copper Age 3335–2944 1/2
ATP016 Copper Age 3261–2916 0/19
POR004 Copper Age 3091–2917 1/1
ATP12 Copper Age 3010–2879 0/3
ATP002 Copper Age 2899–2678 0/15
ESP005 Bronze Age 2200–1550 2/4

TYRP1, rs2733831, light hair and eyes

Sample Period Date BC D/T
MUR Early Neolithic 5295–5075 1/5
SAN216 Late Neolithic 3776–3653 1/1
POR003 Copper Age 3622–3369 0/1
ATP016 Copper Age 3261–2916 0/18
ATP12 Copper Age 3010–2879 3/3
ATP002 Copper Age 2899–2678 4/9
ESP005 Bronze Age 2200–1550 1/1
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