NIAB - National Institute of Agricultural Botany

Assay information: HvVRNH1_SNP2

Export assay as CSV


Numerous dominant spring or recessive winter alleles at the vernalization locus VRN-H1 have been previously described. Within the European context, these were systematically investigated (PMID 17713756), identifying seven spring and two winter alleles. Spring Vrn-H1 alleles are differentiated from winter alleles, predominantly due to the presence of deletions within intron 1. Combined haplotypes from KASPar markers HvVRNH1_SNP2 and HvVRNH1_0P5_InDel can be used to identify all but one of the known VRN-H1 alleles (allele 1B, PMID 17713756, see reference allele sequence table below for haplotype combinations from these two KASPar markers. Note: allele 1B is relatively rare in European barley).


PMID: 21115826; 17713756

Map AGOUEB ver1
Chromosome 5H
cM position 134.60
Assay ID 9720117
Assay Name HvVRNH1_SNP2
Reference Allele Sequences
Sequence ID Allele Phenotype
gi|156616792|gb|EF591644 A/Del winter (cv Panda, haplotype 1A)
gi|156616792|gb|EF591649 A/Del spring (cv Etu, haplotype 1B)
gi|156616792|gb|EF591650 G/Del spring (cv Varunda, haplotype 2)
gi|156616792|gb|EF591636 G/Del spring (cv Dandy, haplotype 3)
gi|156616792|gb|EF591639 G/Del spring (cv Optic, haplotype 4A)
gi|156616792|gb|EF591641 G/Del spring (cv Prisma, haplotype 4B)
gi|156616792|gb|EF591637 G/Del spring (cv Golden Promise, haplotype 5A)
gi|156616792|gb|EF591646 G/Del spring (cv Oriol, haplotype 5B)
gi|156616792|gb|EF591647 G/Ins winter (cv Express, haplotype 5C)
Reference allele sequence alignment
Validation plot
Genotype data
Accession Name Other Ref Genotype call (with filter) Reference sample of known genotype
Maris_Otter AFP 2/232 A
Golden_Promise AFP 2/235 G
Triumph AFP 2/278 G
Golf AFP 2/421 G
Klaxon AFP 2/456 G
Halycon AFP 2/514 A
Pipkin AFP 2/578 A
Dandy AFP 2/674 G
Blenheim AFP 2/688 G
Tyne AFP 2/750 G
Puffin AFP 2/806 A
Pastoral AFP 2/816 A
Posaune AFP 2/820 A
Gypsy AFP 2/884 A
Clarine AFP 2/899 A
Alexis AFP 2/904 G
Fighter AFP 2/947 G
Manitou AFP 2/951 A
Sprite AFP 2/954 A
Bronze AFP 2/994 A
Blanche AFP 2/1002 G
Derkado AFP 2/1011 G
Dallas AFP 2/1022 G
Graphic AFP 2/1029 G
Chariot AFP 2/1031 G
Willow AFP 2/1055 A
Swift AFP 2/1058 G
Intro AFP 2/1071 A
Felicie AFP 2/1091 G
Linnet AFP 2/1127 A
Delibes AFP 2/1133 G
Cooper AFP 2/1146 G
Brewster AFP 2/1147 G
Melanie AFP 2/1160 A
Sunrise AFP 2/1162 A
Rhythm AFP 2/1169 A
Tempo AFP 2/1170 A
Fanfare AFP 2/1171 A
Vivaldi AFP 2/1173 A
Emeraude AFP 2/1183 A
Hanna AFP 2/1184 A
Cork AFP 2/1187 G
Optic AFP 2/1188 G
Brahms AFP 2/1191 G
Canasta AFP 2/1194 G
Reggae AFP 2/1196 G
Riviera AFP 2/1203 G
Tokyo AFP 2/1210 G
Arctic AFP 2/1211 G
Muscat AFP 2/1214 A
Mystique AFP 2/1219 A
Prelude AFP 2/1221 A
Crown AFP 2/1230 G
Tankard AFP 2/1238 G
Wren AFP 2/1242 G
Ragtime AFP 2/1244 G
Clarity AFP 2/1246 G
Trinidad AFP 2/1256 G
Volley AFP 2/1262 A
Rifle AFP 2/1263 A
Cobalt AFP 2/1264 A
Tiffany AFP 2/1266 A
Antigua AFP 2/1276 A
Emilia AFP 2/1281 G
Spice AFP 2/1285 A
Quartet AFP 2/1291 G
Landlord AFP 2/1293 G
Rainbow AFP 2/1301 G
Charm AFP 2/1303 G
Torup AFP 2/1311 A
Pearl AFP 2/1318 A
Jewel AFP 2/1320 A
Baton AFP 2/1326 A
Spirit AFP 2/1334 A
Candy AFP 2/1345 G
Ricarda AFP 2/1350 G
Bistro AFP 2/1392 A
Angela AFP 2/1397 G
Heligan AFP 2/1402 A
Tabetha AFP 2/1404 U
Acorn AFP 2/1409 G
Century AFP 2/1410 G
Decanter AFP 2/1411 G
Linden AFP 2/1415 G
Acapella AFP 2/1419 G
Horizon AFP 2/1423 G
Static AFP 2/1427 G
Pongo AFP 2/1431 G
Opal AFP 2/1435 A
Wizard AFP 2/1442 A
Steeple AFP 2/1443 A
Arrow AFP 2/1445 A
Rounder AFP 2/1457 A
Siberia AFP 2/1463 G
Halifax AFP 2/1466 A
Artist AFP 2/1468 A
Leonie AFP 2/1471 A
Berwick AFP 2/1474 G
Otira AFP 2/1485 G
Potter AFP 2/1492 G
Saloon AFP 2/1501 G
Anvil AFP 2/1511 A
Haka AFP 2/1528 A
Sarah AFP 2/1534 A
Carola AFP 2/1535 A
Violet AFP 2/1540 G
Akita AFP 2/1555 G
Prestige AFP 2/1566 G
Prot AFP 2/1567 G
County AFP 2/1572 G
Pewter AFP 2/1575 G
Brise AFP 2/1576 G
Viskosa AFP 2/1579 G
Neruda AFP 2/1580 G
Agenda AFP 2/1589 G
Azure AFP 2/1591 G
Alabama AFP 2/1597 G
Pippa AFP 2/1599 A
Diamond AFP 2/1604 A
Carat AFP 2/1606 A
Tucker AFP 2/1608 A
Pict AFP 2/1626 A
Scylla AFP 2/1628 A
Spire AFP 2/1668 G
Spike AFP 2/1669 G
Sunbeam AFP 2/1697 A
Cannock AFP 2/1700 A
Kestrel AFP 2/1705 A
Sequel AFP 2/1717 G
Outlook AFP 2/1726 A
Mead AFP 2/1728 A
Rakaia AFP 2/1741 G
Pelican AFP 2/1745 G
Catalina AFP 2/1746 G
Cocktail AFP 2/1769 G
Brazil AFP 2/1780 G
Camion AFP 2/1825 A
Mandolin AFP 2/1841 G
Carafe AFP 2/1862 G
Toby AFP 2/1864 G
Doyen AFP 2/1865 G
Drum AFP 2/1867 G
Rebecca AFP 2/1871 G
Saffron AFP 2/1880 A
Amarena AFP 2/1886 A
Faraday AFP 2/1892 A
Balasun AFP 2/1902 A
Thalia AFP 2/1919 A
Concept AFP 2/1923 A
Westminster AFP 2/1939 G
Oxford AFP 2/1940 G
SW Macsena AFP 2/1951 G
Waggon AFP 2/1963 G
NFC Tipple AFP 2/1966 G
Timori AFP 2/1974 G
Colibri AFP 2/2003 G
Corsica AFP 2/2025 G
Rummy AFP 2/2034 G
Silicon AFP 2/2040 G
Tuscon AFP 2/2050 G
Centurion AFP 2/2054 G
Paramount AFP 2/2055 G
Accent AFP 2/2073 A
Pelican AFP 2/2077 A
Acrobat AFP 2/2102 G
Calico AFP 2/2104 G
Quench AFP 2/2121 G
Azalea AFP 2/2180 G
Tamise AFP 2/2188 G