NIAB - National Institute of Agricultural Botany

Assay information: HvVRNH3_A471T

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Narrative

The barley vernalization locus VRN-H3 is though to be encoded by a barley homologue of the arabidopsis gene FLOWERING LOCUS T (FT). Dominant Vrn-H3 alleles confer vernalization non-responsive 'spring' alleles. Although the causative mutation within barley HvFT is not formally identified, two SNPs within HvFT intron 1 have been reported to be associated with spring and winter VRN-H3 alleles. SNP A = associated with the spring Vrn-H3 allele. SNP T = associated with the winter vrn-H3 allele.

Note: Kaspar SNP HvVRNH3_G585C is equivalent to SNP 1-270 from Yan et al 2006 (PMID: 17158798).

References

PMID: 17158798

Map AGOUEB ver1
Chromosome 7H
cM position 38.00
Assay ID 9720122
Assay Name HvVRNH3_A471T
Reference Allele Sequences
Sequence ID Allele Phenotype
gi|114224630|gb|DQ898517 T Vernalization sensitive 'winter' allele (cv Igri, allele vrn-H3)
gi|116282904|gb|DQ898515 A Vernalization insensitive 'spring' allele (cv BGS213, allele Vrn-H3)
Polymorphism sequence CTATGCTTTCTTTTC[A/T]ATTCGTTCCAGGAAC
Reference allele sequence alignment
Jalview displaying file: VRNH3.aln
Validation plot
Genotype data
Accession Name Other Ref Genotype call (with filter) Reference sample of known genotype
Maris_Otter AFP 2/232 T
Golden_Promise AFP 2/235 T
Triumph AFP 2/278 T
Golf AFP 2/421 T
Klaxon AFP 2/456 T
Halycon AFP 2/514 T
Pipkin AFP 2/578 T
Dandy AFP 2/674 T
Blenheim AFP 2/688 T
Tyne AFP 2/750 T
Puffin AFP 2/806 T
Pastoral AFP 2/816 T
Posaune AFP 2/820 T
Gypsy AFP 2/884 T
Clarine AFP 2/899 T
Alexis AFP 2/904 T
Fighter AFP 2/947 T
Manitou AFP 2/951 T
Sprite AFP 2/954 A
Bronze AFP 2/994 A
Blanche AFP 2/1002 T
Derkado AFP 2/1011 T
Dallas AFP 2/1022 T
Graphic AFP 2/1029 T
Chariot AFP 2/1031 T
Willow AFP 2/1055 T
Swift AFP 2/1058 T
Intro AFP 2/1071 T
Felicie AFP 2/1091 T
Linnet AFP 2/1127 T
Delibes AFP 2/1133 T
Cooper AFP 2/1146 T
Brewster AFP 2/1147 T
Melanie AFP 2/1160 T
Sunrise AFP 2/1162 T
Rhythm AFP 2/1169 T
Tempo AFP 2/1170 T
Fanfare AFP 2/1171 T
Vivaldi AFP 2/1173 A
Emeraude AFP 2/1183 T
Hanna AFP 2/1184 T
Cork AFP 2/1187 T
Optic AFP 2/1188 T
Brahms AFP 2/1191 T
Canasta AFP 2/1194 T
Reggae AFP 2/1196 T
Riviera AFP 2/1203 T
Tokyo AFP 2/1210 A
Arctic AFP 2/1211 A
Muscat AFP 2/1214 A
Mystique AFP 2/1219 T
Prelude AFP 2/1221 T
Crown AFP 2/1230 A
Tankard AFP 2/1238 T
Wren AFP 2/1242 T
Ragtime AFP 2/1244 T
Clarity AFP 2/1246 T
Trinidad AFP 2/1256 T
Volley AFP 2/1262 A
Rifle AFP 2/1263 T
Cobalt AFP 2/1264 T
Tiffany AFP 2/1266 T
Antigua AFP 2/1276 T
Emilia AFP 2/1281 A
Spice AFP 2/1285 T
Quartet AFP 2/1291 T
Landlord AFP 2/1293 T
Rainbow AFP 2/1301 T
Charm AFP 2/1303 T
Torup AFP 2/1311 T
Pearl AFP 2/1318 T
Jewel AFP 2/1320 A
Baton AFP 2/1326 A
Spirit AFP 2/1334 T
Candy AFP 2/1345 T
Ricarda AFP 2/1350 T
Bistro AFP 2/1392 A
Angela AFP 2/1397 A
Heligan AFP 2/1402 T
Tabetha AFP 2/1404 T
Acorn AFP 2/1409 T
Century AFP 2/1410 T
Decanter AFP 2/1411 T
Linden AFP 2/1415 T
Acapella AFP 2/1419 T
Horizon AFP 2/1423 T
Static AFP 2/1427 T
Pongo AFP 2/1431 T
Opal AFP 2/1435 T
Wizard AFP 2/1442 T
Steeple AFP 2/1443 A
Arrow AFP 2/1445 T
Rounder AFP 2/1457 T
Siberia AFP 2/1463 T
Halifax AFP 2/1466 T
Artist AFP 2/1468 T
Leonie AFP 2/1471 A
Berwick AFP 2/1474 T
Otira AFP 2/1485 T
Potter AFP 2/1492 T
Saloon AFP 2/1501 T
Anvil AFP 2/1511 T
Haka AFP 2/1528 T
Sarah AFP 2/1534 T
Carola AFP 2/1535 T
Violet AFP 2/1540 A
Akita AFP 2/1555 T
Prestige AFP 2/1566 T
Prot AFP 2/1567 T
County AFP 2/1572 T
Pewter AFP 2/1575 T
Brise AFP 2/1576 T
Viskosa AFP 2/1579 T
Neruda AFP 2/1580 T
Agenda AFP 2/1589 T
Azure AFP 2/1591 T
Alabama AFP 2/1597 T
Pippa AFP 2/1599 T
Diamond AFP 2/1604 T
Carat AFP 2/1606 A
Tucker AFP 2/1608 T
Pict AFP 2/1626 A
Scylla AFP 2/1628 T
Spire AFP 2/1668 T
Spike AFP 2/1669 T
Sunbeam AFP 2/1697 T
Cannock AFP 2/1700 T
Kestrel AFP 2/1705 A
Sequel AFP 2/1717 T
Outlook AFP 2/1726 T
Mead AFP 2/1728 A
Rakaia AFP 2/1741 T
Pelican AFP 2/1745 T
Catalina AFP 2/1746 T
Cocktail AFP 2/1769 T
Brazil AFP 2/1780 T
Camion AFP 2/1825 T
Mandolin AFP 2/1841 T
Carafe AFP 2/1862 T
Toby AFP 2/1864 T
Doyen AFP 2/1865 T
Drum AFP 2/1867 T
Rebecca AFP 2/1871 T
Saffron AFP 2/1880 T
Amarena AFP 2/1886 T
Faraday AFP 2/1892 A
Balasun AFP 2/1902 T
Thalia AFP 2/1919 T
Concept AFP 2/1923 A
Westminster AFP 2/1939 T
Oxford AFP 2/1940 T
SW Macsena AFP 2/1951 T
Waggon AFP 2/1963 T
NFC Tipple AFP 2/1966 T
Timori AFP 2/1974 T
Colibri AFP 2/2003 A
Corsica AFP 2/2025 T
Rummy AFP 2/2034 T
Silicon AFP 2/2040 T
Tuscon AFP 2/2050 T
Centurion AFP 2/2054 T
Paramount AFP 2/2055 T
Accent AFP 2/2073 T
Pelican AFP 2/2077 T
Acrobat AFP 2/2102 T
Calico AFP 2/2104 T
Quench AFP 2/2121 T
Azalea AFP 2/2180 T
Tamise AFP 2/2188 T