NIAB - National Institute of Agricultural Botany

Assay information: HvCly1_A2604G

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Narrative

Open/closed flowering is controlled by the genetic locus CLYSTOGAMOUS 1 (CLY1), encoded by the gene AP2. Two independent genetic variants within AP2 lead to the conversion of the dominant wild-type open flowering allele to the recessive closed-flowernig (cleistogamous) allele, due to mutation in the miR172 micro-RNA targeting site. This is thought to prevent microRNA mediated down regulation of AP2, preventing loducule development. SNP A = open flowering. SNP G = closed flowering (cleistogamous). Note: Diagnostic marker. Genotypes for both independent cleistogamous mutations (HvCly1_A2604G and HvCly1_A2664C) need to considered together for identification of all instances of the open flowering phenotype. Note: see position 15bp in reference allele sequence alignment.

References

PMID: 20018663

Map AGOUEB ver1
Chromosome 2H
cM position 137.50
Assay ID 9720090
Assay Name HvCly1_A2604G
Reference Allele Sequences
Sequence ID Allele Phenotype
gi|262181153|gb|GQ403050 A Open flowering (cv Morex)
Polymorphism sequence AGCAGCAGCMGCAGC[A/G]TCATCMCGATTCCCA
Reference allele sequence alignment
Jalview displaying file: HvCLY1_A2604G.aln
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 A
Golf AFP 2/421 A
Klaxon AFP 2/456 A
Halycon AFP 2/514 A
Pipkin AFP 2/578 A
Dandy AFP 2/674 A
Blnheim AFP 2/688 A
Tyne AFP 2/750 A
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 A
Fighter AFP 2/947 A
Manitou AFP 2/951 A
Sprite AFP 2/954 A
Bronze AFP 2/994 A
Blanche AFP 2/1002 A
Derkado AFP 2/1011 A
Dallas AFP 2/1022 A
Graphic AFP 2/1029 A
Chariot AFP 2/1031 A
Willow AFP 2/1055 A
Swift AFP 2/1058 A
Intro AFP 2/1071 A
Felicie AFP 2/1091 G
Linnet AFP 2/1127 A
Delibes AFP 2/1133 A
Cooper AFP 2/1146 A
Brewster AFP 2/1147 A
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 A
Optic AFP 2/1188 A
Brahms AFP 2/1191 A
Canasta AFP 2/1194 A
Reggae AFP 2/1196 A
Riviera AFP 2/1203 A
Tokyo AFP 2/1210 A
Arctic AFP 2/1211 A
Muscat AFP 2/1214 A
Mystique AFP 2/1219 A
Prelude AFP 2/1221 A
Crown AFP 2/1230 A
Tankard AFP 2/1238 A
Wren AFP 2/1242 A
Ragtime AFP 2/1244 A
Clarity AFP 2/1246 A
Trinidad AFP 2/1256 A
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 A
Spice AFP 2/1285 A
Quartet AFP 2/1291 A
Landlord AFP 2/1293 A
Rainbow AFP 2/1301 A
Charm AFP 2/1303 A
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 A
Ricarda AFP 2/1350 A
Bistro AFP 2/1392 A
Angela AFP 2/1397 A
Heligan AFP 2/1402 A
Tabetha AFP 2/1404 A
Acorn AFP 2/1409 A
Century AFP 2/1410 A
Decanter AFP 2/1411 A
Linden AFP 2/1415 A
Acapella AFP 2/1419 A
Horizon AFP 2/1423 A
Static AFP 2/1427 A
Pongo AFP 2/1431 A
Opal AFP 2/1435 U
Wizard AFP 2/1442 A
Steeple AFP 2/1443 A
Arrow AFP 2/1445 A
Rounder AFP 2/1457 A
Siberia AFP 2/1463 A
Halifax AFP 2/1466 A
Artist AFP 2/1468 A
Leonie AFP 2/1471 A
Berwick AFP 2/1474 A
Otira AFP 2/1485 A
Potter AFP 2/1492 A
Saloon AFP 2/1501 A
Anvil AFP 2/1511 A
Haka AFP 2/1528 A
Sarah AFP 2/1534 A
Carola AFP 2/1535 A
Violet AFP 2/1540 A
Akita AFP 2/1555 A
Prestige AFP 2/1566 A
Prot AFP 2/1567 A
County AFP 2/1572 A
Pewter AFP 2/1575 A
Brise AFP 2/1576 A
Viskosa AFP 2/1579 A
Neruda AFP 2/1580 A
Agenda AFP 2/1589 A
Azure AFP 2/1591 A
Alabama AFP 2/1597 A
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 A
Spike AFP 2/1669 A
Sunbeam AFP 2/1697 A
Cannock AFP 2/1700 A
Kestrel AFP 2/1705 A
Sequel AFP 2/1717 A
Outlook AFP 2/1726 A
Mead AFP 2/1728 A
Rakaia AFP 2/1741 A
Pelican AFP 2/1745 A
Catalina AFP 2/1746 A
Cocktail AFP 2/1769 A
Brazil AFP 2/1780 A
Camion AFP 2/1825 A
Mandolin AFP 2/1841 A
Carafe AFP 2/1862 A
Toby AFP 2/1864 A
Doyen AFP 2/1865 A
Drum AFP 2/1867 A
Rebecca AFP 2/1871 A
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 A
Oxford AFP 2/1940 A
SW Macsena AFP 2/1951 A
Waggon AFP 2/1963 A
NFC Tipple AFP 2/1966 A
Timori AFP 2/1974 A
Colibri AFP 2/2003 A
Corsica AFP 2/2025 A
Rummy AFP 2/2034 A
Silicon AFP 2/2040 A
Tuscon AFP 2/2050 A
Centurion AFP 2/2054 A
Paramount AFP 2/2055 A
Accent AFP 2/2073 A
Pelican AFP 2/2077 A
Acrobat AFP 2/2102 A
Calico AFP 2/2104 A
Quench AFP 2/2121 A
Azalea AFP 2/2180 A
Tamise AFP 2/2188 A