BMC Genomics 2008, 9:122 http://www.biomedcentral.com/1471-2164/9/122 A aac agg gag cca cgc cag cca gac acc ccg gcc aga ATG GAG CTG ACT GAA TTG CTC CTC GTG GTC ATG CTT CTC CTA ACT GCA AGG CTA ACG CTG TCC AGC CCG GCT CCT CCT GCT TGT GAC CTC CGA GTC CTC AGT AAA CTG CTT CGT GAC TCC CAT GTC CTT CAC AGC AGA CTG AGC CAG TGC CCA GAG GTT CAC CCT TTG CCT ACA CCT GTC CTG CTG CCT GCT GTG GAC TTT AGC TTG GGA GAA TGG AAA ACC CAG ATG GAG GAG ACC AAG GCA CAG GAC ATT CTG GGA GCA GTG ACC CTT CTG CTG GAG GGA GTG ATG GCA GCA CGG GGA CAA CTG GGA CCC ACT TGC CTC TCA TCC CTC CTG GGG CAG CTT TCT GGA CAG GTC CGT CTC CTC CTT GGG GCC CTG CAG AGC CTC CTT GGA ACC CAG CTT CCT CCA CAG GGC AGG ACC ACA GCT CAC AAG GAT CCC AAT GCC ATC TTC CTG AGC TTC CAA CAC CTG CTC CGA GGA AAG GTG CGT TTC CTG ATG CTT GTA GGA GGG TCC ACC CTC TGC GTC AGG CGG GCC CCA CCC ACC ACA GCT GTC CCC AGC AGA ACC TCT CTA GTC CTC ACA CTG AAC GAG CTC CCA AAC AGG ACT TCT GGA TTG TTG GAG ACA AAC TTC ACT GCC TCA GCC AGA ACT ACT GGC TCT GGG CTT CTG AAG TGG CAG CAG GGA TTC AGA GCC AAG ATT CCT GGT CTG CTG AAC CAA ACC TCC AGG TCC CTG GAC CAA ATC CCC GGA TAC CTG AAC AGG ATA CAC GAA CTC TTG AAT GGA ACT CGT GGA CTC TTT CCT GGA CCC TCA CGC AGG ACC CTA GGA GCC CCG GAC ATT TCC TCA GGA ACA TCA GAC ACA GGC TCC CTG CCA CCC AAC CTC CAG CCT GGA TAT TCT CCT TCC CCA ACC CAT CCT CCT ACT GGA CAG TAT ACG CTC TTC CCT CTT CCA CCC ACC TTG CCC ACC CCT GTG GTC CAG CTC CAC CCC CTG CTT CCT GAC CCT TCT GCT CCA ACG CCC ACC CCT ACC AGC CCT CTT CTA AAC ACA TCC TAC ACC CAC TCC CAG AAT CTG TCT CAG GAA GGG TAA B C >THPO_m_Hs THPO matreshka [Homo sapiens] MENPDGGDQGTGHSGSSDPSAGGSDGSTGTTGTHLPLIPPGAAFWTGPSPPWGPAEPPWN PASSTGQDHSSQGSQCHLPELPTPAPRKGAFPDACRRVHPLRQAGPTHHSCPQQNLSSPH TERAPKQDFWIVGDKLHCLSQNYWLWASEVAAGIQSQDSWSAEPNLQVPGPNPRIPEQDT RTLEWNSWTLSWTLTQDPRSPGHFLRNIRHRLPATQPPAWIFSFPNPSSYWTVYALPSST HLAHPCGPAPPPAS TFhigruormeb6opoeitin matreshka Thrombopoeitin matreshka. A) mRNA sequence of thrombopoietin (THPO), with matreshka underlined. 5'UTR sequence is shown in lowercase, Kozak motifs in bold. The bold white guanine base (grey background) can be replaced by adenine to truncate the matreshka through a SNP (NCBI ID rs1126665), and replaces a glycine with a glutamate within the Erythropoie- tin-Thrombopoietin motif (Pfam ID PF00758.7). Alternating italics/non-italics represent alternate THPO coding exons, and spaces separate codons for the parent RefSeq. B) matreshka protein sequence. C) Illustration of the translation of the THPO matreshka in the nirs splice variant. THPO splice variant 1 is shown above the nirs splice variant. Hatching indicates the loca- tion of the matreshka. Nirs splicing utilises an alternative acceptor which results in the last exon being translated in the same frame as the matreshka over 564 nucleotides (indicated by grey shading). Page 11 of 16 (page number not for citation purposes)