Table 3.
Potentially Expressed Pseudogenes
| HMG gene | RPC gi (bp) | % IDa | Location | Number of ESTsb | ORFc | mRNA/gene structured | Published RPCs |
| HMGA1 | 16163921 (1535901–1537678) | 95 | 12q24.13 | 1 | HMG | Figure 4A | HMGIYL3 (Rogalla et al. 2001) |
| HMGA1 | 16172601 (7397043–7398616) | 76 | 6q24.1a | 2 (BF514910, AW902237) | — | — | — |
| HMGA1 | 16180215 (564321–564891)e | 76 | 9q34.13a | >4 | non+0 | AS (Fig. 4B) | — |
| HMGB1 | 14724993 (27354–28521) | 90 | 2q37.2a | 4 | HMG, non+0 | AS, AF056322 (Rogalla et al. 2000) | HMG1L3/AF076675 (Rogalla et al. 1998) |
| HMGB1 | 16165405 (251300–252448) | 90 | 17q12a | 1 (AA730118) | HMG | — | — |
| HMGB1 | 16192427 (955070–956344) | 82 | 15q21.2c | 1 (AI018785) | — | — | — |
| HMGB1 | 16194785 (21115834–21117043) | 94 | 20q13.33 | 1 | HMG, non− | Figure 4C | HMG1L1/AF076674 (Rogalla et al. 1998) |
| HMGB1 | 16161490 (9591–10590) | 70 | 8q24.12c | 1 (AA053962) | non− | — | — |
| HMGB3 | 16163451 (854636–857976) | 91 | Xq26.3a | 1 (BF855795) | HMG | Intron | — |
| HMGB3 | 16180809 (2446695–2449023) | 93 | 9p11.2a | 4 (BF897138, BF919297, AI476295, BE677063) | — | — | — |
| HMGB3 | 16192031 (403162–405637)e | 84 | 15q22.31 | 2 (BE930983, AA662247) | non−, non+ | Intron | — |
| HMGN1 | 16162863 (320185–321432) | 84 | 13q32.2a | 1 (AA878378) | HMG | — | — |
| HMGN1 | 16164517 (140672–142564) | 91 | 17q21.2b | 2 (BI041905, BI057720) | — | — | — |
| HMGN1 | 16168858 (540504–541991) | 85 | 1q23.1b | 1 (AA282139) | — | — | — |
| HMGN1 | 16185437 (922703–923747) | 82 | 12q13.12 | 3 | non+, non−0 | AS (Fig. 4D) | — |
| HMGN1 | 16164531 (3471415–3471654)e | 93 | 17q25.1b | 1 (AA484918) | — | — | — |
| HMGN2 | 10879979 (281050–282482) | 89 | 22q13.31 | 0 | HMG | NM_021024 (Dunham et al. 1999) | HMG17L1 (Dunham et al. 1999) |
| HMGN2 | 16156389 (265016–266479) | 89 | 10q24.1b | 2 (AW851196, AW851333) | non− | — | — |
| HMGN2 | 16159856 (945234–946431) | 91 | 5q23.1d | 1 (AU185079) | — | — | — |
| HMGN2 | 16164517 (592249–593426) | 94 | 17q21.2b | 3 | HMG | 1/2 splice (Fig. 4E) | — |
| HMGN2 | 16173680 (237789–238927) | 88 | 6p25.2b | 1 (BF887233) | — | — | — |
| HMGN2 | 16177898 (6700982–6702095) | 89 | 7q32.2a | 1 (BG819180) | — | — | — |
| HMGN2 | 16190521 (11214161–11215280) | 91 | 14q23.2b | 5 | non+0 | AA, AB037814 (Fig. 4F) | — |
| HMGN2 | 16191910 (1631498–1632678) | 90 | 15q15.2a | 2 (BG213025, AA627886) | non+ | Intron? | — |
| HMGN2 | 16195861 (4365380–4366052) | 85 | 6p21.1b | >4 | HMG | NM_006353, HMGN4 (Birger et al. 2001) | HMG17L3 |
a
Relative to the query mRNA.
b
The rest of the ESTs are noted in Figure 4 or belong to a published expressed +/−.
c
(HMG) ORF similar to HMG CDS; (non) ORF unrelated to HMG CDS; (non+) orientation relative to RPC; (non0) ORF outside RPC.
d
mRNA/gene structure is derived from alignment of ESTs/cDNAs with RPC. (AS) Alternative splicing; (AA) alternative poly(A) signal.
e
PS not defined as RPC, may have TSD, poly(A).