Table 1

Identity and structure of genes within BACs

BAC

Ambystoma Sequence

Presumptive Human Ortholog

Complete Axolotl

ORF?

Introns

Identified

Exons

Identified


H3_1D2

Tig_NM_4343_Contig_1

NP_004334.1 calreticulin precursor

Complete

8

9


H3_4A11

Mex_Nohits_2574_Contig_1

Unknown

Complete

9c

10


H3_4F24

Tig_NM_362_Contig_1

NP_003247.1 tissue inhibitor of metalloproteinase 4 precursor

Unknown

1c

3e


H3_37I11

Tig_NM_7006_Contig_1

NP_008937.1 cleavage and polyadenylation specific factor 5

Partial

5

6


H3_37I23

Tig_NM_18948_Contig_1

NP_061821.1 mitogen-inducible gene 6 protein

Completea

-

1


H3_37N9

Mex_Nohits_697_Contig_1

NP_071436.1 platelet receptor Gi24

Partial

5

5


H3_41L21

Mex_NM_687_Contig_1

NP_000678.1 S-adenosylhomocysteine hydrolase

Pseudogeneb

-

-


H3_46H10

Tig_NM_1428_Contig_1

NP_001419.1 enolase 1

Partial

-

1


H3_48F8

Tig_NM_859_Contig_1

NP_000850.1 3-hydroxy-3-methylglutaryl-Coenzyme A reductase

Complete

14

15


H3_48K23

Mex_NM_20169_Contig_4

NP_996846.1 retinoic acid receptor responder

Partial

1c

2


H3_61C19

Mex_Nohits_221_Contig_2

Unknown

Complete

-

1


H3_61K9

Mex_NM_5032_Contig_2

NP_005023.2 plastin 3

Partial

1

2


H3_62O21

Mex_NM_18947_Contig_1f

NP_002550.2 purinergic receptor P2X3

Partial

7

8


H3_67L15

Tig_NM_4343_Contig_1

NP_004334.1 calreticulin precursor

Complete

8e

9


H3_71A8

Tig_NM_182513_Contig_1

NP_872319.1 spindle pole body component 24 homolog

False positive

-

-


H3_71D15

Mex_NM_6276_Contig_2

NP_001026854.1 splicing factor, arginine/serine-rich 7, 35 kDa

Completea

-

1


a – start codon was not identified, but it is likely present in assembled sequence. b – this BAC contains a presumptive processed pseudogene. The aligning BAC and cDNA sequence are 91% identical and the BAC sequence contains no introns. c – not used in multispecies alignments due to lack of obvious vertebrate orthologies. d – exons were identified on two different contigs. e – not considered in multispecies alignments due to redundancy with H3_1D2. f – contig was originally identified as cytochrome c.

Smith et al. BMC Genomics 2009 10:19   doi:10.1186/1471-2164-10-19

Open Data