The Complete HOXA Cluster Sequence of a Primitive Ray-Finned Fish Provides Insights into the Duplication and Evolution of HOX Clusters Within the Bony Fish Lineage
C-H. Chiu, Ken Dewar, Günter P. Wagner, Kazuhiko Takahashi, Frank Ruddle, Christina Ledje, Peter Bartsch, Jean-Luc Scemama, Edmund Stellwag, Claudia Fried, Sonja J. Prohaska, Peter F. Stadler, Chris T. Amemiya

Supplement 6c: Danio rerio Aa

PFC 5'-3' Number of PF, N Coordinates
(distance to 3' gene)		 Sequences
Upstream of 13-c 4 21,743-21,961
(1,768 nt)		 ACAGAAAACAGTTAATACGCTATATGCACTCAGTATTGCTTTCCCAATAGTCCACAATAGGGTACTATTTACCTTT ATAACTATTTTGCTGAAAAGAAAATTAAAATAATCGTCATCATTATCATCAACAAAATAAATATAATAGTTGTAGT AACAGTATTGATATTAAGTAATAACTTAGCTTTGCAAAACTGTTATTTTTCATTTTATTTTCCAGTT
Upstream of 13-d 3 22,665-22,689
(905 nt)		 GCAACTTTCAACTTGACCTTGGCCT
13pp 4 23,322-23,560
(248 nt)		 TATCATCTTTTGGAGAACTTTGAAACGGGTGACATCCTTTGACAGATCATCTCACATCACTGCATTTAGTTCGGTT TAAGTGTTAGCACTTGAGCTGATTATTGTCCTATTTTACATATCACATGACCCATGTTGAGCCAATCGAGACGTGA TTCTGGATGTACGAGGGTGCGTCAGAGTCAACTGTCTCCCCTTTTCAGTGTCTAAGCTTCACAAAAAAGAGCCACA CGTCTCAATGT
13-11pp 6 31,067-31,250
(197nt)		 TGTCAATTTCTTCACATGATCACGTGACCCTGGCCTCAGTTGGAGCGGATAGAGATGGATTTCCACGTCATCTTAC GTCTCAAAATTTCTGCCTCGCGGATATCCCTACAACGCGACTAAATGGCACGCGCAAATGAGAGCAATGTTGTGGG CGTTGCGTATAGGTCTCACTAGCCCAAGCAAG
11-9-a 3 29,667-29,816
(10,185 nt)		 AAAACTGATATTTTACCTAAAGCAACATTAACTTAATCTGAATCTCAAGGACTCCACAACAAAGCTGGAACATACT GGATAGAAAACAGTGGGAAAAAATGTTGTCTGAATTGCCCCTTCATCCTGGTTGAACAGAGTCGTTCTCTTATG
10-9-b 2 37,297-37,324
(2,555 nt)		 AAGAAATGTGCGAAAGGACTGCTTTTAT
6-5pp 9 53,287-53,475
(265 nt)		 TTTACCGCTGGAGGTCACAGAATAGGATTTACGACTGGTCAACAAAAAACACGTGATTCTAAGCCATAGCCCATAT TTGGAAGCCTACGTAAGGGTGCATTAAGTCTGTGTCTCACTCATTTCCATAATTCATCATAAATAGTGCAAGGGTG CAATAGAAGCTCAAAACCACCAAGAGACACAAATCAA
5-4-f 12 59,806-59,946
(1,813 nt)		 AAGTCCAAGGCCGGGGTAAATGCAAGGTCACCTCGTCTAACAAATATGAAAATGTCACATTTTCAGAGGGCACGCC TTGTTGTTTAACAAAGACTGTCAATGAACAAGATTAATAAGCGGCGAAATGGACACTGAGTCACT
5-4-pp 12 61,457-61,619
(162 nt)		 CTGGCTTGCCATTGGTGCTTGTTTACACGATGCCCACAGGAGGCGCTGATTGGTCGCATTTCTCACGTGACCGAGC AACTTTGTACATTTGACAGAGGAGTAGGTGGGTTTTGGAGAGATCAGAATACGACAGCACCATAAAAATTAGAATT GTTGCACTTTT
4-3-b 5 70,156-70,268
(1,576 nt)		 GCTCGTCAGAGAGGAAGGTAAGCTGGACAGAGGCAGGGTTCTCCAATGCTGTTTAAATGGCGAGTTTGTGATTTAT GACCGCGCGGCTGAAATCTCGGTTCAGGGAGAGTTCA
4-3pp 9 71,561-71,726 (171 nt) AGTAAGATGGATAGGCCTTATTTTCACCCGCTCACCGTGTCTTCTCTCACCGTAGGTTTACCCGTAGAGCCCATTG GCGAAGAGGTGTCACGTGACTACGTTGAGCCAATGTTCTTCTACAAAGGTGTCAGGACCTTGTCAGAAAGTGAAAT AAACATTGGGAAAC