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. 2007 Jan 15;8(1):R9. doi: 10.1186/gb-2007-8-1-r9

Table 3.

Putative Hymenoptera-specific genes

Solenopsis invicta assembled sequence1 Blast statistics Apis mellifera sequence Confidence7
Identifier (length) Span Frame ORF2 (bp) I3 Exp4 Bit-score E-value Linkage Group Span Strand ORF2 (bp) Est5 Annotated gene6
SI.CL.8.cl.881.Contig1 (724 bp) 509-640 2 300 • 272 1.24E-18 6 2701427-2701558 + 429 Ab initio prediction ***
SI.CL.8.cl.843.SiJWH04BDO2.scf (730 bp) 582-761 3 147 • 210 1.99E-12 NW_001254419.8 44307-44486 - 147 • Near NH homology. GB18184-PA on reverse strand **
SI.CL.19.cl.1938.Contig1 (835 bp) 21-323 3 372 T • 212 1.43E-12 6 1145090-1145392 - 429 Ab initio prediction. Near GB12791-PA on reverse strand ***
SI.CL.19.cl.1953.SiJWC11BBX.scf (613 bp) 81-215 3 555 • 166 5.08E-08 8 5253595-5253729 - 372 • GB14543-PA. Near NH homology on reverse strand *
306-416 87 4.5E-15 5252894-5253094 306
435-635 200 5253189-5253299 318
SI.CL.23.cl.2326.Contig1 (632 bp) 413-577 2 219 • 291 1.33E-20 11 8022183-8022347 + 480 Ab initio prediction ***
SI.CL.26.cl.2688.Contig1 (859 bp) 60-131 39 87 • 98 9.74E-15 9 10421877-10421948 - 549 • Ab initio prediction. Near NH homology on reverse strand **
119-256 29 558 186 10421751-10421888
SI.CL.33.cl.3311.Contig1 (710 bp) 228-359 3 189 • 258 3.07E-17 14 8634060-8634191 - 132 • Near ab initio prediction. Near NH homology on reverse strand *
SI.CL.33.cl.3384.Contig1 (469 bp) 229-327 19 264 T,S • 160 3.11E-13 14 3770768-3770866 - 231 Ab initio prediction ***
362-454 29 180 S 104 3770649-3770741 186
SI.CL.35.cl.3595.Contig1 (415 bp) 123-398 3 342 • 301 5.97E-22 NW_001261806.8 12471-12746 + 327 Ab initio prediction ***
SiJWA02BAZ2.scf (600 bp) 374-469 2 261 • 193 2.13E-15 5 9909503-9909598 + 627 • Near GB15931-PA and NH homology on reverse strand *
533-604 98 9909356-9909427
SiJWA03CAW.scf (666 bp) 49-144 1 96 120 2.1E-16 NW_001259848.8 47860-47955 + 99 • GB10007-PA on reverse strand ***
136-297 117 182 47704-47865 726
SiJWA12ACK.scf (212 bp) 137-268 29 69 • 264 1.42E-19 3 5151467-5151598 + 162 • Near ab initio prediction and NH homology on reverse strand **
63-143 39 72 69 5151391-5151471 189
SiJWB12BCQ.tag5_B12_04.scf (754 bp) 121-369 1 354 • 254 1.1E-16 7 5620128-5620376 + 336 Ab initio prediction on reverse strand ***
SiJWC11BAT.scf (342 bp) 189-278 3 228 • 160 3.98E-17 14 8645843-8645932 + 162 • Near ab initio prediction and homology **
282-368 123 6.41E-14 8645754-8645840 117
SiJWE02BBO2.scf (865 bp) 714-863 3 129 • 243 1.26E-15 6 4850974-4851123 - 354 Near ab initio prediction on reverse strand **
SiJWF07BCC.tag5_F07_11.scf (799 bp) 329-529 2 96 • 196 6.59E-11 3 6205208-6205408 - 108 Near NH homology. Ab initio prediction on reverse strand **
SiJWG01BDU2.scf (759 bp) 21-227 3 102 • 354 1.23E-26 2 9618145-9618351 + 171 • GB12576-PA and NH homology on reverse strand *
SiJWG03ACB.scf (623 bp) 172-609 1 471 • 558 4.63E-47 10 2344965-2345402 + 1440 • GB19005-PA ***
SiJWH02AAN.scf (469 bp) 100-294 1 102 • 341 1.32E-30 12 281374-281568 - 294 - ***
28-105 69 104 281564-281641 207
SiJWH05BDPR5A08.scf (658 bp) 580-657 1 78 • 161 1.1E-15 10 2890267-2890344 + 159 • Near ab initio prediction **
SiJWH05BDV2.scf (517 bp) 204-353 3 198 • 237 4.87E-15 5 6704423-6704572 + 174 Ab initio prediction **
SiJWH08AAT.scf (653 bp) 76-162 1 60 • 141 4.53E-20 5 1169177-1169263 + 84 • Near ab initio prediction and NH homology *
151-195 102 75 4.52E-13 1169261-1169305 69
SiJWH08ADY.scf (563 bp) 236-496 2 327 • 312 1.32E-22 12 4477772-4478032 - 432 GB16574-PA ***

1Solenopsis invicta assembled sequences that show no significant similarity to any known non-hymenopteran sequence (E > 1), but high similarity to a region of the honey bee genome (E < e-10). 2Length in base-pairs of the largest overlapping in-frame open reading frame. 3In-frame Interproscan annotation of fire ant assembled sequence. T means 'transmembrane region', S means 'signal peptide'. 4Gene is known (•) to be expressed in fire ant (unpublished microarray data). 5In honey bee, EST evidence exists (•) within 5,000 bp of the aligned region. 6This column shows the annotation of overlapping or nearby (within 5,000 bp) honey bee genes, as well as the nearby presence of genes from non-hymenopteran organisms. Numbers starting with GB are honeybee Official Gene Set numbers. 'Ab initio prediction' indicates that Gnomon, Genscan, or another algorithm was used to predict a gene that was not retained for the bee genome Official Gene Set. 'NH homology' indicates the nearby presence of a gene from non-hymenopteran organisms. 7Based on visual inspection we assigned a confidence level (the more asterisks the better) to each ant-bee putative gene pair (see Materials and methods). 8Apis mellifera unanchored scaffolds such as NW_001254419.1 are regions that have not been mapped to a chromosome. 9Multiple alignment frames for a S. invicta transcript indicate possible frameshifts during sequencing.