Data from: Gene conversion yields novel gene combinations in paralogs of GOT1 in the copepod Tigriopus californicus

 

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Title GOT1_6a_align
Downloaded 32 times
Description Alignment of sequences from the GOT1_6a gene from Tigriopus californicus populations. The population from which sequence was obtained is indicated by the SD, AB, SCN, or LJS label. The GOT1_6A_mRNA_SD sequence was obtained from cDNA sequence from the SD population and spans a larger region than the remaining sequences. Other sequences were obtained by direct sequencing of PCR products from a single copepod. The two alleles of a single individual are indicated with a and b designations. Phase of multiple mutations in a single individual was not determined experimentally.
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Title GOT1p1_p2
Downloaded 26 times
Description Alignment of GOT1p1 and GOT1p2 paralogs from populations of the copepod Tigriopus californicus. All sequences are the result of direct sequencing off PCR products from genomic DNA isolated from single copepods. More details can be found in paper but each paralog was amplified by using primers that specifically amplified that paralog exclusively. Paralog is indicated by the p1 or p2 in the sequence and the population from which sequence was obtained is indicated by the AB, SD, SCN, or LJS label. The two alleles from a single individual are indicated with an A and B. In some cases two copies of each paralog were obtained from the same individual.
Download GOT1p1_p2.nex (119.4 Kb)
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Title GOT1Sd_r_alignable_regions
Downloaded 24 times
Description This is a nexus file that provides a sequence alignment for the regions of the GOT1Sd and GOT1Sr that are alignable (and a region from 470 to 814 that does not align well in the middle). The 5-prime end of the alignment starts at position 1037 of the GOT1Sr alignment. The middle section of that is not alignable has been removed from this alignment. For the GOT1Sd gene after 539bp of sequence 282bp has been removed. For the GOT1Sr gene after 550bp a large fragment of this intron sequence has been removed (between 2271bp for the SD population and 3411 for the SCN population).
Download GOT1SD_R_alignable_regions.txt (106.1 Kb)
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Title GOT1Sr_AB_SD_LJ
Downloaded 25 times
Description This file is an alignment of GOT1Sr from the SD, AB, and LJS populations. The SCN population is included as separate file because the large intron does not align well with the intron from these populations. Each sequence indicates the population with the AB, SD, or LJS labels. Sequences labeled with cDNA were sequenced from cDNA while sequences saying clone were sequenced from cloned PCR products from a single individual. The remaining sequences were from direct sequencing of PCR products from a single copepod. The two alleles are given the same label but the second allele is given an 'a' appendage. The phase of the mutations within an individual was not determined experimentally.
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Title GOT1Sr_SCN
Downloaded 27 times
Description This file is an alignment of GOT1Sr from the SCN population. The SCN population is included as separate file because the large intron does not align well with the intron from these populations. The sequence labeled with cDNA was sequenced from cDNA while the sequence saying clone was sequenced from cloned PCR products from a single individual. The remaining sequences were from direct sequencing of PCR products from a single copepod. The two alleles are given the same label but the second allele is given an 'a' appendage. The phase of the mutations within an individual was not determined experimentally.
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Title GOT1Sd_align
Downloaded 29 times
Description Alignment of GOT1Sd sequences from populations of the copepod Tigriopus californicus. This got1s_SDcomplete_m sequence is a cDNA sequence from the GOT1sr gene from the SD population that has been included for a reference. The population origin of the other sequences is indicated by the SD, SCN, AB, or LJS label. Sequences are from direct sequencing of PCR products obtained from a single individual. Two alleles from the same individual are indicated with the a or b labels (with the remainder of the label identical).
Download GOT1Sd_align.nex (102.4 Kb)
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When using this data, please cite the original publication:

Willett CS (2013) Gene conversion yields novel gene combinations in paralogs of GOT1 in the copepod Tigriopus californicus. BMC Evolutionary Biology 13:148. http://dx.doi.org/10.1186/1471-2148-13-148

Additionally, please cite the Dryad data package:

Willett CS (2013) Data from: Gene conversion yields novel gene combinations in paralogs of GOT1 in the copepod Tigriopus californicus. Dryad Digital Repository. http://dx.doi.org/10.5061/dryad.8r6jp
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