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Transcript ID
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Pseudogene ID from GENCODE annotation. Used for cross-referencing
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Parent
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Protein ID, Gene ID, chromosome, start, end and strand. Detailed in section 'Parents of pseudogenes'
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Sequence similarity
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The percentage of pseudogene sequence preserved from parent
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Transcription
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Evidence for pseudogene transcription and validation results. May be tagged as EST, BodyMap, RT-PCR or None, which represent pseudogene expression evidence from corresponding data sources. Multiple tags are separated by commas. Detailed in section 'Transcription of pseudogenes'
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1, transcription; 0, otherwise
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DNaseI hypersensitivity
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A categorical result indicating whether the pseudogene has easily accessible chromatin, predicted by a model integrating DNaseI hypersensitivity values within 4 kb genomic regions upstream and downstream of the 5' end of pseudogenes. Detailed in section 'Chromatin signatures of pseudogenes'
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1, has Dnase hypersensitivity in upstream; 0, otherwise
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Chromatin state
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Whether a pseudogene maintains an active chromatin state, as predicted by a model using Segway segmentation. Detailed in section 'Chromatin signatures of pseudogenes'
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1, active chromatin; 0, otherwise
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Active Pol2* binding
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Whether Pol2 binds to the upstream region of a pseudegene. Detailed in section 'Upstream regulatory elements'
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1, active binding site; 0, otherwise
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Active promoter region
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Whether there are active promoter regions in the upstream of pseudogenes. Detailed in section 'Upstream regulatory elements'
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1, active binding site; 0, otherwise
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Conservation
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Conservation of pseudogenes is derived from the divergence between human, chimp and mouse DNA sequences. Detailed in section 'Evolutionary constraint on pseudogenes'
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1, conserved; 0, otherwise
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