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Commit 274c4b51 authored by Stephen Searle's avatar Stephen Searle
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Added lots of types for dna_align_feature and protein_align_feature table 

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misc-scripts/external_db/external_dbs.txt
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...@@ -28,6 +28,7 @@ ...@@ -28,6 +28,7 @@
825 FlyBaseName_transcript 1 XREF 1 0 50 FlyBaseName transcript MISC \N \N 825 FlyBaseName_transcript 1 XREF 1 0 50 FlyBaseName transcript MISC \N \N
826 FlyBaseCGID_gene 1 XREF 1 0 5 FlyBaseCGID gene MISC \N \N 826 FlyBaseCGID_gene 1 XREF 1 0 5 FlyBaseCGID gene MISC \N \N
827 FlyBaseCGID_transcript 1 XREF 1 0 50 FlyBaseCGID transcript MISC \N \N 827 FlyBaseCGID_transcript 1 XREF 1 0 50 FlyBaseCGID transcript MISC \N \N
828 FlyBaseCGID_translation 1 XREF 1 0 50 FlyBaseCGID translation MISC \N \N
900 GKB 1 XREF 1 0 5 GKB MISC \N \N 900 GKB 1 XREF 1 0 5 GKB MISC \N \N
1000 GO 1 KNOWNXREF 1 0 5 GO MISC \N \N 1000 GO 1 KNOWNXREF 1 0 5 GO MISC \N \N
1100 HGNC 1 KNOWNXREF 0 1 100 HGNC Symbol PRIMARY_DB_SYNONYM \N \N 1100 HGNC 1 KNOWNXREF 0 1 100 HGNC Symbol PRIMARY_DB_SYNONYM \N \N
...@@ -80,6 +81,7 @@ ...@@ -80,6 +81,7 @@
2900 Genoscope_pred_gene 1 XREF 1 0 38 Genoscope pred gene MISC \N \N 2900 Genoscope_pred_gene 1 XREF 1 0 38 Genoscope pred gene MISC \N \N
2910 Genoscope_pred_transcript 1 XREF 1 0 39 Genoscope pred transcript MISC \N \N 2910 Genoscope_pred_transcript 1 XREF 1 0 39 Genoscope pred transcript MISC \N \N
2920 Genoscope_annotated_gene 1 KNOWN 1 0 40 Genoscope annotated gene MISC \N \N 2920 Genoscope_annotated_gene 1 KNOWN 1 0 40 Genoscope annotated gene MISC \N \N
2930 Genoscope_pred_translation 1 XREF 1 0 40 Genoscope pred translation MISC \N \N
3001 AFFY_MG_U74_all 1 XREF 1 0 1 Affymx Microarray U74 ARRAY \N \N 3001 AFFY_MG_U74_all 1 XREF 1 0 1 Affymx Microarray U74 ARRAY \N \N
3002 AFFY_MG_U74A 1 XREF 1 0 1 Affymx Microarray U74 ARRAY \N \N 3002 AFFY_MG_U74A 1 XREF 1 0 1 Affymx Microarray U74 ARRAY \N \N
3003 AFFY_MG_U74Av2 1 XREF 1 0 1 Affymx Microarray U74 ARRAY \N \N 3003 AFFY_MG_U74Av2 1 XREF 1 0 1 Affymx Microarray U74 ARRAY \N \N
...@@ -177,9 +179,9 @@ ...@@ -177,9 +179,9 @@
4820 ENST_CDS 1 XREF 1 0 1 Ensembl transcripts sharing CDS with Vega transcript MISC \N \N 4820 ENST_CDS 1 XREF 1 0 1 Ensembl transcripts sharing CDS with Vega transcript MISC \N \N
4900 TCAG 1 XREF 1 0 75 TCAG Chr 7 Annotation MISC \N \N 4900 TCAG 1 XREF 1 0 75 TCAG Chr 7 Annotation MISC \N \N
5000 Ens_Mm_gene 1 XREF 1 0 40 Ensembl Mouse Gene MISC \N \N 5000 Ens_Mm_gene 1 XREF 1 0 40 Ensembl Mouse Gene MISC \N \N
5010 Ens_Mm_transcript 1 XREF 1 0 40 Ensembl Mouse Transcript MISC \N \N
5020 Ens_Mm_translation 1 XREF 1 0 40 Ensembl Mouse Translation MISC \N \N 5020 Ens_Mm_translation 1 XREF 1 0 40 Ensembl Mouse Translation MISC \N \N
5100 IMGT 1 XREF 1 0 7 IMGT/HLA MISC \N \N 5100 IMGT 1 XREF 1 0 7 IMGT/HLA MISC \N \N
6000 Codelink 1 XREF 1 0 1 GE Healthcare/Amersham Codelink WGA ARRAY \N \N
5200 Oxford_FGU_Md_gene 1 PRED 1 0 1 Oxford Ponting Group Monodelphis predictions gene id ALT_TRANS \N \N 5200 Oxford_FGU_Md_gene 1 PRED 1 0 1 Oxford Ponting Group Monodelphis predictions gene id ALT_TRANS \N \N
5300 Oxford_FGU_Md_tscript 1 PRED 1 0 1 Oxford Ponting Group Monodelphis predictions transcript id ALT_TRANS \N \N 5300 Oxford_FGU_Md_tscript 1 PRED 1 0 1 Oxford Ponting Group Monodelphis predictions transcript id ALT_TRANS \N \N
5400 Oxford_FGU_Oa_gene 1 PRED 1 0 1 Oxford Ponting Group Platypus predictions gene id ALT_TRANS \N \N 5400 Oxford_FGU_Oa_gene 1 PRED 1 0 1 Oxford Ponting Group Platypus predictions gene id ALT_TRANS \N \N
...@@ -187,12 +189,48 @@ ...@@ -187,12 +189,48 @@
5700 Ens_Cf_gene 1 XREF 1 0 5 Ensembl Dog Gene MISC \N \N 5700 Ens_Cf_gene 1 XREF 1 0 5 Ensembl Dog Gene MISC \N \N
5710 Ens_Cf_transcript 1 XREF 1 0 5 Ensembl Dog Transcript MISC \N \N 5710 Ens_Cf_transcript 1 XREF 1 0 5 Ensembl Dog Transcript MISC \N \N
5720 Ens_Cf_translation 1 XREF 1 0 5 Ensembl Dog Translation MISC \N \N 5720 Ens_Cf_translation 1 XREF 1 0 5 Ensembl Dog Translation MISC \N \N
5810 Ens_Dr_transcript 1 XREF 1 0 5 Ensembl Zebrafish Transcript MISC \N \N
5820 Ens_Dr_translation 1 XREF 1 0 5 Ensembl Zebrafish Translation MISC \N \N
5900 Ens_Md_gene 1 XREF 1 0 5 Ensembl Monodelphis Gene MISC \N \N
6000 Codelink 1 XREF 1 0 1 GE Healthcare/Amersham Codelink WGA ARRAY \N \N
6100 Havana_gene 1 XREF 1 0 100 Havana gene ID MISC \N \N 6100 Havana_gene 1 XREF 1 0 100 Havana gene ID MISC \N \N
6200 Ens_Rn_gene 1 XREF 1 0 5 Ensembl Rat Gene MISC \N \N
6300 Ens_Ol_gene 1 XREF 1 0 5 Ensembl Medaka Gene MISC \N \N
6400 Ens_Gg_gene 1 XREF 1 0 40 Ensembl Chicken Gene MISC \N \N
6410 Ens_Gg_transcript 1 XREF 1 0 40 Ensembl Chicken Transcript MISC \N \N
6420 Ens_Gg_translation 1 XREF 1 0 40 Ensembl Chicken Translation MISC \N \N
6500 IMCB_Tr_gene 1 XREF 1 0 40 IMCB Fugu Gene MISC \N \N
7159 AedesGenBank 1 PRED 1 0 30 Aedes GenBank MISC \N \N 7159 AedesGenBank 1 PRED 1 0 30 Aedes GenBank MISC \N \N
7200 IMGT/LIGM_DB 200641-6 XREF 1 1 10 IMGT/LIGM-DB MISC \N \N 7200 IMGT/LIGM_DB 200641-6 XREF 1 1 10 IMGT/LIGM-DB MISC \N \N
7201 IMGT/GENE_DB 200641-6 KNOWN 1 0 40 IMGT/GENE-DB MISC \N \N 7201 IMGT/GENE_DB 200641-6 KNOWN 1 0 40 IMGT/GENE-DB MISC \N \N
8000 Vega_mouse_transcript 1 XREF 1 0 5 Vega mouse transcript MISC \N \N 8000 Vega_mouse_transcript 1 XREF 1 0 5 Vega mouse transcript MISC \N \N
8100 Platypus_olfactory_receptor 1 XREF 1 0 40 Platypus olfactory receptor gene MISC \N \N 8100 Platypus_olfactory_receptor 1 XREF 1 0 40 Platypus olfactory receptor gene MISC \N \N
8200 PRF 1 XREF 1 0 5 PRF MISC \N \N
8300 PIR 1 XREF 1 0 5 PIR MISC \N \N
8400 TetNig_cdna 1 XREF 1 0 40 Genoscope tetraodon cDNA MISC \N \N
8500 GasAcu_cdna 1 XREF 1 0 40 Stickleback cDNA MISC \N \N
8600 OrnAna_454_cdna 1 XREF 1 0 40 Platypus 454 cDNA MISC \N \N
8700 TakRub_cdna 1 XREF 1 0 40 Takifugu cDNA MISC \N \N
8800 CioInt_est 1 XREF 1 0 40 Ciona intestinalis EST MISC \N \N
8900 CioInt_cdna 1 XREF 1 0 40 Ciona intestinalis cDNA MISC \N \N
9000 CaeEle_est 1 XREF 1 0 40 C Elegans EST MISC \N \N
9100 XenTro_Gurdon_EST 1 XREF 1 0 40 Xenopus Gurdon EST Clusters MISC \N \N
9110 XenTro_cdna 1 XREF 1 0 40 Xenopus Tropicalis cDNA MISC \N \N
9120 XenLae_cdna 1 XREF 1 0 40 Xenopus Laevis cDNA MISC \N \N
9200 TakRub_est 1 XREF 1 0 40 Takifugu EST MISC \N \N
9210 TakRub_annotation 1 XREF 1 0 40 Takifugu gene annotation MISC \N \N
9220 TakRub_seleno_annotation 1 XREF 1 0 40 Takifugu selenoprotein annotation MISC \N \N
9400 TetNig_mouse_econtig 1 XREF 1 0 40 Genoscope mouse exofish econtig MISC \N \N
9410 TetNig_fugu_econtig 1 XREF 1 0 40 Genoscope fugu exofish econtig MISC \N \N
9420 TetNig_human_econtig 1 XREF 1 0 40 Genoscope human exofish econtig MISC \N \N
9430 TetNig_human_IPI_econtig 1 XREF 1 0 40 Genoscope human IPI exofish econtig MISC \N \N
9440 TetNig_mouse_IPI_econtig 1 XREF 1 0 40 Genoscope mouse IPI exofish econtig MISC \N \N
9500 OryLat_est 1 XREF 1 0 40 Medaka EST MISC \N \N
9600 Trace_archive 1 XREF 1 0 40 Trace Archive id MISC \N \N
9700 CioSav_est 1 XREF 1 0 40 Ciona savignyi EST MISC \N \N
9800 kyotograil_2004 1 PRED 1 0 30 Ciona intestinalis Kyotograil 2004 predictions MISC \N \N
9900 kyotograil_2005 1 PRED 1 0 30 Ciona intestinalis Kyotograil 2005 predictions MISC \N \N
10000 wormbase_id 1 XREF 1 0 30 Generic exdb for worbase id of any type for feature table MISC \N \N
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