Annotation Conf. Call, April 28, 2015
Agenda
Curation Consistency exercise
http://www.ncbi.nlm.nih.gov/pubmed/?term=24349431
Please send your annotations to MGI (David Hill)
Results
8 groups submitted 119 annotations: 2 mgi, Tair, worm, zebrafish, fission yeast, budding yeast, UCL
Annotation Summary
| Gene | Term | ID | # of Annotations | Evidence Code Summary | 'With' field Summary | Extension Summary |
|---|---|---|---|---|---|---|
| Biological Process Annotations | ||||||
| cystin | negative regulation of transcription from RNA polymerase II promoter | GO:0000122 | 4/10 | IDA-2;IGI-1 | necdin for the IGI annotation | negatively_regulates-o-has-input Myc)(has_regulation_target Myc,occurs_in(mouse kidney epithelial cells - mIMCD-3))(has_regulation_target Myc)(has_direct_input necdin) |
| cystin | regulation of transcription, DNA-templated | GO:0006355 | 1/10 | IDA | ||
| necdin | regulation of transcription, DNA-templated | GO:0006355 | 1/10 | IDA | ||
| necdin | positive regulation of transcription, DNA-templated | GO:0045893 | 1/10 | IDA | (has_regulation_target Myc) | |
| cystin | positive regulation of transcription, DNA-templated | GO:0045893 | 1/10 | IDA | (has_regulation_target Myc) | |
| cystin | negative regulation of transcription, DNA-templated | GO:0045892 | 1/10 | IDA | (has_regulation_target Myc) | |
| cystin | regulation of transcription from RNA pol II promoter | GO:0006357 | 1/10 | IDA | (has_regulation_target Myc) | |
| necdin | regulation of transcription from RNA pol II promoter | GO:0006357 | 1/10 | IDA | (has_regulation_target Myc) | |
| cystin | NLS-bearing protein import into nucleus | GO:0006607 | 1/10 | IMP | ||
| cystin | positive regulation of gene expression | GO:0010628 | 1/10 | IDA | (has_regulation_target Myc) | |
| necdin | positive regulation of gene expression | GO:0010628 | 1/10 | IDA | (has_regulation_target Myc) | |
| cystin | positive regulation of transcription from RNA polymerase II promoter | GO:0045944 | 8/10 | IDA;IGI-1 | necdin for the IGI annotation | (has_regulation_target Myc; 5 annotations)(occurs_in(mouse kidney epithelial cells - mIMCD-3; 1 annotation)(in_presence_of Myc; 1 annotation)(occurs_in 'kidney collecting duct cell; 1 annotation) |
| necdin | positive regulation of transcription from RNA polymerase II promoter | GO:0045944 | 7/10 | IDA;IGI-1 | cystin for the IGI annotation | (has_regulation_target Myc; 5 annotations)(occurs_in(mouse kidney epithelial cells - mIMCD-3; 1 annotation)(in_presence_of Myc; 1 annotation) |
| cystin | negative regulation of sequence-specific DNA binding transcription factor activity | GO:0043433 | 3/10 | IDA-1;IGI-1;IDA or IPI-1 | necdin for the IGI | (has_regulation_target necdin; 3 annotations)(occurs_in(mouse kidney epithelial cells - mIMCD-3; 1 annotation) |
| Cellular Component Annotations | ||||||
| cystin | chromatin | GO:0000785 | 1/10 | IDA | (coincident_with('GN box' or Myc P1 promoter' SO:new) | |
| necdin | chromatin | GO:0000785 | 1/10 | IDA | (coincident_with('GN box' or Myc P1 promoter' SO:new) | |
| cystin | nuclear chromatin | GO:0000977 | 1/10 | IDA | ||
| necdin | nuclear chromatin | GO:0000977 | 1/10 | IDA | ||
| cystin | nucleus | GO:0005634 | 10/10 | IDA | (part_of 'kidney inner medula collecting duct epithelial cell'; 1 annotation)(requires_sequence_feature NLS1; 1 annotation)(part_of mouse kidney epithelial cells - mIMCD-3; 1 annotation)(part_of CL:0002518 kidney epithelial cells; 1 annotation)(part_of 'kidney collecting duct cell; 1 annotation) | |
| necdin | nucleus | GO:0005634 | 9/10 | IDA | (part_of 'kidney inner medula collecting duct epithelial cell'; 1 annotation)(requires_sequence_feature NLS1; 1 annotation)(part_of mouse kidney epithelial cells - mIMCD-3; 1 annotation)(part_of CL:0002518 kidney epithelial cells; 1 annotation)(part_of 'kidney collecting duct cell; 1 annotation) | |
| necdin | cytoplasm | GO:0005737 | 6/10 | IDA | (part_of 'kidney inner medula collecting duct epithelial cell'; 1 annotation)(part_of mouse kidney epithelial cells - mIMCD-3; 1 annotation)(part_of 'kidney collecting duct cell; 1 annotation) | |
| cystin | cytoplasm | GO:0005737 | 6/10 | IDA | (part_of 'kidney inner medula collecting duct epithelial cell'; 1 annotation)(part_of mouse kidney epithelial cells - mIMCD-3; 1 annotation)(requires_sequence_feature G2A) | |
| cystin | cytosol | GO:0005829 | 5/10 | IDA | (part_of 'kidney inner medula collecting duct epithelial cell'; 1 annotation)(part_of mouse kidney epithelial cells - mIMCD-3; 1 annotation)(part_of 'kidney collecting duct cell; 1 annotation) | |
| cystin | plasma membrane | GO:0005886 | 1/10 | IDA | ||
| cystin | membrane | GO:0016020 | 9/10 | IDA | (part_of CL:0002518 kidney epithelial cells; 1 annotation)(part_of 'kidney inner medula collecting duct epithelial cell'; 1 annotation)(part_of mouse kidney epithelial cells - mIMCD-3; 1 annotation)(part_of 'kidney collecting duct cell; 1 annotation) | |
| cystin | RNA polymerase II transcription factor complex | GO:0090575 | 3/10 | IDA-2;IC-1 | (part_of mouse kidney epithelial cells - mIMCD-3; 1 annotation) | |
| necdin | RNA polymerase II transcription factor complex | GO:0090575 | 3/10 | IDA-2;IC-1 | (part_of mouse kidney epithelial cells - mIMCD-3; 1 annotation) | |
| Molecular Function Annotations | ||||||
| necdin | protein binding | GO:0005515 | 8/10 | IPI | cystin-4 annotations | (requires_sequence_feature aa 71 to 305; 1 annotation) |
| cystin | protein binding | GO:0005515 | 8/10 | IPI | necdin-4 annotations | (requires_sequence_feature aa 71 to 305; 1 annotation) |
| necdin | protein C-terminus binding | GO:0008022 | 2/10 | IPI | cystin | (requires_sequence_feature aa 71 to 305; 1 annotation) |
| cystin | RNA polymerase II transcription factor binding | GO:0001085 | 1/10 | IPI | necdin | |
| cystin | RNA polymerase II activating transcription factor binding | GO:0001102 | 1/10 | IPI | necdin | |
| necdin | RNA polymerase II activating transcription factor binding | GO:0001102 | 1/10 | IPI | cystin | |
| necdin | RNA polymerase II repressing transcription factor binding | GO:0001103 | 1/10 | IPI | cystin | |
| cystin | chromatin binding | GO:0003682 | 3/10 | IDA | has_input (Myc,promoter ; SO:0000167; 1 annotation)(has_direct_input Myc P1 promoter|occurs_in(mouse kidney epithelial cells - mIMCD-3) | |
| necdin | chromatin binding | GO:0003682 | 3/10 | IDA | has_input (Myc,promoter ; SO:0000167; 1 annotation)(has_direct_input Myc P1 promoter|occurs_in(mouse kidney epithelial cells - mIMCD-3) | |
| necdin | sequence specific dna binding | GO:0043565 | 1/10 | IDA | ||
| cystin | sequence specific dna binding | GO:0043565 | 1/10 | IDA | ||
| cystin | transcription regulatory region sequence-specific DNA binding | GO:0000976 | 1/10 | IDA | occurs_in mouse kidney epithelial cells - mIMCD-3) | |
| necdin | transcription regulatory region sequence-specific DNA binding | GO:0000976 | 1/10 | IDA | occurs_in mouse kidney epithelial cells - mIMCD-3) | |
| cystin | RNA polymerase II regulatory region sequence-specific DNA binding | GO:0000977 | 1/10 | IDA | occurs_in mouse kidney epithelial cells - mIMCD-3) | |
| necdin | RNA polymerase II regulatory region sequence-specific DNA binding | GO:0000977 | 1/10 | IDA | occurs_in mouse kidney epithelial cells - mIMCD-3) | |
| necdin | RNA polymerase II core promoter proximal region sequence-specific DNA binding | GO:0000978 | 3/10 | IDA | (has_direct_input Myc; 1 annotation)(coincident_with 'GN box' or Myc P1 promoter' SO:new) | |
| cystin | RNA polymerase II core promoter proximal region sequence-specific DNA binding | GO:0000978 | 3/10 | IDA | (has_direct_input Myc; 1 annotation)(coincident_with 'GN box' or Myc P1 promoter' SO:new) | |
| cystin | sequence-specific DNA binding transcription factor activity | GO:0003700 | 1/10 | IPI | (has_regulation_target Myc) | |
| necdin | sequence-specific DNA binding transcription factor activity | GO:0003700 | 1/10 | IPI | (has_regulation_target Myc) | |
| necdin | RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription | GO:0001077 | 2/10 | IDA | (has_regulation_target Myc) | |
| cystin | RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription | GO:0001077 | 2/10 | IDA | (has_regulation_target Myc) | |
| cystin | RNA polymerase II transcription factor binding transcription factor activity involved in negative regulation of transcription | GO:0001191 | 1/10 | IDA | regulates-o-has-input Myc) | |
| cystin | RNA polymerase II transcription regulatory region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription | GO:0001227 | 1/10 | IDA(IC?) | (has_input Myc,in_presence_of necdin) | |
| cystin | RNA polymerase II transcription regulatory region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription | GO:0001228 | 1/10 | IDA(IC?) | (has_input Myc) | |
| necdin | RNA polymerase II transcription regulatory region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription | GO:0001228 | 1/10 | IDA(IC?) | (has_input Myc) | |
| Other Genes | ||||||
| Trp53 | protein binding | GO:0005515 | 1/10 | IPI | Large T antigen | |
| Cenpa | nucleus | GO:0005634 | 1/10 | IDA | ||
| Capn2 | cytosol | GO:0005829 | 1/10 | IDA | ||
| Cdh3 | membrane | GO:0016020 | 1/10 | IDA |