Annotation Statistics

Assembly build: Mt3.5v5
Annotation date: 10/2011

Gene Loci Confidence Class
Reference Gene Loci Gene Models F
FL-cDNA
E
EST matches
H
Homology
I
Intrinsic
L
Low probability
1 4,371 4,581 784 850 1,598 595 754
2 4,917 5,123 902 868 1,981 558 814
3 5,862 6,115 1,060 1,131 2,128 789 1,007
4 6,200 6,478 1,143 1,245 2,267 762 1,061
5 7,248 7,527 1,241 1,321 2,699 998 1,268
6 2,743 2,799 274 398 1,178 452 497
7 5,443 5,662 936 1,026 2,166 648 886
8 4,342 4,522 714 862 1,647 538 761
0* 2,989 3,052 264 496 1,300 475 517
Illumina 18,264 18,264 1,913 5,060 10,137 801 353
Total 62,379 64,123 9,231 13,257 27,101 6,616 7,918

* Chr 0 represents unanchored BACS


A Confidence Class is assigned for every gene based on the evidence as follows:

F, full coverage/FL-cDNA: The complete gene model from translation start to translation stop is covered by expressed Medicago sequence, e.g. FL- cDNA or EST alignments across the full length of the coding sequence.

E, expressed/EST matches: Expression of the gene is supported by Medicago EST sequence that matches the gene call (partially).

H, homology/heterologous: The gene call is supported by siilarity to Medicago or other ESTs, protein, FL-cDNA, genomic or other sequences with partial of full length alignments.

I, intrinsic/ab initio/inferred/hypothetical: The gene call is based only on intrinsic prediction tools such as FGENESH, Genescan or Eu gene, and no significant alignments to other sequences are available.

L, low probability: A very small gene call with less than 100 amino acids without respect to other evidence.

*This classification will be done top-down, so any gene call that does not fall under F will fall under E, and it it does not satisfy the requirements of E, it will be H and all gene calls that do not fulfill H will be called I.

 
Home   >  Medicago Genome Project   >  Archives   >  Statistics