Genomics Facility
College of Agricultural and Environmental Sciences  
University of California, Davis  
 

SEARCH CRITERIA FOR

GenBank Accession Number:

(ie: CB290474)

UCD Number:

(ie: CTG1048269)

Keyword:

(ie: kinase)

Clonename:

(ie: UCRCS01_01)

This database contains an analysis of all public expressed sequence tags( ESTs) from Citrus. ESTs are grouped as contigs or singletons and analyzed for homology to the NCBI Non-Redundant (NR) database by means of BLASTX. The resulting data can be queried by means of unique descriptors (eg. GenBank Numbers, UCD ID Numbers) or based on key words parsed from the NR definition lines of the top hits.

 

SIMILARITY SEARCH
 
 
 

SIMPLE SEQUENCE REPEATS for Citrus


Species

Dimer

Trimer

Tetramer
Total
Number

Citrus aurantium

50

70

7

127

Citrus citrus x paradisi

53

53

8

114

Citrus clementina

129

121

21

271

Citrus clementina X tangerina

21

19

1

41

Citrus jambhiri

9

22

4

35

Citrus macrophylla

4

9

22

35

Citrus maxima

0

1

0

1

Citrus medica

9

14

2

25

Citrus paradisi

4

8

0

12

Citrus reshni

11

12

2

25

Citrus reticulata

31

46

4

81

Citrus reticulata X temple

11

19

4

34

Citrus sinensis

467

601

91

1159

Poncirus trifoliata

202

308

42

552

Citrus unshiu

18

16

4

38

All Citrus

1019

1319

212

2550
Type a Motif Pattern

 

 

 

  

 

 

 

 

 

All contig and singleton ESTs were analyzed for the presence of Simple Sequence Repeats (SSRs). The set of SSR-containing ESTs can be searched by entering a specific motif sequence or structure.

 
 

CONTIG AND SINGLETON SUMMARY FOR Citrus

Date of
Run		 Total Num
of Clones		 Number of
Contigs		 Number of
Singletons

01-Jul-05

157608

19854

37138