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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CATCAAGAGCGTGATGGGCTTGTCTGCGCGCAAATGCCAGGATAACGTGGCGACCCTGAAGGTGCTGTCGGAGGAGCAGCGCGAGCTGCTTCGCAACCAGgtgaggagggtatagtgggtatggtgtgcgtggtcagcatagcattggggagcggggcagtgcttggggttggaggcaaactaggtacagaccacacgct...

Basic information

species Chlamydomonas reinhardtii
transcript EDP09489
intron # 4
splice site 5'
intron type U2

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|161810070|gb|FC099870.1|FC099870
EST:     CGACCCTGAAGGTGCTGTCGGAGGAGCAGCGCGAGCTGCTTCGCAACCAG                         GTGCCGGGCTGGAAGGTTGCTCAGGGCGCTGAGGGGCGACCCTGCGTCCAG
genomic: CGACCCTGAAGGTGCTGTCGGAGGAGCAGCGCGAGCTGCTTCGCAACCAGgtgaggaggg ... gcctccacagGTGCCGGGCTGGAAGGTTGCTCAGGGCGCTGAGGGGCGACCCTGCGTCCAG
EST: gi|8514524|gb|BE122419.1|BE122419
EST:     CGACCCTGAAGGTGCTGTCGGAGGAGCAGCGCGAGCTGCTTCGCAACCAG                         GTGCCGGGCTGGAAGGTTGCTCAGGGCGCTGAGGGGCGACCCTGCGTCCAG
genomic: CGACCCTGAAGGTGCTGTCGGAGGAGCAGCGCGAGCTGCTTCGCAACCAGgtgaggaggg ... gcctccacagGTGCCGGGCTGGAAGGTTGCTCAGGGCGCTGAGGGGCGACCCTGCGTCCAG
EST: gi|161817538|gb|FC099931.1|FC099931
EST:     CGACCCTGAAGGTGCTGTCGGAGGAGCAGCGCGAGCTGCTTCGCAACCAG                         GTGCCGGGCTGGAAGGTTGCTCAGGGCGCTGAGGGGCGACCCTGCGTCCAG
genomic: CGACCCTGAAGGTGCTGTCGGAGGAGCAGCGCGAGCTGCTTCGCAACCAGgtgaggaggg ... gcctccacagGTGCCGGGCTGGAAGGTTGCTCAGGGCGCTGAGGGGCGACCCTGCGTCCAG
EST: gi|16433892|gb|BI999118.1|BI999118
EST:     CGACCCTGAAGGTGCTGTCGGAGGAGCAGCGCGAGCTGCTTCGCAACCAG                         GTGCCGGGCTGGAAGGTTGCTCAGGGCGCTGAGGGGCGACCCTGCGTCCAG
genomic: CGACCCTGAAGGTGCTGTCGGAGGAGCAGCGCGAGCTGCTTCGCAACCAGgtgaggaggg ... gcctccacagGTGCCGGGCTGGAAGGTTGCTCAGGGCGCTGAGGGGCGACCCTGCGTCCAG
EST: gi|10775794|gb|AV632474.1|AV632474
EST:     CGACCCTGAAGGTGCTGTCGGAGGAGCAGCGCGAGCTGCTTCGCAACCAG                         GTGCCGGGCTGGAAGGTTGCTCAGGGCGCTGAGGGGCGACCCTGCGTCCAG
genomic: CGACCCTGAAGGTGCTGTCGGAGGAGCAGCGCGAGCTGCTTCGCAACCAGgtgaggaggg ... gcctccacagGTGCCGGGCTGGAAGGTTGCTCAGGGCGCTGAGGGGCGACCCTGCGTCCAG
EST: gi|161802865|gb|FC090219.1|FC090219
EST:     CGACCCTGAAGGTGCTGTCGGAGGAGCAGCGCGAGCTGCTTCGCAACCAG                         GTGCCGGGCTGGAAGGTTGCTCAGGGCGCTGAGGGGCGACCCTGCGTCCAG
genomic: CGACCCTGAAGGTGCTGTCGGAGGAGCAGCGCGAGCTGCTTCGCAACCAGgtgaggaggg ... gcctccacagGTGCCGGGCTGGAAGGTTGCTCAGGGCGCTGAGGGGCGACCCTGCGTCCAG
EST: gi|15373589|gb|BI533015.1|BI533015
EST:     CGACCCTGAAGGTGCTGTCGGAGGAGCAGCGCGAGCTGCTTCGCAACCAG                         GTGCCGGGCTGGAAGGTTGCTCAGGGCGCTGAGGGGCGACCCTGCGTCCAG
genomic: CGACCCTGAAGGTGCTGTCGGAGGAGCAGCGCGAGCTGCTTCGCAACCAGgtgaggaggg ... gcctccacagGTGCCGGGCTGGAAGGTTGCTCAGGGCGCTGAGGGGCGACCCTGCGTCCAG
EST: gi|161821508|gb|FC109803.1|FC109803
EST:     CGACCCTGAAGGTGCTGTCGGAGGAGCAGCGCGAGCTGCTTCGCAACCAG                         GTGCCGGGCTGGAAGGTTGCTCAGGGCGCTGAGGGGCGACCCTGCGTCCAG
genomic: CGACCCTGAAGGTGCTGTCGGAGGAGCAGCGCGAGCTGCTTCGCAACCAGgtgaggaggg ... gcctccacagGTGCCGGGCTGGAAGGTTGCTCAGGGCGCTGAGGGGCGACCCTGCGTCCAG

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CATCAAGAGCGTGATGGGCTTGTCTGCGCGCAAATGCCAGGATAACGTGGCGACCCTGAAGGTGCTGTCGGAGGAGCAGCGCGAGCTGCTTCGCAACCAGgtgaggagggtatagtgggtatggtgtgcgtggtcagcatagcattggggagcggggcagtgcttggggttggaggcaaactaggtacagaccacacgct

- - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - agggtat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgggtat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgtgcgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gtgcttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ggttgga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tacagac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cacacgc