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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CAACCCAGCTCCTCACAAACTCGATGAAAATTTGTGGAAAAACCGAGAGATGATTGAAGAAATGCTTCATCTTTTGTCAAAGAGGAAGTGGCCTTCGTCGgtgtgtttccctttaaacttccaaccatgagcttgtaattttgcagcattttgatgttaaatgtggagagacagtcaggaagactgtttctatacactgt...

Basic information

species Physcomitrella patens
transcript PP1S77_45V6.1
intron # 2
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|100438597|gb|BY980037.1|BY980037
EST:     TGATTGAAGAAATGCTTCATCTTTTGTCAAAGAGGAAGTGGCCTTCGTCG                         CTGAAGGGTAATGTTTCTTCCGAGTTGGAGCCAGTTGCAGAGCGCATTAAA
genomic: TGATTGAAGAAATGCTTCATCTTTTGTCAAAGAGGAAGTGGCCTTCGTCGgtgtgtttcc ... gatgtttcagCTGAAGGGTAATGTTTCTTCCGAGTTGGAGCCAGTTGCAGAGCGCATTAAA
EST: gi|18374991|gb|BJ206569.1|BJ206569
EST:     GATTGAAGAAATGCTTCATCTTTTGTCAAAGAGGAAGTGGCCCTTCGTCG                         CTGAAGGGTAATGTTTCTTCCG
genomic: GATTGAAGAAATGCTTCATCTTTTGTCAAAGAGGAAGTGGCC-TTCGTCGgtgtgtttcc ... gatgtttcagCTGAAGGGTAATGTTTCTTCCG
EST: gi|18373672|gb|BJ205250.1|BJ205250
EST:     TGATTGAAGAAATGCTTCATCTTTTGTCAAAGAGGAAGTGGCCTTCGTCG                         CTGAAGGGTAATGTTTCTTCCGAGTTGGAGCC
genomic: TGATTGAAGAAATGCTTCATCTTTTGTCAAAGAGGAAGTGGCCTTCGTCGgtgtgtttcc ... gatgtttcagCTGAAGGGTAATGTTTCTTCCGAGTTGGAGCC
EST: gi|100430541|gb|BY959921.1|BY959921
EST:     TGATTGAAGAAATGCTTCATCTTTTGTCAAAGAGGAAGTGGCCTTCGTCG                         CTGAAGGGTAATGTTTCTTTCCCGAGT-GGAGCCAGTTGCAGAGCGCATTT
genomic: TGATTGAAGAAATGCTTCATCTTTTGTCAAAGAGGAAGTGGCCTTCGTCGgtgtgtttcc ... gatgtttcagCTGAAGGGTAATGTTTCTT-CC-GAGTTGGAGCCAGTTGCAGAGCGCATTA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CAACCCAGCTCCTCACAAACTCGATGAAAATTTGTGGAAAAACCGAGAGATGATTGAAGAAATGCTTCATCTTTTGTCAAAGAGGAAGTGGCCTTCGTCGgtgtgtttccctttaaacttccaaccatgagcttgtaattttgcagcattttgatgttaaatgtggagagacagtcaggaagactgtttctatacactgt

- - - - - - - - - - - - - - - - - - - - - - - - - -  TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA