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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTTGTGTGGAGTATACTGTGATCTGTCGAATGGGTACTTGATTCACAAGCTCGAGGTGGTTTTTGTTGGAGTGCTTCGCGTATCTGTAAATTTTGTTAAGgtccgtctgtggatttgatagccattgtttgctaagggtggaaatgaataacttgagtggtttgggtgttgttgcgctttgcggggctgtttgtgctttt...

Basic information

species Physcomitrella patens
transcript PP1S61_265V6.3
intron # 1
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|18349588|gb|BJ181638.1|BJ181638
EST:     TCGAGGTGGTTTTTGTTGGAGTGCTTCGCGTATCTGTAAATTTTGTTAAG                         GTTGGGTGAGAAGCCTTCGACGTTATCGAAAATGGACGTGGCAGCTTCGGT
genomic: TCGAGGTGGTTTTTGTTGGAGTGCTTCGCGTATCTGTAAATTTTGTTAAGgtccgtctgt ... gatcgtgcagGTTGGGTGAGAAGCCTTCGACGTTATCGAAAATGGACGTGGCAGCTTCGGT
EST: gi|18371868|gb|BJ203470.1|BJ203470
EST:     TCGAGGTGGTTTTTGTTGGAGTGCTTCGCGTATCTGTAAATTTTGTTAAG                         GTTGGGTGAGAAGCCTTCGACGTTATCGAAAATGGACGTGGCAGCTTCGGT
genomic: TCGAGGTGGTTTTTGTTGGAGTGCTTCGCGTATCTGTAAATTTTGTTAAGgtccgtctgt ... gatcgtgcagGTTGGGTGAGAAGCCTTCGACGTTATCGAAAATGGACGTGGCAGCTTCGGT
EST: gi|18329720|gb|BJ161726.1|BJ161726
EST:     GTGGTTTTTGTTGGAGTGCTTCGCGTATCTGTAAATTTTGTTAAG                         GTTGGGTGAGAAGCCTTCGACGTTATCGAAAATGGACGTGGCAGCTTCGGT
genomic: GTGGTTTTTGTTGGAGTGCTTCGCGTATCTGTAAATTTTGTTAAGgtccgtctgt ... gatcgtgcagGTTGGGTGAGAAGCCTTCGACGTTATCGAAAATGGACGTGGCAGCTTCGGT
EST: gi|162193124|gb|FC371990.1|FC371990
EST:     TCGAGGTGGTTTTTGTTGGAGTGCTTCGCGTATCTGTAAATTTTGTTAAG                         GTTGGGTGAGAAGCCTTCGACGTTATCGAAAATGGACGTGGCAGCTTCGGT
genomic: TCGAGGTGGTTTTTGTTGGAGTGCTTCGCGTATCTGTAAATTTTGTTAAGgtccgtctgt ... gatcgtgcagGTTGGGTGAGAAGCCTTCGACGTTATCGAAAATGGACGTGGCAGCTTCGGT
EST: gi|18331537|gb|BJ163548.1|BJ163548
EST:     TCGAGGTGGTTTTTGTTGGAGTGCTTCGCGTATCTGTAAATTTTGTTAAG                         GTTGGGTGAGAAGCCTTCGACGTTATCGAAAATGGACGTGGCAGCTTCGGT
genomic: TCGAGGTGGTTTTTGTTGGAGTGCTTCGCGTATCTGTAAATTTTGTTAAGgtccgtctgt ... gatcgtgcagGTTGGGTGAGAAGCCTTCGACGTTATCGAAAATGGACGTGGCAGCTTCGGT
EST: gi|100371412|gb|BY967968.1|BY967968
EST:     TCGAGGTGGTTTTTGTTGGAGTGCTTCGCGTATCTGTAAATTTTGTTAAG                         GTTGGGTGAGAAGCCTTCGACGTTATCGAAAATGGACGTGGCAGCTTCGGT
genomic: TCGAGGTGGTTTTTGTTGGAGTGCTTCGCGTATCTGTAAATTTTGTTAAGgtccgtctgt ... gatcgtgcagGTTGGGTGAGAAGCCTTCGACGTTATCGAAAATGGACGTGGCAGCTTCGGT
EST: gi|100365013|gb|BY966767.1|BY966767
EST:     TCGAGGTGGTTTTTGTTGGAGTGCTTCGCGTATCTGTAAATTTTGTTAAG                         GTTGGGTGAGAAGCCTTCGACGTTATCGAAAATGGACGTGGCAGCTTCGGT
genomic: TCGAGGTGGTTTTTGTTGGAGTGCTTCGCGTATCTGTAAATTTTGTTAAGgtccgtctgt ... gatcgtgcagGTTGGGTGAGAAGCCTTCGACGTTATCGAAAATGGACGTGGCAGCTTCGGT
EST: gi|100442013|gb|BY981236.1|BY981236
EST:     TCGAGGTGGTTTTTGTTGGAGTGCTTCGCGTATCTGTAAATTTTGTTAAG                         GTTGGGTGAGAAGCCTTCGACGTTATCGAAAATGGACGTGGCAGCTTCGGT
genomic: TCGAGGTGGTTTTTGTTGGAGTGCTTCGCGTATCTGTAAATTTTGTTAAGgtccgtctgt ... gatcgtgcagGTTGGGTGAGAAGCCTTCGACGTTATCGAAAATGGACGTGGCAGCTTCGGT
EST: gi|18360126|gb|BJ192188.1|BJ192188
EST:     GTTGGAGTGCTTCGCGTATCTGTAAATTTTGTTAAAC                         GTTGGGTGAGAAGCCTTCGACGTTATCGAAAATGGACGTGGCAGCTTCGG
genomic: GTTGGAGTGCTTCGCGTATCTGTAAATTTTGTT-AAGgtccgtctgt ... gatcgtgcagGTTGGGTGAGAAGCCTTCGACGTTATCGAAAATGGACGTGGCAGCTTCGG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CTTGTGTGGAGTATACTGTGATCTGTCGAATGGGTACTTGATTCACAAGCTCGAGGTGGTTTTTGTTGGAGTGCTTCGCGTATCTGTAAATTTTGTTAAGgtccgtctgtggatttgatagccattgtttgctaagggtggaaatgaataacttgagtggtttgggtgttgttgcgctttgcggggctgtttgtgctttt

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGGAG