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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGAAGATTACAAGACTGAGTTTGACCAAGAGGTTAATCTCCCTGGTGGGGCGCTTGGAGAGCGGGCAGCTGAAGACCTTCGTCAGCGAGTTATTGAACATgtaaatatatgtattccatctttctctagttgggaaaaatgcggactagaatctgggtgtatttcttagcagaattttattaagtgcataggtttgagaaagggtgtaatgcacgagcatcctcattgacatgtttcttttgtttgatgttcgacactttgacacag

Basic information

species Physcomitrella patens
transcript PP1S257_89V6.2
intron # 9
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|18334443|gb|BJ166460.1|BJ166460
EST:     CGCTTGGAGAGCGGGCAGCTGAAGACCTTCGTCAGCGAGTTATTGAACAT                         AATATCTTGGTAGTTTCCAAATATTACTCGAGAATCACCTTGACGAGGCTT
genomic: CGCTTGGAGAGCGGGCAGCTGAAGACCTTCGTCAGCGAGTTATTGAACATgtaaatatat ... tttgacacagAATATCTTGGTGGTTTCCAAATATTACTCGAGAATCACCTTGACGAGGCTT
EST: gi|162160423|gb|FC337424.1|FC337424
EST:     CGCTTGGAGAGCGGGCAGCTGAAGACCTTCGTCAGCGAGTTATTGAACAT                         AATATCTTGGTGGTTTCCAAATATTACTCGAGAATCACCTTGACGAGGCTT
genomic: CGCTTGGAGAGCGGGCAGCTGAAGACCTTCGTCAGCGAGTTATTGAACATgtaaatatat ... tttgacacagAATATCTTGGTGGTTTCCAAATATTACTCGAGAATCACCTTGACGAGGCTT
EST: gi|208395944|gb|DC915704.1|DC915704
EST:     CGCTTGGAGAGCGGGCAGCTGAAGACCTTCGTCAGCGAGTTATTGAACAT                         AATATCTTGGTGGTTTCCAAATATTACTCGAGAATCACCTTGACGAGGCTT
genomic: CGCTTGGAGAGCGGGCAGCTGAAGACCTTCGTCAGCGAGTTATTGAACATgtaaatatat ... tttgacacagAATATCTTGGTGGTTTCCAAATATTACTCGAGAATCACCTTGACGAGGCTT
EST: gi|18334715|gb|BJ166732.1|BJ166732
EST:     CGCTTGGAGAGCGGGCAGCTGAAGACCTTCGTCAGCGAGTTATTGAACAT                         AATATCTTGGTAGTTTCCAAATATTACTCGAGAATCACCTTGACGAGGCTT
genomic: CGCTTGGAGAGCGGGCAGCTGAAGACCTTCGTCAGCGAGTTATTGAACATgtaaatatat ... tttgacacagAATATCTTGGTGGTTTCCAAATATTACTCGAGAATCACCTTGACGAGGCTT
EST: gi|162160422|gb|FC337423.1|FC337423
EST:     CGCTTGGAGAGCGGGCAGCTGAAGACCTTCGTCAGCGAGTTATTGAACAT                         AATATCTTGGTGGTTTCCAAATATTACTCGAGAATCACCTTGACGAGGCTT
genomic: CGCTTGGAGAGCGGGCAGCTGAAGACCTTCGTCAGCGAGTTATTGAACATgtaaatatat ... tttgacacagAATATCTTGGTGGTTTCCAAATATTACTCGAGAATCACCTTGACGAGGCTT
EST: gi|162261867|gb|FC438391.1|FC438391
EST:     CGCTTGGAGAGCGGGCAGCTGAAGACCTTCGTCAGCGAGTTATTGAACAT                         AATATCTTGGTGGTTTCCAAATATTACTCGAGAATCACCTTGACGAGGCTT
genomic: CGCTTGGAGAGCGGGCAGCTGAAGACCTTCGTCAGCGAGTTATTGAACATgtaaatatat ... tttgacacagAATATCTTGGTGGTTTCCAAATATTACTCGAGAATCACCTTGACGAGGCTT
EST: gi|37848402|gb|BJ606410.1|BJ606410
EST:     CGCTTGGAGAGCGGGCAGCTGAAGACNTTCGTCAGCGAGTTATTGAACAT                         AATATCTTGGTGGTTTCCAAATATTACTCGAGAATCACCTTGACGAGGCTT
genomic: CGCTTGGAGAGCGGGCAGCTGAAGACCTTCGTCAGCGAGTTATTGAACATgtaaatatat ... tttgacacagAATATCTTGGTGGTTTCCAAATATTACTCGAGAATCACCTTGACGAGGCTT
EST: gi|37848391|gb|BJ606399.1|BJ606399
EST:     CGCTTGGAGAGCGGGCAGCTGAAGACNTTCGTCAGCGAGTTATTGAACAT                         AATATCTTGGTGGTTTCCAAATATTACTCGAGAATCACCTTGACGAGGCTT
genomic: CGCTTGGAGAGCGGGCAGCTGAAGACCTTCGTCAGCGAGTTATTGAACATgtaaatatat ... tttgacacagAATATCTTGGTGGTTTCCAAATATTACTCGAGAATCACCTTGACGAGGCTT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGAAGATTACAAGACTGAGTTTGACCAAGAGGTTAATCTCCCTGGTGGGGCGCTTGGAGAGCGGGCAGCTGAAGACCTTCGTCAGCGAGTTATTGAACATgtaaatatatgtattccatctttctctagttgggaaaaatgcggactagaatctgggtgtatttcttagcagaattttattaagtgcataggtttgagaaagggtgtaatgcacgagcatcctcattgacatgtttcttttgtttgatgttcgacactttgacacag

- - - - - - - - - - - - - - - - - - - - - - - - - -  TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA